Citrus Sinensis ID: 037421

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140
Protein Sequence
MAVLTKNTATRLPLLLSQRAACLHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTTSPGGISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPALR
Secondary Structure (PSIPRED)
ccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccEEEEcHHHHHHHHHcccccccccccHHHHHHHHHHccccccccccccccccccccccEEEEccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHccHHHccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccEEEEEEHHHHHHHHHcccccHHHHHHHHHHHHHHHHHcccccHHccEEEEccccccccEEEEHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
mavltkntatrlPLLLSQRAAclhttvpslssasgsssssssqptsyarppppsttspggiskTAEFVISKLDDVVNYIrrgsiwpmsfGLACCAVEMMHtgaarydldrfgiifrpsprqsdVMVVAGTLtnkmapalr
Flexible Loop (DISEMBL)
mavltkntatrlpLLLSQRAACLHTTvpslssasgsssssssqptsyarppppsttspggiSKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFrpsprqsdvmvvagtltnkmapalr
Low Complexity Region (SEG)
MAVLTKNTATRLPLLLSQRAACLHTTVPslssasgsssssssQptsyarppppsttspGGISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPALR
Disordered region (IsUnstruct)
***********LPLLLSQRAACLH***************************************TAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRP******VMVVA************
Disordered Region (DISOPRED)
******************************************************************FVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPALR
Disordered Region (DISEMBL)
MAVLTKNTATRLPLLLSQRAACLHTT********************************GGISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPALR
Disordered Region (DISPRO)
****TKNTATRLPLLLSQRAACLHTT***********************************SKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPAL*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAVLTKNTATRLPLLLSQRAACLHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTTSPGGISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPALR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	140	2.2.26 [Sep-21-2011]
P42027	215	NADH dehydrogenase [ubiqu	N/A	no	0.942	0.613	0.731	1e-52
Q42577	218	NADH dehydrogenase [ubiqu	yes	no	0.942	0.605	0.702	3e-46
Q43844	213	NADH dehydrogenase [ubiqu	N/A	no	0.835	0.549	0.715	4e-46
O21272	182	NADH-ubiquinone oxidoredu	N/A	no	0.535	0.412	0.813	5e-35
Q0MQI0	213	NADH dehydrogenase [ubiqu	yes	no	0.785	0.516	0.565	1e-33
P42026	216	NADH dehydrogenase [ubiqu	yes	no	0.878	0.569	0.553	1e-33
P0CB83	213	NADH dehydrogenase [ubiqu	yes	no	0.785	0.516	0.557	1e-33
O75251	213	NADH dehydrogenase [ubiqu	yes	no	0.785	0.516	0.565	1e-33
P0CB84	213	NADH dehydrogenase [ubiqu	N/A	no	0.785	0.516	0.565	2e-33
Q0MQH9	213	NADH dehydrogenase [ubiqu	N/A	no	0.785	0.516	0.565	2e-33

>sp|P42027|NDUS7_BRAOL NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial OS=Brassica oleracea PE=2 SV=1

 Score =  204 bits (520), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 106/145 (73%), Positives = 123/145 (84%), Gaps = 13/145 (8%)

Query: 1   MAVLTKNTATRLPLLL-SQRAAC---LHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTT 56
           MA++T+NTATRLPL+L S RAA    LHT++P+LS A+         PTSY RP PPST+
Sbjct: 1   MAMITRNTATRLPLVLQSHRAAAVSHLHTSLPALSPAT--------TPTSYTRPGPPSTS 52

Query: 57  SPG-GISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIF 115
           +P  G+SKTAEFVISK+DD++N+ RRGSIWPM+FGLACCAVEMMHTGAARYDLDRFGIIF
Sbjct: 53  APPPGLSKTAEFVISKVDDLMNWARRGSIWPMTFGLACCAVEMMHTGAARYDLDRFGIIF 112

Query: 116 RPSPRQSDVMVVAGTLTNKMAPALR 140
           RPSPRQSD M+VAGTLTNKMAPALR
Sbjct: 113 RPSPRQSDCMIVAGTLTNKMAPALR 137

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.
Brassica oleracea (taxid: 3712)
EC: 1EC: .EC: 6EC: .EC: 9EC: 9EC: .EC: 3

>sp|Q42577|NDUS7_ARATH NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial OS=Arabidopsis thaliana GN=At5g11770 PE=1 SV=1

 Score =  183 bits (464), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 104/148 (70%), Positives = 119/148 (80%), Gaps = 16/148 (10%)

Query: 1   MAVLTKNTATRLPLLL-SQRAAC------LHTTVPSLSSASGSSSSSSSQPTSYARPPPP 53
           MA++T+NTATRLPLLL SQRA        LHT++P+LS         S+ PTSY RP PP
Sbjct: 1   MAMITRNTATRLPLLLQSQRAVAAASVSHLHTSLPALSP--------STSPTSYTRPGPP 52

Query: 54  STTSPGG-ISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFG 112
           ST+ P   +SK AEFVISK+DD++N+ R GSIWPM+FGLACCAVEMMHTGAARYDLDRFG
Sbjct: 53  STSPPPPGLSKAAEFVISKVDDLMNWARTGSIWPMTFGLACCAVEMMHTGAARYDLDRFG 112

Query: 113 IIFRPSPRQSDVMVVAGTLTNKMAPALR 140
           IIFRPSPRQSD M+VAGTLTNKMAPALR
Sbjct: 113 IIFRPSPRQSDCMIVAGTLTNKMAPALR 140

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Arabidopsis thaliana (taxid: 3702)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

>sp|Q43844|NDUS7_SOLTU NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial OS=Solanum tuberosum PE=2 SV=1

 Score =  182 bits (463), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 88/123 (71%), Positives = 100/123 (81%), Gaps = 6/123 (4%)

Query: 18  QRAACLHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTTSPGGISKTAEFVISKLDDVVN 77
           QRAA +HTT+PSLS    SS ++S          PPS  +P GISK AE+VISK+DD++N
Sbjct: 19  QRAATIHTTLPSLSQQPASSPATSGGAQ------PPSMNTPAGISKPAEYVISKVDDLMN 72

Query: 78  YIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAP 137
           + RRGSIWPM+FGLACCAVEMMH GAARYD DRFGIIFRPSPRQSDVM+VAGTLTNKMAP
Sbjct: 73  WARRGSIWPMTFGLACCAVEMMHAGAARYDFDRFGIIFRPSPRQSDVMIVAGTLTNKMAP 132

Query: 138 ALR 140
           ALR
Sbjct: 133 ALR 135

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Solanum tuberosum (taxid: 4113)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

>sp|O21272|NDUS7_RECAM NADH-ubiquinone oxidoreductase 20 kDa subunit OS=Reclinomonas americana GN=NAD10 PE=3 SV=1

 Score =  145 bits (367), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 61/75 (81%), Positives = 73/75 (97%)

Query: 66  EFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVM 125
           EF++SK+D++VN+ R+GS+WPM+FGLACCAVEMMH+ A+RYDLDRFGIIFRPSPRQSDVM
Sbjct: 30  EFIVSKMDELVNWARKGSLWPMTFGLACCAVEMMHSAASRYDLDRFGIIFRPSPRQSDVM 89

Query: 126 VVAGTLTNKMAPALR 140
           +VAGTLTNKMAPALR
Sbjct: 90  IVAGTLTNKMAPALR 104

Reclinomonas americana (taxid: 48483)

EC: 1

EC: .

EC: 6

EC: .

EC: 5

EC: .

EC: 3

>sp|Q0MQI0|NDUS7_PANTR NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial OS=Pan troglodytes GN=NDUFS7 PE=2 SV=1

 Score =  141 bits (355), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 69/122 (56%), Positives = 88/122 (72%), Gaps = 12/122 (9%)

Query: 19  RAACLHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTTSPGGISKTAEFVISKLDDVVNY 78
           +A  +H +V    +  G SS+  + P + A  P PS+          E+V++KLDD+VN+
Sbjct: 26  QARSVHQSV----ATDGPSSTQPALPKARAVAPKPSSR--------GEYVVAKLDDLVNW 73

Query: 79  IRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPA 138
            RR S+WPM+FGLACCAVEMMH  A RYD+DRFG++FR SPRQSDVM+VAGTLTNKMAPA
Sbjct: 74  ARRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGVVFRASPRQSDVMIVAGTLTNKMAPA 133

Query: 139 LR 140
           LR
Sbjct: 134 LR 135

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Pan troglodytes (taxid: 9598)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

>sp|P42026|NDUS7_BOVIN NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial OS=Bos taurus GN=NDUFS7 PE=1 SV=1

 Score =  141 bits (355), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 73/132 (55%), Positives = 92/132 (69%), Gaps = 9/132 (6%)

Query: 13  PLLLSQRAACLHTTVPSLSSASGSSSSSSSQP-TSYAR---PPPPSTTSPGGISKTAEFV 68
           P+L  +        V  + S+  + S SS+QP  S AR   P P +  S  G     E+V
Sbjct: 12  PILAVRSGVGAALQVRGVHSSMAADSPSSTQPAVSQARAVVPKPAALPSSRG-----EYV 66

Query: 69  ISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVA 128
           ++KLDD++N+ RR S+WPM+FGLACCAVEMMH  A RYD+DRFG++FR SPRQSDVM+VA
Sbjct: 67  VAKLDDLINWARRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGVVFRASPRQSDVMIVA 126

Query: 129 GTLTNKMAPALR 140
           GTLTNKMAPALR
Sbjct: 127 GTLTNKMAPALR 138

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Bos taurus (taxid: 9913)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

>sp|P0CB83|NDUS7_PONAB NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial OS=Pongo abelii GN=NDUFS7 PE=2 SV=1

 Score =  141 bits (355), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 68/122 (55%), Positives = 88/122 (72%), Gaps = 12/122 (9%)

Query: 19  RAACLHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTTSPGGISKTAEFVISKLDDVVNY 78
           +A  +H +V    +  G SS+  + P + A  P PS+          E+V++KLDD++N+
Sbjct: 26  QAQGVHQSV----ATDGPSSTQPALPKARAVAPKPSSR--------GEYVVAKLDDLINW 73

Query: 79  IRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPA 138
            RR S+WPM+FGLACCAVEMMH  A RYD+DRFG++FR SPRQSDVM+VAGTLTNKMAPA
Sbjct: 74  ARRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGVVFRASPRQSDVMIVAGTLTNKMAPA 133

Query: 139 LR 140
           LR
Sbjct: 134 LR 135

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Pongo abelii (taxid: 9601)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

>sp|O75251|NDUS7_HUMAN NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial OS=Homo sapiens GN=NDUFS7 PE=1 SV=3

 Score =  141 bits (355), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 69/122 (56%), Positives = 88/122 (72%), Gaps = 12/122 (9%)

Query: 19  RAACLHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTTSPGGISKTAEFVISKLDDVVNY 78
           +A  +H +V    +  G SS+  + P + A  P PS+          E+V++KLDD+VN+
Sbjct: 26  QARGVHQSV----ATDGPSSTQPALPKARAVAPKPSSR--------GEYVVAKLDDLVNW 73

Query: 79  IRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPA 138
            RR S+WPM+FGLACCAVEMMH  A RYD+DRFG++FR SPRQSDVM+VAGTLTNKMAPA
Sbjct: 74  ARRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGVVFRASPRQSDVMIVAGTLTNKMAPA 133

Query: 139 LR 140
           LR
Sbjct: 134 LR 135

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Homo sapiens (taxid: 9606)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

>sp|P0CB84|NDUS7_PONPY NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial OS=Pongo pygmaeus GN=NDUFS7 PE=2 SV=1

 Score =  141 bits (355), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 69/122 (56%), Positives = 88/122 (72%), Gaps = 12/122 (9%)

Query: 19  RAACLHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTTSPGGISKTAEFVISKLDDVVNY 78
           +A  +H +V    +  G SS+  + P + A  P PS+          E+V++KLDD+VN+
Sbjct: 26  QARGVHQSV----ATDGPSSTQPALPKARAVAPKPSSR--------GEYVVAKLDDLVNW 73

Query: 79  IRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPA 138
            RR S+WPM+FGLACCAVEMMH  A RYD+DRFG++FR SPRQSDVM+VAGTLTNKMAPA
Sbjct: 74  ARRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGVVFRASPRQSDVMIVAGTLTNKMAPA 133

Query: 139 LR 140
           LR
Sbjct: 134 LR 135

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Pongo pygmaeus (taxid: 9600)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

>sp|Q0MQH9|NDUS7_GORGO NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial OS=Gorilla gorilla gorilla GN=NDUFS7 PE=2 SV=1

 Score =  141 bits (355), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 69/122 (56%), Positives = 88/122 (72%), Gaps = 12/122 (9%)

Query: 19  RAACLHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTTSPGGISKTAEFVISKLDDVVNY 78
           +A  +H +V    +  G SS+  + P + A  P PS+          E+V++KLDD+VN+
Sbjct: 26  QARGVHQSV----ATDGPSSTQPALPKARAVAPKPSSR--------GEYVVAKLDDLVNW 73

Query: 79  IRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPA 138
            RR S+WPM+FGLACCAVEMMH  A RYD+DRFG++FR SPRQSDVM+VAGTLTNKMAPA
Sbjct: 74  ARRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGVVFRASPRQSDVMIVAGTLTNKMAPA 133

Query: 139 LR 140
           LR
Sbjct: 134 LR 135

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Gorilla gorilla gorilla (taxid: 9595)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	140
397787602	273	putative NADH-ubiquinone oxidoreductase	0.942	0.483	0.712	5e-51
397787626	248	putative NADH-ubiquinone oxidoreductase	0.942	0.532	0.732	6e-51
1171866	215	RecName: Full=NADH dehydrogenase [ubiqui	0.942	0.613	0.731	8e-51
255550832	215	NADH-plastoquinone oxidoreductase, putat	0.95	0.618	0.701	3e-50
225429464	209	PREDICTED: NADH dehydrogenase [ubiquinon	0.935	0.626	0.721	4e-50
147818797	209	hypothetical protein VITISV_021597 [Viti	0.935	0.626	0.721	5e-50
224088884	213	predicted protein [Populus trichocarpa]	0.942	0.619	0.692	6e-47
77745495	213	NADH-ubiquinone oxidoreductase subunit-l	0.835	0.549	0.723	3e-45
15239782	218	NADH dehydrogenase (ubiquinone) Fe-S pro	0.942	0.605	0.702	2e-44
2499328	213	RecName: Full=NADH dehydrogenase [ubiqui	0.835	0.549	0.715	3e-44

>gi|397787602|gb|AFO66508.1| putative NADH-ubiquinone oxidoreductase 20 kDa subunit [Brassica napus]

 Score =  205 bits (522), Expect = 5e-51,   Method: Compositional matrix adjust.
 Identities = 104/146 (71%), Positives = 121/146 (82%), Gaps = 14/146 (9%)

Query: 1   MAVLTKNTATRLPLLLSQRAAC-----LHTTVPSLSSASGSSSSSSSQPTSYARPPPPST 55
           MA++T+NTATRLPLLL   +A      LHT++P+LS A+         PTSY RP PPST
Sbjct: 1   MAMITRNTATRLPLLLQSHSAAAAVSHLHTSLPALSPAT--------TPTSYTRPGPPST 52

Query: 56  TSPG-GISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGII 114
           ++P  G+SKTAEFVISK+DD++N+ RRGSIWPM+FGLACCAVEMMHTGAARYDLDRFGII
Sbjct: 53  SAPPPGLSKTAEFVISKVDDLMNWARRGSIWPMTFGLACCAVEMMHTGAARYDLDRFGII 112

