Score E
Sequences producing significant alignments: (bits) Value
gi|2983616 (AE000726) hydrogenase expression/formation prot... 742 0.0
sp|P40598|HYPD_RHILV HYDROGENASE EXPRESSION/FORMATION PROTE... 453 e-126
sp|P31904|HYPD_BRAJA HYDROGENASE EXPRESSION/FORMATION PROTE... 447 e-125
sp|P31903|HYPD_ALCEU HYDROGENASE EXPRESSION/FORMATION PROTE... 445 e-124
sp|P31882|HYPD_AZOVI HYDROGENASE EXPRESSION/FORMATION PROTE... 424 e-118
sp|P42033|HUPD_AZOCH HYDROGENASE EXPRESSION/FORMATION PROTE... 423 e-117
gi|4155404 (AE001512) Hydrogenase expression/formation prot... 366 e-100
gb|AAD07944.1| (AE000599) hydrogenase expression/formation ... 363 1e-99
sp|P26411|HYPD_RHOCA HYDROGENASE EXPRESSION/FORMATION PROTE... 361 7e-99
pir||S59984 hypD protein - Rhodobacter capsulatus >gi|46055... 361 7e-99
sp|P24192|HYPD_ECOLI HYDROGENASE ISOENZYMES FORMATION PROTE... 346 2e-94
gi|882622 (U29579) CG Site no. 33116; ORF_o373 [Escherichia... 344 6e-94
dbj|BAA16622| (D90899) hydrogenase isoenzymes formation pro... 324 9e-88
gi|2622170 (AE000877) hydrogenase expression/formation prot... 316 3e-85
sp|Q58400|Y993_METJA PUTATIVE HYDROGENASE EXPRESSION/FORMAT... 309 3e-83
dbj|BAA29973| (AP000004) 367aa long hypothetical hydrogenas... 293 1e-78
emb|CAB50146.1| (AJ248287) hydrogenase expression/formation... 280 1e-74
gi|2649201 (AE001009) hydrogenase expression/formation prot... 273 2e-72
gi|2289331 (AF006594) HupD [Anabaena PCC7120] 213 2e-54
gb|AAF20001.1|AF214145_8 (AF214145) hydrogenase maturating ... 98 1e-19
gi|4155399 (AE001512) putative [Helicobacter pylori J99] 51 2e-05
emb|CAB04977.1| (Z82084) predicted using Genefinder [Caenor... 38 0.11
gb|AAD35870.1|AE001747_13 (AE001747) thiamine biosynthesis ... 34 1.6
pir||A39599 55K erythrocyte membrane protein - human 33 4.8
ref|NP_002427.1|| palmitoylated membrane protein 1 >gi|1346... 33 4.8
sp|Q58432|THIC_METJA PROBABLE THIAMINE BIOSYNTHESIS PROTEIN... 32 6.3
gi|2935225 (AF030154) hexon protein [bovine adenovirus type 3] 32 8.2
sp|P72749|TYPA_SYNY3 GTP-BINDING PROTEIN TYPA/BIPA HOMOLOG ... 32 8.2
gi|2983616 (AE000726) hydrogenase expression/formation protein HypD [Aquifex
aeolicus]
Length = 380
Score = 742 bits (1895), Expect = 0.0
Identities = 366/380 (96%), Positives = 366/380 (96%)
Query: 1 MRVEEISIFEAYKDKERVXXXXXXXXXXXXXXGRTVNIMEFCGGHTHAIMKYGIDQLLKG 60
MRVEEISIFEAYKDKERV GRTVNIMEFCGGHTHAIMKYGIDQLLKG
Sbjct: 1 MRVEEISIFEAYKDKERVLKLSEKIKKLSEKIGRTVNIMEFCGGHTHAIMKYGIDQLLKG 60
Query: 61 VVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVIMCSYGDLLRVPGSKRKSLLNVRAEGAD 120
VVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVIMCSYGDLLRVPGSKRKSLLNVRAEGAD
Sbjct: 61 VVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVIMCSYGDLLRVPGSKRKSLLNVRAEGAD 120
Query: 121 VRMVYSCLDTLKIAKENPDKKVIFFAIGFETTTPQTAVLIKKAKEEGIKNLFVVSNHVIT 180
VRMVYSCLDTLKIAKENPDKKVIFFAIGFETTTPQTAVLIKKAKEEGIKNLFVVSNHVIT
Sbjct: 121 VRMVYSCLDTLKIAKENPDKKVIFFAIGFETTTPQTAVLIKKAKEEGIKNLFVVSNHVIT 180
Query: 181 PAAIQHILNAPEIREIGKVEIDAFIGPGHVSVIIGTKPYHYFAEEFQKPVVIAGFEPLNV 240
PAAIQHILNAPEIREIGKVEIDAFIGPGHVSVIIGTKPYHYFAEEFQKPVVIAGFEPLNV
Sbjct: 181 PAAIQHILNAPEIREIGKVEIDAFIGPGHVSVIIGTKPYHYFAEEFQKPVVIAGFEPLNV 240
Query: 241 LKAVYLILKQIYKGRAEVKNNYTRFVTYKGNLKAQNLVAELFELRKEFEWRGLGTIPYSA 300
LKAVYLILKQIYKGRAEVKNNYTRFVTYKGNLKAQNLVAELFELRKEFEWRGLGTIPYSA
Sbjct: 241 LKAVYLILKQIYKGRAEVKNNYTRFVTYKGNLKAQNLVAELFELRKEFEWRGLGTIPYSA 300
Query: 301 LKIRKEYEEFDAEKVFEVELPEPKEHPACICGKVIRGVARPTDCKLFGTVCTPSNPLGSC 360
LKIRKEYEEFDAEKVFEVELPEPKEHPACICGKVIRGVARPTDCKLFGTVCTPSNPLGSC
Sbjct: 301 LKIRKEYEEFDAEKVFEVELPEPKEHPACICGKVIRGVARPTDCKLFGTVCTPSNPLGSC 360
Query: 361 MVSSEGACAAYYKYRRALVQ 380
MVSSEGACAAYYKYRRALVQ
Sbjct: 361 MVSSEGACAAYYKYRRALVQ 380
sp|P40598|HYPD_RHILV HYDROGENASE EXPRESSION/FORMATION PROTEIN HYPD
>gi|420900|pir||S32877 hypD protein - Rhizobium
leguminosarum bv. viciae >gi|48736|emb|CAA37163|
(X52974) hypD [Rhizobium leguminosarum]
Length = 385
Score = 453 bits (1152), Expect = e-126
Identities = 204/343 (59%), Positives = 265/343 (76%)
Query: 34 RTVNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVI 93
R+ + MEFCGGHTHAI +YG++ LL VR IHGPGCPVCV+P+ RID AI LA R ++
Sbjct: 28 RSYHFMEFCGGHTHAISRYGLEDLLPANVRMIHGPGCPVCVLPIGRIDAAIALAMRPEIT 87
Query: 94 MCSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKKVIFFAIGFETTT 153
+C+YGDL+RVPGS SLL +A GAD+RMVYS LD L+IA PD++V+FFAIGFETTT
Sbjct: 88 LCTYGDLMRVPGSNGSSLLKAKAAGADIRMVYSTLDALRIADAEPDREVVFFAIGFETTT 147
Query: 154 PQTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEIDAFIGPGHVSVI 213
P TA+ +K A G+ N + NHV+TPA IQ+IL +P++R++G ++ID FIGP HVS +
Sbjct: 148 PTTALALKAAIARGLGNFSIFCNHVLTPAPIQNILESPDVRKLGTIKIDGFIGPAHVSTV 207
Query: 214 IGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNYTRFVTYKGNLK 273
