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Conserved domains on  [gi|459665854|gb|AGG81561|]
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cytochrome oxidase subunit I, partial (mitochondrion) [Wohlfahrtia nuba]

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 ...
 4-167 3.58e-115

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 MTH00153:

Pssm-ID: 469701  Cd Length: 511  Bit Score: 335.68  E-value: 3.58e-115
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00153 348 IGGLTGVVLANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMGGFIHWFPLFTGLTMNPKWLKIQFFIMFIGVNLTFFPQH 427

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLNSSIEWLQNTPPAEHSYSELP 163
Cdd:MTH00153 428 FLGLAGMPRRYSDYPDAYTSWNVISSIGSTISLISILFFIFIIWESMISKRPVLFSLNLSSSIEWLQNLPPAEHSYSELP 507


                 ....
gi 459665854 164 LLTN 167
Cdd:MTH00153 508 LLTN 511
 
Name Accession Description Interval E-value
COX1 MTH00153
cytochrome c oxidase subunit I; Provisional
 4-167 3.58e-115

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177210  Cd Length: 511  Bit Score: 335.68  E-value: 3.58e-115
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00153 348 IGGLTGVVLANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMGGFIHWFPLFTGLTMNPKWLKIQFFIMFIGVNLTFFPQH 427

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLNSSIEWLQNTPPAEHSYSELP 163
Cdd:MTH00153 428 FLGLAGMPRRYSDYPDAYTSWNVISSIGSTISLISILFFIFIIWESMISKRPVLFSLNLSSSIEWLQNLPPAEHSYSELP 507


                 ....
gi 459665854 164 LLTN 167
Cdd:MTH00153 508 LLTN 511
Cyt_c_Oxidase_I cd01663
Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 4-150 1.03e-86

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: 262.03  E-value: 1.03e-86
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:cd01663  341 IGGLTGVVLANSSLDIALHDTYYVVAHFHYVLSMGAVFAIFAGFYYWFPKITGLSYNETLGKIHFWLMFIGVNLTFFPQH 420

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPI-QLNSSIEWLQ 150
Cdd:cd01663  421 FLGLAGMPRRYPDYPDAYAGWNMISSIGSLISFVSVLLFLFIVWESFVSGRKVIFNVgEGSTSLEWTL 488
CyoB COG0843
Heme/copper-type cytochrome/quinol oxidase, subunit 1 [Energy production and conversion];
3-166 5.24e-56

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


Pssm-ID: 440605  Cd Length: 535  Bit Score: 183.79  E-value: 5.24e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   3 VVGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQ 82
Cdd:COG0843  350 VIGGLTGVMLASVPLDYQVHDTYFVVAHFHYVLIGGVVFAFFAGLYYWFPKMTGRMLNERLGKIHFWLWFIGFNLTFFPM 429

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  83 HFLGLAGMPRRYSDYP--DAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQV-LFPIQLNsSIEWLQNTPPAEHSY 159
Cdd:COG0843  430 HILGLLGMPRRYATYPpePGWQPLNLISTIGAFILAVGFLLFLINLVVSLRKGPKAgGNPWGAR-TLEWATPSPPPLYNF 508


                 ....*..
gi 459665854 160 SELPLLT 166
Cdd:COG0843  509 ASIPVVR 515
CtaD_CoxA TIGR02891
cytochrome c oxidase, subunit I; This large family represents subunit I's (CtaD, CoxA, CaaA) ...
 3-159 5.33e-52

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: 172.79  E-value: 5.33e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854    3 VVGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQ 82
Cdd:TIGR02891 341 VIGGLTGVMLASVPLDWQLHDTYFVVAHFHYVLVGGSVFAIFAAIYYWFPKVTGRMYNERLGRWHFWLTFVGFNLTFFPM 420

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 459665854   83 HFLGLAGMPRRYSDYPDA--YTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLNSSIEWLQNTPPAEHSY 159
Cdd:TIGR02891 421 HLLGLLGMPRRYYTYPPQmgFATLNLISTIGAFILAAGFLVFLWNLIWSLRKGPKAGANPWGATTLEWTTSSPPPAHNF 499
COX1 pfam00115
Cytochrome C and Quinol oxidase polypeptide I; Cytochrome c oxidase (E.C:7.1.1.9) is a key ...
 3-114 1.20e-35