Query: 115 FRPSPRQSDVMVVAGTLTNKMAPALR 140
           FRPSPRQSD M+VAGTLTNKMAPALR
Sbjct: 113 FRPSPRQSDCMIVAGTLTNKMAPALR 138

Source: Brassica napus

Species: Brassica napus

Genus: Brassica

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|397787626|gb|AFO66531.1| putative NADH-ubiquinone oxidoreductase 20 kDa subunit [Brassica napus]

 Score =  205 bits (521), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 107/146 (73%), Positives = 123/146 (84%), Gaps = 14/146 (9%)

Query: 1   MAVLTKNTATRLPLLL-SQRAAC----LHTTVPSLSSASGSSSSSSSQPTSYARPPPPST 55
           MA++T+NTATRLPLLL S RAA     LHT++P+LS         S+ PTSY RP PPST
Sbjct: 1   MAMITRNTATRLPLLLQSHRAAAAVSHLHTSLPALSP--------STTPTSYTRPGPPST 52

Query: 56  TSPG-GISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGII 114
           ++P  G+SKTAEFVISK+DD++N+ RRGSIWPM+FGLACCAVEMMHTGAARYDLDRFGII
Sbjct: 53  SAPPPGLSKTAEFVISKVDDLMNWARRGSIWPMTFGLACCAVEMMHTGAARYDLDRFGII 112

Query: 115 FRPSPRQSDVMVVAGTLTNKMAPALR 140
           FRPSPRQSD M+VAGTLTNKMAPALR
Sbjct: 113 FRPSPRQSDCMIVAGTLTNKMAPALR 138

Source: Brassica napus

Species: Brassica napus

Genus: Brassica

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|1171866|sp|P42027.1|NDUS7_BRAOL RecName: Full=NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial; Flags: Precursor gi|562282|emb|CAA57725.1| PSST subunit of NADH: ubiquinone oxidoreductase [Brassica oleracea]

 Score =  204 bits (520), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 106/145 (73%), Positives = 123/145 (84%), Gaps = 13/145 (8%)

Query: 1   MAVLTKNTATRLPLLL-SQRAAC---LHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTT 56
           MA++T+NTATRLPL+L S RAA    LHT++P+LS A+         PTSY RP PPST+
Sbjct: 1   MAMITRNTATRLPLVLQSHRAAAVSHLHTSLPALSPAT--------TPTSYTRPGPPSTS 52

Query: 57  SPG-GISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIF 115
           +P  G+SKTAEFVISK+DD++N+ RRGSIWPM+FGLACCAVEMMHTGAARYDLDRFGIIF
Sbjct: 53  APPPGLSKTAEFVISKVDDLMNWARRGSIWPMTFGLACCAVEMMHTGAARYDLDRFGIIF 112

Query: 116 RPSPRQSDVMVVAGTLTNKMAPALR 140
           RPSPRQSD M+VAGTLTNKMAPALR
Sbjct: 113 RPSPRQSDCMIVAGTLTNKMAPALR 137

Source: Brassica oleracea

Species: Brassica oleracea

Genus: Brassica

Family: Brassicaceae

Order: Brassicales

Class: N/A

Phylum: Streptophyta

>gi|255550832|ref|XP_002516464.1| NADH-plastoquinone oxidoreductase, putative [Ricinus communis] gi|223544284|gb|EEF45805.1| NADH-plastoquinone oxidoreductase, putative [Ricinus communis]

 Score =  202 bits (515), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 101/144 (70%), Positives = 118/144 (81%), Gaps = 11/144 (7%)

Query: 1   MAVLTKNTATRLPLLLSQR----AACLHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTT 56
           MA++ +NTA+RLP LLS      A  LHTT+PSLS+        ++ PT Y R PPPST+
Sbjct: 1   MAMIARNTASRLPTLLSSHRGTGAFSLHTTLPSLSA-------EATPPTPYGRAPPPSTS 53

Query: 57  SPGGISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFR 116
            P G+SKTAE+VISK+DD++N+ RRGSIWPM+FGLACCAVEMMHTGAARYDLDRFGIIFR
Sbjct: 54  FPTGLSKTAEYVISKVDDLMNWARRGSIWPMTFGLACCAVEMMHTGAARYDLDRFGIIFR 113

Query: 117 PSPRQSDVMVVAGTLTNKMAPALR 140
           PSPRQSD M+VAGTLTNKMAPALR
Sbjct: 114 PSPRQSDCMIVAGTLTNKMAPALR 137

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225429464|ref|XP_002277483.1| PREDICTED: NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial [Vitis vinifera]

 Score =  202 bits (514), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 101/140 (72%), Positives = 115/140 (82%), Gaps = 9/140 (6%)

Query: 1   MAVLTKNTATRLPLLLSQRAACLHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTTSPGG 60
           MA+LT+ +  RL L   QR A LHTT+PSLSS S +       P  Y+R PPPS+TSP G
Sbjct: 1   MALLTRTS--RLALTAPQRIAALHTTLPSLSSESAA-------PAPYSRAPPPSSTSPAG 51

Query: 61  ISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPR 120
           +SK AEFVISK+DD++N+ RRGSIWPM+FGLACCAVEMMHTGAARYDLDRFGIIFRPSPR
Sbjct: 52  LSKAAEFVISKVDDLLNWARRGSIWPMTFGLACCAVEMMHTGAARYDLDRFGIIFRPSPR 111

Query: 121 QSDVMVVAGTLTNKMAPALR 140
           QSD M+VAGTLTNKMAPALR
Sbjct: 112 QSDCMIVAGTLTNKMAPALR 131

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class: N/A

Phylum: Streptophyta

>gi|147818797|emb|CAN67285.1| hypothetical protein VITISV_021597 [Vitis vinifera]

 Score =  202 bits (513), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 101/140 (72%), Positives = 115/140 (82%), Gaps = 9/140 (6%)

Query: 1   MAVLTKNTATRLPLLLSQRAACLHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTTSPGG 60
           MA+LT+ +  RL L   QR A LHTT+PSLSS S +       P  Y+R PPPS+TSP G
Sbjct: 1   MALLTRTS--RLALTSPQRIAALHTTLPSLSSESAA-------PAPYSRAPPPSSTSPAG 51

Query: 61  ISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPR 120
           +SK AEFVISK+DD++N+ RRGSIWPM+FGLACCAVEMMHTGAARYDLDRFGIIFRPSPR
Sbjct: 52  LSKAAEFVISKVDDLLNWARRGSIWPMTFGLACCAVEMMHTGAARYDLDRFGIIFRPSPR 111

Query: 121 QSDVMVVAGTLTNKMAPALR 140
           QSD M+VAGTLTNKMAPALR
Sbjct: 112 QSDCMIVAGTLTNKMAPALR 131

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224088884|ref|XP_002308574.1| predicted protein [Populus trichocarpa] gi|118481270|gb|ABK92582.1| unknown [Populus trichocarpa] gi|222854550|gb|EEE92097.1| predicted protein [Populus trichocarpa]

 Score =  191 bits (486), Expect = 6e-47,   Method: Compositional matrix adjust.
 Identities = 99/143 (69%), Positives = 112/143 (78%), Gaps = 11/143 (7%)

Query: 1   MAVLTKNTATRLPLLLSQR---AACLHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTTS 57
           MA++T+NTATRLP LLS      A LHTT+PSLS            P  Y R PPPS++S
Sbjct: 1   MAMITRNTATRLPHLLSIHRPATASLHTTLPSLSP--------EPTPAPYTRAPPPSSSS 52

Query: 58  PGGISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRP 117
             G+SK AEFVISK+D ++N+ R GSIWPM+FGLACCAVEMMHTGAARYDLDRFGIIFRP
Sbjct: 53  LTGLSKPAEFVISKVDSLMNWARTGSIWPMTFGLACCAVEMMHTGAARYDLDRFGIIFRP 112

Query: 118 SPRQSDVMVVAGTLTNKMAPALR 140
           SPRQSD M+VAGTLTNKMAPALR
Sbjct: 113 SPRQSDCMIVAGTLTNKMAPALR 135

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|77745495|gb|ABB02646.1| NADH-ubiquinone oxidoreductase subunit-like [Solanum tuberosum]

 Score =  186 bits (472), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 89/123 (72%), Positives = 100/123 (81%), Gaps = 6/123 (4%)

Query: 18  QRAACLHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTTSPGGISKTAEFVISKLDDVVN 77
           QRAA +HTT+PSLS    SS      P +Y    PPS  +P GISK AE+VISK+DD++N
Sbjct: 19  QRAATIHTTLPSLSQQPASS------PATYGGAQPPSMNTPAGISKPAEYVISKVDDLMN 72

Query: 78  YIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAP 137
           + RRGSIWPM+FGLACCAVEMMH GAARYD DRFGIIFRPSPRQSDVM+VAGTLTNKMAP
Sbjct: 73  WARRGSIWPMTFGLACCAVEMMHAGAARYDFDRFGIIFRPSPRQSDVMIVAGTLTNKMAP 132

Query: 138 ALR 140
           ALR
Sbjct: 133 ALR 135

Source: Solanum tuberosum

Species: Solanum tuberosum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15239782|ref|NP_196738.1| NADH dehydrogenase (ubiquinone) Fe-S protein 7 [Arabidopsis thaliana] gi|2499327|sp|Q42577.1|NDUS7_ARATH RecName: Full=NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial; Flags: Precursor gi|16226316|gb|AAL16132.1|AF428300_1 AT5g11770/T22P22_160 [Arabidopsis thaliana] gi|643090|emb|CAA58887.1| NADH dehydrogenase [Arabidopsis thaliana] gi|7573391|emb|CAB87695.1| NADH dehydrogenase (ubiquinone) [Arabidopsis thaliana] gi|15810287|gb|AAL07031.1| putative NADH dehydrogenase (ubiquinone) [Arabidopsis thaliana] gi|20466764|gb|AAM20699.1| NADH dehydrogenase / ubiquinone [Arabidopsis thaliana] gi|21537333|gb|AAM61674.1| NADH dehydrogenase ubiquinone [Arabidopsis thaliana] gi|22136468|gb|AAM91312.1| NADH dehydrogenase / ubiquinone [Arabidopsis thaliana] gi|332004336|gb|AED91719.1| NADH dehydrogenase (ubiquinone) Fe-S protein 7 [Arabidopsis thaliana]

 Score =  183 bits (464), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 104/148 (70%), Positives = 119/148 (80%), Gaps = 16/148 (10%)

Query: 1   MAVLTKNTATRLPLLL-SQRAAC------LHTTVPSLSSASGSSSSSSSQPTSYARPPPP 53
           MA++T+NTATRLPLLL SQRA        LHT++P+LS         S+ PTSY RP PP
Sbjct: 1   MAMITRNTATRLPLLLQSQRAVAAASVSHLHTSLPALSP--------STSPTSYTRPGPP 52

Query: 54  STTSPGG-ISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFG 112
           ST+ P   +SK AEFVISK+DD++N+ R GSIWPM+FGLACCAVEMMHTGAARYDLDRFG
Sbjct: 53  STSPPPPGLSKAAEFVISKVDDLMNWARTGSIWPMTFGLACCAVEMMHTGAARYDLDRFG 112

Query: 113 IIFRPSPRQSDVMVVAGTLTNKMAPALR 140
           IIFRPSPRQSD M+VAGTLTNKMAPALR
Sbjct: 113 IIFRPSPRQSDCMIVAGTLTNKMAPALR 140

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|2499328|sp|Q43844.1|NDUS7_SOLTU RecName: Full=NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial; AltName: Full=Complex I-20kD; Short=CI-20kD; AltName: Full=NADH-ubiquinone oxidoreductase 20 kDa subunit; Flags: Precursor gi|1235607|emb|CAA65451.1| NADH-ubiquinone oxidoreductase [Solanum tuberosum]

 Score =  182 bits (463), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 88/123 (71%), Positives = 100/123 (81%), Gaps = 6/123 (4%)

Query: 18  QRAACLHTTVPSLSSASGSSSSSSSQPTSYARPPPPSTTSPGGISKTAEFVISKLDDVVN 77
           QRAA +HTT+PSLS    SS ++S          PPS  +P GISK AE+VISK+DD++N
Sbjct: 19  QRAATIHTTLPSLSQQPASSPATSGGAQ------PPSMNTPAGISKPAEYVISKVDDLMN 72

Query: 78  YIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAP 137
           + RRGSIWPM+FGLACCAVEMMH GAARYD DRFGIIFRPSPRQSDVM+VAGTLTNKMAP
Sbjct: 73  WARRGSIWPMTFGLACCAVEMMHAGAARYDFDRFGIIFRPSPRQSDVMIVAGTLTNKMAP 132

Query: 138 ALR 140
           ALR
Sbjct: 133 ALR 135

Source: Solanum tuberosum

Species: Solanum tuberosum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Class: N/A

Phylum: Streptophyta

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	140
TAIR|locus:2181885	218	AT5G11770 [Arabidopsis thalian	1.0	0.642	0.607	1.4e-39
ZFIN|ZDB-GENE-041111-261	218	ndufs7 "NADH dehydrogenase (ub	0.571	0.366	0.737	3e-30
UNIPROTKB|B3KRI2	206	NDUFS7 "NADH dehydrogenase [ub	0.564	0.383	0.746	3.8e-30
UNIPROTKB|F5GXJ1	236	NDUFS7 "NADH dehydrogenase [ub	0.564	0.334	0.746	3.8e-30
UNIPROTKB|F5H5N1	182	NDUFS7 "NADH dehydrogenase [ub	0.564	0.434	0.746	3.8e-30
UNIPROTKB|O75251	213	NDUFS7 "NADH dehydrogenase [ub	0.564	0.370	0.746	3.8e-30
UNIPROTKB|I3LHL4	218	NDUFS7 "Uncharacterized protei	0.564	0.362	0.746	3.8e-30
UNIPROTKB|I3LK43	216	NDUFS7 "Uncharacterized protei	0.564	0.365	0.746	3.8e-30
UNIPROTKB|P0CB84	213	NDUFS7 "NADH dehydrogenase [ub	0.564	0.370	0.746	3.8e-30
UNIPROTKB|Q0MQH9	213	NDUFS7 "NADH dehydrogenase [ub	0.564	0.370	0.746	3.8e-30

TAIR|locus:2181885 AT5G11770 [Arabidopsis thaliana (taxid:3702)]

 Score = 422 (153.6 bits), Expect = 1.4e-39, P = 1.4e-39
 Identities = 85/140 (60%), Positives = 97/140 (69%)

Query:     1 MAVLTKNTATRLPLLLSQRAACLHTTVPXXXXXXXXXXXXXXQXXXXXXXXXXXXXXXGG 60
             MA++T+NTATRLPLLL  + A    +V                                G
Sbjct:     1 MAMITRNTATRLPLLLQSQRAVAAASVSHLHTSLPALSPSTSPTSYTRPGPPSTSPPPPG 60

Query:    61 ISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPR 120
             +SK AEFVISK+DD++N+ R GSIWPM+FGLACCAVEMMHTGAARYDLDRFGIIFRPSPR
Sbjct:    61 LSKAAEFVISKVDDLMNWARTGSIWPMTFGLACCAVEMMHTGAARYDLDRFGIIFRPSPR 120

Query:   121 QSDVMVVAGTLTNKMAPALR 140
             QSD M+VAGTLTNKMAPALR
Sbjct:   121 QSDCMIVAGTLTNKMAPALR 140

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006120 "mitochondrial electron transport, NADH to ubiquinone" evidence=ISS

