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Conserved domains on  [gi|1067280296|gb|AOQ26510|]
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cytochrome oxidase subunit I, partial (mitochondrion) [Ephydatia fluviatilis]

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 ...
 7-223 1.06e-135

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: 389.53  E-value: 1.06e-135
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:cd01663    18 GLVGTSLSLLIRLELSQPGSQLGNDQLYNVIVTAHALIMIFFMVMPALIGGFGNWLVPLMIGAPDMAFPRLNNLSFWLLP 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:cd01663    98 PSLLLLLLSALVEGGAGTGWTVYPPLSSILAHSGPSVDLAIFSLHLAGISSILGAINFITTIFNMRAPGMTLEKMPLFVW 177

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:cd01663   178 SVLITAFLLLLSLPVLAGAITMLLTDRNFNTSFFDPAGGGDPILYQHLFWFFGHPEV 234
 
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 ...
 7-223 1.06e-135

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: 389.53  E-value: 1.06e-135
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:cd01663    18 GLVGTSLSLLIRLELSQPGSQLGNDQLYNVIVTAHALIMIFFMVMPALIGGFGNWLVPLMIGAPDMAFPRLNNLSFWLLP 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:cd01663    98 PSLLLLLLSALVEGGAGTGWTVYPPLSSILAHSGPSVDLAIFSLHLAGISSILGAINFITTIFNMRAPGMTLEKMPLFVW 177

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:cd01663   178 SVLITAFLLLLSLPVLAGAITMLLTDRNFNTSFFDPAGGGDPILYQHLFWFFGHPEV 234
COX1 MTH00153
cytochrome c oxidase subunit I; Provisional
 7-223 2.03e-134

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177210  Cd Length: 511  Bit Score: 387.30  E-value: 2.03e-134
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:MTH00153   25 GMVGTSLSLLIRAELGQPGSLIGDDQIYNVIVTAHAFIMIFFMVMPIMIGGFGNWLVPLMLGAPDMAFPRMNNMSFWLLP 104

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:MTH00153  105 PSLTLLLSSSMVESGAGTGWTVYPPLSSNIAHSGASVDLAIFSLHLAGISSILGAINFITTIINMRSKGMTLDRMPLFVW 184

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00153  185 SVLITAILLLLSLPVLAGAITMLLTDRNLNTSFFDPAGGGDPILYQHLFWFFGHPEV 241
CtaD_CoxA TIGR02891
cytochrome c oxidase, subunit I; This large family represents subunit I's (CtaD, CoxA, CaaA) ...
 7-223 3.48e-85

cytochrome c oxidase, subunit I; This large family represents subunit I's (CtaD, CoxA, CaaA) of cytochrome c oxidases of bacterial origin. Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits I-III form the functional core of the enzyme complex. Subunit I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit II and heme a of subunit I to the bimetallic center formed by heme a3 and copper B. This cytochrome c oxidase shows proton pump activity across the membrane in addition to the electron transfer. In the bacilli an apparent split (paralogism) has created a sister clade (TIGR02882) encoding subunits (QoxA) of the aa3-type quinone oxidase complex which reacts directly with quinones, bypassing the interaction with soluble cytochrome c. This model attempts to exclude these sequences, placing them between the trusted and noise cutoffs. These families, as well as archaeal and eukaryotic cytochrome c subunit I's are included within the superfamily model, pfam00115. [Energy metabolism, Electron transport]


Pssm-ID: 213748  Cd Length: 499  Bit Score: 261.00  E-value: 3.48e-85
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPvMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:TIGR02891  21 FLVGGVLALLMRAQLATPGNTFMDAETYNQLFTMHGTIMIFLFAIP-ILAGFGNYLLPLMIGARDMAFPRLNAFSYWLYL 99

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:TIGR02891 100 FGGLLLLASFFTGGAPDTGWTMYPPLSSTSGSPGVGVDLWLLGLHLLGISSILGAVNFIVTILNMRAPGMTLMRMPLFVW 179

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:TIGR02891 180 GILVTSILILLAFPVLIAALILLLLDRLFGTHFFDPARGGDPLLWQHLFWFFGHPEV 236
CyoB COG0843
Heme/copper-type cytochrome/quinol oxidase, subunit 1 [Energy production and conversion];
8-223 2.15e-79