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: 128.07  E-value: 1.20e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854    3 VVGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQ 82
Cdd:pfam00115 317 IIGGLTGVMLALPPVNYYVHDTYFVVAHFHYVLFGGVVFALFGGIYYWLPKLTGRMYSEKLGKLHFWLLFIGFNLTFFPM 396

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 459665854   83 HFLGLAGMPRRYS----DYPDAYTTWNVVSTIGSTI 114
Cdd:pfam00115 397 HILGLLGMPRRYAppfiETVPAFQPLNWIRTIGGVL 432
 
Name Accession Description Interval E-value
COX1 MTH00153
cytochrome c oxidase subunit I; Provisional
 4-167 3.58e-115

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177210  Cd Length: 511  Bit Score: 335.68  E-value: 3.58e-115
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00153 348 IGGLTGVVLANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMGGFIHWFPLFTGLTMNPKWLKIQFFIMFIGVNLTFFPQH 427

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLNSSIEWLQNTPPAEHSYSELP 163
Cdd:MTH00153 428 FLGLAGMPRRYSDYPDAYTSWNVISSIGSTISLISILFFIFIIWESMISKRPVLFSLNLSSSIEWLQNLPPAEHSYSELP 507


                 ....
gi 459665854 164 LLTN 167
Cdd:MTH00153 508 LLTN 511
COX1 MTH00116
cytochrome c oxidase subunit I; Provisional
 4-167 1.86e-88

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177177  Cd Length: 515  Bit Score: 267.34  E-value: 1.86e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00116 350 IGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAGFTHWFPLFTGYTLHQTWTKAQFGVMFTGVNLTFFPQH 429

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLNSSIEWLQNTPPAEHSYSELP 163
Cdd:MTH00116 430 FLGLAGMPRRYSDYPDAYTLWNTISSIGSLISMTAVIMLMFIIWEAFSSKRKVLQPELTTTNIEWIHGCPPPYHTFEEPA 509


                 ....
gi 459665854 164 LLTN 167
Cdd:MTH00116 510 FVQV 513
COX1 MTH00167
cytochrome c oxidase subunit I; Provisional
 4-165 3.78e-88

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177222  Cd Length: 512  Bit Score: 266.54  E-value: 3.78e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00167 350 VGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAGFTHWFPLFTGLTLNETWTKIHFFVMFIGVNLTFFPQH 429

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLNSSIEWLQNTPPAEHSYSELP 163
Cdd:MTH00167 430 FLGLAGMPRRYSDYPDAYTLWNVVSSIGSLISLVAVILFLFIIWEAFSSKRKLLPVELTSTNVEWLHGCPPPHHTWEEPP 509


                 ..
gi 459665854 164 LL 165
Cdd:MTH00167 510 FV 511
Cyt_c_Oxidase_I cd01663
Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the ...
 4-150 1.03e-86

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: 262.03  E-value: 1.03e-86
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:cd01663  341 IGGLTGVVLANSSLDIALHDTYYVVAHFHYVLSMGAVFAIFAGFYYWFPKITGLSYNETLGKIHFWLMFIGVNLTFFPQH 420

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPI-QLNSSIEWLQ 150
Cdd:cd01663  421 FLGLAGMPRRYPDYPDAYAGWNMISSIGSLISFVSVLLFLFIVWESFVSGRKVIFNVgEGSTSLEWTL 488
COX1 MTH00142
cytochrome c oxidase subunit I; Provisional
 4-167 6.07e-86

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 214431  Cd Length: 511  Bit Score: 260.81  E-value: 6.07e-86
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00142 348 VGGLTGIVLANSSLDVVLHDTYYVVAHFHYVLSMGAVFALFAGFIHWFPLFTGLTLNPRWLKAHFYTMFIGVNLTFFPQH 427