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=IEA;ISS

GO:0016651 "oxidoreductase activity, acting on NAD(P)H" evidence=IEA

GO:0048038 "quinone binding" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0055114 "oxidation-reduction process" evidence=IEA

GO:0005747 "mitochondrial respiratory chain complex I" evidence=IDA

GO:0008270 "zinc ion binding" evidence=IDA

GO:0006486 "protein glycosylation" evidence=RCA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=RCA

GO:0009853 "photorespiration" evidence=RCA

GO:0051788 "response to misfolded protein" evidence=RCA

GO:0080129 "proteasome core complex assembly" evidence=RCA

ZFIN|ZDB-GENE-041111-261 ndufs7 "NADH dehydrogenase (ubiquinone) Fe-S protein 7, (NADH-coenzyme Q reductase)" [Danio rerio (taxid:7955)]

 Score = 334 (122.6 bits), Expect = 3.0e-30, P = 3.0e-30
 Identities = 59/80 (73%), Positives = 71/80 (88%)

Query:    61 ISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPR 120
             +S   E+VI+KLDD+VN+ RR S+WPM+FGLACCAVEMMH  A RYD+DRFG++FR SPR
Sbjct:    61 VSSKGEYVITKLDDLVNWARRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGVVFRASPR 120

Query:   121 QSDVMVVAGTLTNKMAPALR 140
             Q+DVM+VAGTLTNKMAPALR
Sbjct:   121 QADVMIVAGTLTNKMAPALR 140

GO:0016651 "oxidoreductase activity, acting on NAD(P)H" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0055114 "oxidation-reduction process" evidence=IEA

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=IEA

GO:0048038 "quinone binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0046872 "metal ion binding" evidence=IEA

GO:0051536 "iron-sulfur cluster binding" evidence=IEA

GO:0016491 "oxidoreductase activity" evidence=IEA

UNIPROTKB|B3KRI2 NDUFS7 "NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 333 (122.3 bits), Expect = 3.8e-30, P = 3.8e-30
 Identities = 59/79 (74%), Positives = 70/79 (88%)

Query:    62 SKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQ 121
             S   E+V++KLDD+VN+ RR S+WPM+FGLACCAVEMMH  A RYD+DRFG++FR SPRQ
Sbjct:    57 SSRGEYVVAKLDDLVNWARRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGVVFRASPRQ 116

Query:   122 SDVMVVAGTLTNKMAPALR 140
             SDVM+VAGTLTNKMAPALR
Sbjct:   117 SDVMIVAGTLTNKMAPALR 135

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=IEA

GO:0048038 "quinone binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

UNIPROTKB|F5GXJ1 NDUFS7 "NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 333 (122.3 bits), Expect = 3.8e-30, P = 3.8e-30
 Identities = 59/79 (74%), Positives = 70/79 (88%)

Query:    62 SKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQ 121
             S   E+V++KLDD+VN+ RR S+WPM+FGLACCAVEMMH  A RYD+DRFG++FR SPRQ
Sbjct:    87 SSRGEYVVAKLDDLVNWARRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGVVFRASPRQ 146

Query:   122 SDVMVVAGTLTNKMAPALR 140
             SDVM+VAGTLTNKMAPALR
Sbjct:   147 SDVMIVAGTLTNKMAPALR 165

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=IEA

GO:0048038 "quinone binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

UNIPROTKB|F5H5N1 NDUFS7 "NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 333 (122.3 bits), Expect = 3.8e-30, P = 3.8e-30
 Identities = 59/79 (74%), Positives = 70/79 (88%)

Query:    62 SKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQ 121
             S   E+V++KLDD+VN+ RR S+WPM+FGLACCAVEMMH  A RYD+DRFG++FR SPRQ
Sbjct:    57 SSRGEYVVAKLDDLVNWARRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGVVFRASPRQ 116

Query:   122 SDVMVVAGTLTNKMAPALR 140
             SDVM+VAGTLTNKMAPALR
Sbjct:   117 SDVMIVAGTLTNKMAPALR 135

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=IEA

GO:0048038 "quinone binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

UNIPROTKB|O75251 NDUFS7 "NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 333 (122.3 bits), Expect = 3.8e-30, P = 3.8e-30
 Identities = 59/79 (74%), Positives = 70/79 (88%)

Query:    62 SKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQ 121
             S   E+V++KLDD+VN+ RR S+WPM+FGLACCAVEMMH  A RYD+DRFG++FR SPRQ
Sbjct:    57 SSRGEYVVAKLDDLVNWARRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGVVFRASPRQ 116

Query:   122 SDVMVVAGTLTNKMAPALR 140
             SDVM+VAGTLTNKMAPALR
Sbjct:   117 SDVMIVAGTLTNKMAPALR 135

GO:0048038 "quinone binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0002020 "protease binding" evidence=IEA

GO:0043005 "neuron projection" evidence=IEA

GO:0043025 "neuronal cell body" evidence=IEA

GO:0097060 "synaptic membrane" evidence=IEA

GO:0006120 "mitochondrial electron transport, NADH to ubiquinone" evidence=NAS

GO:0016655 "oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor" evidence=NAS

GO:0005747 "mitochondrial respiratory chain complex I" evidence=IDA;IMP;NAS

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=NAS

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=IMP

GO:0003954 "NADH dehydrogenase activity" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005743 "mitochondrial inner membrane" evidence=TAS

GO:0022904 "respiratory electron transport chain" evidence=TAS

GO:0044281 "small molecule metabolic process" evidence=TAS

UNIPROTKB|I3LHL4 NDUFS7 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 333 (122.3 bits), Expect = 3.8e-30, P = 3.8e-30
 Identities = 59/79 (74%), Positives = 70/79 (88%)

Query:    62 SKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQ 121
             S   E+V++KLDD+VN+ RR S+WPM+FGLACCAVEMMH  A RYD+DRFG++FR SPRQ
Sbjct:    62 SSRGEYVVAKLDDLVNWARRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGVVFRASPRQ 121

Query:   122 SDVMVVAGTLTNKMAPALR 140
             SDVM+VAGTLTNKMAPALR
Sbjct:   122 SDVMIVAGTLTNKMAPALR 140

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=IEA

GO:0005747 "mitochondrial respiratory chain complex I" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0048038 "quinone binding" evidence=IEA

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=IEA

UNIPROTKB|I3LK43 NDUFS7 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 333 (122.3 bits), Expect = 3.8e-30, P = 3.8e-30
 Identities = 59/79 (74%), Positives = 70/79 (88%)

Query:    62 SKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQ 121
             S   E+V++KLDD+VN+ RR S+WPM+FGLACCAVEMMH  A RYD+DRFG++FR SPRQ
Sbjct:    60 SSRGEYVVAKLDDLVNWARRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGVVFRASPRQ 119

Query:   122 SDVMVVAGTLTNKMAPALR 140
             SDVM+VAGTLTNKMAPALR
Sbjct:   120 SDVMIVAGTLTNKMAPALR 138

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0048038 "quinone binding" evidence=IEA

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=IEA

UNIPROTKB|P0CB84 NDUFS7 "NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial" [Pongo pygmaeus (taxid:9600)]

 Score = 333 (122.3 bits), Expect = 3.8e-30, P = 3.8e-30
 Identities = 59/79 (74%), Positives = 70/79 (88%)

Query:    62 SKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQ 121
             S   E+V++KLDD+VN+ RR S+WPM+FGLACCAVEMMH  A RYD+DRFG++FR SPRQ
Sbjct:    57 SSRGEYVVAKLDDLVNWARRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGVVFRASPRQ 116

Query:   122 SDVMVVAGTLTNKMAPALR 140
             SDVM+VAGTLTNKMAPALR
Sbjct:   117 SDVMIVAGTLTNKMAPALR 135

GO:0005747 "mitochondrial respiratory chain complex I" evidence=ISS

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=ISS

GO:0003954 "NADH dehydrogenase activity" evidence=ISS

UNIPROTKB|Q0MQH9 NDUFS7 "NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial" [Gorilla gorilla gorilla (taxid:9595)]

 Score = 333 (122.3 bits), Expect = 3.8e-30, P = 3.8e-30
 Identities = 59/79 (74%), Positives = 70/79 (88%)

Query:    62 SKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQ 121
             S   E+V++KLDD+VN+ RR S+WPM+FGLACCAVEMMH  A RYD+DRFG++FR SPRQ
Sbjct:    57 SSRGEYVVAKLDDLVNWARRSSLWPMTFGLACCAVEMMHMAAPRYDMDRFGVVFRASPRQ 116

Query:   122 SDVMVVAGTLTNKMAPALR 140
             SDVM+VAGTLTNKMAPALR
Sbjct:   117 SDVMIVAGTLTNKMAPALR 135

GO:0005747 "mitochondrial respiratory chain complex I" evidence=ISS

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=ISS

GO:0003954 "NADH dehydrogenase activity" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q1LPW2	NUOB_RALME	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4625	yes	no
A2S458	NUOB1_BURM9	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
Q9DC70	NDUS7_MOUSE	1, ., 6, ., 9, 9, ., 3	0.75	0.5428	0.3392	yes	no
B4E5M1	NUOB_BURCJ	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
Q1BV14	NUOB_BURCA	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
Q0AHJ9	NUOB_NITEC	1, ., 6, ., 9, 9, ., 5	0.7837	0.5285	0.4683	yes	no
B1JVP0	NUOB_BURCC	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
Q42577	NDUS7_ARATH	1, ., 6, ., 9, 9, ., 3	0.7027	0.9428	0.6055	yes	no
B2JDM7	NUOB_BURP8	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
Q39EE6	NUOB_BURS3	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
Q7NZI0	NUOB1_CHRVO	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4683	yes	no
A3MIA2	NUOB1_BURM7	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
B8GNY6	NUOB_THISH	1, ., 6, ., 9, 9, ., 5	0.7108	0.5785	0.5126	yes	no
Q0KCS9	NUOB_CUPNH	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4625	yes	no
Q62IN6	NUOB1_BURMA	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
Q3SEX7	NUOB_THIDA	1, ., 6, ., 9, 9, ., 5	0.7837	0.5285	0.4683	yes	no
Q0BDD1	NUOB_BURCM	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
Q2W3I5	NUOB_MAGSA	1, ., 6, ., 9, 9, ., 5	0.7567	0.5285	0.3978	yes	no
Q2GDX9	NUOB_NEOSM	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4431	yes	no
Q63VN2	NUOB1_BURPS	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
Q473U2	NUOB_CUPPJ	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4625	yes	no
B4RPI3	NUOB_NEIG2	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4625	yes	no
B2T2E8	NUOB_BURPP	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
B1YTQ6	NUOB_BURA4	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
A9AFY8	NUOB_BURM1	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
Q142H2	NUOB_BURXL	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
Q9K1C2	NUOB_NEIMB	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4625	yes	no
B5EN70	NUOB2_ACIF5	1, ., 6, ., 9, 9, ., 5	0.7590	0.5785	0.5126	yes	no
Q3JUA8	NUOB1_BURP1	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
A3N7L8	NUOB1_BURP6	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
A1KRS3	NUOB_NEIMF	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4625	yes	no
Q2SZN4	NUOB_BURTA	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
Q1GZL0	NUOB_METFK	1, ., 6, ., 9, 9, ., 5	0.8243	0.5285	0.4683	yes	no
A4JGC9	NUOB_BURVG	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
Q47HH5	NUOB_DECAR	1, ., 6, ., 9, 9, ., 5	0.7567	0.5285	0.4683	yes	no
A3NTA7	NUOB1_BURP0	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
P42027	NDUS7_BRAOL	1, ., 6, ., 9, 9, ., 3	0.7310	0.9428	0.6139	N/A	no
A0K922	NUOB_BURCH	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no
B3R3W8	NUOB_CUPTR	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4625	yes	no
A1V2L7	NUOB1_BURMS	1, ., 6, ., 9, 9, ., 5	0.7702	0.5285	0.4654	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
4th Layer	1.6.99.5	LOW CONFIDENCE prediction!
3rd Layer	1.6.99	0.921

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00032166001	SubName- Full=Chromosome chr4 scaffold_6, whole genome shotgun sequence; (209 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00025731001	SubName- Full=Chromosome chr19 scaffold_35, whole genome shotgun sequence; (475 aa)	•		•	•	•	•	•		0.997
	ndhH	SubName- Full=Chromosome chr10 scaffold_179, whole genome shotgun sequence;; NDH shuttles elect [...] (372 aa)	•	•	•	•	•	•	•		0.996
	GSVIVG00036386001	SubName- Full=Chromosome chr3 scaffold_8, whole genome shotgun sequence; (223 aa)	•		•	•	•	•	•		0.995
	nad9	SubName- Full=Chromosome undetermined scaffold_79, whole genome shotgun sequence;; Core subunit [...] (190 aa)	•		•	•	•	•	•		0.994
	GSVIVG00023838001	SubName- Full=Chromosome chr7 scaffold_31, whole genome shotgun sequence; (254 aa)	•		•	•	•	•	•		0.993
	GSVIVG00022315001	RecName- Full=NADH-ubiquinone oxidoreductase 75 kDa subunit; EC=1.6.5.3; (746 aa)	•		•	•	•	•	•		0.992
	nad7	SubName- Full=Chromosome undetermined scaffold_79, whole genome shotgun sequence; (305 aa)	•	•	•	•	•	•	•		0.991
	nad3	SubName- Full=Chromosome undetermined scaffold_79, whole genome shotgun sequence; (118 aa)	•		•	•		•	•		0.990
	ndh1	SubName- Full=Chromosome undetermined scaffold_3246, whole genome shotgun sequence; Flags- Frag [...] (224 aa)	•		•	•	•	•	•		0.989
	ndhJ	NADH dehydrogenase subunit J ; NDH shuttles electrons from NAD(P)H-plastoquinone, via FMN and i [...] (158 aa)	•		•		•	•	•		0.988

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	140
PRK06411	183	PRK06411, PRK06411, NADH dehydrogenase subunit B;	1e-48
COG0377	194	COG0377, NuoB, NADH:ubiquinone oxidoreductase 20 k	2e-45
TIGR01957	145	TIGR01957, nuoB_fam, NADH-quinone oxidoreductase,	2e-42
PRK14813	189	PRK14813, PRK14813, NADH dehydrogenase subunit B;	3e-30
PRK14815	183	PRK14815, PRK14815, NADH dehydrogenase subunit B;	1e-29
PRK14819	264	PRK14819, PRK14819, NADH dehydrogenase subunit B;	3e-29
PRK14816	182	PRK14816, PRK14816, NADH dehydrogenase subunit B;	3e-27
PRK14818	173	PRK14818, PRK14818, NADH dehydrogenase subunit B;	2e-26
PRK13292	788	PRK13292, PRK13292, trifunctional NADH dehydrogena	8e-26
PRK14820	180	PRK14820, PRK14820, NADH dehydrogenase subunit B;	8e-21
CHL00023	225	CHL00023, ndhK, NADH dehydrogenase subunit K	5e-18
PRK14814	186	PRK14814, PRK14814, NADH dehydrogenase subunit B;	2e-17
PRK14817	181	PRK14817, PRK14817, NADH dehydrogenase subunit B;	1e-13
COG3260	148	COG3260, COG3260, Ni,Fe-hydrogenase III small subu	6e-10
pfam01058	122	pfam01058, Oxidored_q6, NADH ubiquinone oxidoreduc	6e-07

>gnl|CDD|235797 PRK06411, PRK06411, NADH dehydrogenase subunit B; Validated

 Score =  153 bits (390), Expect = 1e-48
 Identities = 51/74 (68%), Positives = 66/74 (89%)