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


Pssm-ID: 440605  Cd Length: 535  Bit Score: 246.96  E-value: 2.15e-79
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   8 MIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPvMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLPP 87
Cdd:COG0843    31 LIGGLLALLMRLQLAGPGLGLLSPETYNQLFTMHGTIMIFFFATP-FLAGFGNYLVPLQIGARDMAFPRLNALSFWLYLF 109

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  88 ALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVWS 167
Cdd:COG0843   110 GGLLLLISLFVGGAADVGWTFYPPLSGLEASPGVGVDLWLLGLALFGVGSILGGVNFIVTILKMRAPGMTLMRMPLFTWA 189

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1067280296 168 ILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:COG0843   190 ALVTSILILLAFPVLAAALLLLLLDRSLGTHFFDPAGGGDPLLWQHLFWFFGHPEV 245
COX1 pfam00115
Cytochrome C and Quinol oxidase polypeptide I; Cytochrome c oxidase (E.C:7.1.1.9) is a key ...
 7-223 4.06e-50

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: 168.52  E-value: 4.06e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPvMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:pfam00115  14 FLVGGLLGLLIRLQLAFPGLNFLSPLTYNQLRTLHGNLMIFWFATP-FLFGFGNYLVPLMIGARDMAFPRLNALSFWLVV 92

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAfveQGVGTGWTVYPPLAGiqahsggsVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMdRLPLFVW 166
Cdd:pfam00115  93 LGAVLLLASF---GGATTGWTEYPPLVG--------VDLWYIGLLLAGVSSLLGAINFIVTILKRRAPGMTL-RMPLFVW 160

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNttffdpAGGGDPILFQHLFWFFGHPEV 223
Cdd:pfam00115 161 AILATAILILLAFPVLAAALLLLLLDRSLG------AGGGDPLLDQHLFWWFGHPEV 211
 
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 ...
 7-223 1.06e-135

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: 389.53  E-value: 1.06e-135
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:cd01663    18 GLVGTSLSLLIRLELSQPGSQLGNDQLYNVIVTAHALIMIFFMVMPALIGGFGNWLVPLMIGAPDMAFPRLNNLSFWLLP 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:cd01663    98 PSLLLLLLSALVEGGAGTGWTVYPPLSSILAHSGPSVDLAIFSLHLAGISSILGAINFITTIFNMRAPGMTLEKMPLFVW 177

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:cd01663   178 SVLITAFLLLLSLPVLAGAITMLLTDRNFNTSFFDPAGGGDPILYQHLFWFFGHPEV 234
COX1 MTH00153
cytochrome c oxidase subunit I; Provisional
 7-223 2.03e-134

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177210  Cd Length: 511  Bit Score: 387.30  E-value: 2.03e-134
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:MTH00153   25 GMVGTSLSLLIRAELGQPGSLIGDDQIYNVIVTAHAFIMIFFMVMPIMIGGFGNWLVPLMLGAPDMAFPRMNNMSFWLLP 104

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:MTH00153  105 PSLTLLLSSSMVESGAGTGWTVYPPLSSNIAHSGASVDLAIFSLHLAGISSILGAINFITTIINMRSKGMTLDRMPLFVW 184

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00153  185 SVLITAILLLLSLPVLAGAITMLLTDRNLNTSFFDPAGGGDPILYQHLFWFFGHPEV 241
COX1 MTH00182
cytochrome c oxidase subunit I; Provisional
 7-223 1.18e-126

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 214451  Cd Length: 525  Bit Score: 367.99  E-value: 1.18e-126
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:MTH00182   29 GMIGTAFSMLIRLELSAPGAMLGDDHLYNVIVTAHAFIMIFFLVMPVMIGGFGNWLVPLYIGAPDMAFPRLNNISFWLLP 108

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:MTH00182  109 PALILLLGSAFVEQGAGTGWTVYPPLSSIQAHSGGAVDMAIFSLHLAGVSSILGAINFITTIFNMRAPGVTFNRLPLFVW 188

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00182  189 SILITAFLLLLSLPVLAGAITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 245
COX1 MTH00184
cytochrome c oxidase subunit I; Provisional
 7-223 8.24e-126

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177235  Cd Length: 519  Bit Score: 365.69  E-value: 8.24e-126
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:MTH00184   29 GMIGTAFSMLIRLELSAPGSMLGDDHLYNVIVTAHAFVMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 108

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:MTH00184  109 PALTLLLGSAFVEQGAGTGWTVYPPLSSIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRMPLFVW 188

