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Conserved domains on  [gi|490569054|ref|WP_004434074|]
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MULTISPECIES: cytochrome c family protein [Sinorhizobium]

Protein Classification

c-type cytochrome( domain architecture ID 10007442)

c-type cytochrome is an electron carrier protein that contains one or more heme groups

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Cyc7 COG3474
Cytochrome c2 [Energy production and conversion];
25-126 2.36e-48

Cytochrome c2 [Energy production and conversion];


:

Pssm-ID: 442697 [Multi-domain]  Cd Length: 101  Bit Score: 150.03  E-value: 2.36e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490569054  25 GDAEAGATVF-KKCATCHVIDKD-QNKVGPSLQGVIGRTAGTHADFKYSQAMidaGKGGLVWDDATLAEYLRNPRAKVKG 102
Cdd:COG3474    1 GDAAAGEKLFnRKCAACHSVDGGaGNRVGPNLNGVVGRKAGSVEGFAYSDAL---KASGLVWDEETLDAWLADPKAFVPG 77

                         90       100
                 ....*....|....*....|....
gi 490569054 103 TKMVFPGLKKDEEIANVIAYLKQH 126
Cdd:COG3474   78 TKMPFAGLKDPEDRADLIAYLKTL 101
 
Name Accession Description Interval E-value
Cyc7 COG3474
Cytochrome c2 [Energy production and conversion];
25-126 2.36e-48

Cytochrome c2 [Energy production and conversion];


Pssm-ID: 442697 [Multi-domain]  Cd Length: 101  Bit Score: 150.03  E-value: 2.36e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490569054  25 GDAEAGATVF-KKCATCHVIDKD-QNKVGPSLQGVIGRTAGTHADFKYSQAMidaGKGGLVWDDATLAEYLRNPRAKVKG 102
Cdd:COG3474    1 GDAAAGEKLFnRKCAACHSVDGGaGNRVGPNLNGVVGRKAGSVEGFAYSDAL---KASGLVWDEETLDAWLADPKAFVPG 77

                         90       100
                 ....*....|....*....|....
gi 490569054 103 TKMVFPGLKKDEEIANVIAYLKQH 126
Cdd:COG3474   78 TKMPFAGLKDPEDRADLIAYLKTL 101
PTZ00048 PTZ00048
cytochrome c; Provisional
 24-125 5.80e-32

cytochrome c; Provisional


Pssm-ID: 185414  Cd Length: 115  Bit Score: 109.18  E-value: 5.80e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490569054  24 EGDAEAGATVFK-KCATCHVIDKD-QNKVGPSLQGVIGRTAGThADFKYSqamiDAGK-GGLVWDDATLAEYLRNPRAKV 100
Cdd:PTZ00048  12 EGDAKKGAKLFKaKCAQCHTINKGgAVKQGPNLHGFYGRKSGS-ADFPYS----DANKnSGIVWSDKHLFEYLVNPKLYI 86

                         90       100
                 ....*....|....*....|....*
gi 490569054 101 KGTKMVFPGLKKDEEIANVIAYLKQ 125
Cdd:PTZ00048  87 PGTKMVFAGIKKEKERADLIAYLKE 111
Cytochrom_C pfam00034
Cytochrome c; The Pfam entry does not include all Prosite members. The cytochrome 556 and ...
 28-125 7.89e-09

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: 49.07  E-value: 7.89e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490569054   28 EAGATVFKK-CATCHVID-KDQNKVGPSLQGVIGRTAGTHADFKYsqaMIDAGKGGLVWDdatlaeylrnPRAKVKGTKM 105
Cdd:pfam00034   1 ARGKKLFAAnCAACHGVNgEGAGAGGPDLAGLAARYPGDALGAIR---ENKHAIGGGGVD----------RAGGPPGTGM 67

                          90       100
                  ....*....|....*....|
gi 490569054  106 VFPGLKKDEEIANVIAYLKQ 125
Cdd:pfam00034  68 PAFDGLTDEEIADLVAYLLS 87
CxxCH_TIGR02603 TIGR02603
putative heme-binding domain, Pirellula/Verrucomicrobium type; This model represents a domain ...
 25-124 1.06e-04

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: 39.26  E-value: 1.06e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490569054   25 GDAEAGATVF-KKCATCHVIDKDQNKVGPSLQGVIGRT------------AGTHADFKYSQAMIDAGK--GGLVWDDATL 89
Cdd:TIGR02603   1 GDAARGKAVFaKVCYLCHRIGGQGVDFGPNLTTVGTKGkeylleaildpsRTVAPGFETYRVTTKDGRilAGLVASETAD 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 490569054   90 AEYLRN--------PRAKVKGTK-----MVFPGLK---KDEEIANVIAYLK 124
Cdd:TIGR02603  81 PLTIKMpggveqvvPREEIKKRKhlpvsLMPEGLEmglSDQDLADLVAYLK 131
 