Query: 67  FVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMV 126
            V++ LDD+VN+ R+ S+WP++FGLACCA+EMM  G +RYDLDRFG++FR SPRQ+D+M+
Sbjct: 20  VVLTTLDDLVNWARKNSLWPLTFGLACCAIEMMAAGTSRYDLDRFGMVFRASPRQADLMI 79

Query: 127 VAGTLTNKMAPALR 140
           VAGTLTNKMAPALR
Sbjct: 80  VAGTLTNKMAPALR 93

Length = 183

>gnl|CDD|223454 COG0377, NuoB, NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]

 Score =  145 bits (369), Expect = 2e-45
 Identities = 48/74 (64%), Positives = 65/74 (87%)

Query: 67  FVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMV 126
            +++K+D ++N+ R+ S+WP++FGLACCAVEMM T A+RYDL+RFG + R SPRQ+D+M+
Sbjct: 21  VLLTKVDKLINWGRKNSLWPVTFGLACCAVEMMATFASRYDLERFGEVPRASPRQADLMI 80

Query: 127 VAGTLTNKMAPALR 140
           VAGTLTNKMAPALR
Sbjct: 81  VAGTLTNKMAPALR 94

Length = 194

>gnl|CDD|233656 TIGR01957, nuoB_fam, NADH-quinone oxidoreductase, B subunit

 Score =  137 bits (346), Expect = 2e-42
 Identities = 48/75 (64%), Positives = 64/75 (85%), Gaps = 1/75 (1%)

Query: 67  FVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFG-IIFRPSPRQSDVM 125
            +++ +D ++N+ R  S+WP++FGLACCA+EMM TGA+RYDLDRFG  +FR SPRQ+DVM
Sbjct: 2   VLLTTVDKLLNWGRSNSLWPLTFGLACCAIEMMATGASRYDLDRFGSEVFRASPRQADVM 61

Query: 126 VVAGTLTNKMAPALR 140
           +VAGT+T KMAPALR
Sbjct: 62  IVAGTVTKKMAPALR 76

This model describes the B chain of complexes that resemble NADH-quinone oxidoreductases. The electron acceptor is a quinone, ubiquinone, in mitochondria and most bacteria, including Escherichia coli, where the recommended gene symbol is nuoB. The quinone is plastoquinone in Synechocystis (where the chain is designated K) and in chloroplast, where NADH may be replaced by NADPH. In the methanogenic archaeal genus Methanosarcina, NADH is replaced by F420H2 [Energy metabolism, Electron transport]. Length = 145

>gnl|CDD|173274 PRK14813, PRK14813, NADH dehydrogenase subunit B; Provisional

 Score =  107 bits (268), Expect = 3e-30
 Identities = 43/69 (62%), Positives = 57/69 (82%)

Query: 68  VISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVV 127
           +++ +D+V+N+ R  S+WPM FGLACCA+EMM T A+ YDL+RFGI  R SPRQSD+M+V
Sbjct: 14  LVTSVDNVLNWARLSSLWPMGFGLACCAIEMMATNASNYDLERFGIFPRSSPRQSDLMIV 73

Query: 128 AGTLTNKMA 136
           AGT+T KMA
Sbjct: 74  AGTVTMKMA 82

Length = 189

>gnl|CDD|237821 PRK14815, PRK14815, NADH dehydrogenase subunit B; Provisional

 Score =  105 bits (263), Expect = 1e-29
 Identities = 41/76 (53%), Positives = 57/76 (75%), Gaps = 1/76 (1%)

Query: 66  EFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGI-IFRPSPRQSDV 124
             V++ LD  +N+IR+ S+WPM  GLACCA+E+M    +R+D+ RFG  + R SPRQ+DV
Sbjct: 17  NVVVTTLDAAINWIRKNSLWPMPMGLACCAIELMAVACSRFDISRFGAEVMRFSPRQADV 76

Query: 125 MVVAGTLTNKMAPALR 140
           M+VAGT+T KMA A+R
Sbjct: 77  MIVAGTVTYKMALAVR 92

Length = 183

>gnl|CDD|237822 PRK14819, PRK14819, NADH dehydrogenase subunit B; Provisional

 Score =  106 bits (267), Expect = 3e-29
 Identities = 43/70 (61%), Positives = 57/70 (81%), Gaps = 1/70 (1%)

Query: 69  ISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGI-IFRPSPRQSDVMVV 127
           ++ ++   N+ RR S+WPM+FGLACCA+EMM TG +RYDL RFG  +FR SPRQ+D+M+V
Sbjct: 18  LTTVNRFYNWGRRSSVWPMAFGLACCAIEMMATGLSRYDLARFGAELFRASPRQADLMIV 77

Query: 128 AGTLTNKMAP 137
           AGT+T KMAP
Sbjct: 78  AGTVTKKMAP 87

Length = 264

>gnl|CDD|173277 PRK14816, PRK14816, NADH dehydrogenase subunit B; Provisional

 Score = 99.2 bits (247), Expect = 3e-27
 Identities = 39/77 (50%), Positives = 56/77 (72%), Gaps = 1/77 (1%)

Query: 65  AEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGI-IFRPSPRQSD 123
           A   +  LDD++N+ R  S+WP++F  +CC +E M  GAARYD+ RFG  + R SPRQ+D
Sbjct: 24  ANVFVGVLDDLINWGRSNSLWPLTFATSCCGIEFMALGAARYDMARFGFEVARASPRQAD 83

Query: 124 VMVVAGTLTNKMAPALR 140
           +++V GT+TNKMAP L+
Sbjct: 84  MIMVCGTITNKMAPVLK 100

Length = 182

>gnl|CDD|173279 PRK14818, PRK14818, NADH dehydrogenase subunit B; Provisional

 Score = 96.9 bits (241), Expect = 2e-26
 Identities = 41/85 (48%), Positives = 54/85 (63%)

Query: 56  TSPGGISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIF 115
             PG          S+LD+++N  R  S++ ++FGLACC +E+M TG  R D+ RFG I 
Sbjct: 5   MDPGIGGDVTLLHTSQLDNLINLARASSLYYLTFGLACCGIELMQTGGPRADVMRFGAIP 64

Query: 116 RPSPRQSDVMVVAGTLTNKMAPALR 140
           R SPRQ+D M+VAGTLT KMA   R
Sbjct: 65  RASPRQADFMIVAGTLTYKMAERAR 89

Length = 173

>gnl|CDD|183955 PRK13292, PRK13292, trifunctional NADH dehydrogenase I subunit B/C/D; Provisional

 Score =  101 bits (252), Expect = 8e-26
 Identities = 37/79 (46%), Positives = 58/79 (73%), Gaps = 1/79 (1%)

Query: 62  SKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGI-IFRPSPR 120
           +     +++ LDD++N+ R  S+WPM FGL+CC VEMM +  +RYD+ RFG  + R +PR
Sbjct: 2   TIPENILLASLDDLINWGRANSLWPMFFGLSCCFVEMMTSFTSRYDISRFGAEVLRGTPR 61

Query: 121 QSDVMVVAGTLTNKMAPAL 139
           ++D+MV+AGT+  KMAP++
Sbjct: 62  EADLMVIAGTVFKKMAPSI 80

Length = 788

>gnl|CDD|184833 PRK14820, PRK14820, NADH dehydrogenase subunit B; Provisional

 Score = 82.6 bits (204), Expect = 8e-21
 Identities = 38/92 (41%), Positives = 52/92 (56%), Gaps = 10/92 (10%)

Query: 51  PPPSTTSPGGISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDR 110
            P      G       F  + LD V+   R+ S+WP+ F  +CC +E M T A+ YDL R
Sbjct: 9   APEGYEGEG-------FFATSLDSVIGLARKNSLWPLPFATSCCGIEFMATMASHYDLAR 61

Query: 111 FGIIFRP--SPRQSDVMVVAGTLTNKMAPALR 140
           FG   RP  SPRQ+D+++V GT+  KMAP L+
Sbjct: 62  FG-SERPSFSPRQADMLMVMGTIAKKMAPVLK 92

Length = 180

>gnl|CDD|214337 CHL00023, ndhK, NADH dehydrogenase subunit K

 Score = 76.3 bits (188), Expect = 5e-18
 Identities = 39/94 (41%), Positives = 58/94 (61%), Gaps = 7/94 (7%)

Query: 46  SYARPPPPSTTSPGGISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAAR 105
           S   P    TTS   IS T       L+D+ N+ R  S+WP+ +G +CC +E      +R
Sbjct: 3   SIEFPLLDRTTSNSVISTT-------LNDLSNWSRLSSLWPLLYGTSCCFIEFASLIGSR 55

Query: 106 YDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPAL 139
           +D DR+G++ R SPRQ+D+++ AGT+T KMAP+L
Sbjct: 56  FDFDRYGLVPRSSPRQADLILTAGTVTMKMAPSL 89

Length = 225

>gnl|CDD|173275 PRK14814, PRK14814, NADH dehydrogenase subunit B; Provisional

 Score = 74.3 bits (182), Expect = 2e-17
 Identities = 36/76 (47%), Positives = 49/76 (64%), Gaps = 3/76 (3%)

Query: 67  FVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRP--SPRQSDV 124
           F +  L+ V+ + R  S+WP  F  ACC +E M T  + YD+ RFG   RP  SPRQ+D+
Sbjct: 18  FQLGNLESVIQWGRSFSLWPYPFATACCGIEYMSTACSDYDIARFG-AERPSFSPRQADM 76

Query: 125 MVVAGTLTNKMAPALR 140
           ++V GT+T KMAP LR
Sbjct: 77  ILVLGTITYKMAPVLR 92

Length = 186

>gnl|CDD|173278 PRK14817, PRK14817, NADH dehydrogenase subunit B; Provisional

 Score = 64.2 bits (156), Expect = 1e-13
 Identities = 29/64 (45%), Positives = 41/64 (64%), Gaps = 1/64 (1%)

Query: 78  YIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIF-RPSPRQSDVMVVAGTLTNKMA 136
           + R+ S++   F  ACC +E M   +ARYD DRFG    R SPRQ+D+++V GT+  K A
Sbjct: 31  WARKYSLFTYPFVTACCGMEYMTMASARYDSDRFGAAMPRFSPRQADLLMVVGTVNCKQA 90

Query: 137 PALR 140
           P L+
Sbjct: 91  PILQ 94

Length = 181

>gnl|CDD|225799 COG3260, COG3260, Ni,Fe-hydrogenase III small subunit [Energy production and conversion]

 Score = 53.5 bits (129), Expect = 6e-10
 Identities = 21/63 (33%), Positives = 35/63 (55%), Gaps = 3/63 (4%)

Query: 81  RGSIWPM---SFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAP 137
           + S+      S G   C +E++   + RYD +RFGI    SPR +D+++V G +T +M  
Sbjct: 6   KRSLHVYHVDSGGCNGCDIEILAALSPRYDAERFGIKVVNSPRHADILLVTGAVTRQMRE 65

Query: 138 ALR 140
            L+
Sbjct: 66  PLK 68

Length = 148

>gnl|CDD|216271 pfam01058, Oxidored_q6, NADH ubiquinone oxidoreductase, 20 Kd subunit

 Score = 45.2 bits (108), Expect = 6e-07
 Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 6/53 (11%)

Query: 94  CAVEMMHTGAARYDL----DRFGIIFRPSPR--QSDVMVVAGTLTNKMAPALR 140
           C++ ++       DL     R+ I     PR   +DV++V G +T K   AL 
Sbjct: 4   CSISLLALHPPLLDLLDISLRYHITLMADPREEHADVLLVEGAVTRKPKEALE 56

Length = 122

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	140
KOG1687	168	consensus NADH-ubiquinone oxidoreductase, NUFS7/PS	100.0
COG0377	194	NuoB NADH:ubiquinone oxidoreductase 20 kD subunit	100.0
PRK14818	173	NADH dehydrogenase subunit B; Provisional	99.97
CHL00023	225	ndhK NADH dehydrogenase subunit K	99.97
PRK14813	189	NADH dehydrogenase subunit B; Provisional	99.97
PRK14817	181	NADH dehydrogenase subunit B; Provisional	99.96
PRK14816	182	NADH dehydrogenase subunit B; Provisional	99.96
PRK06411	183	NADH dehydrogenase subunit B; Validated	99.96
PRK14814	186	NADH dehydrogenase subunit B; Provisional	99.96
PRK14815	183	NADH dehydrogenase subunit B; Provisional	99.95
TIGR01957	145	nuoB_fam NADH-quinone oxidoreductase, B subunit. T	99.95
PRK14820	180	NADH dehydrogenase subunit B; Provisional	99.95
PRK14819	264	NADH dehydrogenase subunit B; Provisional	99.94
PRK13292	788	trifunctional NADH dehydrogenase I subunit B/C/D;	99.93
COG3260	148	Ni,Fe-hydrogenase III small subunit [Energy produc	99.87
PF01058	131	Oxidored_q6: NADH ubiquinone oxidoreductase, 20 Kd	98.4
TIGR03294	228	FrhG coenzyme F420 hydrogenase, subunit gamma. Thi	96.42
PF00919	98	UPF0004: Uncharacterized protein family UPF0004; I	88.1

>KOG1687 consensus NADH-ubiquinone oxidoreductase, NUFS7/PSST/20 kDa subunit [Energy production and conversion]

Probab=100.00  E-value=1.1e-36  Score=237.43  Aligned_cols=81  Identities=67%  Similarity=1.253  Sum_probs=77.9

Q ss_pred             CCCccchhhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccCccccCCcccccEEEEccccccchhccc
Q 037421           60 GISKTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPAL  139 (140)
Q Consensus        60 ~~~~~~~~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfGi~~~~SPRqADvLIVtGtVT~kMap~L  139 (140)
                      +.++.+||++++||||+||+|+.||||++||++||++|||++.+||||+||||++||+||||||+|||+||+|+||+|+|
T Consensus        10 ~~s~~~e~~~a~ldDl~Nwar~~SlWPltfGlaCCavEmmh~~a~RyD~DRyGvvfRaSPRQaD~iivAGTlTnKMAPal   89 (168)
T KOG1687|consen   10 NPSSKAEYVLARLDDLLNWARRGSLWPLTFGLACCAVEMMHLAAPRYDMDRYGVVFRASPRQADLIIVAGTLTNKMAPAL   89 (168)
T ss_pred             CccchhhhhhhhHHHHhhhhhhcCccchhhhhHHHHHHHHHhccccccccccceeecCCCccccEEEEeccchhhhcHHH
Confidence            44677899999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             C
Q 037421          140 R  140 (140)
Q Consensus       140 r  140 (140)
                      +
T Consensus        90 r   90 (168)
T KOG1687|consen   90 R   90 (168)
T ss_pred             H
Confidence            5

>COG0377 NuoB NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]

Probab=100.00  E-value=7.4e-35  Score=233.83  Aligned_cols=76  Identities=63%  Similarity=1.104  Sum_probs=73.9

Q ss_pred             chhhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccCccccCCcccccEEEEccccccchhcccC
Q 037421           65 AEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPALR  140 (140)
Q Consensus        65 ~~~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfGi~~~~SPRqADvLIVtGtVT~kMap~Lr  140 (140)
                      .+++++++|+++||+|++||||++||++||+|||+++++++||+||||++|++||||||+|||+||+|+||+|+||
T Consensus        19 ~~~~~t~~~~l~~W~r~~SLWp~~fg~aCC~iEm~~~~~~r~D~~RfG~~~r~SPRQaDvmIvaGt~t~Kmap~lr   94 (194)
T COG0377          19 KGVLLTKVDKLINWGRKNSLWPVTFGLACCAVEMMATFASRYDLERFGEVPRASPRQADLMIVAGTLTNKMAPALR   94 (194)
T ss_pred             cCeeeechHHHHhhhhhcccchhhhcchhHHHHHHhhccccccHHHhCcCCCCCcccccEEEEeccchHHHHHHHH
Confidence            5788999999999999999999999999999999999999999999999999999999999999999999999985

