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Conserved domains on  [gi|802084161|gb|AKA94295|]
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cytochrome oxidase subunit 1, partial (mitochondrion) [Gracilaria curtissiae]

Protein Classification

heme-copper oxidase family protein( domain architecture ID 14)

heme-copper oxidase family protein may catalyze the transfer of electrons from an electron donor onto molecular oxygen

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Heme_Cu_Oxidase_I super family cl00275
Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in ...
 3-153 5.55e-88

Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is diverse in terms of electron donors, subunit composition, and heme types. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. It has been proposed that Archaea acquired heme-copper oxidases through gene transfer from Gram-positive bacteria. Membership in the superfamily is defined by subunit I, which contains a heme-copper binuclear center (the active site where O2 is reduced to water) formed by a high-spin heme and a copper ion. It also contains a low-spin heme, believed to participate in the transfer of electrons to the binuclear center. Only subunit I is common to the entire superfamily. For every reduction of an O2 molecule, eight protons are taken from the inside aqueous compartment and four electrons are taken from the electron donor on the opposite side of the membrane. The four electrons and four of the protons are used in the reduction of O2; the four remaining protons are pumped across the membrane. This charge separation of four charges contributes to the electrochemical gradient used for ATP synthesis. Two proton channels, the D-pathway and K-pathway, leading to the binuclear center have been identified in subunit I of cytochrome c oxidase (CcO) and ubiquinol oxidase. A well-defined pathway for the transfer of pumped protons beyond the binuclear center has not been identified. Electron transfer occurs in two segments: from the electron donor to the low-spin heme, and from the low-spin heme to the binuclear center. The first segment can be a multi-step process and varies among the different families, while the second segment, a direct transfer, is consistent throughout the superfamily.


The actual alignment was detected with superfamily member cd01663:

Pssm-ID: 469701  Cd Length: 488  Bit Score: 264.73  E-value: 5.55e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   3 LLLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTG 82
Cdd:cd01663   37 SQLGNDQLYNVIVTAHALIMIFFMVMPALIGGFGNWLVPLMIGAPDMAFPRLNNLSFWLLPPSLLLLLLSALVEGGAGTG 116

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 802084161  83 WTVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:cd01663  117 WTVYPPLSSILAHSGPSVDLAIFSLHLAGISSILGAINFITTIFNMRAPGMTLEKMPLFVWSVLITAFLLL 187
 
Name Accession Description Interval E-value
Cyt_c_Oxidase_I cd01663
Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 3-153 5.55e-88

Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Only subunits I and II are essential for function, but subunit III, which is also conserved, may play a role in assembly or oxygen delivery to the active site. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Subunit I contains a heme-copper binuclear center (the active site where O2 is reduced to water) formed by a high-spin heme (heme a3) and a copper ion (CuB). It also contains a low-spin heme (heme a), believed to participate in the transfer of electrons to the binuclear center. For every reduction of an O2 molecule, eight protons are taken from the inside aqueous compartment and four electrons are taken from cytochrome c on the opposite side of the membrane. The four electrons and four of the protons are used in the reduction of O2; the four remaining protons are pumped across the membrane. This charge separation of four charges contributes to the electrochemical gradient used for ATP synthesis. Two proton channels, the D-pathway and K-pathway, leading to the binuclear center have been identified in subunit I. A well-defined pathway for the transfer of pumped protons beyond the binuclear center has not been identified. Electrons are transferred from cytochrome c (the electron donor) to heme a via the CuA binuclear site in subunit II, and directly from heme a to the binuclear center.


Pssm-ID: 238833  Cd Length: 488  Bit Score: 264.73  E-value: 5.55e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   3 LLLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTG 82
Cdd:cd01663   37 SQLGNDQLYNVIVTAHALIMIFFMVMPALIGGFGNWLVPLMIGAPDMAFPRLNNLSFWLLPPSLLLLLLSALVEGGAGTG 116

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 802084161  83 WTVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:cd01663  117 WTVYPPLSSILAHSGPSVDLAIFSLHLAGISSILGAINFITTIFNMRAPGMTLEKMPLFVWSVLITAFLLL 187
COX1 MTH00153
cytochrome c oxidase subunit I; Provisional
 4-153 3.23e-86