Name Accession Description Interval E-value
Cyc7 COG3474
Cytochrome c2 [Energy production and conversion];
25-126 2.36e-48

Cytochrome c2 [Energy production and conversion];


Pssm-ID: 442697 [Multi-domain]  Cd Length: 101  Bit Score: 150.03  E-value: 2.36e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490569054  25 GDAEAGATVF-KKCATCHVIDKD-QNKVGPSLQGVIGRTAGTHADFKYSQAMidaGKGGLVWDDATLAEYLRNPRAKVKG 102
Cdd:COG3474    1 GDAAAGEKLFnRKCAACHSVDGGaGNRVGPNLNGVVGRKAGSVEGFAYSDAL---KASGLVWDEETLDAWLADPKAFVPG 77

                         90       100
                 ....*....|....*....|....
gi 490569054 103 TKMVFPGLKKDEEIANVIAYLKQH 126
Cdd:COG3474   78 TKMPFAGLKDPEDRADLIAYLKTL 101
PTZ00048 PTZ00048
cytochrome c; Provisional
 24-125 5.80e-32

cytochrome c; Provisional


Pssm-ID: 185414  Cd Length: 115  Bit Score: 109.18  E-value: 5.80e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490569054  24 EGDAEAGATVFK-KCATCHVIDKD-QNKVGPSLQGVIGRTAGThADFKYSqamiDAGK-GGLVWDDATLAEYLRNPRAKV 100
Cdd:PTZ00048  12 EGDAKKGAKLFKaKCAQCHTINKGgAVKQGPNLHGFYGRKSGS-ADFPYS----DANKnSGIVWSDKHLFEYLVNPKLYI 86

                         90       100
                 ....*....|....*....|....*
gi 490569054 101 KGTKMVFPGLKKDEEIANVIAYLKQ 125
Cdd:PTZ00048  87 PGTKMVFAGIKKEKERADLIAYLKE 111
PTZ00405 PTZ00405
cytochrome c; Provisional
 25-124 5.97e-26

cytochrome c; Provisional


Pssm-ID: 173596  Cd Length: 114  Bit Score: 93.95  E-value: 5.97e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490569054  25 GDAEAGATVFK-KCATCHVIDKD-QNKVGPSLQGVIGRTAGTHADFKYSQAMIDAGkggLVWDDATLAEYLRNPRAKVKG 102
Cdd:PTZ00405  12 GDAERGEKLFKgRAAQCHTATKGgSNGVGPNLFGIVNRKSGTVEGFAYSKANADSG---VIWTPEVLDVYLENPKKFMPG 88

                         90       100
                 ....*....|....*....|..
gi 490569054 103 TKMVFPGLKKDEEIANVIAYLK 124
Cdd:PTZ00405  89 TKMSFAGIKKPQERADVIAYLE 110
Cytochrom_C pfam00034
Cytochrome c; The Pfam entry does not include all Prosite members. The cytochrome 556 and ...
 28-125 7.89e-09

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: 49.07  E-value: 7.89e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490569054   28 EAGATVFKK-CATCHVID-KDQNKVGPSLQGVIGRTAGTHADFKYsqaMIDAGKGGLVWDdatlaeylrnPRAKVKGTKM 105
Cdd:pfam00034   1 ARGKKLFAAnCAACHGVNgEGAGAGGPDLAGLAARYPGDALGAIR---ENKHAIGGGGVD----------RAGGPPGTGM 67

                          90       100
                  ....*....|....*....|
gi 490569054  106 VFPGLKKDEEIANVIAYLKQ 125
Cdd:pfam00034  68 PAFDGLTDEEIADLVAYLLS 87
CccA COG2010
Cytochrome c, mono- and diheme variants [Energy production and conversion];
3-128 1.20e-05

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


Pssm-ID: 441613 [Multi-domain]  Cd Length: 169  Bit Score: 42.24  E-value: 1.20e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490569054   3 IALAALSFSALSLCPVAGLAQEGDAEAGATVFKK-CATCHvidkdqnkvGPSLQGVIGRTAgthadfkysqAMIDAGKGG 81
Cdd:COG2010   65 ALALLLALLLAAAAADAPAADAEALARGKALYEQnCAACH---------GADGKGGLGAAP----------NLTDDALYG 125