>PRK14818 NADH dehydrogenase subunit B; Provisional

Probab=99.97  E-value=3.9e-33  Score=221.36  Aligned_cols=77  Identities=51%  Similarity=0.841  Sum_probs=74.0

Q ss_pred             cchhhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccCccccCCcccccEEEEccccccchhcccC
Q 037421           64 TAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPALR  140 (140)
Q Consensus        64 ~~~~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfGi~~~~SPRqADvLIVtGtVT~kMap~Lr  140 (140)
                      ..+++.+++|+++||+|++|+|++|||++||+|||+++.+|+||+|||||.|++||||||+|||+|+||+||+|+|+
T Consensus        13 ~~~~~~~~~~~~~~w~r~~Slw~~~~~t~cC~iEi~a~~~p~yD~eRfGi~~~aSPRhADvLlVtG~vT~km~~~l~   89 (173)
T PRK14818         13 VTLLHTSQLDNLINLARASSLYYLTFGLACCGIELMQTGGPRADVMRFGAIPRASPRQADFMIVAGTLTYKMAERAR   89 (173)
T ss_pred             EEeeehhhHHHHHHHHhhCCceeeEeCCccHHHHHHHhcCCccCHHHcCCeecCCcccccEEEEeCcCccccHHHHH
Confidence            45788899999999999999999999999999999999999999999999999999999999999999999999874

>CHL00023 ndhK NADH dehydrogenase subunit K

Probab=99.97  E-value=1.6e-32  Score=225.06  Aligned_cols=76  Identities=41%  Similarity=0.853  Sum_probs=73.4

Q ss_pred             chhhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccCccccCCcccccEEEEccccccchhcccC
Q 037421           65 AEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPALR  140 (140)
Q Consensus        65 ~~~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfGi~~~~SPRqADvLIVtGtVT~kMap~Lr  140 (140)
                      .+++.+++|+++||+|++|+||+|||++||+|||+++.+|+||+|||||+|++||||||+|||+|+||+||+|+|+
T Consensus        15 ~~~~~~~~~~~~~w~r~~Slw~~~~g~sCC~iE~~a~~~p~yDleRfGi~~~aSPRhADvliVtG~VT~km~~~L~   90 (225)
T CHL00023         15 NSVISTTLNDLSNWSRLSSLWPLLYGTSCCFIEFASLIGSRFDFDRYGLVPRSSPRQADLILTAGTVTMKMAPSLV   90 (225)
T ss_pred             CCeEeeeHHHHHHHHHhCCcccccCCcchHHHHHHHhCCCccCHHHcCCeecCCcccceEEEEecCCccccHHHHH
Confidence            4688999999999999999999999999999999999999999999999999999999999999999999999874

>PRK14813 NADH dehydrogenase subunit B; Provisional

Probab=99.97  E-value=2.3e-32  Score=219.45  Aligned_cols=76  Identities=57%  Similarity=1.014  Sum_probs=73.2

Q ss_pred             chhhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccCccccCCcccccEEEEccccccchhcccC
Q 037421           65 AEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPALR  140 (140)
Q Consensus        65 ~~~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfGi~~~~SPRqADvLIVtGtVT~kMap~Lr  140 (140)
                      .+++.+++|+++||+|++|+||+|||++||+|||+++.+|+||+|||||.|++||||||+|||+|+||+||+++|+
T Consensus        11 ~~~~~~~~~~~~~w~r~~Slw~~~~~t~cC~iE~~a~~~p~yD~eRfGi~~~asPR~ADvllVtG~Vt~km~~~l~   86 (189)
T PRK14813         11 HNVLVTSVDNVLNWARLSSLWPMGFGLACCAIEMMATNASNYDLERFGIFPRSSPRQSDLMIVAGTVTMKMAERVV   86 (189)
T ss_pred             CCeEeeeHHHHHHHHHhCCCceeeeCcccHHHHHHHhcccCCCHHHcCCeecCCcccceEEEEeccCchhhHHHHH
Confidence            3688899999999999999999999999999999999999999999999999999999999999999999999874

>PRK14817 NADH dehydrogenase subunit B; Provisional

Probab=99.96  E-value=2.2e-30  Score=206.90  Aligned_cols=78  Identities=38%  Similarity=0.704  Sum_probs=72.8

Q ss_pred             ccchhhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccCccc-cCCcccccEEEEccccccchhcccC
Q 037421           63 KTAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIF-RPSPRQSDVMVVAGTLTNKMAPALR  140 (140)
Q Consensus        63 ~~~~~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfGi~~-~~SPRqADvLIVtGtVT~kMap~Lr  140 (140)
                      ...+++.+++|+++||+|++|+||+|||++||+|||+++.+|+||++|||+.+ ++||||||+|||+|+||+||+|+|+
T Consensus        16 ~~~~~~~~~~~~~~~w~r~~Slw~~~~~~~CC~iE~~a~~~~~yDleRfGi~~~~~sPR~ADillVeG~VT~~m~~~l~   94 (181)
T PRK14817         16 EAEGFLQGLVSKSLGWARKYSLFTYPFVTACCGMEYMTMASARYDSDRFGAAMPRFSPRQADLLMVVGTVNCKQAPILQ   94 (181)
T ss_pred             cCCCeehhhHHHHHHHHhhCCccccccccchHHHHHHHhcCccccHHHhceeeccCCCcceeEEEEEecCCccchHHHH
Confidence            34568889999999999999999999999999999999999999999999965 6999999999999999999998763

>PRK14816 NADH dehydrogenase subunit B; Provisional

Probab=99.96  E-value=2.5e-30  Score=206.71  Aligned_cols=76  Identities=51%  Similarity=1.017  Sum_probs=71.5

Q ss_pred             chhhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccCccc-cCCcccccEEEEccccccchhcccC
Q 037421           65 AEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIF-RPSPRQSDVMVVAGTLTNKMAPALR  140 (140)
Q Consensus        65 ~~~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfGi~~-~~SPRqADvLIVtGtVT~kMap~Lr  140 (140)
                      .+++.+++|+++||+|++|+||+|||++||+|||+++.+|+||+||||+.+ ++||||||+|||+|+||++|+++|+
T Consensus        24 ~~~~~~~~~~~~~w~r~~slw~~~~~~~CC~iE~~a~~~p~yD~eRfGi~~~~~sPRhADvllVtG~VT~~m~~~l~  100 (182)
T PRK14816         24 ANVFVGVLDDLINWGRSNSLWPLTFATSCCGIEFMALGAARYDMARFGFEVARASPRQADMIMVCGTITNKMAPVLK  100 (182)
T ss_pred             CceeeeeHHHHHhhhhcCccceeeeCcchHHHHHHHhcCccccHHHhCccccCCCCCcceEEEEecCCcchhHHHHH
Confidence            467889999999999999999999999999999999999999999999965 5999999999999999999999863

>PRK06411 NADH dehydrogenase subunit B; Validated

Probab=99.96  E-value=2.7e-30  Score=206.45  Aligned_cols=76  Identities=67%  Similarity=1.261  Sum_probs=73.4

Q ss_pred             chhhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccCccccCCcccccEEEEccccccchhcccC
Q 037421           65 AEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPALR  140 (140)
Q Consensus        65 ~~~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfGi~~~~SPRqADvLIVtGtVT~kMap~Lr  140 (140)
                      .+++.+++|+++||+|++|+||+|||++||+|||+++.+|+||++|||+.|++||||||+|||+|+||+||+++|+
T Consensus        18 ~~~~~~~~~~~~~w~r~~Slw~~~~~~~CC~iE~~~~~~~~yDieRfGi~~~~sPr~aDvllV~G~vt~~~~~~l~   93 (183)
T PRK06411         18 KGVVLTTLDDLVNWARKNSLWPLTFGLACCAIEMMAAGTSRYDLDRFGMVFRASPRQADLMIVAGTLTNKMAPALR   93 (183)
T ss_pred             CCeeeeeHHHHHHHHHhCCccceeeCccHhHHHHHHccCccccHHHhCccccCCCCceeEEEEEeCCCccchHHHH
Confidence            4688999999999999999999999999999999999999999999999999999999999999999999999874

>PRK14814 NADH dehydrogenase subunit B; Provisional

Probab=99.96  E-value=5.5e-30  Score=205.27  Aligned_cols=77  Identities=44%  Similarity=0.805  Sum_probs=73.2

Q ss_pred             cchhhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccCc-cccCCcccccEEEEccccccchhcccC
Q 037421           64 TAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGI-IFRPSPRQSDVMVVAGTLTNKMAPALR  140 (140)
Q Consensus        64 ~~~~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfGi-~~~~SPRqADvLIVtGtVT~kMap~Lr  140 (140)
                      ...++.+++|+++||+|++|+||+||+++||++||+++.+|+||++|||+ .|++||||||+|||+|+||+||+++|+
T Consensus        15 ~~~~~~~~~~~~~~w~r~~Slw~~~~~~~CC~iE~~~~~~~~yD~eRfGi~~~~~sPR~ADvllVtG~VT~~m~~~l~   92 (186)
T PRK14814         15 GDMFQLGNLESVIQWGRSFSLWPYPFATACCGIEYMSTACSDYDIARFGAERPSFSPRQADMILVLGTITYKMAPVLR   92 (186)
T ss_pred             cCCeeeeeHHHHHHHHHhCCCceeeeCCccHHHHHHHhcCccccHHHhCccccCCCcccceEEEEeccCchhhHHHHH
Confidence            45788999999999999999999999999999999999999999999999 589999999999999999999999874

>PRK14815 NADH dehydrogenase subunit B; Provisional

Probab=99.95  E-value=1.3e-29  Score=202.69  Aligned_cols=76  Identities=54%  Similarity=1.004  Sum_probs=71.7

Q ss_pred             chhhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccCccc-cCCcccccEEEEccccccchhcccC
Q 037421           65 AEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGIIF-RPSPRQSDVMVVAGTLTNKMAPALR  140 (140)
Q Consensus        65 ~~~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfGi~~-~~SPRqADvLIVtGtVT~kMap~Lr  140 (140)
                      .+++.+++++++||+|++|||++|||++||+|||+++++|+||++|||+.+ ++||||||++||+|+||+||++.|+
T Consensus        16 ~~~~~~~~~~~~~w~r~~Slw~~~~~~sCC~iE~~a~~~~~yDieRfGi~~~~~SPR~ADillVtG~VT~~m~~~l~   92 (183)
T PRK14815         16 GNVVVTTLDAAINWIRKNSLWPMPMGLACCAIELMAVACSRFDISRFGAEVMRFSPRQADVMIVAGTVTYKMALAVR   92 (183)
T ss_pred             cCeehhhHHHHHHHHHhCCccceeEccchHHHHHHHhcCccccHHHhCcccCCCCCccccEEEEeCcCchhhHHHHH
Confidence            468889999999999999999999999999999999999999999999854 6999999999999999999999874

>TIGR01957 nuoB_fam NADH-quinone oxidoreductase, B subunit

Probab=99.95  E-value=1.6e-29  Score=195.45  Aligned_cols=74  Identities=65%  Similarity=1.205  Sum_probs=71.2

Q ss_pred             hhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccC-ccccCCcccccEEEEccccccchhcccC
Q 037421           67 FVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFG-IIFRPSPRQSDVMVVAGTLTNKMAPALR  140 (140)
Q Consensus        67 ~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfG-i~~~~SPRqADvLIVtGtVT~kMap~Lr  140 (140)
                      ++.+++++++||+|++|+|++|||++||++|++++.+|+||+|||| +.+++||||||++||+|+||++|++.|+
T Consensus         2 ~~~~~~~~~~~~~r~~s~w~~~~~t~cC~iE~~~~~~~~~D~erfG~i~~~~sPr~aDvllVtG~vt~~~~~~l~   76 (145)
T TIGR01957         2 VLLTTVDKLLNWGRSNSLWPLTFGLACCAIEMMATGASRYDLDRFGSEVFRASPRQADVMIVAGTVTKKMAPALR   76 (145)
T ss_pred             cccccHHHHHhhhhcCCceeeeeCccHHHHHHHHccCccccHHHhCCceecCCCCcceEEEEecCCcHHHHHHHH
Confidence            5678999999999999999999999999999999999999999999 8999999999999999999999999874

This model describes the B chain of complexes that resemble NADH-quinone oxidoreductases. The electron acceptor is a quinone, ubiquinone, in mitochondria and most bacteria, including Escherichia coli, where the recommended gene symbol is nuoB. The quinone is plastoquinone in Synechocystis (where the chain is designated K) and in chloroplast, where NADH may be replaced by NADPH. In the methanogenic archaeal genus Methanosarcina, NADH is replaced by F420H2.

>PRK14820 NADH dehydrogenase subunit B; Provisional

Probab=99.95  E-value=3.1e-29  Score=200.03  Aligned_cols=77  Identities=44%  Similarity=0.851  Sum_probs=73.2

Q ss_pred             cchhhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccCc-cccCCcccccEEEEccccccchhcccC
Q 037421           64 TAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGI-IFRPSPRQSDVMVVAGTLTNKMAPALR  140 (140)
Q Consensus        64 ~~~~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfGi-~~~~SPRqADvLIVtGtVT~kMap~Lr  140 (140)
                      ..+++.+++|+++||+|++|+||+||+++||++||+++.+++||++|||+ .+++||||||+|||+|+||+||+++|+
T Consensus        15 ~~~~~~~~~~~~~~w~r~~Slw~~~~~~sCC~iE~~a~~~~~yDi~RfGi~~~~~sPR~aDillVeG~VT~~m~~~l~   92 (180)
T PRK14820         15 GEGFFATSLDSVIGLARKNSLWPLPFATSCCGIEFMATMASHYDLARFGSERPSFSPRQADMLMVMGTIAKKMAPVLK   92 (180)
T ss_pred             cCceEeeeHHHHHHHHhhCCCceeeecccHHHHHHHHhcCccccHHHhCccccCCCCccceEEEEEecCCcccHHHHH
Confidence            45788999999999999999999999999999999999999999999999 589999999999999999999999874

>PRK14819 NADH dehydrogenase subunit B; Provisional

Probab=99.94  E-value=5.5e-28  Score=201.84  Aligned_cols=76  Identities=57%  Similarity=1.083  Sum_probs=72.5

Q ss_pred             cchhhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccCc-cccCCcccccEEEEccccccchhccc
Q 037421           64 TAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGI-IFRPSPRQSDVMVVAGTLTNKMAPAL  139 (140)
Q Consensus        64 ~~~~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfGi-~~~~SPRqADvLIVtGtVT~kMap~L  139 (140)
                      ..+++.+++++++||+|++|+|++|||++||+||++++.+|+||++|||+ .|++||||||++||+|+||++|++.|
T Consensus        13 ~~~~~~~~~~~~~~W~r~~Slw~~~~gt~CC~iEila~l~p~yDieRFGi~~~~~sPRhADIlLVtG~VT~km~~~L   89 (264)
T PRK14819         13 KQGVLLTTVNRFYNWGRRSSVWPMAFGLACCAIEMMATGLSRYDLARFGAELFRASPRQADLMIVAGTVTKKMAPQV   89 (264)
T ss_pred             cCceeeeeHHHHHHHHHhCCcceeeeCCcccHHHHHHhccccccHHHhCcccccCCCCcceEEEEecCCchhhHHHH
Confidence            45688999999999999999999999999999999999999999999999 59999999999999999999998875

