NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|500719464|ref|WP_011979961|]
View 

cytochrome c [Sulfurovum sp. NBC37-1]

Protein Classification

c-type cytochrome( domain architecture ID 11449528)

c-type cytochrome is an electron carrier protein that contains one or more heme groups; similar to Thermus thermophilus cytochrome c-552, which is a monoheme basic protein that appears to function as an electron donor to cytochrome oxidase

CATH:  1.10.760.10
Gene Ontology:  GO:0020037|GO:0009055|GO:0046872
PubMed:  31252007|22723177|18568041|12594933|10647174|10395550
SCOP:  3000815

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
CccA COG2010
Cytochrome c, mono- and diheme variants [Energy production and conversion];
17-101 1.94e-12

Cytochrome c, mono- and diheme variants [Energy production and conversion];


:

Pssm-ID: 441613 [Multi-domain]  Cd Length: 169  Bit Score: 59.96  E-value: 1.94e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464  17 ADVEKGKAVYAANCAICHTVNGGNALGPDFNMVSytrtkeeIAAYAKDPYSLYK--KFGHSANAMPTLP--LEDQEFKDV 92
Cdd:COG2010   87 EALARGKALYEQNCAACHGADGKGGLGAAPNLTD-------DALYGGDPEALVEtiLNGRPGGAMPAFGgqLSDEEIAAL 159


                 ....*....
gi 500719464  93 ADYISSLQP 101
Cdd:COG2010  160 AAYLRSLSG 168
 
Name Accession Description Interval E-value
CccA COG2010
Cytochrome c, mono- and diheme variants [Energy production and conversion];
17-101 1.94e-12

Cytochrome c, mono- and diheme variants [Energy production and conversion];


Pssm-ID: 441613 [Multi-domain]  Cd Length: 169  Bit Score: 59.96  E-value: 1.94e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464  17 ADVEKGKAVYAANCAICHTVNGGNALGPDFNMVSytrtkeeIAAYAKDPYSLYK--KFGHSANAMPTLP--LEDQEFKDV 92
Cdd:COG2010   87 EALARGKALYEQNCAACHGADGKGGLGAAPNLTD-------DALYGGDPEALVEtiLNGRPGGAMPAFGgqLSDEEIAAL 159


                 ....*....
gi 500719464  93 ADYISSLQP 101
Cdd:COG2010  160 AAYLRSLSG 168
Cytochrom_C pfam00034
Cytochrome c; The Pfam entry does not include all Prosite members. The cytochrome 556 and ...
 20-100 3.35e-11

Cytochrome c; The Pfam entry does not include all Prosite members. The cytochrome 556 and cytochrome c' families are not included. All these are now in a new clan together. The C-terminus of DUF989, pfam06181, has now been merged into this family.


Pssm-ID: 459641 [Multi-domain]  Cd Length: 89  Bit Score: 54.85  E-value: 3.35e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464   20 EKGKAVYAANCAICHTVN--GGNALGPDFNMVSYTRTKEEIAAYAKDP--YSLYKKFGHSANAMPTLP----LEDQEFKD 91
Cdd:pfam00034   1 ARGKKLFAANCAACHGVNgeGAGAGGPDLAGLAARYPGDALGAIRENKhaIGGGGVDRAGGPPGTGMPafdgLTDEEIAD 80


                  ....*....
gi 500719464   92 VADYISSLQ 100
Cdd:pfam00034  81 LVAYLLSLS 89
petJ CHL00183
cytochrome c553; Provisional
 3-98 3.97e-07

cytochrome c553; Provisional


Pssm-ID: 177085  Cd Length: 108  Bit Score: 44.77  E-value: 3.97e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464   3 KTLLLIFLLGTSLF---------ADVEKGKAVYAANCAICHTvNGGNALGPDfnmvsytRTKEEIAAYAKDPYSLYK--- 70
Cdd:CHL00183   1 KNLIIGFLISCFALisfsqpafaADLDNGEQIFSANCAACHA-GGNNVIMPE-------KTLKKDALEANSMNSIEAity 72

                         90       100       110
                 ....*....|....*....|....*....|
gi 500719464  71 KFGHSANAMPTLP--LEDQEFKDVADYISS 98
Cdd:CHL00183  73 QVTNGKNAMPAFGgrLSDEDIEDVANYVLS 102
CxxCH_TIGR02603 TIGR02603
putative heme-binding domain, Pirellula/Verrucomicrobium type; This model represents a domain ...
 17-58 4.54e-06

putative heme-binding domain, Pirellula/Verrucomicrobium type; This model represents a domain limited to very few species but expanded into large paralogous families in some species that conain it. We find it in over 20 copies each in Pirellula sp. strain 1 (phylum Planctomycetes) and Verrucomicrobium spinosum DSM 4136 (phylum Verrucomicrobia), and no matches above trusted cutoff an any other species so far. This domain, about 140 amino acids long, contains an absolutely conserved motif CxxCH, the cytochrome c family heme-binding site signature (PS00190).