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLNSSIEWLQNTPPAEHSYSELP 163
Cdd:MTH00142 428 FLGLAGMPRRYSDYPDAYTTWNVVSSLGSMISFIAVLMFVFIVWESFVSQRLVMWSSHLSTSLEWSHRLPPDFHTYDELP 507


                 ....
gi 459665854 164 LLTN 167
Cdd:MTH00142 508 ILVV 511
COX1 MTH00223
cytochrome c oxidase subunit I; Provisional
 4-163 4.31e-85

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177260  Cd Length: 512  Bit Score: 258.75  E-value: 4.31e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00223 347 VGGLTGIILSNSSLDIMLHDTYYVVAHFHYVLSMGAVFALFAGFNHWFPLFTGVTLHRRWAKAHFFLMFLGVNLTFFPQH 426

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLNSSIEWLQNTPPAEHSYSELP 163
Cdd:MTH00223 427 FLGLAGMPRRYSDYPDCYTKWNQVSSFGSMISFVSVLFFMFIVWEAFVSQRSVVWSGHLSTSLEWDNLLPADFHNNSETG 506
COX1 MTH00103
cytochrome c oxidase subunit I; Validated
 4-161 1.88e-74

cytochrome c oxidase subunit I; Validated


Pssm-ID: 177165  Cd Length: 513  Bit Score: 231.31  E-value: 1.88e-74
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00103 350 VGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMGGFVHWFPLFSGYTLNDTWAKIHFTIMFVGVNMTFFPQH 429

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLNSSIEWLQNTPPAEHSYSE 161
Cdd:MTH00103 430 FLGLSGMPRRYSDYPDAYTTWNTVSSMGSFISLTAVMLMIFMIWEAFASKREVLTVELTTTNLEWLHGCPPPYHTFEE 507
COX1 MTH00037
cytochrome c oxidase subunit I; Provisional
 4-164 2.16e-74

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177112  Cd Length: 517  Bit Score: 231.26  E-value: 2.16e-74
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00037 350 IGGLTGIVLANSSIDVVLHDTYYVVAHFHYVLSMGAVFAIFAGFTHWFPLFSGVSLHPLWSKVHFFLMFIGVNLTFFPQH 429

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLNSSIEWLQNT-PPAEHSYSEL 162
Cdd:MTH00037 430 FLGLAGMPRRYSDYPDAYTLWNTVSSIGSTISLVATLFFLFLIWEAFASQREVISPEFSSSSLEWQYSSfPPSHHTFDET 509


                 ..
gi 459665854 163 PL 164
Cdd:MTH00037 510 PS 511
COX1 MTH00183
cytochrome c oxidase subunit I; Provisional
 4-161 4.24e-74

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177234  Cd Length: 516  Bit Score: 230.58  E-value: 4.24e-74
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00183 350 VGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAFVHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFFPQH 429

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLNSSIEWLQNTPPAEHSYSE 161
Cdd:MTH00183 430 FLGLAGMPRRYSDYPDAYTLWNTVSSIGSLISLVAVIMFLFILWEAFAAKREVLSVELTSTNVEWLHGCPPPYHTFEE 507
COX1 MTH00077
cytochrome c oxidase subunit I; Provisional
 4-167 6.84e-74

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 214419  Cd Length: 514  Bit Score: 229.83  E-value: 6.84e-74
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00077 350 VGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMGGFVHWFPLFSGYTLHSTWSKIHFGVMFIGVNLTFFPQH 429

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLNSSIEWLQNTPPAEHSYSELP 163
Cdd:MTH00077 430 FLGLAGMPRRYSDYPDAYTLWNTVSSIGSLISLVAVIMMMFIIWEAFSSKREVLTTELTSTNIEWLHGCPPPYHTFEEPS 509


                 ....
gi 459665854 164 LLTN 167
Cdd:MTH00077 510 FVQT 513
COX1 MTH00007
cytochrome c oxidase subunit I; Validated
 4-166 1.66e-69

cytochrome c oxidase subunit I; Validated


Pssm-ID: 133649  Cd Length: 511  Bit Score: 218.62  E-value: 1.66e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00007 347 TGGLTGIVLSNSSLDIILHDTYYVVAHFHYVLSMGAVFAIFAAFNHWFPLFTGLTLHDRWAKAHFFLMFLGVNLTFFPQH 426