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177210  Cd Length: 511  Bit Score: 260.96  E-value: 3.23e-86
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   4 LLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGW 83
Cdd:MTH00153  45 LIGDDQIYNVIVTAHAFIMIFFMVMPIMIGGFGNWLVPLMLGAPDMAFPRMNNMSFWLLPPSLTLLLSSSMVESGAGTGW 124

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  84 TVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:MTH00153 125 TVYPPLSSNIAHSGASVDLAIFSLHLAGISSILGAINFITTIINMRSKGMTLDRMPLFVWSVLITAILLL 194
CyoB COG0843
Heme/copper-type cytochrome/quinol oxidase, subunit 1 [Energy production and conversion];
11-153 2.10e-50

Heme/copper-type cytochrome/quinol oxidase, subunit 1 [Energy production and conversion];


Pssm-ID: 440605  Cd Length: 535  Bit Score: 168.38  E-value: 2.10e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  11 YNVLITAHAFLMIFFMVMPvMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGWTVYPPLS 90
Cdd:COG0843   57 YNQLFTMHGTIMIFFFATP-FLAGFGNYLVPLQIGARDMAFPRLNALSFWLYLFGGLLLLISLFVGGAADVGWTFYPPLS 135

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 802084161  91 SIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:COG0843  136 GLEASPGVGVDLWLLGLALFGVGSILGGVNFIVTILKMRAPGMTLMRMPLFTWAALVTSILIL 198
COX1 pfam00115
Cytochrome C and Quinol oxidase polypeptide I; Cytochrome c oxidase (E.C:7.1.1.9) is a key ...
 3-153 2.17e-30

Cytochrome C and Quinol oxidase polypeptide I; Cytochrome c oxidase (E.C:7.1.1.9) is a key enzyme in aerobic metabolism. Proton pumping haem-copper oxidases represent the terminal, energy-transfer enzymes of respiratory chains in prokaryotes and eukaryotes. The CuB-haem a3 (or haem o) binuclear centre, associated with the largest subunit I of cytochrome c and ubiquinol oxidases (E.C:1.10.3.11), is directly involved in the coupling between dioxygen reduction and proton pumping. Some terminal oxidases generate a transmembrane proton gradient across the plasma membrane (prokaryotes) or the mitochondrial inner membrane (eukaryotes). The enzyme complex consists of 3-4 subunits (prokaryotes) up to 13 polypeptides (mammals) of which only the catalytic subunit (equivalent to mammalian subunit I (COXI) is found in all haem-copper respiratory oxidases. The presence of a bimetallic centre (formed by a high-spin haem and copper B) as well as a low-spin haem, both ligated to six conserved histidine residues near the outer side of four transmembrane spans within CO I is common to all family members.


Pssm-ID: 459678  Cd Length: 432  Bit Score: 113.44  E-value: 2.17e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161    3 LLLGNHQIYNVLITAHAFLMIFFMVMPvMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAiveVGVGTG 82
Cdd:pfam00115  33 LNFLSPLTYNQLRTLHGNLMIFWFATP-FLFGFGNYLVPLMIGARDMAFPRLNALSFWLVVLGAVLLLASF---GGATTG 108

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 802084161   83 WTVYPPLssiqshsgGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMyRMPLFVWSIFITAFLLL 153
Cdd:pfam00115 109 WTEYPPL--------VGVDLWYIGLLLAGVSSLLGAINFIVTILKRRAPGMTL-RMPLFVWAILATAILIL 170
QoxB TIGR02882
cytochrome aa3 quinol oxidase, subunit I; This family (QoxB) encodes subunit I of the aa3-type ...
 1-153 1.06e-27

cytochrome aa3 quinol oxidase, subunit I; This family (QoxB) encodes subunit I of the aa3-type quinone oxidase, one of several bacterial terminal oxidases. This complex couples oxidation of reduced quinones with the reduction of molecular oxygen to water and the pumping of protons to form a proton gradient utilized for ATP production. aa3-type oxidases contain two heme a cofactors as well as copper atoms in the active site. [Energy metabolism, Electron transport]


Pssm-ID: 131928  Cd Length: 643  Bit Score: 107.25  E-value: 1.06e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161    1 NQLLLGNHqiYNVLITAHAFLMIFFMVMPVMIGgFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVG 80
Cdd:TIGR02882  84 NKFLDAQH--YNEIFTTHGVIMIIFMAMPFIIG-LMNIVVPLQIGARDVAFPVLNALSFWLFFAGAMLFNISFVIGGSPD 160