>PRK13292 trifunctional NADH dehydrogenase I subunit B/C/D; Provisional

Probab=99.93  E-value=3.1e-27  Score=219.86  Aligned_cols=76  Identities=49%  Similarity=0.991  Sum_probs=72.8

Q ss_pred             chhhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccCc-cccCCcccccEEEEccccccchhcccC
Q 037421           65 AEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGI-IFRPSPRQSDVMVVAGTLTNKMAPALR  140 (140)
Q Consensus        65 ~~~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfGi-~~~~SPRqADvLIVtGtVT~kMap~Lr  140 (140)
                      .+++.+++|+++||+|++|+||+|||++||+|||+++.+|+||+||||+ +|++||||||+|||+|+||+||+++|+
T Consensus         5 ~~~~~~~~~~~~~~~r~~s~w~~~~~~~cc~~E~~~~~~~~~D~~r~G~~~~~~sPr~aD~llv~G~vt~~~~~~l~   81 (788)
T PRK13292          5 ENILLASLDDLINWGRANSLWPMFFGLSCCFVEMMTSFTSRYDISRFGAEVLRGTPREADLMVIAGTVFKKMAPSIL   81 (788)
T ss_pred             CceeeeeHHHHHHHHhhCCCcceecCCccHHHHHHHhcCCcCCHHHcCCCccCCCcccceEEEEecCCcHhhHHHHH
Confidence            4688899999999999999999999999999999999999999999999 589999999999999999999999874

>COG3260 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]

Probab=99.87  E-value=6.8e-24  Score=164.58  Aligned_cols=60  Identities=33%  Similarity=0.664  Sum_probs=56.8

Q ss_pred             hCCccceee---cCCchHHHHhhhCCcchhhcccCccccCCcccccEEEEccccccchhcccC
Q 037421           81 RGSIWPMSF---GLACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVAGTLTNKMAPALR  140 (140)
Q Consensus        81 ~~Slwp~~~---g~acC~iEm~a~~~p~yD~eRfGi~~~~SPRqADvLIVtGtVT~kMap~Lr  140 (140)
                      ++|+|+++.   |||||+||+.++++|+||+|||||.+++||||||+|||||.||++|+..|+
T Consensus         6 ~rS~~v~~VdsG~CNgCdIEi~a~~sP~YDaErfgI~~v~sPRhADiLlVTG~vT~~~~e~lk   68 (148)
T COG3260           6 KRSLHVYHVDSGGCNGCDIEILAALSPRYDAERFGIKVVNSPRHADILLVTGAVTRQMREPLK   68 (148)
T ss_pred             ccceEEEEeccCCcCceeEEEeeccCcccchHHheeEEeCCCccccEEEEeccccHHHHHHHH
Confidence            789998887   499999999999999999999999999999999999999999999998774

>PF01058 Oxidored_q6: NADH ubiquinone oxidoreductase, 20 Kd subunit; InterPro: IPR006137 NADH:ubiquinone oxidoreductase (complex I) (1

Probab=98.40  E-value=1e-07  Score=71.39  Aligned_cols=49  Identities=24%  Similarity=0.495  Sum_probs=42.7

Q ss_pred             CCchHHHHhhhCCcchhh-----cccCccccCCcc---------cccEEEEccccccchhccc
Q 037421           91 LACCAVEMMHTGAARYDL-----DRFGIIFRPSPR---------QSDVMVVAGTLTNKMAPAL  139 (140)
Q Consensus        91 ~acC~iEm~a~~~p~yD~-----eRfGi~~~~SPR---------qADvLIVtGtVT~kMap~L  139 (140)
                      |+||.+||..+..+.+|+     .+||..+..+++         ++|++||+|.|+++|.+.+
T Consensus         1 C~GC~~s~~~~~~~~~dll~~i~~~~~~~l~~~~~~~~~~~~~~~~diliVeG~v~~~~~~~~   63 (131)
T PF01058_consen    1 CTGCTISFLALEPSLLDLLELIEIRYHPSLMASPGEQDEENGEEEADILIVEGSVPRNMEEAL   63 (131)
T ss_dssp             -SHHHHHHTTTTTTHHHHHHTEEEEEETTT-SS-HHHHHHHHTTTTEEEEEESBEETGGEEHH
T ss_pred             CCCcHHHHhhCCCCHHHHHhhhHHHhCCEehhhcCCccccccccCceEEEEEeeccCCchHHH
Confidence            899999998899999999     999999999998         9999999999999987653

6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. Among the many polypeptide subunits that make up complex I, there is one with a molecular weight of 20 kDa (in mammals) [], which is a component of the iron-sulphur (IP) fragment of the enzyme. It seems to bind a 4Fe-4S iron-sulphur cluster. The 20 kDa subunit has been found to be nuclear encoded, as a precursor form with a transit peptide in mammals, and in Neurospora crassa. It is and chloroplast encoded in various higher plants (gene ndhK or psbG).; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0048038 quinone binding, 0051539 4 iron, 4 sulfur cluster binding, 0055114 oxidation-reduction process; PDB: 3MYR_E 3RGW_S 2FUG_F 3IAS_6 3I9V_F 3IAM_F 2YBB_6 3M9S_F 2FRV_G 1YQ9_B ....

>TIGR03294 FrhG coenzyme F420 hydrogenase, subunit gamma

Probab=96.42  E-value=0.0014  Score=53.52  Aligned_cols=54  Identities=17%  Similarity=0.140  Sum_probs=39.9

Q ss_pred             cceeecCCchHHHHhhhCCcchhhcccCccccC-----Ccc---cccEEEEccccccchhcc
Q 037421           85 WPMSFGLACCAVEMMHTGAARYDLDRFGIIFRP-----SPR---QSDVMVVAGTLTNKMAPA  138 (140)
Q Consensus        85 wp~~~g~acC~iEm~a~~~p~yD~eRfGi~~~~-----SPR---qADvLIVtGtVT~kMap~  138 (140)
                      |.---+|+||.+.++.+..+.+|+-+..|.++.     +++   ++|+++|+|.|+++|.+.
T Consensus         6 ~~~~~~C~GC~~s~l~~~~~~~~ll~~~i~~~y~~~~~~~~~~~~~dil~VeG~i~~~~~~~   67 (228)
T TIGR03294         6 YVHLSGCTGCLVSLTDNYEGLLDILDNIADLVYCQTLADAREIPEMDVALVEGSVCLQDEHS   67 (228)
T ss_pred             EEECCCCCChHHHHHccCCcHHHHHHHhhHheecHhhhhhccCCCccEEEEeCCCCCCccHH
Confidence            444447999999999888888887766544442     223   499999999999887543

This model represents that clade of F420-dependent hydrogenases (FRH) beta subunits found exclusively and universally in methanogenic archaea. This protein contains two 4Fe-4S cluster binding domains (pfam00037) and scores above the trusted cutoff to model pfam01058 for the "NADH ubiquinone oxidoreductase, 20 Kd subunit" family.

>PF00919 UPF0004: Uncharacterized protein family UPF0004; InterPro: IPR013848 The methylthiotransferase (MTTase) or miaB-like family is named after the (dimethylallyl)adenosine tRNA MTTase miaB protein, which catalyses a C-H to C-S bond conversion in the methylthiolation of tRNA

Probab=88.10  E-value=0.45  Score=34.32  Aligned_cols=40  Identities=18%  Similarity=0.301  Sum_probs=29.7

Q ss_pred             ccceeecC--CchHHHHhhhCCcchhhcccCccccCCcccccEEEEc
Q 037421           84 IWPMSFGL--ACCAVEMMHTGAARYDLDRFGIIFRPSPRQSDVMVVA  128 (140)
Q Consensus        84 lwp~~~g~--acC~iEm~a~~~p~yD~eRfGi~~~~SPRqADvLIVt  128 (140)
                      ++..+|||  |-=+.|.+.     ..+.+.|+..+..|.+||++||.
T Consensus         2 v~i~T~GC~~N~~Dse~i~-----~~l~~~G~~~~~~~e~AD~iiiN   43 (98)
T PF00919_consen    2 VYIETLGCQMNQYDSERIA-----SILQAAGYEIVDDPEEADVIIIN   43 (98)
T ss_pred             EEEEECCCcccHHHHHHHH-----HHHHhcCCeeecccccCCEEEEE
Confidence            45677876  445555544     45778899999999999999874

A related bacterial enzyme rimO performs a similar methylthiolation, but on a protein substrate. RimO acts on the ribosomal protein S12 and forms a separate MTTase subfamily. The miaB-subfamily includes mammalian CDK5 regulatory subunit-associated proteins and similar proteins in other eukaryotes. Two other subfamilies, yqeV and CDKAL1, are named after a Bacillus subtilis and a human protein, respectively. While yqeV-like proteins are found in bacteria, CDKAL1 subfamily members occur in eukaryotes and in archaebacteria. The likely MTTases from these 4 subfamilies contain an N-terminal MTTase domain, a central radical generating fold and a C-terminal TRAM domain (see PDOC50926 from PROSITEDOC). The core forms a radical SAM fold (or AdoMet radical), containing a cysteine motif CxxxCxxC that binds a [4Fe-4S] cluster [, , ]. A reducing equivalent from the [4Fe-4S]+ cluster is used to cleave S-adenosylmethionine (SAM) to generate methionine and a 5'-deoxyadenosyl radical. The latter is thought to produce a reactive substrate radical that is amenable to sulphur insertion [, ]. The N-terminal MTTase domain contains 3 cysteines that bind a second [4Fe-4S] cluster, in addition to the radical-generating [4Fe-4S] cluster, which could be involved in the thiolation reaction. The C-terminal TRAM domain is not shared with other radical SAM proteins outside the MTTase family. The TRAM domain can bind to RNA substrate and seems to be important for substrate recognition. The tertiary structure of the central radical SAM fold has six beta/alpha motifs resembling a three-quarter TIM barrel core (see PDOC00155 from PROSITEDOC) []. The N-terminal MTTase domain might form an additional [beta/alpha]2 TIM barrel unit []. ; GO: 0003824 catalytic activity, 0051539 4 iron, 4 sulfur cluster binding, 0009451 RNA modification

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	140
2fug_6	181	Crystal Structure Of The Hydrophilic Domain Of Resp		1e-18

>pdb|2FUG|6 Chain 6, Crystal Structure Of The Hydrophilic Domain Of Respiratory Complex I From Thermus Thermophilus Length = 181

Iteration: 1
 Score = 88.2 bits (217), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 41/75 (54%), Positives = 55/75 (73%), Gaps = 1/75 (1%)
Query: 67  FVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGI-IFRPSPRQSDVM 125
            + + L+ +V + R  S+WP +FGLACCA+EMM +  AR DL RFG  +FR SPRQ+DVM
Sbjct: 19  ILFTTLEKLVAWGRSNSLWPATFGLACCAIEMMASTDARNDLARFGSEVFRASPRQADVM 78
Query: 126 VVAGTLTNKMAPALR 140
           +VAG L+ KMAP +R
Sbjct: 79  IVAGRLSKKMAPVMR 93
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	140
3i9v_6	181	NADH-quinone oxidoreductase subunit 6; electron tr	2e-45

>3i9v_6 NADH-quinone oxidoreductase subunit 6; electron transport, respiratory chain, cell flavoprotein, FMN, iron, iron-sulfur, membrane; HET: FMN; 3.10A {Thermus thermophilus} PDB: 2ybb_6* 2fug_6* 3iam_6* 3ias_6* 3m9s_6* Length = 181

 Score =  144 bits (366), Expect = 2e-45
 Identities = 41/75 (54%), Positives = 55/75 (73%), Gaps = 1/75 (1%)

Query: 67  FVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGI-IFRPSPRQSDVM 125
            + + L+ +V + R  S+WP +FGLACCA+EMM +  AR DL RFG  +FR SPRQ+DVM
Sbjct: 19  ILFTTLEKLVAWGRSNSLWPATFGLACCAIEMMASTDARNDLARFGSEVFRASPRQADVM 78

Query: 126 VVAGTLTNKMAPALR 140
           +VAG L+ KMAP +R
Sbjct: 79  IVAGRLSKKMAPVMR 93

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	140
3i9v_6	181	NADH-quinone oxidoreductase subunit 6; electron tr	99.95
1yq9_A	264	Periplasmic [NIFE] hydrogenase small subunit; oxid	99.17
1wui_S	267	Periplasmic [NIFE] hydrogenase small subunit; high	99.15
2wpn_A	317	Periplasmic [nifese] hydrogenase, small subunit; m	99.12
1h2a_S	317	Hydrogenase; SO ligand, hydrogen metabolism, Mg ce	99.09
1cc1_S	283	Hydrogenase (small subunit); NI-Fe-Se hydrogenase,	99.09
3ayx_B	283	Membrane-bound hydrogenase small subunit; oxidored	98.63
1yqw_A	264	Periplasmic [NIFE] hydrogenase small subunit; NI-F	98.37
3uqy_S	335	Hydrogenase-1 small chain; membrane-bound hydrogen	97.18
3rgw_S	339	Membrane-bound hydrogenase (NIFE) small subunit H;	96.77
3myr_A	269	Hydrogenase (NIFE) small subunit HYDA; [NIFE] hydr	96.35

>3i9v_6 NADH-quinone oxidoreductase subunit 6; electron transport, respiratory chain, cell flavoprotein, FMN, iron, iron-sulfur, membrane; HET: FMN; 3.10A {Thermus thermophilus} PDB: 2ybb_6* 2fug_6* 3iam_6* 3ias_6* 3m9s_6*

Probab=99.95  E-value=8.3e-29  Score=196.44  Aligned_cols=77  Identities=53%  Similarity=1.002  Sum_probs=58.8

Q ss_pred             cchhhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccCc-cccCCcccccEEEEccccccchhcccC
Q 037421           64 TAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGI-IFRPSPRQSDVMVVAGTLTNKMAPALR  140 (140)
Q Consensus        64 ~~~~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfGi-~~~~SPRqADvLIVtGtVT~kMap~Lr  140 (140)
                      ..+|+.+++|+++||+|++|+|+++|||+||++||+++.+|+||++|||+ .|++||||||+|||+|+||+||+|+|+
T Consensus        16 ~~~~~~~~~~~l~~w~R~~slW~~~~gc~cC~iEll~~~~p~yDl~rfGi~~~~aSPrqaDiliVeG~Vt~~m~~~l~   93 (181)
T 3i9v_6           16 REGILFTTLEKLVAWGRSNSLWPATFGLACCAIEMMASTDARNDLARFGSEVFRASPRQADVMIVAGRLSKKMAPVMR   93 (181)
T ss_dssp             TTSHHHHHHHHHHHHHHTTSCCCEEEECSTHHHHHTTTTTTC----------------CCCCEEEESCCBTTTHHHHH
T ss_pred             cCCchHHHHHHHHhhcccCCcccccCCCCchHHHHHHhhhchhhHHHcCcccccCCCCCceEEEEeccCCcccHHHHH
Confidence            35799999999999999999999999999999999999999999999999 999999999999999999999998763

>1yq9_A Periplasmic [NIFE] hydrogenase small subunit; oxidoreductase; 2.35A {Desulfovibrio gigas} SCOP: e.19.1.1 PDB: 2frv_S 1frv_A