IGT+PY +FAEEF+KPVV+AGFEPL+V++A+ ++++Q+ GR EV+N Y R VT GN K
Sbjct: 208 IGTEPYEFFAEEFRKPVVVAGFEPLDVIQAILMLVRQVNDGRHEVENQYIRAVTALGNEK 267
Query: 274 AQNLVAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFEVELPEPKEHPACICGK 333
AQ VA FELR+ FEWRGLG +PY AL++R +Y +DAEK F + P K++PAC CG
Sbjct: 268 AQAEVANFFELRESFEWRGLGEVPYGALRLRPQYAAYDAEKRFSMVTPAAKDNPACECGA 327
Query: 334 VIRGVARPTDCKLFGTVCTPSNPLGSCMVSSEGACAAYYKYRR 376
++RGV +P DCKLFGTVCTP P+GSCMVS EGACAA++ Y R
Sbjct: 328 ILRGVKKPADCKLFGTVCTPDTPMGSCMVSPEGACAAHWAYGR 370
sp|P31904|HYPD_BRAJA HYDROGENASE EXPRESSION/FORMATION PROTEIN HYPD
>gi|486752|pir||S35229 hypD' protein - Bradyrhizobium
japonicum (fragment) >gi|39535|emb|CAA78988.1| (Z17373)
hypD' [Bradyrhizobium japonicum]
>gi|448282|prf||1916405A hypD gene [Bradyrhizobium
japonicum]
Length = 347
Score = 447 bits (1138), Expect = e-125
Identities = 200/337 (59%), Positives = 269/337 (79%)
Query: 40 EFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVIMCSYGD 99
EFCGGHTHAI +YG++ +L VR IHGPGCPVCV+P RID+AI LA R D+I+C YGD
Sbjct: 1 EFCGGHTHAISRYGLEDMLPANVRMIHGPGCPVCVLPAGRIDMAIRLAMRPDIILCVYGD 60
Query: 100 LLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKKVIFFAIGFETTTPQTAVL 159
L+RVPGS+ SLL +A GAD+RMVYS +D ++IA++NP ++V+FFAIGFETTTP TAV+
Sbjct: 61 LMRVPGSQGASLLKAKARGADIRMVYSTIDAIRIAEDNPGREVVFFAIGFETTTPPTAVM 120
Query: 160 IKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEIDAFIGPGHVSVIIGTKPY 219
I+ A ++ ++N V NHV+TP A+Q+IL +P+IR IG+VEID F+GP HVS IIGT PY
Sbjct: 121 IRLAGKKQLENFSVFCNHVLTPPAMQNILESPDIRNIGRVEIDGFVGPAHVSTIIGTAPY 180
Query: 220 HYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNYTRFVTYKGNLKAQNLVA 279
+FAEEF KPVVIAGFEPL++++A+ ++++Q+ + R EV+N Y+R VT GNL+A+ V+
Sbjct: 181 EFFAEEFGKPVVIAGFEPLDMMQAILMLVRQVNEHRHEVENQYSRAVTRDGNLRAKEEVS 240
Query: 280 ELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFEVELPEPKEHPACICGKVIRGVA 339
++FELR +FEWRGLG +PYS LK+++ Y ++DAE F++ ++PAC CG ++RGV
Sbjct: 241 DIFELRDQFEWRGLGQVPYSGLKLKRAYAKYDAEVRFDMNELRVDDNPACECGAILRGVK 300
Query: 340 RPTDCKLFGTVCTPSNPLGSCMVSSEGACAAYYKYRR 376
+P DCKLFGTVCTP P+GSCMVSSEGACAA++ Y R
Sbjct: 301 KPVDCKLFGTVCTPETPMGSCMVSSEGACAAHWTYGR 337
sp|P31903|HYPD_ALCEU HYDROGENASE EXPRESSION/FORMATION PROTEIN HYPD
>gi|321749|pir||S29978 hypD protein - Alcaligenes
eutrophus >gi|38775|emb|CAA49734| (X70183) HYPD
[Ralstonia eutropha]
Length = 379
Score = 445 bits (1133), Expect = e-124
Identities = 200/344 (58%), Positives = 265/344 (76%)
Query: 33 GRTVNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKRKDV 92
G+ N MEFCGGHTHAI +YG+ +LL VR IHGPGCPVCV+P+ RIDLA+ LA +D
Sbjct: 27 GQRYNFMEFCGGHTHAISRYGVTELLPENVRMIHGPGCPVCVLPIGRIDLALHLALERDA 86
Query: 93 IMCSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKKVIFFAIGFETT 152
I+C+YGD +RVP S SL+ +A GAD+RMVYS D LKIA+ +P ++V+F AIGFETT
Sbjct: 87 IVCTYGDTMRVPASGGMSLIRAKAHGADIRMVYSAADALKIAQRHPQREVVFLAIGFETT 146
Query: 153 TPQTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEIDAFIGPGHVSV 212
TP TA++I++AK + N V+ HV+TP+AI HIL +PE+R+ G V ID F+GP HVS+
Sbjct: 147 TPPTALIIREAKARQVDNFSVLCCHVLTPSAITHILESPEVRDYGTVPIDGFVGPAHVSI 206
Query: 213 IIGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNYTRFVTYKGNL 272
+IGT+PY +F+ E+ KPVVIAGFEPL+V++A+ ++++Q+ GRAEV+N + R VT GN
Sbjct: 207 VIGTRPYEHFSREYGKPVVIAGFEPLDVMQAILMLVRQVNSGRAEVENEFVRAVTRDGNE 266
Query: 273 KAQNLVAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFEVELPEPKEHPACICG 332
AQ +V+E+FELR FEWRGLG +PYSAL+IR ++ FDAE+ F++ ++ AC CG
Sbjct: 267 SAQAMVSEVFELRPSFEWRGLGEVPYSALRIRAQFARFDAEQRFDLRYRPVPDNKACECG 326
Query: 333 KVIRGVARPTDCKLFGTVCTPSNPLGSCMVSSEGACAAYYKYRR 376
++RGV +PTDCKLF TVCTP NP+GSCMVSSEGACAA+Y Y R
Sbjct: 327 AILRGVKKPTDCKLFATVCTPENPMGSCMVSSEGACAAHYSYGR 370
sp|P31882|HYPD_AZOVI HYDROGENASE EXPRESSION/FORMATION PROTEIN HYPD >gi|95053|pir||S23443
hypothetical protein 8 - Azotobacter vinelandii
>gi|39245|emb|CAA45187| (X63650) ORF8 [Azotobacter
vinelandii] >gi|398011 (L23970) hypD [Azotobacter
vinelandii]
Length = 379
Score = 424 bits (1079), Expect = e-118
Identities = 201/343 (58%), Positives = 260/343 (75%), Gaps = 1/343 (0%)
Query: 34 RTVNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVI 93
R +MEFCGGHTHAI +YGI LL VR IHGPGCPVCVMP+ R+D+AIELA+R VI
Sbjct: 28 RQYRLMEFCGGHTHAIFRYGIPDLLPANVRLIHGPGCPVCVMPIGRLDMAIELARRPGVI 87
Query: 94 MCSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKKVIFFAIGFETTT 153
+C+YGD+LRVP S R SLL RAEGA VRM+YS ++ LK+A++NPD+ V+FFAIGFETTT
Sbjct: 88 LCTYGDMLRVPASGRVSLLKARAEGAAVRMLYSPIEALKLAQDNPDRDVVFFAIGFETTT 147
Query: 154 PQTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEIDAFIGPGHVSVI 213
P TA++I++A+ G+KN V NHV+TPAA+ IL PE R G +++D FIGP HVS +