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 802084161   81 TGWTVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:TIGR02882 161 AGWTNYAPLAGPEFSPGVGVNYYLIALQISGIGTLMTGINFFVTILKMRAPGMKLMQMPMFTWTTLITTLIII 233
 
Name Accession Description Interval E-value
Cyt_c_Oxidase_I cd01663
Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 3-153 5.55e-88

Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Only subunits I and II are essential for function, but subunit III, which is also conserved, may play a role in assembly or oxygen delivery to the active site. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Subunit I contains a heme-copper binuclear center (the active site where O2 is reduced to water) formed by a high-spin heme (heme a3) and a copper ion (CuB). It also contains a low-spin heme (heme a), believed to participate in the transfer of electrons to the binuclear center. For every reduction of an O2 molecule, eight protons are taken from the inside aqueous compartment and four electrons are taken from cytochrome c on the opposite side of the membrane. The four electrons and four of the protons are used in the reduction of O2; the four remaining protons are pumped across the membrane. This charge separation of four charges contributes to the electrochemical gradient used for ATP synthesis. Two proton channels, the D-pathway and K-pathway, leading to the binuclear center have been identified in subunit I. A well-defined pathway for the transfer of pumped protons beyond the binuclear center has not been identified. Electrons are transferred from cytochrome c (the electron donor) to heme a via the CuA binuclear site in subunit II, and directly from heme a to the binuclear center.


Pssm-ID: 238833  Cd Length: 488  Bit Score: 264.73  E-value: 5.55e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   3 LLLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTG 82
Cdd:cd01663   37 SQLGNDQLYNVIVTAHALIMIFFMVMPALIGGFGNWLVPLMIGAPDMAFPRLNNLSFWLLPPSLLLLLLSALVEGGAGTG 116

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 802084161  83 WTVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:cd01663  117 WTVYPPLSSILAHSGPSVDLAIFSLHLAGISSILGAINFITTIFNMRAPGMTLEKMPLFVWSVLITAFLLL 187
COX1 MTH00153
cytochrome c oxidase subunit I; Provisional
 4-153 3.23e-86

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177210  Cd Length: 511  Bit Score: 260.96  E-value: 3.23e-86
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   4 LLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGW 83
Cdd:MTH00153  45 LIGDDQIYNVIVTAHAFIMIFFMVMPIMIGGFGNWLVPLMLGAPDMAFPRMNNMSFWLLPPSLTLLLSSSMVESGAGTGW 124

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  84 TVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:MTH00153 125 TVYPPLSSNIAHSGASVDLAIFSLHLAGISSILGAINFITTIINMRSKGMTLDRMPLFVWSVLITAILLL 194
COX1 MTH00167
cytochrome c oxidase subunit I; Provisional
 4-153 2.25e-77

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177222  Cd Length: 512  Bit Score: 238.04  E-value: 2.25e-77
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   4 LLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGW 83
Cdd:MTH00167  47 LLGDDQIYNVIVTAHAFVMIFFMVMPIMIGGFGNWLVPLMIGAPDMAFPRMNNMSFWLLPPSLLLLLASSGVEAGAGTGW 126

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  84 TVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:MTH00167 127 TVYPPLAGNLAHAGASVDLAIFSLHLAGVSSILGSINFITTIINMKPPGITQYQTPLFVWSILVTTILLL 196
COX1 MTH00116
cytochrome c oxidase subunit I; Provisional
 4-153 1.22e-75

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177177  Cd Length: 515  Bit Score: 233.83  E-value: 1.22e-75
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   4 LLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGW 83
Cdd:MTH00116  47 LLGDDQIYNVIVTAHAFVMIFFMVMPIMIGGFGNWLVPLMIGAPDMAFPRMNNMSFWLLPPSFLLLLASSTVEAGAGTGW 126

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  84 TVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:MTH00116 127 TVYPPLAGNLAHAGASVDLAIFSLHLAGVSSILGAINFITTCINMKPPAMSQYQTPLFVWSVLITAVLLL 196
COX1 MTH00223
cytochrome c oxidase subunit I; Provisional
 4-153 2.71e-74