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00184  189 SILVTTFLLLLSLPVLAGAITMLLTDRNFNTTFFDPAGGGDPILYQHLFWFFGHPEV 245
COX1 MTH00223
cytochrome c oxidase subunit I; Provisional
 7-223 2.47e-123

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177260  Cd Length: 512  Bit Score: 358.91  E-value: 2.47e-123
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:MTH00223   24 GLVGTSLSLLIRAELGQPGALLGDDQLYNVIVTAHAFVMIFFLVMPMMIGGFGNWLVPLMLGAPDMAFPRLNNMSFWLLP 103

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:MTH00223  104 PSLYLLLSSSAVESGVGTGWTVYPPLSSNLAHAGPSVDLAIFSLHLAGVSSILGAINFITTIINMRSPGMQLERLPLFVW 183

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00223  184 SVKVTAFLLLLSLPVLAGAITMLLTDRNFNTSFFDPAGGGDPILYQHLFWFFGHPEV 240
COX1 MTH00167
cytochrome c oxidase subunit I; Provisional
 7-223 2.63e-123

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177222  Cd Length: 512  Bit Score: 358.99  E-value: 2.63e-123
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:MTH00167   27 GMVGTALSLLIRAELSQPGSLLGDDQIYNVIVTAHAFVMIFFMVMPIMIGGFGNWLVPLMIGAPDMAFPRMNNMSFWLLP 106

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:MTH00167  107 PSLLLLLASSGVEAGAGTGWTVYPPLAGNLAHAGASVDLAIFSLHLAGVSSILGSINFITTIINMKPPGITQYQTPLFVW 186

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00167  187 SILVTTILLLLSLPVLAAAITMLLTDRNLNTTFFDPAGGGDPILYQHLFWFFGHPEV 243
COX1 MTH00142
cytochrome c oxidase subunit I; Provisional
 7-223 2.58e-118

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 214431  Cd Length: 511  Bit Score: 346.33  E-value: 2.58e-118
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:MTH00142   25 GMVGTGLSLLIRAELGQPGSLLGDDQLYNVIVTAHAFVMIFFMVMPVMIGGFGNWLVPLMLGAPDMAFPRMNNMSFWLLP 104

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:MTH00142  105 PALLLLLSSAAVESGAGTGWTVYPPLSSNLAHSGGSVDLAIFSLHLAGVSSILGAINFITTVINMRAGGMKFERVPLFVW 184

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00142  185 SVKITAILLLLSLPVLAGAITMLLTDRNFNTSFFDPAGGGDPILYQHLFWFFGHPEV 241
COX1 MTH00116
cytochrome c oxidase subunit I; Provisional
 7-223 1.07e-116

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177177  Cd Length: 515  Bit Score: 342.07  E-value: 1.07e-116
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:MTH00116   27 GMVGTALSLLIRAELGQPGTLLGDDQIYNVIVTAHAFVMIFFMVMPIMIGGFGNWLVPLMIGAPDMAFPRMNNMSFWLLP 106

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:MTH00116  107 PSFLLLLASSTVEAGAGTGWTVYPPLAGNLAHAGASVDLAIFSLHLAGVSSILGAINFITTCINMKPPAMSQYQTPLFVW 186

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00116  187 SVLITAVLLLLSLPVLAAGITMLLTDRNLNTTFFDPAGGGDPILYQHLFWFFGHPEV 243
COX1 MTH00037
cytochrome c oxidase subunit I; Provisional
 7-223 3.49e-108

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177112  Cd Length: 517  Bit Score: 320.62  E-value: 3.49e-108
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:MTH00037   27 GMVGTAMSVIIRTELAQPGSLLQDDQIYNVIVTAHALVMIFFMVMPIMIGGFGNWLIPLMIGAPDMAFPRMNNMSFWLIP 106

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:MTH00037  107 PSFLLLLASAGVESGAGTGWTIYPPLSSNIAHAGGSVDLAIFSLHLAGASSILASINFITTIINMRTPGMTFDRLPLFVW 186

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00037  187 SVFITAFLLLLSLPVLAGAITMLLTDRNINTTFFDPAGGGDPILFQHLFWFFGHPEV 243
COX1 MTH00026
cytochrome c oxidase subunit I; Provisional
 5-223 5.11e-108