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLNSSIEWLQNTPPAEHSYSELP 163
Cdd:MTH00007 427 FLGLSGMPRRYSDYPDAYTKWNVVSSFGSMLSFVALLLFIFILWEAFSAQRGVIASPHMSSSLEWQDTLPLDFHNLPETG 506


                 ...
gi 459665854 164 LLT 166
Cdd:MTH00007 507 IIT 509
COX1 MTH00182
cytochrome c oxidase subunit I; Provisional
 4-165 7.15e-62

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 214451  Cd Length: 525  Bit Score: 198.89  E-value: 7.15e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00182 352 LGGLTGVVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIFGGFYYWFGKITGYCYNELYGKIHFWLMFIGVNLTFFPQH 431

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLN----SSIEWLQNTPPAEHSY 159
Cdd:MTH00182 432 FLGLAGFPRRYSDFADAFAGWNLVSSLGSIISIVGVVWFIYIIYDAYVREEKFIGWKEGTgeswASLEWVHSSPPLFHTY 511


                 ....*.
gi 459665854 160 SELPLL 165
Cdd:MTH00182 512 NELPFV 517
COX1 MTH00079
cytochrome c oxidase subunit I; Provisional
 4-161 2.88e-60

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177148  Cd Length: 508  Bit Score: 194.51  E-value: 2.88e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00079 350 IGGLTGVILSNSSLDIILHDTYYVVSHFHYVLSLGAVFGIFTGISLWWPFMTGIVYDKLMMSAVFFLMFVGVNLTFFPLH 429

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLNSSIEWLQNTPPAEHSYSE 161
Cdd:MTH00079 430 FAGLHGMPRKYLDYPDVYSVWNVISSYGSMISVFALFLFIYVLLESFFSYRLVLHDNYINSSPEYSLSSYVFGHSYQS 507
COX1 MTH00184
cytochrome c oxidase subunit I; Provisional
 4-165 3.02e-59

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177235  Cd Length: 519  Bit Score: 191.96  E-value: 3.02e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00184 352 MGGLTGIVLANSSLDVVLHDTYYVVAHFHYVLSMGAVFAIFGGFYYWFGKITGYCYNEVYGKIHFWLMFIGVNLTFFPQH 431

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLItqRQVLF-----PIQLNSSIEWLQNTPPAEHS 158
Cdd:MTH00184 432 FLGLAGLPRRYSDFHDSFAGWNQISSLGSVISIVGVVWFIYIVYDAYV--REIKFvgwveDSGHYPSLEWAQTSPPAHHT 509


                 ....*..
gi 459665854 159 YSELPLL 165
Cdd:MTH00184 510 YNELPYV 516
Heme_Cu_Oxidase_I cd00919
Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in ...
 3-130 3.97e-59

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: 190.43  E-value: 3.97e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   3 VVGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQ 82
Cdd:cd00919  336 TIGGLTGVVLANVPLDIVLHDTYYVVAHFHYVLSGGVVFAIFAGLYYWFPKMTGRMLSEKLGKIHFWLWFIGFNLTFFPM 415

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 459665854  83 HFLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESL 130
Cdd:cd00919  416 HFLGLLGMPRRYADYPDGFAPWNFISSVGAFILGLGLLLFLGNLFLSL 463
CyoB COG0843
Heme/copper-type cytochrome/quinol oxidase, subunit 1 [Energy production and conversion];
3-166 5.24e-56

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


Pssm-ID: 440605  Cd Length: 535  Bit Score: 183.79  E-value: 5.24e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   3 VVGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQ 82
Cdd:COG0843  350 VIGGLTGVMLASVPLDYQVHDTYFVVAHFHYVLIGGVVFAFFAGLYYWFPKMTGRMLNERLGKIHFWLWFIGFNLTFFPM 429