Pssm-ID: 274224  Cd Length: 133  Bit Score: 42.35  E-value: 4.54e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 500719464   17 ADVEKGKAVYAANCAICHTVNG-GNALGPDFNMVSyTRTKEEI 58
Cdd:TIGR02603   1 GDAARGKAVFAKVCYLCHRIGGqGVDFGPNLTTVG-TKGKEYL 42
 
Name Accession Description Interval E-value
CccA COG2010
Cytochrome c, mono- and diheme variants [Energy production and conversion];
17-101 1.94e-12

Cytochrome c, mono- and diheme variants [Energy production and conversion];


Pssm-ID: 441613 [Multi-domain]  Cd Length: 169  Bit Score: 59.96  E-value: 1.94e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464  17 ADVEKGKAVYAANCAICHTVNGGNALGPDFNMVSytrtkeeIAAYAKDPYSLYK--KFGHSANAMPTLP--LEDQEFKDV 92
Cdd:COG2010   87 EALARGKALYEQNCAACHGADGKGGLGAAPNLTD-------DALYGGDPEALVEtiLNGRPGGAMPAFGgqLSDEEIAAL 159


                 ....*....
gi 500719464  93 ADYISSLQP 101
Cdd:COG2010  160 AAYLRSLSG 168
TsdA COG3258
Thiosulfate dehydrogenase TsdA, contains C-terminal cytochrome c domain [Inorganic ion ...
 17-100 3.95e-12

Thiosulfate dehydrogenase TsdA, contains C-terminal cytochrome c domain [Inorganic ion transport and metabolism];


Pssm-ID: 442489 [Multi-domain]  Cd Length: 216  Bit Score: 59.87  E-value: 3.95e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464  17 ADVEKGKAVYAANCAICHTVNG---GNALG-----PDFNMVSYTrtkeeIAAYAKDPYSLYkKFGHSANaMP---TLPLE 85
Cdd:COG3258  115 ADVERGKALYAERCASCHGADGegqGRADGqygfpPLWGGDSYN-----DGAGMARLGTLA-DFIKGRN-MPlgkPGSLS 187

                         90
                 ....*....|....*
gi 500719464  86 DQEFKDVADYISSLQ 100
Cdd:COG3258  188 DDEAWDVAAYVRSLP 202
Cytochrom_C pfam00034
Cytochrome c; The Pfam entry does not include all Prosite members. The cytochrome 556 and ...
 20-100 3.35e-11

Cytochrome c; The Pfam entry does not include all Prosite members. The cytochrome 556 and cytochrome c' families are not included. All these are now in a new clan together. The C-terminus of DUF989, pfam06181, has now been merged into this family.


Pssm-ID: 459641 [Multi-domain]  Cd Length: 89  Bit Score: 54.85  E-value: 3.35e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464   20 EKGKAVYAANCAICHTVN--GGNALGPDFNMVSYTRTKEEIAAYAKDP--YSLYKKFGHSANAMPTLP----LEDQEFKD 91
Cdd:pfam00034   1 ARGKKLFAANCAACHGVNgeGAGAGGPDLAGLAARYPGDALGAIRENKhaIGGGGVDRAGGPPGTGMPafdgLTDEEIAD 80


                  ....*....
gi 500719464   92 VADYISSLQ 100
Cdd:pfam00034  81 LVAYLLSLS 89
Cytochrome_CBB3 pfam13442
Cytochrome C oxidase, cbb3-type, subunit III;
17-96 9.91e-10

Cytochrome C oxidase, cbb3-type, subunit III;


Pssm-ID: 463879 [Multi-domain]  Cd Length: 67  Bit Score: 50.48  E-value: 9.91e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464   17 ADVEKGKAVYAANCAICHtvnGGNALGPdfNMVSYTRTKEEIAAYAKdpyslykkfgHSANAMP--TLPLEDQEFKDVAD 94
Cdd:pfam13442   1 AAAAAGEALYAANCASCH---GTGGAGP--SLAGRALPPEALVDIIR----------NGKGAMPafGGDLSDEELEALAA 65


                  ..
gi 500719464   95 YI 96
Cdd:pfam13442  66 YL 67
Cyc7 COG3474
Cytochrome c2 [Energy production and conversion];
17-99 1.30e-09

Cytochrome c2 [Energy production and conversion];