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177260  Cd Length: 512  Bit Score: 230.25  E-value: 2.71e-74
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   4 LLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGW 83
Cdd:MTH00223  44 LLGDDQLYNVIVTAHAFVMIFFLVMPMMIGGFGNWLVPLMLGAPDMAFPRLNNMSFWLLPPSLYLLLSSSAVESGVGTGW 123

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  84 TVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:MTH00223 124 TVYPPLSSNLAHAGPSVDLAIFSLHLAGVSSILGAINFITTIINMRSPGMQLERLPLFVWSVKVTAFLLL 193
COX1 MTH00142
cytochrome c oxidase subunit I; Provisional
 4-153 5.43e-73

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 214431  Cd Length: 511  Bit Score: 226.91  E-value: 5.43e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   4 LLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGW 83
Cdd:MTH00142  45 LLGDDQLYNVIVTAHAFVMIFFMVMPVMIGGFGNWLVPLMLGAPDMAFPRMNNMSFWLLPPALLLLLSSAAVESGAGTGW 124

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  84 TVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:MTH00142 125 TVYPPLSSNLAHSGGSVDLAIFSLHLAGVSSILGAINFITTVINMRAGGMKFERVPLFVWSVKITAILLL 194
COX1 MTH00182
cytochrome c oxidase subunit I; Provisional
 4-153 7.55e-71

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 214451  Cd Length: 525  Bit Score: 221.62  E-value: 7.55e-71
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   4 LLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGW 83
Cdd:MTH00182  49 MLGDDHLYNVIVTAHAFIMIFFLVMPVMIGGFGNWLVPLYIGAPDMAFPRLNNISFWLLPPALILLLGSAFVEQGAGTGW 128

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  84 TVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:MTH00182 129 TVYPPLSSIQAHSGGAVDMAIFSLHLAGVSSILGAINFITTIFNMRAPGVTFNRLPLFVWSILITAFLLL 198
COX1 MTH00037
cytochrome c oxidase subunit I; Provisional
 4-153 9.19e-69

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177112  Cd Length: 517  Bit Score: 216.23  E-value: 9.19e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   4 LLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGW 83
Cdd:MTH00037  47 LLQDDQIYNVIVTAHALVMIFFMVMPIMIGGFGNWLIPLMIGAPDMAFPRMNNMSFWLIPPSFLLLLASAGVESGAGTGW 126

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  84 TVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:MTH00037 127 TIYPPLSSNIAHAGGSVDLAIFSLHLAGASSILASINFITTIINMRTPGMTFDRLPLFVWSVFITAFLLL 196
COX1 MTH00184
cytochrome c oxidase subunit I; Provisional
 4-153 3.09e-68

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177235  Cd Length: 519  Bit Score: 214.69  E-value: 3.09e-68
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   4 LLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGW 83
Cdd:MTH00184  49 MLGDDHLYNVIVTAHAFVMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLPPALTLLLGSAFVEQGAGTGW 128

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  84 TVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:MTH00184 129 TVYPPLSSIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRMPLFVWSILVTTFLLL 198
COX1 MTH00103
cytochrome c oxidase subunit I; Validated
 4-153 3.73e-67

cytochrome c oxidase subunit I; Validated


Pssm-ID: 177165  Cd Length: 513  Bit Score: 212.05  E-value: 3.73e-67
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   4 LLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGW 83
Cdd:MTH00103  47 LLGDDQIYNVIVTAHAFVMIFFMVMPIMIGGFGNWLVPLMIGAPDMAFPRMNNMSFWLLPPSFLLLLASSMVEAGAGTGW 126

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  84 TVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:MTH00103 127 TVYPPLAGNLAHAGASVDLTIFSLHLAGVSSILGAINFITTIINMKPPAMSQYQTPLFVWSVLITAVLLL 196
COX1 MTH00183
cytochrome c oxidase subunit I; Provisional
 4-153 1.84e-66

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177234  Cd Length: 516  Bit Score: 210.16  E-value: 1.84e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   4 LLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGW 83
Cdd:MTH00183  47 LLGDDQIYNVIVTAHAFVMIFFMVMPIMIGGFGNWLIPLMIGAPDMAFPRMNNMSFWLLPPSFLLLLASSGVEAGAGTGW 126