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  83 HFLGLAGMPRRYSDYP--DAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQV-LFPIQLNsSIEWLQNTPPAEHSY 159
Cdd:COG0843  430 HILGLLGMPRRYATYPpePGWQPLNLISTIGAFILAVGFLLFLINLVVSLRKGPKAgGNPWGAR-TLEWATPSPPPLYNF 508


                 ....*..
gi 459665854 160 SELPLLT 166
Cdd:COG0843  509 ASIPVVR 515
CtaD_CoxA TIGR02891
cytochrome c oxidase, subunit I; This large family represents subunit I's (CtaD, CoxA, CaaA) ...
 3-159 5.33e-52

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: 172.79  E-value: 5.33e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854    3 VVGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQ 82
Cdd:TIGR02891 341 VIGGLTGVMLASVPLDWQLHDTYFVVAHFHYVLVGGSVFAIFAAIYYWFPKVTGRMYNERLGRWHFWLTFVGFNLTFFPM 420

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 459665854   83 HFLGLAGMPRRYSDYPDA--YTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLNSSIEWLQNTPPAEHSY 159
Cdd:TIGR02891 421 HLLGLLGMPRRYYTYPPQmgFATLNLISTIGAFILAAGFLVFLWNLIWSLRKGPKAGANPWGATTLEWTTSSPPPAHNF 499
Ubiquinol_Oxidase_I cd01662
Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory ...
 3-159 8.48e-46

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: 156.20  E-value: 8.48e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   3 VVGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQ 82
Cdd:cd01662  342 VIGGLTGVMLASPPADFQVHDTYFVVAHFHYVLIGGVVFPLFAGFYYWFPKMFGRMLNERLGKWSFWLWFIGFNLTFFPM 421

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  83 HFLGLAGMPRRYSDYP--DAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVLFPIQLN-SSIEWLQNTPPAEHSY 159
Cdd:cd01662  422 HILGLMGMPRRVYTYLpgPGWDPLNLISTIGAFLIAAGVLLFLINVIVSIRKGKRDATGDPWGaRTLEWATSSPPPAYNF 501
COX1 MTH00026
cytochrome c oxidase subunit I; Provisional
 4-165 2.10e-44

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 164599  Cd Length: 534  Bit Score: 153.25  E-value: 2.10e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00026 353 IGGLTGIVLSNSSLDILLHDTYYVVAHFHFVLSMGAVFAIFGGFYLWFGKITGYAYKDIYGLIHFWLMFIGVNITFFPQH 432

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESL---------ITQRQVLFPIQLN----SSIEWLQ 150
Cdd:MTH00026 433 FLGLAGLPRRYADYPDNFEDFNQISSFGSIISIIAVIWFIVVIFDAYyreepfdinIMAKGPLIPFSCQpahfDTLEWSL 512

                        170
                 ....*....|....*
gi 459665854 151 NTPPAEHSYSELPLL 165
Cdd:MTH00026 513 TSPPEHHTYNELPYI 527
COX1 MTH00048
cytochrome c oxidase subunit I; Provisional
 4-137 1.62e-42

cytochrome c oxidase subunit I; Provisional


Pssm-ID: 177123  Cd Length: 511  Bit Score: 147.90  E-value: 1.62e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:MTH00048 349 IGGVTGIVLSASVLDNVLHDTWFVVAHFHYVLSLGSYSSVVIMFIWWWPLITGLSLNKYLLQCHCIISMIGFNLCFFPMH 428

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 459665854  84 FLGLAGMPRRYSDYPDAYTTWNVVSTIGSTISLLGILFFFFIIWESLITQRQVL 137
Cdd:MTH00048 429 YFGLCGLPRRVCVYEPSYYWINVVCTVGSFISAFSGCFFVFILWESLVVKNEVL 482
COX1 pfam00115
Cytochrome C and Quinol oxidase polypeptide I; Cytochrome c oxidase (E.C:7.1.1.9) is a key ...
 3-114 1.20e-35

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: 128.07  E-value: 1.20e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854    3 VVGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQ 82
Cdd:pfam00115 317 IIGGLTGVMLALPPVNYYVHDTYFVVAHFHYVLFGGVVFALFGGIYYWLPKLTGRMYSEKLGKLHFWLLFIGFNLTFFPM 396