Sbjct: 148 PPTALVIEQAQRLGLKNFSVFCNHVLTPAAMHAILATPEARA-GTLQLDGFIGPAHVSTV 206
Query: 214 IGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNYTRFVTYKGNLK 273
IG+ Y F ++ P+VIAGFEPL++L+A+ ++++Q+ +GRAEV+N +TR VT GNLK
Sbjct: 207 IGSDAYAPFPRQYGTPLVIAGFEPLDLLQALLMLVRQLNEGRAEVENQFTRAVTAGGNLK 266
Query: 274 AQNLVAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFEVELPEPKEHPACICGK 333
A+ L +FELR+ FEWRGLG +P SAL+IR+ + EFDAE+ F +E E+ AC C
Sbjct: 267 AKALTGRIFELRESFEWRGLGALPNSALRIREAFAEFDAERRFALEARSGLENKACECPA 326
Query: 334 VIRGVARPTDCKLFGTVCTPSNPLGSCMVSSEGACAAYYKYRR 376
++RG P DCKLFG C+P NPLGSCMVSSEGACAA+Y Y R
Sbjct: 327 ILRGAKSPRDCKLFGNPCSPDNPLGSCMVSSEGACAAWYAYGR 369
sp|P42033|HUPD_AZOCH HYDROGENASE EXPRESSION/FORMATION PROTEIN HUPD
>gi|2120752|pir||I39743 hydrogenase homolog 1 -
Azotobacter chroococcum >gi|142321 (M92282)
hydrogenase-related protein [Azotobacter chroococcum]
>gi|382215|prf||1819270A hydrogenase [Azotobacter
chroococcum]
Length = 379
Score = 423 bits (1075), Expect = e-117
Identities = 199/343 (58%), Positives = 262/343 (76%), Gaps = 1/343 (0%)
Query: 34 RTVNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVI 93
R +MEFCGGHTHAI +YGI LL VR IHGPGCPVCVMP+ R+D+AIELA+R +VI
Sbjct: 28 RQYRLMEFCGGHTHAIFRYGIPDLLPASVRLIHGPGCPVCVMPIGRLDMAIELARRPEVI 87
Query: 94 MCSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKKVIFFAIGFETTT 153
+C+YGD+LRVP S R SLL RAE A VRM+YS + LK+A++NP K+V+FFAIGFETTT
Sbjct: 88 LCTYGDMLRVPASGRVSLLKARAESAAVRMLYSPAEALKLAQDNPSKEVVFFAIGFETTT 147
Query: 154 PQTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEIDAFIGPGHVSVI 213
P TA++I++A+ G+KN V NHV+TPAA+ IL PE R G +++D FIGP HVS +
Sbjct: 148 PPTALVIEQAQRLGLKNFSVFCNHVLTPAAMHAILATPEARA-GTLQLDGFIGPAHVSTV 206
Query: 214 IGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNYTRFVTYKGNLK 273
IG+ PY F +++ P+VIAGFEPL++L+A+ ++++Q+ +GRAEV+N +TR VT +GN K
Sbjct: 207 IGSAPYAPFPQQYGTPLVIAGFEPLDLLQALLMLVRQLNEGRAEVENQFTRAVTAEGNRK 266
Query: 274 AQNLVAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFEVELPEPKEHPACICGK 333
A+ L +FE+R+ FEWRGLG +P+SAL+IR+ + EF+AE+ F +E E+ AC C
Sbjct: 267 AKALTERVFEVRESFEWRGLGAVPHSALQIREAFAEFNAERRFALEPRTGLENKACECPA 326
Query: 334 VIRGVARPTDCKLFGTVCTPSNPLGSCMVSSEGACAAYYKYRR 376
++RG P DCKLFG CTP NPLGSCMVSSEGACAA+Y Y R
Sbjct: 327 ILRGAKSPRDCKLFGNPCTPDNPLGSCMVSSEGACAAWYAYGR 369
gi|4155404 (AE001512) Hydrogenase expression/formation protein [Helicobacter
pylori J99]
Length = 370
Score = 366 bits (929), Expect = e-100
Identities = 178/371 (47%), Positives = 245/371 (65%), Gaps = 9/371 (2%)
Query: 8 IFEAYKDKERVXXXXXXXXXXXXXXGRTVNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHG 67
+ ++DK + + + IME CGGHTH+IMKYG+ L+ + F HG
Sbjct: 6 LISPFRDKRIILALSNEIKKFASKLTKKLVIMEVCGGHTHSIMKYGLLDLMPKNLEFAHG 65
Query: 68 PGCPVCVMPMQRIDLAIELAKRKDVIMCSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSC 127
PGCPVCVMP R+D A ELA KD I+ S GD++RVPGS SL+ R +G D R +YS
Sbjct: 66 PGCPVCVMPRARLDEAYELASMKDSIVLSLGDMMRVPGSYG-SLIQAREKGLDARFLYSP 124
Query: 128 LDTLKIAKENPDKKVIFFAIGFETTTPQTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHI 187
+ L+IAKENP KKVI+ AIGFETTTP TA ++ AK+E +KNLF NH++ P ++ I
Sbjct: 125 MQALEIAKENPHKKVIYIAIGFETTTPMTASVLLNAKKEKLKNLFFHINHILVPPSVSTI 184
Query: 188 LNAPEIREIGKVEIDAFIGPGHVSVIIGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLI 247
L R I+A + P HVSVI G + Y + F+ P++++GFEP+++L++V ++
Sbjct: 185 LEDKACR------INALLAPSHVSVISGAQIYAPLVDRFKLPIIVSGFEPVDILESVLML 238
Query: 248 LKQIYKGRAEVKNNYTRFVTYKGNLKAQNLVAELFELRKEFEWRGLGTIPYSALKIRKEY 307
KQ A+++ Y R V+Y+GN KAQ LV E+R+ FEWRGLG I SALK+++ +
Sbjct: 239 TKQALNKEAKLEIQYKRAVSYEGNTKAQELVNACMEVRENFEWRGLGNIKRSALKLKEAF 298
Query: 308 EEFDAEKVFEVELPE--PKEHPACICGKVIRGVARPTDCKLFGTVCTPSNPLGSCMVSSE 365
+DAEKVF+ L KE+ AC CG++++G+A+P DC LF T CTP NP+GSCMVSSE
Sbjct: 299 ASYDAEKVFKAYLSHKTSKENKACKCGEILKGIAKPLDCSLFATTCTPQNPIGSCMVSSE 358
Query: 366 GACAAYYKYRR 376
GACAAYY+Y+R
Sbjct: 359 GACAAYYRYKR 369
gb|AAD07944.1| (AE000599) hydrogenase expression/formation protein (hypD)
[Helicobacter pylori 26695]
Length = 370
Score = 363 bits (923), Expect = 1e-99
Identities = 175/371 (47%), Positives = 248/371 (66%), Gaps = 9/371 (2%)
Query: 8 IFEAYKDKERVXXXXXXXXXXXXXXGRTVNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHG 67
+ ++DK + + + IME CGGHTH+IMKYG+ L+ + F+HG
Sbjct: 6 LISPFRDKRTLLALSNAIKKLAFKLEKKLVIMEVCGGHTHSIMKYGLLDLMPNNLEFVHG 65
Query: 68 PGCPVCVMPMQRIDLAIELAKRKDVIMCSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSC 127
PGCPVCVMP R+D A ELA KD I+ S GD++RVPGS SL+ R +G D R +YS
Sbjct: 66 PGCPVCVMPRARLDEAYELATIKDSIVLSLGDMMRVPGSYG-SLIQAREKGLDARFLYSP 124
Query: 128 LDTLKIAKENPDKKVIFFAIGFETTTPQTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHI 187
+ L+IAKENP KKVI+ AIGFETTTP +A ++ AK+E I NLF NH++ P ++ I