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  84 TVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:MTH00183 127 TVYPPLAGNLAHAGASVDLTIFSLHLAGVSSILGAINFITTIINMKPPAISQYQTPLFVWAVLITAVLLL 196
COX1 MTH00077
cytochrome c oxidase subunit I; Provisional
 4-153 5.57e-66

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 214419  Cd Length: 514  Bit Score: 209.03  E-value: 5.57e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   4 LLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGW 83
Cdd:MTH00077  47 LLGDDQIYNVIVTAHAFVMIFFMVMPIMIGGFGNWLVPLMIGAPDMAFPRMNNMSFWLLPPSFLLLLASSGVEAGAGTGW 126

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  84 TVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:MTH00077 127 TVYPPLAGNLAHAGASVDLTIFSLHLAGVSSILGAINFITTSINMKPPSMSQYQTPLFVWSVLITAVLLL 196
COX1 MTH00007
cytochrome c oxidase subunit I; Validated
 4-153 1.60e-63

cytochrome c oxidase subunit I; Validated


Pssm-ID: 133649  Cd Length: 511  Bit Score: 202.44  E-value: 1.60e-63
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   4 LLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGW 83
Cdd:MTH00007  44 FLGSDQLYNTIVTAHAFLMIFFLVMPVFIGGFGNWLVPLMLGAPDMAFPRLNNMSFWLLPPALILLVSSAAVEKGVGTGW 123

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  84 TVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:MTH00007 124 TVYPPLASNLAHAGPSVDLAIFSLHLAGVSSILGAINFITTVINMRWKGLRLERIPLFVWAVVITVVLLL 193
COX1 MTH00026
cytochrome c oxidase subunit I; Provisional
 4-153 5.01e-61

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 164599  Cd Length: 534  Bit Score: 196.39  E-value: 5.01e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   4 LLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGW 83
Cdd:MTH00026  48 MLGDDHLYNVIVTAHAFVMIFFLVMPTMIGGFGNWFVPLMIGAPDMAFPRLNNISFWLLPPALFLLLGSSLVEQGAGTGW 127

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  84 TVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:MTH00026 128 TVYPPLASIQAHSGGSVDMAIFSLHLAGLSSILGAMNFITTVMNMRTPGMTMSRIPLFVWSVFITAILLL 197
COX1 MTH00079
cytochrome c oxidase subunit I; Provisional
 3-153 5.46e-58

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177148  Cd Length: 508  Bit Score: 187.97  E-value: 5.46e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   3 LLLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTG 82
Cdd:MTH00079  47 LLLGNGQLYNSVITAHAILMIFFMVMPSMIGGFGNWMLPLMLGAPDMSFPRLNNLSFWLLPTSLFLILDSCFVDMGPGTS 126

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 802084161  83 WTVYPPLSSiQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:MTH00079 127 WTVYPPLST-LGHPGSSVDLAIFSLHCAGISSILGGINFMVTTKNLRSSSISLEHMSLFVWTVFVTVFLLV 196
Heme_Cu_Oxidase_I cd00919
Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in ...
 3-153 2.96e-53

Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is diverse in terms of electron donors, subunit composition, and heme types. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. It has been proposed that Archaea acquired heme-copper oxidases through gene transfer from Gram-positive bacteria. Membership in the superfamily is defined by subunit I, which contains a heme-copper binuclear center (the active site where O2 is reduced to water) formed by a high-spin heme and a copper ion. It also contains a low-spin heme, believed to participate in the transfer of electrons to the binuclear center. Only subunit I is common to the entire superfamily. For every reduction of an O2 molecule, eight protons are taken from the inside aqueous compartment and four electrons are taken from the electron donor on the opposite side of the membrane. The four electrons and four of the protons are used in the reduction of O2; the four remaining protons are pumped across the membrane. This charge separation of four charges contributes to the electrochemical gradient used for ATP synthesis. Two proton channels, the D-pathway and K-pathway, leading to the binuclear center have been identified in subunit I of cytochrome c oxidase (CcO) and ubiquinol oxidase. A well-defined pathway for the transfer of pumped protons beyond the binuclear center has not been identified. Electron transfer occurs in two segments: from the electron donor to the low-spin heme, and from the low-spin heme to the binuclear center. The first segment can be a multi-step process and varies among the different families, while the second segment, a direct transfer, is consistent throughout the superfamily.