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 164599  Cd Length: 534  Bit Score: 320.81  E-value: 5.11e-108
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   5 LQGMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWL 84
Cdd:MTH00026   26 LSGAIGTAFSMLIRLELSSPGSMLGDDHLYNVIVTAHAFVMIFFLVMPTMIGGFGNWFVPLMIGAPDMAFPRLNNISFWL 105

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  85 LPPALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLF 164
Cdd:MTH00026  106 LPPALFLLLGSSLVEQGAGTGWTVYPPLASIQAHSGGSVDMAIFSLHLAGLSSILGAMNFITTVMNMRTPGMTMSRIPLF 185

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1067280296 165 VWSILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00026  186 VWSVFITAILLLLSLPVLAGAITMLLTDRNFNTTFFDPAGGGDPILYQHLFWFFGHPEV 244
COX1 MTH00183
cytochrome c oxidase subunit I; Provisional
 7-223 2.97e-107

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177234  Cd Length: 516  Bit Score: 318.02  E-value: 2.97e-107
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:MTH00183   27 GMVGTALSLLIRAELSQPGALLGDDQIYNVIVTAHAFVMIFFMVMPIMIGGFGNWLIPLMIGAPDMAFPRMNNMSFWLLP 106

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:MTH00183  107 PSFLLLLASSGVEAGAGTGWTVYPPLAGNLAHAGASVDLTIFSLHLAGVSSILGAINFITTIINMKPPAISQYQTPLFVW 186

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00183  187 AVLITAVLLLLSLPVLAAGITMLLTDRNLNTTFFDPAGGGDPILYQHLFWFFGHPEV 243
COX1 MTH00077
cytochrome c oxidase subunit I; Provisional
 7-223 6.45e-107

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 214419  Cd Length: 514  Bit Score: 317.27  E-value: 6.45e-107
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:MTH00077   27 GMVGTALSLLIRAELSQPGTLLGDDQIYNVIVTAHAFVMIFFMVMPIMIGGFGNWLVPLMIGAPDMAFPRMNNMSFWLLP 106

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:MTH00077  107 PSFLLLLASSGVEAGAGTGWTVYPPLAGNLAHAGASVDLTIFSLHLAGVSSILGAINFITTSINMKPPSMSQYQTPLFVW 186

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00077  187 SVLITAVLLLLSLPVLAAGITMLLTDRNLNTTFFDPAGGGDPVLYQHLFWFFGHPEV 243
COX1 MTH00103
cytochrome c oxidase subunit I; Validated
 7-223 3.95e-106

cytochrome c oxidase subunit I; Validated


Pssm-ID: 177165  Cd Length: 513  Bit Score: 315.28  E-value: 3.95e-106
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:MTH00103   27 GMVGTALSLLIRAELGQPGTLLGDDQIYNVIVTAHAFVMIFFMVMPIMIGGFGNWLVPLMIGAPDMAFPRMNNMSFWLLP 106

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:MTH00103  107 PSFLLLLASSMVEAGAGTGWTVYPPLAGNLAHAGASVDLTIFSLHLAGVSSILGAINFITTIINMKPPAMSQYQTPLFVW 186

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00103  187 SVLITAVLLLLSLPVLAAGITMLLTDRNLNTTFFDPAGGGDPILYQHLFWFFGHPEV 243
COX1 MTH00007
cytochrome c oxidase subunit I; Validated
 7-223 6.84e-104

cytochrome c oxidase subunit I; Validated


Pssm-ID: 133649  Cd Length: 511  Bit Score: 309.52  E-value: 6.84e-104
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:MTH00007   24 GLLGTSMSLLIRIELGQPGAFLGSDQLYNTIVTAHAFLMIFFLVMPVFIGGFGNWLVPLMLGAPDMAFPRLNNMSFWLLP 103

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:MTH00007  104 PALILLVSSAAVEKGVGTGWTVYPPLASNLAHAGPSVDLAIFSLHLAGVSSILGAINFITTVINMRWKGLRLERIPLFVW 183

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00007  184 AVVITVVLLLLSLPVLAGAITMLLTDRNLNTSFFDPAGGGDPILYQHLFWFFGHPEV 240
COX1 MTH00079
cytochrome c oxidase subunit I; Provisional
 7-223 3.60e-98

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177148  Cd Length: 508  Bit Score: 294.67  E-value: 3.60e-98
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:MTH00079   28 GMVGTSLSLIIRLELSKPGLLLGNGQLYNSVITAHAILMIFFMVMPSMIGGFGNWMLPLMLGAPDMSFPRLNNLSFWLLP 107

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAgIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:MTH00079  108 TSLFLILDSCFVDMGPGTSWTVYPPLS-TLGHPGSSVDLAIFSLHCAGISSILGGINFMVTTKNLRSSSISLEHMSLFVW 186

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00079  187 TVFVTVFLLVLSLPVLAGAITMLLTDRNLNTSFFDPSTGGNPLLYQHLFWFFGHPEV 243
Heme_Cu_Oxidase_I cd00919
Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in ...
 7-223 6.55e-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.