Sbjct: 125 MQALEIAKENPTKKVIYIAIGFETTTPMSASVLWSAKKEKINNLFFHINHILVPPSVSAI 184
Query: 188 LNAPEIREIGKVEIDAFIGPGHVSVIIGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLI 247
L P +I+A + P HVSVI G + Y + F+ P++++GFEP+++L++V ++
Sbjct: 185 LKDPAC------QINALLAPSHVSVISGAQIYAPLVDRFKIPIIVSGFEPVDILESVLML 238
Query: 248 LKQIYKGRAEVKNNYTRFVTYKGNLKAQNLVAELFELRKEFEWRGLGTIPYSALKIRKEY 307
+KQ A+++ Y R V+++GN+KAQ LV E+R+ FEWRGLG I SALK+++ +
Sbjct: 239 IKQALNKEAKLEIQYKRAVSFEGNVKAQELVNACMEVRENFEWRGLGNIKRSALKLKEAF 298
Query: 308 EEFDAEKVFEVELPE--PKEHPACICGKVIRGVARPTDCKLFGTVCTPSNPLGSCMVSSE 365
+DAE+VF+ L KE+ AC CG++++G+A+P DC LF T CTP NP+GSCMVSSE
Sbjct: 299 ASYDAEEVFKEYLSHKTSKENKACKCGEILKGIAKPLDCSLFATTCTPQNPIGSCMVSSE 358
Query: 366 GACAAYYKYRR 376
GACAAYY+Y+R
Sbjct: 359 GACAAYYRYKR 369
sp|P26411|HYPD_RHOCA HYDROGENASE EXPRESSION/FORMATION PROTEIN HYPD
>gi|2126467|pir||S59985 hypD protein - Rhodobacter
capsulatus
Length = 377
Score = 361 bits (916), Expect = 7e-99
Identities = 172/345 (49%), Positives = 238/345 (68%), Gaps = 11/345 (3%)
Query: 34 RTVNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVI 93
+ V+IME CGGHTH+I +YG+D+L+ + FIHGPGCPVCV+P R+D IE+A R +VI
Sbjct: 33 KPVHIMEICGGHTHSIFRYGLDKLIHPGIEFIHGPGCPVCVLPRARVDECIEIAGRPEVI 92
Query: 94 MCSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKKVIFFAIGFETTT 153
C++GD +RVPGSK SL+ +A GAD+RMVYS LD L++A+ NP ++V+FF +GFETTT
Sbjct: 93 FCTFGDAMRVPGSKL-SLMQAKAAGADIRMVYSPLDALELARRNPGREVVFFGLGFETTT 151
Query: 154 PQTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEIDAFIGPGHVSVI 213
P TA+ I++A EG+ N V NH+ P I+ +L+ P +R +D FIGPGHVS++
Sbjct: 152 PSTALAIQQAAREGLANFSVFCNHITVPEPIRALLDDPYMR------LDGFIGPGHVSMV 205
Query: 214 IGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNYTRFVTYKGNLK 273
IG PY + AE++ KP+V+AGFEP ++L++V ++L+QI +GRA ++N Y R V GN
Sbjct: 206 IGIHPYDFIAEDYGKPLVVAGFEPTDLLQSVLMVLRQISQGRAAIENQYARVVPEHGNRV 265
Query: 274 AQNLVAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFEV----ELPEPKEHPAC 329
+ +A+++E R FEWRGLG I S L+IR Y DAE+ F V + +E C
Sbjct: 266 SLAAIADVYERRPSFEWRGLGEIDASGLRIRAAYRAHDAEEKFGVGYAGQRAAVEEAEGC 325
Query: 330 ICGKVIRGVARPTDCKLFGTVCTPSNPLGSCMVSSEGACAAYYKY 374
CG V+ G +P C FG CTP PLG+ MVSSEGACAAY++Y
Sbjct: 326 ACGAVMTGRMKPVACAQFGKGCTPEMPLGALMVSSEGACAAYWQY 370
pir||S59984 hypD protein - Rhodobacter capsulatus >gi|46055|emb|CAA43328|
(X61007) HypD [Rhodobacter capsulatus]
Length = 473
Score = 361 bits (916), Expect = 7e-99
Identities = 172/345 (49%), Positives = 238/345 (68%), Gaps = 11/345 (3%)
Query: 34 RTVNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVI 93
+ V+IME CGGHTH+I +YG+D+L+ + FIHGPGCPVCV+P R+D IE+A R +VI
Sbjct: 129 KPVHIMEICGGHTHSIFRYGLDKLIHPGIEFIHGPGCPVCVLPRARVDECIEIAGRPEVI 188
Query: 94 MCSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKKVIFFAIGFETTT 153
C++GD +RVPGSK SL+ +A GAD+RMVYS LD L++A+ NP ++V+FF +GFETTT
Sbjct: 189 FCTFGDAMRVPGSKL-SLMQAKAAGADIRMVYSPLDALELARRNPGREVVFFGLGFETTT 247
Query: 154 PQTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEIDAFIGPGHVSVI 213
P TA+ I++A EG+ N V NH+ P I+ +L+ P +R +D FIGPGHVS++
Sbjct: 248 PSTALAIQQAAREGLANFSVFCNHITVPEPIRALLDDPYMR------LDGFIGPGHVSMV 301
Query: 214 IGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNYTRFVTYKGNLK 273
IG PY + AE++ KP+V+AGFEP ++L++V ++L+QI +GRA ++N Y R V GN
Sbjct: 302 IGIHPYDFIAEDYGKPLVVAGFEPTDLLQSVLMVLRQISQGRAAIENQYARVVPEHGNRV 361
Query: 274 AQNLVAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFEV----ELPEPKEHPAC 329
+ +A+++E R FEWRGLG I S L+IR Y DAE+ F V + +E C
Sbjct: 362 SLAAIADVYERRPSFEWRGLGEIDASGLRIRAAYRAHDAEEKFGVGYAGQRAAVEEAEGC 421
Query: 330 ICGKVIRGVARPTDCKLFGTVCTPSNPLGSCMVSSEGACAAYYKY 374
CG V+ G +P C FG CTP PLG+ MVSSEGACAAY++Y
Sbjct: 422 ACGAVMTGRMKPVACAQFGKGCTPEMPLGALMVSSEGACAAYWQY 466
sp|P24192|HYPD_ECOLI HYDROGENASE ISOENZYMES FORMATION PROTEIN HYPD >gi|95944|pir||S15200
hydrogenase expression/formation protein HypD -
Escherichia coli >gi|41778|emb|CAA38415| (X54543)
hydrogenase isoenzyme hypD [Escherichia coli]
>gi|1789084 (AE000356) pleiotrophic effects on 3
hydrogenase isozymes [Escherichia coli]
Length = 373
Score = 346 bits (878), Expect = 2e-94
Identities = 162/343 (47%), Positives = 230/343 (66%), Gaps = 7/343 (2%)
Query: 34 RTVNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVI 93
R + IME CGGHTHAI K+G+DQLL V FIHGPGCPVCV+PM RID +E+A +VI
Sbjct: 33 RPLRIMEVCGGHTHAIFKFGLDQLLPENVEFIHGPGCPVCVLPMGRIDTCVEIASHPEVI 92
Query: 94 MCSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKKVIFFAIGFETTT 153
C++GD +RVPG K+ SLL +A GADVR+VYS +D LK+A+ENP +KV+FF +GFETT
Sbjct: 93 FCTFGDAMRVPG-KQGSLLQAKARGADVRIVYSPMDALKLAQENPTRKVVFFGLGFETTM 151
Query: 154 PQTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEIDAFIGPGHVSVI 213