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 490569054  82 LvwDDATLAEYLRNPRakvKGTKMV-FPGLKKDEEIANVIAYLKQHPK 128
Cdd:COG2010  126 G--DPEALVETILNGR---PGGAMPaFGGQLSDEEIAALAAYLRSLSG 168
CytC552 COG4654
Cytochrome c551/c552 [Energy production and conversion];
25-87 2.06e-05

Cytochrome c551/c552 [Energy production and conversion];


Pssm-ID: 443692 [Multi-domain]  Cd Length: 88  Bit Score: 40.27  E-value: 2.06e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 490569054  25 GDAEAGATVFKK--CATCHVIDKDqnKVGPSLQGVIGRTAGTHADFKY-SQAMIDAGKGglVWDDA 87
Cdd:COG4654    2 ADAAAGKALAKKsgCLACHAVDKK--LVGPSYKDVAKKYKGKADAVAKlAKKIKKGGSG--VWGDV 63
CxxCH_TIGR02603 TIGR02603
putative heme-binding domain, Pirellula/Verrucomicrobium type; This model represents a domain ...
 25-124 1.06e-04

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: 39.26  E-value: 1.06e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490569054   25 GDAEAGATVF-KKCATCHVIDKDQNKVGPSLQGVIGRT------------AGTHADFKYSQAMIDAGK--GGLVWDDATL 89
Cdd:TIGR02603   1 GDAARGKAVFaKVCYLCHRIGGQGVDFGPNLTTVGTKGkeylleaildpsRTVAPGFETYRVTTKDGRilAGLVASETAD 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 490569054   90 AEYLRN--------PRAKVKGTK-----MVFPGLK---KDEEIANVIAYLK 124
Cdd:TIGR02603  81 PLTIKMpggveqvvPREEIKKRKhlpvsLMPEGLEmglSDQDLADLVAYLK 131
thiosulf_SoxX TIGR04485
sulfur oxidation c-type cytochrome SoxX; Members of this family are SoxX, a c-type cytochrome ...
 37-125 1.67e-04

sulfur oxidation c-type cytochrome SoxX; Members of this family are SoxX, a c-type cytochrome with a CxxCH motif, part of a heterodimer with SoxA. SoxXA, SoxYZ, and SoxB contribute to thiosulfate oxidation to sulfate.


Pssm-ID: 275278 [Multi-domain]  Cd Length: 78  Bit Score: 37.57  E-value: 1.67e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490569054   37 CATCHVIDKDQN---KVGPSLQGVigrtagthadfkysqamidagkGGLVWDDATLAEYLRNPRAKVKGTKMvfP----- 108
Cdd:TIGR04485   5 CLACHQIPGSEVfpgNIGPSLTGY----------------------GARYPDEAYLRAKIADAKAVNPCTVM--Prfgkn 60

                          90
                  ....*....|....*..
gi 490569054  109 GLKKDEEIANVIAYLKQ 125
Cdd:TIGR04485  61 GILTEQEIEDVVAYLLT 77
CytC553 COG2863
Cytochrome c553 [Energy production and conversion];
1-128 1.77e-04

Cytochrome c553 [Energy production and conversion];


Pssm-ID: 442110 [Multi-domain]  Cd Length: 98  Bit Score: 38.17  E-value: 1.77e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490569054   1 MRIALAALSfsalslcpvaglAQEGDAEAGATVFKKCATCHvidkdqnkvGPSLQGVIG----RTAGTHADfkYSQAMID 76
Cdd:COG2863    1 MKLALLAAP------------AAAGDAARGKAYAAACAACH---------GADGEGNPGggapRLAGQHAE--YLVAQLK 57

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 490569054  77 AGKGGlvwddatlaeylrnpraKVKGTKMvfPGLKK---DEEIANVIAYLKQHPK 128
Cdd:COG2863   58 AFRSG-----------------ARKNGVM--PAIAKglsDEDIKALAAYIASLKA 93
TsdA COG3258
Thiosulfate dehydrogenase TsdA, contains C-terminal cytochrome c domain [Inorganic ion ...
 15-128 9.89e-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: 37.14  E-value: 9.89e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490569054  15 LCPVAGLAQEGDAEAGATVF-KKCATCHvidkdqnkvGPSLQGViGRTAGthadfkysQAMIDAGKGGLVWDDATLAEYL 93
Cdd:COG3258  105 LPKLPKPAASADVERGKALYaERCASCH---------GADGEGQ-GRADG--------QYGFPPLWGGDSYNDGAGMARL 166

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 490569054  94 RNPRAKVKGTKMvfPGLKK----DEEIANVIAYLKQHPK 128
Cdd:COG3258  167 GTLADFIKGRNM--PLGKPgslsDDEAWDVAAYVRSLPR 203
 
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.
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