Probab=99.17  E-value=5e-12  Score=104.40  Aligned_cols=57  Identities=16%  Similarity=0.230  Sum_probs=52.3

Q ss_pred             HhCCccceeecCCchHHHHhhhCCcchh---hcccCccccCCc----------------ccccEEEEccccccchh
Q 037421           80 RRGSIWPMSFGLACCAVEMMHTGAARYD---LDRFGIIFRPSP----------------RQSDVMVVAGTLTNKMA  136 (140)
Q Consensus        80 R~~Slwp~~~g~acC~iEm~a~~~p~yD---~eRfGi~~~~SP----------------RqADvLIVtGtVT~kMa  136 (140)
                      |-+.+|+..+||+||.+||+.+..|+||   ++|||+.+.+||                ||+|||||+|+|+++|.
T Consensus         6 ~~~v~wl~~~~C~GC~isll~~~~p~~~~ll~~~i~i~~~~s~~~~~g~~a~~~~~~~~~~~diliVeGsV~~~~~   81 (264)
T 1yq9_A            6 RPSVVYLHNAECTGCSESVLRTVDPYVDELILDVISMDYHETLMAGAGHAVEEALHEAIKGDFVCVIEGGIPMGDG   81 (264)
T ss_dssp             SCEEEEEECBCCSHHHHHHHTCTTTTHHHHHHHTCEEEECTTTCSSCTHHHHHHHHHHTTSSEEEEEESBEECGGG
T ss_pred             CCcEEEEeCCccCchHHHHHhcCCcCHHHHHhhheeeEecCChhhhcchhHHHHHhhhccCCeEEEEeCCcccCCC
Confidence            4467888888999999999999999999   499999999999                99999999999999984

>1wui_S Periplasmic [NIFE] hydrogenase small subunit; high resolution [NIFE]hydrogenase, oxidoreductase, NI-A state, unready state; HET: NFC; 1.04A {Desulfovibrio vulgaris str} SCOP: e.19.1.1 PDB: 1h2r_S 1ubj_S 1ubh_S 1ubl_S 1ubm_S 1ubo_S 1ubr_S 1ubt_S 1ubu_S 1wuh_S* 1ubk_S* 1wuj_S 1wuk_S 1wul_S 1e3d_A*

Probab=99.15  E-value=4.1e-12  Score=104.97  Aligned_cols=56  Identities=14%  Similarity=0.130  Sum_probs=50.4

Q ss_pred             HhCCccceeecCCchHHHHhhhCCcchh----------------------hcccCccccCCcccccEEEEccccccchh
Q 037421           80 RRGSIWPMSFGLACCAVEMMHTGAARYD----------------------LDRFGIIFRPSPRQSDVMVVAGTLTNKMA  136 (140)
Q Consensus        80 R~~Slwp~~~g~acC~iEm~a~~~p~yD----------------------~eRfGi~~~~SPRqADvLIVtGtVT~kMa  136 (140)
                      |-..+|+-.++|+||.+||+.+..|.||                      +||||+.++++||| |||||+|+|+++|.
T Consensus         6 r~~v~wl~~~~C~GC~isll~~~~p~~d~lll~~i~l~y~~~l~~~~g~~~e~~~~~~~~~p~~-Dil~VeG~V~~~~~   83 (267)
T 1wui_S            6 RPSVVYLHNAECTGCSESVLRAFEPYIDTLILDTLSLDYHETIMAAAGDAAEAALEQAVNSPHG-FIAVVEGGIPTAAN   83 (267)
T ss_dssp             SCEEEEEECBCCSHHHHHHHTCTTTTHHHHHHTTCEEEECTTTCSCCHHHHHHHHHHHHTCTTC-EEEEEESBEECGGG
T ss_pred             CccEEEEecCccCcHHHHHHhcCCCCHHHHHhhheeeeecchhhhhhhHHHHHHHHHHhcCCCC-eEEEEeCCCccCCC
Confidence            4467888888999999999999999999                      67788878899999 99999999999997

>2wpn_A Periplasmic [nifese] hydrogenase, small subunit; metal-binding, oxidoreductase, oxygen tolerance; HET: FSX SBY PSW; 2.04A {Desulfovibrio vulgaris}

Probab=99.12  E-value=1.2e-11  Score=104.65  Aligned_cols=55  Identities=15%  Similarity=0.338  Sum_probs=50.2

Q ss_pred             CCccceeecCCchHHHHhhhCCcchhh---cccCccccCCc-------------------ccccEEEEccccccchh
Q 037421           82 GSIWPMSFGLACCAVEMMHTGAARYDL---DRFGIIFRPSP-------------------RQSDVMVVAGTLTNKMA  136 (140)
Q Consensus        82 ~Slwp~~~g~acC~iEm~a~~~p~yD~---eRfGi~~~~SP-------------------RqADvLIVtGtVT~kMa  136 (140)
                      +.+|+-.++|+||.+||+.+..|+||.   +|||+.++++|                   ||+|||||+|+|+++|.
T Consensus        43 ~v~wl~~~~C~GC~isll~~~~p~~d~ll~~~i~l~~~~slm~~~g~~a~~~l~~~~~~~~~~DIliVEGsV~~~~~  119 (317)
T 2wpn_A           43 PVFWLQGQGCTGCSVTLLNSVHPSIADVLLKVISLEFHPTVMAWEGEHAIEHMRKVAEKFKGKFFLVIEGSVPVEAD  119 (317)
T ss_dssp             EEEEEESBCCSHHHHHHHTCCCTTHHHHHHHTCEEEECTTTCSCCHHHHHHHHHHHHHHTTTTEEEEEESBEECTGG
T ss_pred             eEEEEeCCcCCcHHHHHHhcCCCCHHHHHhhceeeEecCchhhhcchHHHHHHHHHhccCCCCeEEEEeCCcccCCC
Confidence            566666668999999999999999999   99999999976                   99999999999999986

>1h2a_S Hydrogenase; SO ligand, hydrogen metabolism, Mg center, MIR, MAD, oxidoreductase; 1.80A {Desulfovibrio vulgaris str} SCOP: e.19.1.1

Probab=99.09  E-value=9.6e-12  Score=105.19  Aligned_cols=56  Identities=18%  Similarity=0.238  Sum_probs=48.6

Q ss_pred             HHhCCccceeecCCchHHHHhhhCCcchh---hcccCcc-------------------ccCCcccccEEEEccccccch
Q 037421           79 IRRGSIWPMSFGLACCAVEMMHTGAARYD---LDRFGII-------------------FRPSPRQSDVMVVAGTLTNKM  135 (140)
Q Consensus        79 ~R~~Slwp~~~g~acC~iEm~a~~~p~yD---~eRfGi~-------------------~~~SPRqADvLIVtGtVT~kM  135 (140)
                      .|...+|+..+||+||.+||+.+..|.||   ++++++.                   ++++||| |||||+|+|+++|
T Consensus        55 ~r~~v~Wl~~~~C~GC~is~l~~~~p~~d~lll~~i~l~y~~~lm~~~G~~ae~~~~~~~~~pr~-DIliVeGsV~~~~  132 (317)
T 1h2a_S           55 RRPSVVYLHNAECTGCSESVLRAFEPYIDTLILDTLSLDYHETIMAAAGDAAEAALEQAVNSPHG-FIAVVEGGIPTAA  132 (317)
T ss_dssp             SSCEEEEEECBCCSHHHHHHTTCTTTTHHHHHHTTCEEEECTTTCSCCHHHHHHHHHHHHSCTTC-CEEEEESBEECGG
T ss_pred             CCCeEEEeeCCccCcHHHHHHhcCCCCHHHHHhhceeeeecchhhhhchhHHHHHHHHHhcCCCC-eEEEEeCCCcCCC
Confidence            47789999999999999999999999999   4555444                   4558999 9999999999999

>1cc1_S Hydrogenase (small subunit); NI-Fe-Se hydrogenase, oxidoreductase; 2.15A {Desulfomicrobium baculatum} SCOP: e.19.1.1

Probab=99.09  E-value=2.1e-11  Score=101.61  Aligned_cols=55  Identities=20%  Similarity=0.410  Sum_probs=50.9

Q ss_pred             CCccceeecCCchHHHHhhhCCcchhh---cccCccccCCc-------------------ccccEEEEccccccchh
Q 037421           82 GSIWPMSFGLACCAVEMMHTGAARYDL---DRFGIIFRPSP-------------------RQSDVMVVAGTLTNKMA  136 (140)
Q Consensus        82 ~Slwp~~~g~acC~iEm~a~~~p~yD~---eRfGi~~~~SP-------------------RqADvLIVtGtVT~kMa  136 (140)
                      +.+|+-..+|+||.+||+.+..|+||.   +|||+.|++||                   ||+|||||+|+|+++|.
T Consensus         9 ~v~wl~~~~C~GC~isll~~~~p~~~~ll~~~i~l~~~~sl~~~~g~~a~~~l~~~~~~~~~~DilvVEGsV~~~~~   85 (283)
T 1cc1_S            9 PVIWVQGQGCTGCSVSLLNAVHPRIKEILLDVISLEFHPTVMASEGEMALAHMYEIAEKFNGNFFLLVEGAIPTAKE   85 (283)
T ss_dssp             EEEEEESBCCSHHHHHHHTCBTTBHHHHHHHTEEEEECTTTCSCCHHHHHHHHHHHHHHTTTSSEEEEESBEECGGG
T ss_pred             cEEEEecCccCcHHHHHHhccCCCHHHHHhhceeEEeccchhhhcchHHHHHHHHHHhcCCCceEEEEeCCcccCCC
Confidence            456766678999999999999999999   99999999997                   99999999999999998

>3ayx_B Membrane-bound hydrogenase small subunit; oxidoreductase, membrane-bound NI-Fe hydrogenase; 1.18A {Hydrogenovibrio marinus} PDB: 3ayy_B 3ayz_B

Probab=98.63  E-value=9.4e-09  Score=85.77  Aligned_cols=54  Identities=9%  Similarity=0.217  Sum_probs=45.2

Q ss_pred             Cccceee---cCCchHHHHhhhCCcch-hh--cccCccccCC-------------------cccccEEEEccccccchh
Q 037421           83 SIWPMSF---GLACCAVEMMHTGAARY-DL--DRFGIIFRPS-------------------PRQSDVMVVAGTLTNKMA  136 (140)
Q Consensus        83 Slwp~~~---g~acC~iEm~a~~~p~y-D~--eRfGi~~~~S-------------------PRqADvLIVtGtVT~kMa  136 (140)
                      ++|++.+   +|+||.+|++.+..|.| |+  +.+++.+.++                   +||+|||||+|+|+++|.
T Consensus        12 ~~~v~wl~~~~C~GC~islL~~~~P~~~d~l~~~i~l~~~~tl~~a~g~~a~~~l~~~~~~~~~~dilvVeG~V~~~~~   90 (283)
T 3ayx_B           12 RTPVIWLHGLECTCCSESFIRSAHPLAKDVVLSMISLDYDDTLMAASGHAAEAILDEIKEKYKGNYILAVEGNPPLNQD   90 (283)
T ss_dssp             CEEEEEEECBCCSHHHHHHHTCSSSCHHHHHHHTEEEEEETTTCSCCHHHHHHHHHHHHHHTTTTEEEEEESBCBCSGG
T ss_pred             CceEEEEeCCccCcHHHHHHhcCCCcHHHHHhhceeEEEecchhhhcchhHHHHHHHHhccCCCCeEEEEeCCCccCCC
Confidence            4555444   69999999999999999 74  5678888766                   489999999999999996

>1yqw_A Periplasmic [NIFE] hydrogenase small subunit; NI-Fe hydrogenase unready state, oxidoreductase; 1.83A {Desulfovibrio fructosovorans} PDB: 3cur_A 3cus_A 3h3x_A 1yrq_A 1frf_S

Probab=98.37  E-value=1e-07  Score=78.76  Aligned_cols=54  Identities=17%  Similarity=0.161  Sum_probs=45.2

Q ss_pred             CCccceee---cCCchHHHHhhhCCcchh-h--cccCccccCC-------------------cccccEEEEccccccchh
Q 037421           82 GSIWPMSF---GLACCAVEMMHTGAARYD-L--DRFGIIFRPS-------------------PRQSDVMVVAGTLTNKMA  136 (140)
Q Consensus        82 ~Slwp~~~---g~acC~iEm~a~~~p~yD-~--eRfGi~~~~S-------------------PRqADvLIVtGtVT~kMa  136 (140)
                      ..+|++.+   +|+||.+|+..+..|.|| +  +++++.+.++                   ++| |||||+|+|+++|.
T Consensus         5 ~~~~v~wl~~~~C~GC~isll~~~~P~~d~ll~~~i~l~~~~tlm~a~g~~a~~~~~~~~~~~~~-dil~VeG~V~~~~~   83 (264)
T 1yqw_A            5 HRPSVVWLHNAECTGCTEAAIRTIKPYIDALILDTISLDYQETIMAAAGEAAEAALHQALEGKDG-YYLVVEGGLPTIDG   83 (264)
T ss_dssp             CCCEEEEEECBCCSHHHHHHTTCBTTBHHHHHHHTCEEEEETTTCSCCHHHHHHHHHHHHTCTTC-EEEEEESBEECGGG
T ss_pred             CCceEEEEeCCccCcHHHHHHHcCCCCHHHHHhcceEEEEecchhhhchhhHHHHHHHHhccCCC-eEEEEeCCcccCCC
Confidence            34555555   499999999999999999 4  7888887665                   478 99999999999997

>3uqy_S Hydrogenase-1 small chain; membrane-bound hydrogenase, oxidoreductase; HET: LMT; 1.47A {Escherichia coli} PDB: 3usc_S* 3use_S*

Probab=97.18  E-value=0.00015  Score=61.99  Aligned_cols=52  Identities=12%  Similarity=0.243  Sum_probs=39.3

Q ss_pred             ccceeecCCchHHHHhhhCCcchh--hcccCccccCCc---------------------ccccEEEEccccccchh
Q 037421           84 IWPMSFGLACCAVEMMHTGAARYD--LDRFGIIFRPSP---------------------RQSDVMVVAGTLTNKMA  136 (140)
Q Consensus        84 lwp~~~g~acC~iEm~a~~~p~yD--~eRfGi~~~~SP---------------------RqADvLIVtGtVT~kMa  136 (140)
                      +|.-..+|+||.++++.+..|.+|  +.. +|.+...|                     +++|||||+|+|+++|.
T Consensus        10 iWl~~~~CtGCs~SlL~~~~P~l~~lll~-~I~L~yhptlm~~~G~~ae~~l~~~~~~~~~~dILlVeGsV~~~~~   84 (335)
T 3uqy_S           10 VWIHGLECTCCTESFIRSAHPLAKDVILS-LISLDYDDTLMAAAGTQAEEVFEDIITQYNGKYILAVEGNPPLGEQ   84 (335)
T ss_dssp             EEEECBCCSHHHHHHHTCBTTBHHHHHHH-TEEEEEETTTCSCCHHHHHHHHHHHHHHTTTTEEEEEESBCBCGGG
T ss_pred             EEEeCCccCchHHHHHCCCCCCHHHHHhc-CceEeechhhhhhhhHHHHHHHHHHHhcCCCCeEEEEeccCCCCCC
Confidence            454333699999999999999999  322 34333333                     67999999999999997

>3rgw_S Membrane-bound hydrogenase (NIFE) small subunit H; [NIFE] hydrogenase, high-resolution knallgasbacteria, proteobacteria; 1.50A {Ralstonia eutropha}