P TA+ +++AK ++N + H+ ++ +L P+ IDAF+ PGHVS++
Sbjct: 152 PTTAITLQQAKARDVQNFYFFCQHITLIPTLRSLLEQPDNG------IDAFLAPGHVSMV 205
Query: 214 IGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNYTRFVTYKGNLK 273
IGT Y++ A +F +P+V+AGFEPL++L+ V ++++Q ++V+N Y R V GNL
Sbjct: 206 IGTDAYNFIASDFHRPLVVAGFEPLDLLQGVVMLVQQKIAAHSKVENQYRRVVPDAGNLL 265
Query: 274 AQNLVAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFEVELPEPKEHPACICGK 333
AQ +A++F + + EWRGLG I S + + +Y+ FDAE F + + P CG+
Sbjct: 266 AQQAIADVFCVNGDSEWRGLGVIESSGVHLTPDYQRFDAEAHFRPAPQQVCDDPRARCGE 325
Query: 334 VIRGVARPTDCKLFGTVCTPSNPLGSCMVSSEGACAAYYKYRR 376
V+ G +P C LFG C P G+ MVSSEGACAA+Y+YR+
Sbjct: 326 VLTGKCKPHQCPLFGNTCNPQTAFGALMVSSEGACAAWYQYRQ 368
gi|882622 (U29579) CG Site no. 33116; ORF_o373 [Escherichia coli]
Length = 373
Score = 344 bits (874), Expect = 6e-94
Identities = 161/343 (46%), Positives = 229/343 (65%), Gaps = 7/343 (2%)
Query: 34 RTVNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVI 93
R + IME CGGHTHAI K+G+DQLL V FIHGPGCPVCV+PM RID +E+A +VI
Sbjct: 33 RPLRIMEVCGGHTHAIFKFGLDQLLPENVEFIHGPGCPVCVLPMGRIDTCVEIASHPEVI 92
Query: 94 MCSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKKVIFFAIGFETTT 153
C++GD +RVPG K+ SLL +A GADVR+VYS +D LK+A+ENP +KV+FF +GFETT
Sbjct: 93 FCTFGDAMRVPG-KQGSLLQAKARGADVRIVYSPMDALKLAQENPTRKVVFFGLGFETTM 151
Query: 154 PQTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEIDAFIGPGHVSVI 213
P TA+ +++AK ++N + H+ ++ +L P+ IDAF+ PGHVS++
Sbjct: 152 PTTAITLQQAKARDVQNFYFFCQHITLIPTLRSLLEQPDNG------IDAFLAPGHVSMV 205
Query: 214 IGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNYTRFVTYKGNLK 273
IGT Y++ A +F +P+V+AGFEPL++L+ V ++++Q ++V+N Y R V GNL
Sbjct: 206 IGTDAYNFIASDFHRPLVVAGFEPLDLLQGVVMLVQQKIAAHSKVENQYRRVVPDAGNLL 265
Query: 274 AQNLVAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFEVELPEPKEHPACICGK 333
AQ + ++F + + EWRGLG I S + + +Y+ FDAE F + + P CG+
Sbjct: 266 AQQAIXDVFCVNGDSEWRGLGVIESSGVHLTPDYQRFDAEAHFRPAPQQVCDDPRARCGE 325
Query: 334 VIRGVARPTDCKLFGTVCTPSNPLGSCMVSSEGACAAYYKYRR 376
V+ G +P C LFG C P G+ MVSSEGACAA+Y+YR+
Sbjct: 326 VLTGKCKPHQCPLFGNTCNPQTAFGALMVSSEGACAAWYQYRQ 368
dbj|BAA16622| (D90899) hydrogenase isoenzymes formation protein HypD
[Synechocystis sp.]
Length = 374
Score = 324 bits (821), Expect = 9e-88
Identities = 156/345 (45%), Positives = 229/345 (66%), Gaps = 13/345 (3%)
Query: 38 IMEFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVIMCSY 97
+ME CGG TH+I+KYG+D LL + IHGPGCPVCV PM+ ID A+ LAK+ ++I CS+
Sbjct: 30 LMEICGGQTHSIVKYGLDALLPKNLTLIHGPGCPVCVTPMELIDQALWLAKQPEIIFCSF 89
Query: 98 GDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKKVIFFAIGFETTTPQTA 157
GD+LRVPGS LL+++A+G DVR+VYS LD L IA+ENP+++V+FF +GFETT P TA
Sbjct: 90 GDMLRVPGS-GADLLSIKAQGGDVRIVYSPLDCLAIARENPNREVVFFGVGFETTAPATA 148
Query: 158 VLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEIDAFIGPGHVSVIIGTK 217
+ + +A+ +GI N ++ HV+ P A++ +L P + F+ GHV + G +
Sbjct: 149 MTLHQARAQGISNFSLLCAHVLVPPAMEALLGNPNSL------VQGFLAAGHVCTVTGER 202
Query: 218 PYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNYTRFVTYKGNLKAQNL 277
Y + AE++Q P+VI GFEP+++++ ++ ++Q+ G+ N Y R V +GN AQ +
Sbjct: 203 AYQHIAEKYQVPIVITGFEPVDIMQGIFACVRQLESGQFTCNNQYRRSVQPQGNAHAQKI 262
Query: 278 VAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVF----EVELPEPKEHPACICGK 333
+ ++FE + WRGLG IP S L +R + +DA F + P E CI G+
Sbjct: 263 IDQVFE-PVDRHWRGLGLIPASGLGLRPAFAPWDAAVKFANLLQTMAPTMGE-TVCISGE 320
Query: 334 VIRGVARPTDCKLFGTVCTPSNPLGSCMVSSEGACAAYYKYRRAL 378
+++G +P+DC FGT+CTP PLG+ MVSSEGACAAYY+YR+ L
Sbjct: 321 ILQGQRKPSDCPAFGTICTPEQPLGAPMVSSEGACAAYYRYRQQL 365
gi|2622170 (AE000877) hydrogenase expression/formation protein HypD
[Methanobacterium thermoautotrophicum]
Length = 348
Score = 316 bits (800), Expect = 3e-85
Identities = 167/342 (48%), Positives = 230/342 (66%), Gaps = 14/342 (4%)
Query: 34 RTVNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVI 93
R V IM CG H H IM++G+ LL V + GPGCPVC +P + ID IELA R+ V
Sbjct: 17 RPVKIMHVCGSHEHTIMQHGVRSLLPEEVEVVAGPGCPVCCVPAREIDECIELA-RQGVT 75
Query: 94 MCSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKKVIFFAIGFETTT 153
+ ++GD+LRVPGS R SL + RA+GADVR+VY + ++IA++ D++V+F A GFETT
Sbjct: 76 ITTFGDMLRVPGS-RGSLADARADGADVRIVYGVGNAVEIARKL-DREVVFMAAGFETTA 133
Query: 154 PQTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEIDAFIGPGHVSVI 213
P TA I E N V+S H + P A++ ++ E G+V ++A I PGHVS I
Sbjct: 134 PTTASEILSGPPE---NFSVLSCHRLIPPALRFLI------ESGEVNLNALIEPGHVSTI 184
Query: 214 IGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNYTRFVTYKGNLK 273
IG KPY F+ ++ P VIAGF PL++L AVY+IL+QI +G A+V+N Y R V +GNLK
Sbjct: 185 IGMKPYEPFSRDYNIPQVIAGFNPLDILMAVYMILRQIDRGEAKVENEYKRAVKPEGNLK 244