Pssm-ID: 238461  Cd Length: 463  Bit Score: 174.64  E-value: 2.96e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   3 LLLGNHQIYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPiMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTG 82
Cdd:cd00919   35 SLFLDPQLYNQLVTAHGVIMIFFFVMPAIFGGFGNLLPP-LIGARDLAFPRLNNLSFWLFPPGLLLLLSSVLVGGGAGTG 113

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 802084161  83 WTVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:cd00919  114 WTFYPPLSTLSYSSGVGVDLAILGLHLAGVSSILGAINFITTILNMRAPGMTLDKMPLFVWSVLVTAILLL 184
CyoB COG0843
Heme/copper-type cytochrome/quinol oxidase, subunit 1 [Energy production and conversion];
11-153 2.10e-50

Heme/copper-type cytochrome/quinol oxidase, subunit 1 [Energy production and conversion];


Pssm-ID: 440605  Cd Length: 535  Bit Score: 168.38  E-value: 2.10e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  11 YNVLITAHAFLMIFFMVMPvMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGWTVYPPLS 90
Cdd:COG0843   57 YNQLFTMHGTIMIFFFATP-FLAGFGNYLVPLQIGARDMAFPRLNALSFWLYLFGGLLLLISLFVGGAADVGWTFYPPLS 135

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 802084161  91 SIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:COG0843  136 GLEASPGVGVDLWLLGLALFGVGSILGGVNFIVTILKMRAPGMTLMRMPLFTWAALVTSILIL 198
Ubiquinol_Oxidase_I cd01662
Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory ...
 4-153 6.32e-44

Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits in ubiquinol oxidase varies from two to five. Subunit I contains a heme-copper binuclear center (the active site where O2 is reduced to water) formed by a high-spin heme and a copper ion. It also contains a low-spin heme, believed to participate in the transfer of electrons from ubiquinol to the binuclear center. For every reduction of an O2 molecule, eight protons are taken from the inside aqueous compartment and four electrons are taken from ubiquinol on the opposite side of the membrane. The four electrons and four of the protons are used in the reduction of O2; the four remaining protons are pumped across the membrane. This charge separation of four charges contributes to the electrochemical gradient used for ATP synthesis. Two proton channels, the D-pathway and K-pathway, leading to the binuclear center have been identified in subunit I. It is generally believed that the channels contain water molecules that act as 'proton wires' to transfer the protons. A well-defined pathway for the transfer of pumped protons beyond the binuclear center has not been identified. Electrons are believed to be transferred directly from ubiquinol (the electron donor) to the low-spin heme, and directly from the low-spin heme to the binuclear center.


Pssm-ID: 238832  Cd Length: 501  Bit Score: 150.81  E-value: 6.32e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161   4 LLGNHQiYNVLITAHAFLMIFFMVMPVMIGgFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGW 83
Cdd:cd01662   43 FLSPEH-YNQIFTMHGTIMIFLFAMPLVFG-LMNYLVPLQIGARDVAFPRLNALSFWLFLFGGLLLNASLLIGGFPDAGW 120

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  84 TVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:cd01662  121 FAYPPLSGLEYSPGVGVDYWILGLQFSGIGTLLGAINFIVTILKMRAPGMTLMRMPIFTWTTLVTSILIL 190
COX1 MTH00048
cytochrome c oxidase subunit I; Provisional
 10-153 2.74e-35

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177123  Cd Length: 511  Bit Score: 127.49  E-value: 2.74e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  10 IYNVLITAHAFLMIFFMVMPVMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIveVGVGTGWTVYPPL 89
Cdd:MTH00048  54 VYNFLITNHGIIMIFFFLMPVLIGGFGNYLLPLLLGLSDLNLPRLNALSAWLLVPSIVFLLLSMC--LGAGVGWTFYPPL 131