Pssm-ID: 238461  Cd Length: 463  Bit Score: 266.70  E-value: 6.55e-88
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLyIGAPDMAFPRLNNISFWLLP 86
Cdd:cd00919    16 LLLGGLLALLIRLELATPGSLFLDPQLYNQLVTAHGVIMIFFFVMPAIFGGFGNLLPPL-IGARDLAFPRLNNLSFWLFP 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:cd00919    95 PGLLLLLSSVLVGGGAGTGWTFYPPLSTLSYSSGVGVDLAILGLHLAGVSSILGAINFITTILNMRAPGMTLDKMPLFVW 174

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:cd00919   175 SVLVTAILLLLALPVLAAALVMLLLDRNFGTSFFDPAGGGDPVLYQHLFWFFGHPEV 231
CtaD_CoxA TIGR02891
cytochrome c oxidase, subunit I; This large family represents subunit I's (CtaD, CoxA, CaaA) ...
 7-223 3.48e-85

cytochrome c oxidase, subunit I; This large family represents subunit I's (CtaD, CoxA, CaaA) of cytochrome c oxidases of bacterial origin. Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits I-III form the functional core of the enzyme complex. Subunit I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit II and heme a of subunit I to the bimetallic center formed by heme a3 and copper B. This cytochrome c oxidase shows proton pump activity across the membrane in addition to the electron transfer. In the bacilli an apparent split (paralogism) has created a sister clade (TIGR02882) encoding subunits (QoxA) of the aa3-type quinone oxidase complex which reacts directly with quinones, bypassing the interaction with soluble cytochrome c. This model attempts to exclude these sequences, placing them between the trusted and noise cutoffs. These families, as well as archaeal and eukaryotic cytochrome c subunit I's are included within the superfamily model, pfam00115. [Energy metabolism, Electron transport]


Pssm-ID: 213748  Cd Length: 499  Bit Score: 261.00  E-value: 3.48e-85
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPvMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:TIGR02891  21 FLVGGVLALLMRAQLATPGNTFMDAETYNQLFTMHGTIMIFLFAIP-ILAGFGNYLLPLMIGARDMAFPRLNAFSYWLYL 99

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVW 166
Cdd:TIGR02891 100 FGGLLLLASFFTGGAPDTGWTMYPPLSSTSGSPGVGVDLWLLGLHLLGISSILGAVNFIVTILNMRAPGMTLMRMPLFVW 179

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:TIGR02891 180 GILVTSILILLAFPVLIAALILLLLDRLFGTHFFDPARGGDPLLWQHLFWFFGHPEV 236
CyoB COG0843
Heme/copper-type cytochrome/quinol oxidase, subunit 1 [Energy production and conversion];
8-223 2.15e-79

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


Pssm-ID: 440605  Cd Length: 535  Bit Score: 246.96  E-value: 2.15e-79
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   8 MIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPvMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLPP 87
Cdd:COG0843    31 LIGGLLALLMRLQLAGPGLGLLSPETYNQLFTMHGTIMIFFFATP-FLAGFGNYLVPLQIGARDMAFPRLNALSFWLYLF 109

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  88 ALTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVWS 167
Cdd:COG0843   110 GGLLLLISLFVGGAADVGWTFYPPLSGLEASPGVGVDLWLLGLALFGVGSILGGVNFIVTILKMRAPGMTLMRMPLFTWA 189

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1067280296 168 ILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:COG0843   190 ALVTSILILLAFPVLAAALLLLLLDRSLGTHFFDPAGGGDPLLWQHLFWFFGHPEV 245
COX1 MTH00048
cytochrome c oxidase subunit I; Provisional
 7-223 5.69e-68

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177123  Cd Length: 511  Bit Score: 216.85  E-value: 5.69e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:MTH00048   28 GFVGLSLSLLIRLNFLDPYYNVISLDVYNFLITNHGIIMIFFFLMPVLIGGFGNYLLPLLLGLSDLNLPRLNALSAWLLV 107