Query: 274 AQNLVAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFEVELPEPKEHPA-CICG 332
AQ ++ E+F++ E EWRG IP S +IR E+ EF+A + F++E+ + + PA CICG
Sbjct: 245 AQKVMDEVFKV-TEREWRGFPVIPESVYEIRDEFSEFNAREKFDIEVEDTVDTPAGCICG 303
Query: 333 KVIRGVARPTDCKLFGTVCTPSNPLGSCMVSSEGACAAYYKY 374
V+RGVARP +CKLF CTP++P+G+CMVS EG C Y+Y
Sbjct: 304 AVLRGVARPEECKLFKNECTPTSPIGACMVSREGTCNIAYRY 345
sp|Q58400|Y993_METJA PUTATIVE HYDROGENASE EXPRESSION/FORMATION PROTEIN MJ0993
>gi|2127979|pir||A64424 hydrogenase expression/formation
protein D - Methanococcus jannaschii >gi|1591656
(U67542) hydrogenase expression/formation protein (hypD)
[Methanococcus jannaschii]
Length = 358
Score = 309 bits (783), Expect = 3e-83
Identities = 161/344 (46%), Positives = 220/344 (63%), Gaps = 16/344 (4%)
Query: 36 VNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVIMC 95
+ IM CG H H I KYGI +L + + GPGCPVCV + ID AI LA VI
Sbjct: 27 LKIMHVCGSHEHTICKYGIRDVLPENITVVPGPGCPVCVTTQKEIDTAIYLADNGYVIT- 85
Query: 96 SYGDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKKVIFFAIGFETTTPQ 155
+ GD+ RVPGS+ KSL+ ++EG DVR+VYS + +K+AK+ DKK +F AIGFETT P
Sbjct: 86 TLGDMYRVPGSE-KSLMEKQSEGCDVRIVYSISEAVKMAKKERDKKFVFVAIGFETTAPT 144
Query: 156 TAVLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEIDAFIGPGHVSVIIG 215
T + K + + N F+++ H TP ++ +LN V +DAFI PGHVS I G
Sbjct: 145 TGAELISLKNKDVNNFFILNCHRQTPPVMEFLLNEG-------VYLDAFICPGHVSTITG 197
Query: 216 TKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNYTRFVTYKGNLKAQ 275
KPY+ E+++ P+V+AGFEP++VL A+ +ILKQ+ G A+V+N Y R V +GN+ AQ
Sbjct: 198 LKPYYGLCEKYKAPMVVAGFEPIDVLMAIIMILKQVISGEAKVENEYIRAVKPEGNVLAQ 257
Query: 276 NLVAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFEVE-LPEPKEH--PACICG 332
++ E+FE + WRG + +R++Y++FD ++E E +PE KE CIC
Sbjct: 258 KIINEVFE-SIDVPWRGFPVVKNGGFGLREKYKKFD---IYEHEDIPEIKEKIPKGCICD 313
Query: 333 KVIRGVARPTDCKLFGTVCTPSNPLGSCMVSSEGACAAYYKYRR 376
K++RG PTDC LFGTVCTP NP+GSCMVS EG C +YKYRR
Sbjct: 314 KILRGEKLPTDCPLFGTVCTPLNPVGSCMVSDEGTCRIFYKYRR 357
dbj|BAA29973| (AP000004) 367aa long hypothetical hydrogenase expression/formation
protein hypD [Pyrococcus horikoshii]
Length = 367
Score = 293 bits (743), Expect = 1e-78
Identities = 144/345 (41%), Positives = 220/345 (63%), Gaps = 15/345 (4%)
Query: 36 VNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAK-----RK 90
V M CG H + + GI LL V+ + GPGCPVC+ P++ I +E+ K +
Sbjct: 28 VRFMHVCGTHEDTVTRSGIRSLLPKNVKIMSGPGCPVCITPVEDIVKMMEIMKIAREEGE 87
Query: 91 DVIMCSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKKVIFFAIGFE 150
++I+ ++GD+ ++P + R S +++++G DVR+VYS D+ KIAKENPDK V+ F+ GFE
Sbjct: 88 EIILTTFGDMYKIP-TPRGSFADLKSQGYDVRIVYSIYDSYKIAKENPDKLVVHFSPGFE 146
Query: 151 TTTPQTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEIDAFIGPGHV 210
TTT TA +++ EEG++N + S H +TP A++ +L A + I PGHV
Sbjct: 147 TTTAPTAGMLEVVVEEGLENFRIYSVHRLTPPAVEALLKAGTV-------FQGLITPGHV 199
Query: 211 SVIIGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNYTRFVTYKG 270
S IIG K + Y E+F P V+AGFEP++VL A+ +++ + +G A++ N Y R V ++G
Sbjct: 200 STIIGVKGWVYLTEKFGIPQVVAGFEPVDVLLAILTLIRLVKRGEAKIVNEYNRAVKWEG 259
Query: 271 NLKAQNLVAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFEVELPE-PKEHPAC 329
N+KAQ L+ + FE+ K+ +WR LG IP S L++RKE++E + ++ ++P+ P C
Sbjct: 260 NVKAQELIRKFFEV-KDAKWRALGIIPKSGLELRKEWKELEIRNYYDPDVPKLPDLEKGC 318
Query: 330 ICGKVIRGVARPTDCKLFGTVCTPSNPLGSCMVSSEGACAAYYKY 374
+CG V+RG+A PT C FG CTP +P+G CMVS EG C +YKY
Sbjct: 319 LCGAVLRGLALPTQCPHFGKTCTPRHPIGPCMVSYEGTCHIFYKY 363
emb|CAB50146.1| (AJ248287) hydrogenase expression/formation protein (hypD)
[Pyrococcus abyssi]
Length = 367
Score = 280 bits (709), Expect = 1e-74
Identities = 133/345 (38%), Positives = 218/345 (62%), Gaps = 15/345 (4%)
Query: 36 VNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKR-----K 90
+ M CG H + + GI LL V+ + GPGCPVC+ P++ I +E+ ++ +
Sbjct: 28 LRFMHVCGTHEDTVTRAGIRSLLPENVKIMSGPGCPVCITPVEDIVRMMEIMRKAKEEGE 87
Query: 91 DVIMCSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKKVIFFAIGFE 150
D+I+ ++GD+ R+P + S ++++EG DVR+VYS D+ KIA+EN DK V+ F+ GFE
Sbjct: 88 DIILTTFGDMYRIP-TPMGSFADLKSEGFDVRVVYSIYDSYKIAQENRDKLVVHFSPGFE 146
Query: 151 TTTPQTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEIDAFIGPGHV 210
TTT TA +++ EG+ N + S H +TP A++ +L A + I PGHV
Sbjct: 147 TTTAPTAGMLETVINEGLDNFKIYSVHRLTPPAVEALLKAGTV-------FHGLIDPGHV 199
Query: 211 SVIIGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNYTRFVTYKG 270
S IIG + + Y E++ P V+AGFEP++VL + ++++ + +G A++ N Y+R V ++G
Sbjct: 200 STIIGVRGWAYLTEKYNIPQVVAGFEPVDVLLGILILIRMVKEGEAKIINEYSRVVKWEG 259
Query: 271 NLKAQNLVAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFEVELPE-PKEHPAC 329
N+KAQ L+ + FE+ K+ +WR LG IP S L++++E+++ + ++ ++P+ P C