Probab=96.77  E-value=0.00049  Score=58.88  Aligned_cols=46  Identities=11%  Similarity=0.160  Sum_probs=35.8

Q ss_pred             cCCchHHHHhhhCCcchhh-cccCcc--ccC-------------------CcccccEEEEccccccch
Q 037421           90 GLACCAVEMMHTGAARYDL-DRFGII--FRP-------------------SPRQSDVMVVAGTLTNKM  135 (140)
Q Consensus        90 g~acC~iEm~a~~~p~yD~-eRfGi~--~~~-------------------SPRqADvLIVtGtVT~kM  135 (140)
                      +|+||.++++.+..|.+|- -..+|.  +.+                   -++++|||||+|.|+++|
T Consensus        16 ~CtGCt~SlL~~~~P~l~~ll~~~I~L~yhptlm~~~G~~a~~~l~~~~~~~~~~dILlVEGsV~~~~   83 (339)
T 3rgw_S           16 ECTCCSESFIRSAHPLAKDVVLSMISLDYDDTLMAAAGHQAEAILEEIMTKYKGNYILAVEGNPPLNQ   83 (339)
T ss_dssp             CCSHHHHHHTTCBTTBHHHHHHHTEEEEEETTTCSCCHHHHHHHHHHHHHHTTTCSEEEEESBCBCSG
T ss_pred             cCCchHHHHHcCCCCCHHHHHhCCeeEEecchhhhhhhHHHHHHHHHHHhccCCCcEEEEeeeccCCC
Confidence            6999999999999999872 222343  322                   147899999999999998

>3myr_A Hydrogenase (NIFE) small subunit HYDA; [NIFE] hydrogenase, photosynthetic P sulfur bacterium, iron-sulfur cluster, NI-A state; HET: SF4; 2.10A {Allochromatium vinosum} SCOP: e.19.1.0

Probab=96.35  E-value=0.0015  Score=54.15  Aligned_cols=52  Identities=17%  Similarity=0.348  Sum_probs=38.6

Q ss_pred             ccceeecCCchHHHHhhhCCcchh---hcccCccccCCc-------------------ccccEEEEccccc--cch
Q 037421           84 IWPMSFGLACCAVEMMHTGAARYD---LDRFGIIFRPSP-------------------RQSDVMVVAGTLT--NKM  135 (140)
Q Consensus        84 lwp~~~g~acC~iEm~a~~~p~yD---~eRfGi~~~~SP-------------------RqADvLIVtGtVT--~kM  135 (140)
                      +|.-..+|+||.++++.+..|.+|   ++..-+.+.++-                   +.+|||||+|.|+  .+|
T Consensus         7 iWl~~~~C~GCt~SlL~~~~p~l~~ll~~~I~l~yhptl~~~~G~~a~~~l~~~~~~~~~~dilvVEGsV~~p~~~   82 (269)
T 3myr_A            7 IWLSFQECTGCTESLTRAHAPTLEDLILDFISLDYHHTLQAASGEAAEAARLQAMDENRGQYLVIVDGSIPGPDAN   82 (269)
T ss_dssp             EEEECBCCSHHHHHHHHCCSSCHHHHHHHTCEEEECTTTCSSCHHHHHHHHHHHHHHTTTTCEEEEESBEECTTSC
T ss_pred             EEEeCCccCchHHHHHCCCCCCHHHHHhCCeeEEechhhhhhhhHHHHHHHHHHHhcCCCCeEEEEeccCCCCcCC
Confidence            566444799999999999999998   333333343321                   6799999999999  666

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	140
d2fug61	161	e.19.1.2 (6:15-175) NAD-quinone oxidoreductase cha	7e-31

>d2fug61 e.19.1.2 (6:15-175) NAD-quinone oxidoreductase chain 6, Nqo6 {Thermus thermophilus [TaxId: 274]} Length = 161

class: Multi-domain proteins (alpha and beta)
fold: HydA/Nqo6-like
superfamily: HydA/Nqo6-like
family: Nq06-like
domain: NAD-quinone oxidoreductase chain 6, Nqo6
species: Thermus thermophilus [TaxId: 274]

 Score =  106 bits (266), Expect = 7e-31
 Identities = 41/75 (54%), Positives = 55/75 (73%), Gaps = 1/75 (1%)

Query: 67  FVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGI-IFRPSPRQSDVM 125
            + + L+ +V + R  S+WP +FGLACCA+EMM +  AR DL RFG  +FR SPRQ+DVM
Sbjct: 5   ILFTTLEKLVAWGRSNSLWPATFGLACCAIEMMASTDARNDLARFGSEVFRASPRQADVM 64

Query: 126 VVAGTLTNKMAPALR 140
           +VAG L+ KMAP +R
Sbjct: 65  IVAGRLSKKMAPVMR 79

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	140
d2fug61	161	NAD-quinone oxidoreductase chain 6, Nqo6 {Thermus	100.0
d1wuis1	267	Nickel-iron hydrogenase, small subunit {Desulfovib	97.07
d1frfs_	261	Nickel-iron hydrogenase, small subunit {Desulfovib	96.56
d1yq9a1	261	Nickel-iron hydrogenase, small subunit {Desulfovib	95.57
d1cc1s_	278	Nickel-iron hydrogenase, small subunit {Desulfomic	95.32

>d2fug61 e.19.1.2 (6:15-175) NAD-quinone oxidoreductase chain 6, Nqo6 {Thermus thermophilus [TaxId: 274]}

class: Multi-domain proteins (alpha and beta)
fold: HydA/Nqo6-like
superfamily: HydA/Nqo6-like
family: Nq06-like
domain: NAD-quinone oxidoreductase chain 6, Nqo6
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=5.3e-36  Score=232.46  Aligned_cols=77  Identities=53%  Similarity=1.002  Sum_probs=58.6

Q ss_pred             cchhhhhhHHHHHHHHHhCCccceeecCCchHHHHhhhCCcchhhcccCc-cccCCcccccEEEEccccccchhcccC
Q 037421           64 TAEFVISKLDDVVNYIRRGSIWPMSFGLACCAVEMMHTGAARYDLDRFGI-IFRPSPRQSDVMVVAGTLTNKMAPALR  140 (140)
Q Consensus        64 ~~~~i~~~ld~l~nW~R~~Slwp~~~g~acC~iEm~a~~~p~yD~eRfGi-~~~~SPRqADvLIVtGtVT~kMap~Lr  140 (140)
                      ..+++.+++|+++||+|++|+||+||||+||++||+++.+|+||+||||+ .|++||||||+|||+|+||+||+|+|+
T Consensus         2 ~~~~i~t~~~~~~nw~r~~Slw~~~~g~~cC~iE~~a~~~p~yD~eRfG~~~~~~sPR~ADvllVtG~vT~km~~~l~   79 (161)
T d2fug61           2 REGILFTTLEKLVAWGRSNSLWPATFGLACCAIEMMASTDARNDLARFGSEVFRASPRQADVMIVAGRLSKKMAPVMR   79 (161)
T ss_dssp             TTSHHHHHHHHHHHHHHHHCCCCCCEECSHHHHHTGGGCCC-----------------CCCCEEEESCCBTTTHHHHH
T ss_pred             CCceEEeeHHHHHHHHHhCCCceeeccccccHHHHhhccCCccchhhhcccccCCCcccCcEEEEeccchHHHHHHHH
Confidence            46899999999999999999999999999999999999999999999999 589999999999999999999999874

>d1wuis1 e.19.1.1 (S:1-267) Nickel-iron hydrogenase, small subunit {Desulfovibrio vulgaris [TaxId: 881]}

class: Multi-domain proteins (alpha and beta)
fold: HydA/Nqo6-like
superfamily: HydA/Nqo6-like
family: Nickel-iron hydrogenase, small subunit
domain: Nickel-iron hydrogenase, small subunit
species: Desulfovibrio vulgaris [TaxId: 881]

Probab=97.07  E-value=8.1e-05  Score=59.24  Aligned_cols=55  Identities=9%  Similarity=0.123  Sum_probs=42.2

Q ss_pred             CCccceeecCCchHHHHhhhCCcchhhcccC-ccccC--------------------CcccccEEEEccccccchh
Q 037421           82 GSIWPMSFGLACCAVEMMHTGAARYDLDRFG-IIFRP--------------------SPRQSDVMVVAGTLTNKMA  136 (140)
Q Consensus        82 ~Slwp~~~g~acC~iEm~a~~~p~yD~eRfG-i~~~~--------------------SPRqADvLIVtGtVT~kMa  136 (140)
                      +-+|.-..+|+||.++++.+..|.+|...++ |.++-                    .+++.||+||+|.|++++.
T Consensus         8 ~v~Wl~~~~C~GC~iSlL~~~~p~~d~~~~~~i~l~y~p~lm~~~g~~~~~~~~~~~~~~~~dilvVEGsI~~~~~   83 (267)
T d1wuis1           8 SVVYLHNAECTGCSESVLRAFEPYIDTLILDTLSLDYHETIMAAAGDAAEAALEQAVNSPHGFIAVVEGGIPTAAN   83 (267)
T ss_dssp             EEEEEECBCCSHHHHHHHTCTTTTHHHHHHTTCEEEECTTTCSCCHHHHHHHHHHHHTCTTCEEEEEESBEECGGG
T ss_pred             cEEEEeCCcCCChHHHHHccCCCCHHHHHhCCeeEEeccccchhhhHHHHHHHHHHhcccCCeEEEEecccCcccc
Confidence            4577666689999999999999999854443 33333                    3478999999999988764

>d1frfs_ e.19.1.1 (S:) Nickel-iron hydrogenase, small subunit {Desulfovibrio fructosovorans [TaxId: 878]}

class: Multi-domain proteins (alpha and beta)
fold: HydA/Nqo6-like
superfamily: HydA/Nqo6-like
family: Nickel-iron hydrogenase, small subunit
domain: Nickel-iron hydrogenase, small subunit
species: Desulfovibrio fructosovorans [TaxId: 878]

Probab=96.56  E-value=0.00055  Score=54.16  Aligned_cols=52  Identities=19%  Similarity=0.328  Sum_probs=40.2

Q ss_pred             ccceeecCCchHHHHhhhCCcchh---hcccCccccCC------------------cccccEEEEccccccch
Q 037421           84 IWPMSFGLACCAVEMMHTGAARYD---LDRFGIIFRPS------------------PRQSDVMVVAGTLTNKM  135 (140)
Q Consensus        84 lwp~~~g~acC~iEm~a~~~p~yD---~eRfGi~~~~S------------------PRqADvLIVtGtVT~kM  135 (140)
                      +|.-..+|+||.++++.+..|.+|   ++.+-+++.++                  +++.|++||+|.|++++
T Consensus         7 iWl~~~~C~GCs~S~l~~~~p~l~~~l~~~i~l~y~p~lm~~~g~~~~~~l~~~~~~~~~~vl~VEGsV~~~~   79 (261)
T d1frfs_           7 VWLHNAECTGCTEAAIRTIKPYIDALILDTISLDYQETIMAAAGETSEAALHEALEGKDGYYLVVEGGLPTID   79 (261)
T ss_dssp             EEEECBCCSHHHHHHTTCTTTTHHHHHHHTCEEEECTTTCSCCHHHHHHHHHHHHHCSSCCEEEEESBEECHH
T ss_pred             EEEeCCcCCchHHHHHccCCCcHHHHHhCCeeEEeccccchhcchHHHHHHHHHhcccCCcEEEEecCCccCC
Confidence            565444799999999999999999   55555554332                  37889999999998865

>d1yq9a1 e.19.1.1 (A:4-264) Nickel-iron hydrogenase, small subunit {Desulfovibrio gigas [TaxId: 879]}

class: Multi-domain proteins (alpha and beta)
fold: HydA/Nqo6-like
superfamily: HydA/Nqo6-like
family: Nickel-iron hydrogenase, small subunit
domain: Nickel-iron hydrogenase, small subunit
species: Desulfovibrio gigas [TaxId: 879]

Probab=95.57  E-value=0.0028  Score=49.89  Aligned_cols=53  Identities=15%  Similarity=0.214  Sum_probs=37.9

Q ss_pred             CccceeecCCchHHHHhhhCCcchh---hcccCccccC----------------CcccccEEEEccccccch
Q 037421           83 SIWPMSFGLACCAVEMMHTGAARYD---LDRFGIIFRP----------------SPRQSDVMVVAGTLTNKM  135 (140)
Q Consensus        83 Slwp~~~g~acC~iEm~a~~~p~yD---~eRfGi~~~~----------------SPRqADvLIVtGtVT~kM  135 (140)
                      -+|.-..+|+||.++++.+..|.+|   ++.+-+++.+                .++..||+||+|.|.+++
T Consensus         6 v~Wl~~~~C~GC~~S~L~~~~p~l~~~l~~~i~l~y~p~l~~~~g~~~~~~~~~~~~~~dvlvVEGsV~~~~   77 (261)
T d1yq9a1           6 VVYLHNAECTGCSESVLRTVDPYVDELILDVISMDYHETLMAGAGHAVEEALHEAIKGDFVCVIEGGIPMGD   77 (261)
T ss_dssp             EEEEECBCCSHHHHHHHTCTTTTHHHHHHHTCEEEECTTTCSSCTHHHHHHHHHHTTSSEEEEEESBEECGG
T ss_pred             EEEEeCCcCCChHHHHHccCCCCHHHHHhCceEEEeccccchhhhHHHHHHHHhcccCCeEEEeeccccCCC
Confidence            4564444699999999999999887   3333333322                237789999999998764

>d1cc1s_ e.19.1.1 (S:) Nickel-iron hydrogenase, small subunit {Desulfomicrobium baculatum [TaxId: 899]}

class: Multi-domain proteins (alpha and beta)
fold: HydA/Nqo6-like
superfamily: HydA/Nqo6-like
family: Nickel-iron hydrogenase, small subunit
domain: Nickel-iron hydrogenase, small subunit
species: Desulfomicrobium baculatum [TaxId: 899]

Probab=95.32  E-value=0.0017  Score=51.56  Aligned_cols=52  Identities=21%  Similarity=0.413  Sum_probs=37.2

Q ss_pred             ccceeecCCchHHHHhhhCCcchh---hcccCccc-------------------cCCcccccEEEEccccccch
Q 037421           84 IWPMSFGLACCAVEMMHTGAARYD---LDRFGIIF-------------------RPSPRQSDVMVVAGTLTNKM  135 (140)
Q Consensus        84 lwp~~~g~acC~iEm~a~~~p~yD---~eRfGi~~-------------------~~SPRqADvLIVtGtVT~kM  135 (140)
                      +|.-.-+|+||.+++..+..|.+|   ++.+-+.+                   ...+++.||+||+|.|.++.
T Consensus         6 vWl~~~sC~GC~iS~ln~~~p~l~~~ll~~i~l~yhp~l~~~~g~~~~~~~~~~~~~~~~~dillVEGsI~~~~   79 (278)
T d1cc1s_           6 IWVQGQGCTGCSVSLLNAVHPRIKEILLDVISLEFHPTVMASEGEMALAHMYEIAEKFNGNFFLLVEGAIPTAK   79 (278)
T ss_dssp             EEEESBCCSHHHHHHHTCBTTBHHHHHHHTEEEEECTTTCSCCHHHHHHHHHHHHHHTTTSSEEEEESBEECGG
T ss_pred             EEecCCCCCchHHHHHcCCCCCHHHHHhccEEEeecchhhhhhhHHHHHHHHHHhhccCCCeEEEeccCcCCCc
Confidence            574334699999999999888887   22322222                   34567899999999997654