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 459665854   83 HFLGLAGMPRRYS----DYPDAYTTWNVVSTIGSTI 114
Cdd:pfam00115 397 HILGLLGMPRRYAppfiETVPAFQPLNWIRTIGGVL 432
QoxB TIGR02882
cytochrome aa3 quinol oxidase, subunit I; This family (QoxB) encodes subunit I of the aa3-type ...
 3-163 7.83e-30

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: 113.80  E-value: 7.83e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854    3 VVGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQ 82
Cdd:TIGR02882 385 LIGGVTGVMLAMASADYQYHNTYFLVAHFHYVLITGVVFACLAGLIYWYPKMFGYKLNERLGKWCFWFFMIGFNVCFFPM 464

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   83 HFLGLAGMPRRYSDY--PDAYTTWNVVSTIGSTISLLGILFFFF-IIWESLITQRQVLFPIQLNSSIEWLQNTPPAEHSY 159
Cdd:TIGR02882 465 YILGLDGMPRRMYTYspSDGWFPLNLISTIGALLMAIGFIFLVYnIYYSHRKSPREATGDPWNGRTLEWATASPPPKYNF 544


                  ....
gi 459665854  160 SELP 163
Cdd:TIGR02882 545 AVTP 548
PRK15017 PRK15017
cytochrome o ubiquinol oxidase subunit I; Provisional
 4-163 5.98e-21

cytochrome o ubiquinol oxidase subunit I; Provisional


Pssm-ID: 184978  Cd Length: 663  Bit Score: 88.45  E-value: 5.98e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   4 VGGLTGVILANSSIDIILHDTYYVVAHFHYVLSMGAVFAIMAGFIHWYPLFTGLTLNEKMLKSQFAIMFIGVNLTFFPQH 83
Cdd:PRK15017 393 VGGMTGVLLAVPGADFVLHNSLFLIAHFHNVIIGGVVFGCFAGMTYWWPKAFGFKLNETWGKRAFWFWIIGFFVAFMPLY 472

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854  84 FLGLAGMPRRYSDYPD-AYTTWNVVSTIGSTISLLGILFFFFIIWESLITQ---RQVLFPIQLNSSIEWLQNTPPAEHSY 159
Cdd:PRK15017 473 ALGFMGMTRRLSQQIDpQFHTMLMIAASGAALIALGILCQVIQMYVSIRDRdqnRDLTGDPWGGRTLEWATSSPPPFYNF 552


                 ....
gi 459665854 160 SELP 163
Cdd:PRK15017 553 AVVP 556
ba3-like_Oxidase_I cd01660
ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are ...
 5-130 1.14e-13

ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the membrane. It has been proposed that Archaea acquired heme-copper oxidases through gene transfer from Gram-positive bacteria. The ba3 family contains oxidases that lack the conserved residues that form the D- and K-pathways in CcO and ubiquinol oxidase. Instead they contain a potential alternative K-pathway. Additional proton channels have been proposed for this family of oxidases but none have been identified definitively. For general information on the heme-copper oxidase superfamily, please see cd00919.


Pssm-ID: 238830  Cd Length: 473  Bit Score: 67.31  E-value: 1.14e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 459665854   5 GGLTGVILANSSIDIILHDTYYVVAHFHyvLSMGAVFAIMA-GFIHWY-PLFTGLTLNEKMLKS-QFAIMFIGVNLTFFP 81
Cdd:cd01660  339 GGAGGIINASYQLNYVVHNTAWVPGHFH--LTVGGAVALTFmAVAYWLvPHLTGRELAAKRLALaQPWLWFVGMTIMSTA 416

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 459665854  82 QHFLGLAGMPRR--YSDYPDAY-----TTWNVVSTIGSTISLLGILFFFFIIWESL 130
Cdd:cd01660  417 MHVAGLLGAPRRtaEAQYGGLPaagewAPYQQLMAIGGTILFVSGALFLYILFRTL 472
 
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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