Sbjct: 260 NVKAQELINKFFEV-KDAKWRALGIIPQSGLELKREWKDLEIRTLYNPDVPKLPDLEKGC 318
Query: 330 ICGKVIRGVARPTDCKLFGTVCTPSNPLGSCMVSSEGACAAYYKY 374
+CG ++RG+A P C FG CTP +P+G CMVS EG C+ +YKY
Sbjct: 319 LCGAILRGLALPPQCPHFGKTCTPRHPIGPCMVSYEGTCSIFYKY 363
gi|2649201 (AE001009) hydrogenase expression/formation protein (hypD)
[Archaeoglobus fulgidus]
Length = 371
Score = 273 bits (690), Expect = 2e-72
Identities = 143/339 (42%), Positives = 204/339 (59%), Gaps = 20/339 (5%)
Query: 35 TVNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVIM 94
+V IM CG H I KY + LL + + GPGCPVC+ P + I + + L +++++ +
Sbjct: 36 SVKIMHLCGTHEDTITKYNLRSLLPENISLLSGPGCPVCITPDEDIQMVMHLLEKENITL 95
Query: 95 CSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKKVIFFAIGFETTTP 154
++GD+ RVP + KSL +RAEG D+R+VYS D+LK+A E+ D+ V+ FAIGFETT P
Sbjct: 96 ATFGDMARVP-FQGKSLFTLRAEGYDIRIVYSIFDSLKLA-ESSDRPVVHFAIGFETTMP 153
Query: 155 QTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEIDAFIGPGHVSVII 214
TA+ + KE N +V S H A+ + +DAFI PGHVS II
Sbjct: 154 STAIALLDEKE----NFYVFSAHRFFIPAVHALCE--------NTTVDAFINPGHVSTII 201
Query: 215 GTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNYTRFVTYKGNLKA 274
G KPY +++ P VIAGFEP +V+ A+YL+L+ + GR EV N Y+R V +GN++A
Sbjct: 202 GVKPYREILKKYGIPQVIAGFEPEDVMLAIYLLLEAMSDGRREVINEYSRAVKEEGNVRA 261
Query: 275 QNLVAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFE-----VELPEPKEHPAC 329
+ +F ++++ WRGLG + S + K +E+FDA KVFE + E K C
Sbjct: 262 LEAMDRVFR-KEDWSWRGLGVVKGSGGALAKRFEQFDARKVFEDAFADFQPVEDKSKRLC 320
Query: 330 ICGKVIRGVARPTDCKLFGTVCTPSNPLGSCMVSSEGAC 368
CG V++G+A P DC LF C P NP+G+CMVS EG C
Sbjct: 321 RCGDVLKGIATPKDCPLFMKACNPRNPVGACMVSVEGTC 359
gi|2289331 (AF006594) HupD [Anabaena PCC7120]
Length = 199
Score = 213 bits (536), Expect = 2e-54
Identities = 90/178 (50%), Positives = 134/178 (74%)
Query: 199 VEIDAFIGPGHVSVIIGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEV 258
+++D FIGPGHVS++IGT+PY + A+++ KP+V++GFEPL++ ++++++L+Q+ + R EV
Sbjct: 3 LQLDGFIGPGHVSMVIGTEPYEFIAQQYHKPIVVSGFEPLDIFQSIWMLLQQLVENRCEV 62
Query: 259 KNNYTRFVTYKGNLKAQNLVAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFEV 318
+N Y R V GN A + ++F +R++F WRGL IP S LKIR+EY +FDAE F +
Sbjct: 63 ENQYNRLVQKGGNQIALAAMHKVFAVREKFAWRGLDEIPDSGLKIREEYAQFDAELKFTI 122
Query: 319 ELPEPKEHPACICGKVIRGVARPTDCKLFGTVCTPSNPLGSCMVSSEGACAAYYKYRR 376
+ +H AC CG++++GV +P CK+FGT CTP P+G+CMVSSEGACAAYYKY R
Sbjct: 123 PNLKVADHKACKCGEILKGVPQPWQCKVFGTACTPETPIGTCMVSSEGACAAYYKYGR 180
gb|AAF20001.1|AF214145_8 (AF214145) hydrogenase maturating protein HypD [Rhodobacter
sphaeroides]
Length = 123
Score = 97.9 bits (240), Expect = 1e-19
Identities = 44/92 (47%), Positives = 65/92 (69%), Gaps = 1/92 (1%)
Query: 34 RTVNIMEFCGGHTHAIMKYGIDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVI 93
R ++IME CGGHTHAI +YG+D+L+ + FIHGPGCPVCV+P+ + +I + +I
Sbjct: 33 RPLHIMEICGGHTHAIFRYGLDRLVHEGIEFIHGPGCPVCVLPIPPLHQSIPIPHPPHLI 92
Query: 94 MCSYGDLLRVPGSKRKSLLNVRAEGADVRMVY 125
+ ++ + +PG+ R SLL +A GAD+RMVY
Sbjct: 93 LTTFPHPIPLPGA-RGSLLQAKARGADIRMVY 123
gi|4155399 (AE001512) putative [Helicobacter pylori J99]
Length = 136
Score = 50.8 bits (119), Expect = 2e-05
Identities = 19/28 (67%), Positives = 23/28 (81%)
Query: 339 ARPTDCKLFGTVCTPSNPLGSCMVSSEG 366
++P DC LF T CTP NP+GSCMVSS+G
Sbjct: 17 SKPLDCSLFATTCTPQNPIGSCMVSSQG 44
Score = 50.8 bits (119), Expect = 2e-05
Identities = 19/28 (67%), Positives = 23/28 (81%)
Query: 339 ARPTDCKLFGTVCTPSNPLGSCMVSSEG 366
++P DC LF T CTP NP+GSCMVSS+G
Sbjct: 62 SKPLDCSLFATTCTPQNPIGSCMVSSQG 89
emb|CAB04977.1| (Z82084) predicted using Genefinder [Caenorhabditis elegans]
Length = 780
Score = 38.3 bits (87), Expect = 0.11
Identities = 35/129 (27%), Positives = 57/129 (44%), Gaps = 17/129 (13%)
Query: 70 CPVCVMPMQRIDLAIELAKR----KDVIMCSYGDLLRVPGSKRKSLLNVRAEGADVRMVY 125
C +C + +Q DL++ K +D ++ Y RV G + + + +G + VY
Sbjct: 443 CEICEVEVQECDLSLRQTKWCSHIEDQVLLMYN---RVNGRLEQYVFSFETKG--FKEVY 497
Query: 126 -SCLDTLKIAKENPDKKVIFFAIGFETTTPQTAVLIKKAKEEGIKNLFVVSNHVITPAAI 184
SC++ K P++ V+ T V+IK+A +K V NHV PA
Sbjct: 498 CSCIEVTYRGKNGPEEPVLL-------TNGSEHVVIKEADPGVVKLQLVGENHVEIPAVP 550
Query: 185 QHILNAPEI 193
L+A EI
Sbjct: 551 VQQLSAEEI 559
gb|AAD35870.1|AE001747_13 (AE001747) thiamine biosynthesis protein, putative [Thermotoga
maritima]
Length = 424
Score = 34.4 bits (77), Expect = 1.6
Identities = 36/159 (22%), Positives = 69/159 (42%), Gaps = 17/159 (10%)
Query: 159 LIKKAKEEGIKNLFVVSNHV------ITPAAIQHILNAPEIREIGKVEIDAFIGPGHVSV 212
L+++A+E+G++ + HV + ++ I I +G + D +G H++
Sbjct: 251 LVERAREKGVQVMLEGPGHVPLNEVEMNVRLMKKIGKGAPIFLLGPLPTDRAMGYDHIAC 310
Query: 213 IIGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVY--LILKQIYKGRAEVKNNYTRFVTYKG 270
IG Y+ +F V + L ++ V +I +I A+V +G