Pssm-ID: 442697 [Multi-domain]  Cd Length: 101  Bit Score: 51.04  E-value: 1.30e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464  17 ADVEKGKAVYAANCAICHTVNGG--NALGPDFNMV-----------SY---------TRTKEEIAAYAKDPyslyKKFgH 74
Cdd:COG3474    1 GDAAAGEKLFNRKCAACHSVDGGagNRVGPNLNGVvgrkagsvegfAYsdalkasglVWDEETLDAWLADP----KAF-V 75

                         90       100
                 ....*....|....*....|....*.
gi 500719464  75 SANAMPTLPL-EDQEFKDVADYISSL 99
Cdd:COG3474   76 PGTKMPFAGLkDPEDRADLIAYLKTL 101
CytC553 COG2863
Cytochrome c553 [Energy production and conversion];
1-101 3.75e-09

Cytochrome c553 [Energy production and conversion];


Pssm-ID: 442110 [Multi-domain]  Cd Length: 98  Bit Score: 49.73  E-value: 3.75e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464   1 MKktllLIFLLGTSLFADVEKGKAvYAANCAICHTVNGGNALGPDFNMVSYtRTKEEIAAYAKDpyslYKKFGHSANAMP 80
Cdd:COG2863    1 MK----LALLAAPAAAGDAARGKA-YAAACAACHGADGEGNPGGGAPRLAG-QHAEYLVAQLKA----FRSGARKNGVMP 70

                         90       100
                 ....*....|....*....|...
gi 500719464  81 TL--PLEDQEFKDVADYISSLQP 101
Cdd:COG2863   71 AIakGLSDEDIKALAAYIASLKA 93
petJ CHL00183
cytochrome c553; Provisional
 3-98 3.97e-07

cytochrome c553; Provisional


Pssm-ID: 177085  Cd Length: 108  Bit Score: 44.77  E-value: 3.97e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464   3 KTLLLIFLLGTSLF---------ADVEKGKAVYAANCAICHTvNGGNALGPDfnmvsytRTKEEIAAYAKDPYSLYK--- 70
Cdd:CHL00183   1 KNLIIGFLISCFALisfsqpafaADLDNGEQIFSANCAACHA-GGNNVIMPE-------KTLKKDALEANSMNSIEAity 72

                         90       100       110
                 ....*....|....*....|....*....|
gi 500719464  71 KFGHSANAMPTLP--LEDQEFKDVADYISS 98
Cdd:CHL00183  73 QVTNGKNAMPAFGgrLSDEDIEDVANYVLS 102
CxxCH_TIGR02603 TIGR02603
putative heme-binding domain, Pirellula/Verrucomicrobium type; This model represents a domain ...
 17-58 4.54e-06

putative heme-binding domain, Pirellula/Verrucomicrobium type; This model represents a domain limited to very few species but expanded into large paralogous families in some species that conain it. We find it in over 20 copies each in Pirellula sp. strain 1 (phylum Planctomycetes) and Verrucomicrobium spinosum DSM 4136 (phylum Verrucomicrobia), and no matches above trusted cutoff an any other species so far. This domain, about 140 amino acids long, contains an absolutely conserved motif CxxCH, the cytochrome c family heme-binding site signature (PS00190).


Pssm-ID: 274224  Cd Length: 133  Bit Score: 42.35  E-value: 4.54e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 500719464   17 ADVEKGKAVYAANCAICHTVNG-GNALGPDFNMVSyTRTKEEI 58
Cdd:TIGR02603   1 GDAARGKAVFAKVCYLCHRIGGqGVDFGPNLTTVG-TKGKEYL 42
PRK13697 PRK13697
cytochrome c6; Provisional
 1-96 3.20e-05

cytochrome c6; Provisional


Pssm-ID: 184253 [Multi-domain]  Cd Length: 111  Bit Score: 39.77  E-value: 3.20e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464   1 MKK---TLLLIFLLGTSLF------ADVEKGKAVYAANCAICHtVNGGNALGPDFNMvsytrTKEEIAAYAKDPY-SLYK 70
Cdd:PRK13697   1 MKKilsLVLLGLLLLTFAFsspalaADAANGEQVFSANCASCH-AGGKNLVNAGKTL-----KKADLEKYGMYSLeAITA 74

                         90       100
                 ....*....|....*....|....*...
gi 500719464  71 KFGHSANAMPTLP--LEDQEFKDVADYI 96
Cdd:PRK13697  75 QVTNGKNAMPAFKdrLSPDQIEDVAAYV 102
CytC5 COG3245
Cytochrome c5 [Energy production and conversion];
1-98 3.25e-05

Cytochrome c5 [Energy production and conversion];