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 802084161  90 SSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSmYRMPLFVWSIFITAFLLL 153
Cdd:MTH00048 132 SSSLFSSSWGVDFLMFSLHLAGVSSLFGSINFICTIYSAFMTNVF-SRTSIILWSYLFTSILLL 194
PRK15017 PRK15017
cytochrome o ubiquinol oxidase subunit I; Provisional
 11-153 1.13e-30

cytochrome o ubiquinol oxidase subunit I; Provisional


Pssm-ID: 184978  Cd Length: 663  Bit Score: 115.80  E-value: 1.13e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161  11 YNVLITAHAFLMIFFMVMPVMIGgFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVGTGWTVYPPLS 90
Cdd:PRK15017  99 YDQIFTAHGVIMIFFVAMPFVIG-LMNLVVPLQIGARDVAFPFLNNLSFWFTVVGVILVNVSLGVGEFAQTGWLAYPPLS 177

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 802084161  91 SIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:PRK15017 178 GIEYSPGVGVDYWIWSLQLSGIGTTLTGINFFVTILKMRAPGMTMFKMPVFTWASLCANVLII 240
COX1 pfam00115
Cytochrome C and Quinol oxidase polypeptide I; Cytochrome c oxidase (E.C:7.1.1.9) is a key ...
 3-153 2.17e-30

Cytochrome C and Quinol oxidase polypeptide I; Cytochrome c oxidase (E.C:7.1.1.9) is a key enzyme in aerobic metabolism. Proton pumping haem-copper oxidases represent the terminal, energy-transfer enzymes of respiratory chains in prokaryotes and eukaryotes. The CuB-haem a3 (or haem o) binuclear centre, associated with the largest subunit I of cytochrome c and ubiquinol oxidases (E.C:1.10.3.11), is directly involved in the coupling between dioxygen reduction and proton pumping. Some terminal oxidases generate a transmembrane proton gradient across the plasma membrane (prokaryotes) or the mitochondrial inner membrane (eukaryotes). The enzyme complex consists of 3-4 subunits (prokaryotes) up to 13 polypeptides (mammals) of which only the catalytic subunit (equivalent to mammalian subunit I (COXI) is found in all haem-copper respiratory oxidases. The presence of a bimetallic centre (formed by a high-spin haem and copper B) as well as a low-spin haem, both ligated to six conserved histidine residues near the outer side of four transmembrane spans within CO I is common to all family members.


Pssm-ID: 459678  Cd Length: 432  Bit Score: 113.44  E-value: 2.17e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161    3 LLLGNHQIYNVLITAHAFLMIFFMVMPvMIGGFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAiveVGVGTG 82
Cdd:pfam00115  33 LNFLSPLTYNQLRTLHGNLMIFWFATP-FLFGFGNYLVPLMIGARDMAFPRLNALSFWLVVLGAVLLLASF---GGATTG 108

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 802084161   83 WTVYPPLssiqshsgGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMyRMPLFVWSIFITAFLLL 153
Cdd:pfam00115 109 WTEYPPL--------VGVDLWYIGLLLAGVSSLLGAINFIVTILKRRAPGMTL-RMPLFVWAILATAILIL 170
QoxB TIGR02882
cytochrome aa3 quinol oxidase, subunit I; This family (QoxB) encodes subunit I of the aa3-type ...
 1-153 1.06e-27

cytochrome aa3 quinol oxidase, subunit I; This family (QoxB) encodes subunit I of the aa3-type quinone oxidase, one of several bacterial terminal oxidases. This complex couples oxidation of reduced quinones with the reduction of molecular oxygen to water and the pumping of protons to form a proton gradient utilized for ATP production. aa3-type oxidases contain two heme a cofactors as well as copper atoms in the active site. [Energy metabolism, Electron transport]


Pssm-ID: 131928  Cd Length: 643  Bit Score: 107.25  E-value: 1.06e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802084161    1 NQLLLGNHqiYNVLITAHAFLMIFFMVMPVMIGgFGNWLVPIMIGSPDMAFPRLNNISFWLLPPSLCLLLASAIVEVGVG 80
Cdd:TIGR02882  84 NKFLDAQH--YNEIFTTHGVIMIIFMAMPFIIG-LMNIVVPLQIGARDVAFPVLNALSFWLFFAGAMLFNISFVIGGSPD 160

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 802084161   81 TGWTVYPPLSSIQSHSGGAVDLAIFSLHISGASSILGAINFISTILNMRNPGQSMYRMPLFVWSIFITAFLLL 153
Cdd:TIGR02882 161 AGWTNYAPLAGPEFSPGVGVNYYLIALQISGIGTLMTGINFFVTILKMRAPGMKLMQMPMFTWTTLITTLIII 233
 
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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