Sbjct: 311 AIGGALAGYYGADFLCYVTPSEHISLPDVEDVREGVIASKIAAIVADVA---------RG 361
Query: 271 NLKAQNLVAELFELRKEFEWRGLGTIPYSALKIRKEYEE 309
N KA L ++ RK F+W + ++ +K+YEE
Sbjct: 362 NKKAWELEKKMALARKNFDWETMFSLSLGKDVAKKKYEE 400
pir||A39599 55K erythrocyte membrane protein - human
Length = 466
Score = 32.8 bits (73), Expect = 4.8
Identities = 31/123 (25%), Positives = 54/123 (43%), Gaps = 23/123 (18%)
Query: 86 LAKRKDVI----MCSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKK 141
LAK + + SY +++R+P KRK+L+ + A G + + L +NP+K
Sbjct: 256 LAKHSSIFDQLDVVSYEEVVRLPAFKRKTLVLIGASGVGPSHIKNAL-----LSQNPEKF 310
Query: 142 VIFFAIGFETTTPQTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEI 201
V F P T +K++E+G H I+ + ++A E E G +
Sbjct: 311 VYPF--------PYTTRPPRKSEEDG------KEYHFISTEEMTRNISANEFLEFGSYQG 356
Query: 202 DAF 204
+ F
Sbjct: 357 NMF 359
ref|NP_002427.1|| palmitoylated membrane protein 1 >gi|1346575|sp|Q00013|EM55_HUMAN
55 KD ERYTHROCYTE MEMBRANE PROTEIN (P55) >gi|189786
(M64925) erythrocyte p55 [Homo sapiens]
Length = 466
Score = 32.8 bits (73), Expect = 4.8
Identities = 30/123 (24%), Positives = 56/123 (45%), Gaps = 23/123 (18%)
Query: 86 LAKRKDVI----MCSYGDLLRVPGSKRKSLLNVRAEGADVRMVYSCLDTLKIAKENPDKK 141
LAK + + SY +++R+P KRK+L+ + A G + + L +NP+K
Sbjct: 256 LAKHSSIFDQLDVVSYEEVVRLPAFKRKTLVLIGASGVGRSHIKNAL-----LSQNPEKF 310
Query: 142 VIFFAIGFETTTPQTAVLIKKAKEEGIKNLFVVSNHVITPAAIQHILNAPEIREIGKVEI 201
V + + + T P +K++E+G H I+ + ++A E E G +
Sbjct: 311 V--YPVPYTTRPP------RKSEEDG------KEYHFISTEEMTRNISANEFLEFGSYQG 356
Query: 202 DAF 204
+ F
Sbjct: 357 NMF 359
sp|Q58432|THIC_METJA PROBABLE THIAMINE BIOSYNTHESIS PROTEIN THIC >gi|2129301|pir||A64428
thiamine biosynthesis protein - Methanococcus jannaschii
>gi|1591682 (U67545) thiamine biosynthesis protein
(thiC) [Methanococcus jannaschii]
Length = 438
Score = 32.5 bits (72), Expect = 6.3
Identities = 43/183 (23%), Positives = 72/183 (38%), Gaps = 29/183 (15%)
Query: 159 LIKKAKEEGIKNLF-----VVSNHVITPAAIQHIL--NAPEIREIGKVEIDAFIGPGHVS 211
L+++ +E+G++ + + N++ T +Q L NAP +G + D G H++
Sbjct: 262 LVERCREKGVQCMVEGPGHIPINYIETNIRLQKSLCKNAP-FYVLGPIVTDIAPGYDHIT 320
Query: 212 VIIGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVY--LILKQIYKGRAEVKNNYTRFVTYK 269
IG Y+ +F V + L ++ V +I +I A+V K
Sbjct: 321 AAIGGALAGYYGADFLCYVTPSEHLRLPTIEDVKEGVIATKIAAQAADVA---------K 371
Query: 270 GNLKAQNLVAELFELRKEFEWRGLGTIPYSALKIRKEYEEFDAEKVFEVELPEPKEHPAC 329
GN A E+ RK +W + K RK E E+P +E
Sbjct: 372 GNKLAWEKETEMAYARKNHDWEKQFELAIDKEKARKMRE----------EIPSKEEKACS 421
Query: 330 ICG 332
ICG
Sbjct: 422 ICG 424
gi|2935225 (AF030154) hexon protein [bovine adenovirus type 3]
Length = 902
Score = 32.1 bits (71), Expect = 8.2
Identities = 25/97 (25%), Positives = 45/97 (45%), Gaps = 3/97 (3%)
Query: 204 FIGPGHVSVIIGTKPYHYFAEEFQKPVVIAGFEPLNVLKAVYLILKQIYKGRAEVKNNY- 262
++ PG V T+ Y +F+ P V A + ++ L L+ + R + + +Y
Sbjct: 14 YLSPGLVQFAQATESYFNIGNKFRNPTV-APTHDVTTERSQRLQLRFVPVDREDTQYSYK 72
Query: 263 TRFVTYKGNLKAQNLVAELFELRKEFEWRGLGTIPYS 299
TRF G+ + ++ + F++R E RG PYS
Sbjct: 73 TRFQLAVGDNRVLDMASTYFDIRGTLE-RGASFKPYS 108
sp|P72749|TYPA_SYNY3 GTP-BINDING PROTEIN TYPA/BIPA HOMOLOG >gi|1651837|dbj|BAA16764|
(D90900) elongation factor EF-G [Synechocystis sp.]
Length = 597
Score = 32.1 bits (71), Expect = 8.2
Identities = 38/139 (27%), Positives = 59/139 (42%), Gaps = 34/139 (24%)
Query: 54 IDQLLKGVVRFIHGPGCPVCVMPMQRIDLAIELAKRKDVIMCSYGDLLRVPGSKRKSLLN 113
+D LLK F G PVCVM +L + + + + S +R + +L+N
Sbjct: 22 VDALLKQSGIFREGEDVPVCVMDSN------DLERERGITILSKNTAVRY----QDTLIN 71
Query: 114 V-----RAE-GADVRMVYSCLDTLKI---AKENPDKKVIFFAIGFETTTPQTAVLIKKAK 164
+ A+ G +V V +D + A E P PQT ++KKA
Sbjct: 72 IVDTPGHADFGGEVERVLGMVDGCVLIVDANEGP--------------MPQTRFVLKKAL 117
Query: 165 EEGIKNLFVVSNHVITPAA 183
E+G++ L VV N + P A
Sbjct: 118 EKGLRPLVVV-NKIDRPRA 135
Database: Non-redundant GenBank CDS
translations+PDB+SwissProt+SPupdate+PIR
Posted date: Jan 12, 2000 2:26 PM
Number of letters in database: 136,724,657
Number of sequences in database: 444,417
Lambda K H
0.323 0.141 0.417
Gapped
Lambda K H
0.270 0.0470 0.230
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 99675738
Number of Sequences: 444417
Number of extensions: 4141839
Number of successful extensions: 8872
Number of sequences better than 10.0: 28
Number of HSP's better than 10.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 8803
Number of HSP's gapped (non-prelim): 29
length of query: 380
length of database: 136,724,657
effective HSP length: 53
effective length of query: 327
effective length of database: 113,170,556
effective search space: 37006771812
effective search space used: 37006771812
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.9 bits)
S2: 71 (32.1 bits)