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAFVeqGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMdRLPLFVW 166
Cdd:MTH00048  108 PSIVFLLLSMCL--GAGVGWTFYPPLSSSLFSSSWGVDFLMFSLHLAGVSSLFGSINFICTIYSAFMTNVFS-RTSIILW 184

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:MTH00048  185 SYLFTSILLLLSLPVLAAAITMLLFDRNFGSAFFDPLGGGDPVLFQHMFWFFGHPEV 241
Ubiquinol_Oxidase_I cd01662
Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory ...
 9-223 5.39e-66

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: 211.29  E-value: 5.39e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   9 IGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPVMIGgFGNWFVPLYIGAPDMAFPRLNNISFWLLPPA 88
Cdd:cd01662    24 RGGVDALLMRTQLALPGNDFLSPEHYNQIFTMHGTIMIFLFAMPLVFG-LMNYLVPLQIGARDVAFPRLNALSFWLFLFG 102

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  89 LTLLLGSAFVEQGVGTGWTVYPPLAGIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVWSI 168
Cdd:cd01662   103 GLLLNASLLIGGFPDAGWFAYPPLSGLEYSPGVGVDYWILGLQFSGIGTLLGAINFIVTILKMRAPGMTLMRMPIFTWTT 182

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1067280296 169 LITAFLLLLSLPVLAGGITMLLTDRNFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:cd01662   183 LVTSILILFAFPVLTAALALLELDRYFGTHFFTNALGGNPMLWQHLFWIFGHPEV 237
COX1 pfam00115
Cytochrome C and Quinol oxidase polypeptide I; Cytochrome c oxidase (E.C:7.1.1.9) is a key ...
 7-223 4.06e-50

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: 168.52  E-value: 4.06e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296   7 GMIGTAFSMLIRLELSAPGSMLGDDQLYNVIVTAHAFLMIFFLVMPvMIGGFGNWFVPLYIGAPDMAFPRLNNISFWLLP 86
Cdd:pfam00115  14 FLVGGLLGLLIRLQLAFPGLNFLSPLTYNQLRTLHGNLMIFWFATP-FLFGFGNYLVPLMIGARDMAFPRLNALSFWLVV 92

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  87 PALTLLLGSAfveQGVGTGWTVYPPLAGiqahsggsVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMdRLPLFVW 166
Cdd:pfam00115  93 LGAVLLLASF---GGATTGWTEYPPLVG--------VDLWYIGLLLAGVSSLLGAINFIVTILKRRAPGMTL-RMPLFVW 160

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1067280296 167 SILITAFLLLLSLPVLAGGITMLLTDRNFNttffdpAGGGDPILFQHLFWFFGHPEV 223
Cdd:pfam00115 161 AILATAILILLAFPVLAAALLLLLLDRSLG------AGGGDPLLDQHLFWWFGHPEV 211
PRK15017 PRK15017
cytochrome o ubiquinol oxidase subunit I; Provisional
 34-223 1.10e-39

cytochrome o ubiquinol oxidase subunit I; Provisional


Pssm-ID: 184978  Cd Length: 663  Bit Score: 143.92  E-value: 1.10e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296  34 YNVIVTAHAFLMIFFLVMPVMIGgFGNWFVPLYIGAPDMAFPRLNNISFWLLPPALTLLLGSAFVEQGVGTGWTVYPPLA 113
Cdd:PRK15017   99 YDQIFTAHGVIMIFFVAMPFVIG-LMNLVVPLQIGARDVAFPFLNNLSFWFTVVGVILVNVSLGVGEFAQTGWLAYPPLS 177

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1067280296 114 GIQAHSGGSVDMAIFSLHLAGISSILGAMNFITTIFNMRAPGITMDRLPLFVWSILITAFLLLLSLPVLAGGITMLLTDR 193
Cdd:PRK15017  178 GIEYSPGVGVDYWIWSLQLSGIGTTLTGINFFVTILKMRAPGMTMFKMPVFTWASLCANVLIIASFPILTVTVALLTLDR 257

                         170       180       190
                  ....*....|....*....|....*....|
gi 1067280296 194 NFNTTFFDPAGGGDPILFQHLFWFFGHPEV 223
Cdd:PRK15017  258 YLGTHFFTNDMGGNMMMYINLIWAWGHPEV 287
 
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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