Pssm-ID: 442476 [Multi-domain]  Cd Length: 108  Bit Score: 39.66  E-value: 3.25e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464   1 MKKTLLLIFLLGTSLF-------------ADVEKGKAVYAANCAICHTVNGGNALGPDfnmvsytrTKEEIAA-YAKDPY 66
Cdd:COG3245    1 MKKSLLAALALALRIApvgavalaaaaaaAAARSGEAVYNATCAACHATGVAGAPKLG--------DKAAWAPrIAKGMD 72

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 500719464  67 SLYKKFGHSANAMPtlP------LEDQEFKDVADYISS 98
Cdd:COG3245   73 TLLKHAINGFNAMP--PkggcadLSDDEVKAAVDYMVN 108
CytC552 COG4654
Cytochrome c551/c552 [Energy production and conversion];
17-101 4.24e-05

Cytochrome c551/c552 [Energy production and conversion];


Pssm-ID: 443692 [Multi-domain]  Cd Length: 88  Bit Score: 39.11  E-value: 4.24e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464  17 ADVEKGKAVYAAN-CAICHTVNGGnALGPDFnmvsytrtkEEIAA-YAKDPYS---LYKKF--GHSAN----AMPTLP-L 84
Cdd:COG4654    2 ADAAAGKALAKKSgCLACHAVDKK-LVGPSY---------KDVAKkYKGKADAvakLAKKIkkGGSGVwgdvPMPPHPqL 71

                         90
                 ....*....|....*..
gi 500719464  85 EDQEFKDVADYISSLQP 101
Cdd:COG4654   72 SDAEAKALVKWILSLKK 88
ccoP TIGR00782
cytochrome c oxidase, cbb3-type, subunit III; This model describes a di-heme subunit of ...
 22-99 3.11e-04

cytochrome c oxidase, cbb3-type, subunit III; This model describes a di-heme subunit of approximately 26 kDa of the cbb3 type copper and heme-containing cytochrome oxidase. [Energy metabolism, Electron transport]


Pssm-ID: 129864 [Multi-domain]  Cd Length: 285  Bit Score: 38.34  E-value: 3.11e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464   22 GKAVYAANCAICHTVNGGNALG-PDF--NMVSYTRTKEEIAAYAKDPYSLYKKFGHSANAMPTLP--LEDQEFKDVADYI 96
Cdd:TIGR00782 110 GAAIFRTWCAQCHGSGAGGAKGfPNLldNDWLWGGTLEGIHTTIKHGIRDPDDGDTYVGEMPAFGplLEEADIKDVASYV 189


                  ...
gi 500719464   97 SSL 99
Cdd:TIGR00782 190 MSL 192
TsdA COG3258
Thiosulfate dehydrogenase TsdA, contains C-terminal cytochrome c domain [Inorganic ion ...
 1-99 5.64e-04

Thiosulfate dehydrogenase TsdA, contains C-terminal cytochrome c domain [Inorganic ion transport and metabolism];


Pssm-ID: 442489 [Multi-domain]  Cd Length: 216  Bit Score: 37.53  E-value: 5.64e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464   1 MKKTLLLifllgtsLFADVEKGKAVYAA--NCAICHTVNGGNALGPDFNMVSYTRTKEEIAAYAKDpysLYKKFGHSANA 78
Cdd:COG3258    1 MRKLALL-------AAAAARRGEELFTNglSCASCHLDAGTKPWGVAAAYPAYRARNGKVVTLEDR---INGCFTRSMNG 70

                         90       100
                 ....*....|....*....|.
gi 500719464  79 MPtLPLEDQEFKDVADYISSL 99
Cdd:COG3258   71 KP-LPLDSAEMKALVAYLRWL 90
PTZ00048 PTZ00048
cytochrome c; Provisional
 18-45 4.16e-03

cytochrome c; Provisional


Pssm-ID: 185414  Cd Length: 115  Bit Score: 34.06  E-value: 4.16e-03
                         10        20        30
                 ....*....|....*....|....*....|
gi 500719464  18 DVEKGKAVYAANCAICHTVNGGNAL--GPD 45
Cdd:PTZ00048  14 DAKKGAKLFKAKCAQCHTINKGGAVkqGPN 43
PRK14486 PRK14486
putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional
 17-100 4.40e-03

putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional


Pssm-ID: 184704 [Multi-domain]  Cd Length: 294  Bit Score: 35.18  E-value: 4.40e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500719464  17 ADVEKGKAVYAANCAICHTVNGGNALGPDFNMVSYTRTKEeiAAYAKDPYSlykkfGHSANAMPTL--PLEDQEFKDVAD 94
Cdd:PRK14486 213 AAIAKGKALYDANCAACHGDEAQGQEGVALNDIDDGDLPD--AAYFGMIKG-----GSDAKGMPGFggDLSDDDIWAIVA 285


                 ....*.
gi 500719464  95 YISSLQ 100
Cdd:PRK14486 286 YIRSQK 291
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH