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(-) Description

Title :  CATALYTIC CORE (SUBUNITS I AND II) OF CYTOCHROME C OXIDASE FROM RHODOBACTER SPHAEROIDES
 
Authors :  L. Qin, C. Hiser, A. Mulichak, R. M. Garavito, S. Ferguson-Miller
Date :  26 Apr 06  (Deposition) - 10 Oct 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Transmembrane Protein Complex, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Qin, C. Hiser, A. Mulichak, R. M. Garavito, S. Ferguson-Miller
Identification Of Conserved Lipid/Detergent-Binding Sites I A High-Resolution Structure Of The Membrane Protein Cytochrome C Oxidase.
Proc. Natl. Acad. Sci. Usa V. 103 16117 2006
PubMed-ID: 17050688  |  Reference-DOI: 10.1073/PNAS.0606149103

(-) Compounds

Molecule 1 - CYTOCHROME C OXIDASE SUBUNIT 1
    Chains: A, C
    EC Number: 1.9.3.1
    Engineered: YES
    Expression System: RHODOBACTER SPHAEROIDES
    Expression System Taxid: 1063
    Gene: CTAD
    Organism Scientific: RHODOBACTER SPHAEROIDES
    Organism Taxid: 1063
    Synonym: CYTOCHROME C OXIDASE POLYPEPTIDE I, CYTOCHROME AA3 SUBUNIT 1
 
Molecule 2 - CYTOCHROME C OXIDASE SUBUNIT 2
    Chains: B, D
    EC Number: 1.9.3.1
    Engineered: YES
    Expression System: RHODOBACTER SPHAEROIDES
    Expression System Taxid: 1063
    Gene: CTAC, COXII, CTAB
    Organism Scientific: RHODOBACTER SPHAEROIDES
    Organism Taxid: 1063
    Synonym: CYTOCHROME C OXIDASE POLYPEPTIDE II, CYTOCHROME AA3 SUBUNIT 2, OXIDASE AA3, SUBUNIT 2

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (8, 42)

Asymmetric Unit (8, 42)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2CD4Ligand/IonCADMIUM ION
3CU6Ligand/IonCOPPER (II) ION
4DMU10Ligand/IonDECYL-BETA-D-MALTOPYRANOSIDE
5HEA4Ligand/IonHEME-A
6MG2Ligand/IonMAGNESIUM ION
7OH2Ligand/IonHYDROXIDE ION
8TRD12Ligand/IonTRIDECANE
Biological Unit 1 (3, 13)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2CD-1Ligand/IonCADMIUM ION
3CU-1Ligand/IonCOPPER (II) ION
4DMU5Ligand/IonDECYL-BETA-D-MALTOPYRANOSIDE
5HEA2Ligand/IonHEME-A
6MG-1Ligand/IonMAGNESIUM ION
7OH-1Ligand/IonHYDROXIDE ION
8TRD6Ligand/IonTRIDECANE
Biological Unit 2 (3, 13)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2CD-1Ligand/IonCADMIUM ION
3CU-1Ligand/IonCOPPER (II) ION
4DMU5Ligand/IonDECYL-BETA-D-MALTOPYRANOSIDE
5HEA2Ligand/IonHEME-A
6MG-1Ligand/IonMAGNESIUM ION
7OH-1Ligand/IonHYDROXIDE ION
8TRD6Ligand/IonTRIDECANE

(-) Sites  (38, 38)

Asymmetric Unit (38, 38)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETRP A:451 , PHE A:510 , TYR A:517 , DMU A:5002 , GLN B:142 , TRP B:143 , PRO B:164 , HOH B:5017 , HOH B:5033 , HOH B:5040 , HOH B:5125BINDING SITE FOR RESIDUE DMU A 5001
02AC2SOFTWARETRP A:451 , ALA A:506 , DMU A:5001 , HOH A:6627BINDING SITE FOR RESIDUE DMU A 5002
03AC3SOFTWARETRP A:371 , PHE B:94 , HIS B:96 , ASN B:97 , LEU B:100 , TRP B:104 , HOH B:5144 , GLU C:86 , SER D:173 , PRO D:174 , GLU D:177 , HOH D:1151BINDING SITE FOR RESIDUE DMU B 5003
04AC4SOFTWAREMET A:443 , SER A:444 , HOH A:6557BINDING SITE FOR RESIDUE DMU A 5004
05AC5SOFTWAREPHE B:124 , GLU B:128 , HOH B:5146BINDING SITE FOR RESIDUE DMU B 5011
06AC6SOFTWARETRP C:451 , TRD C:6001BINDING SITE FOR RESIDUE DMU C 6002
07AC7SOFTWAREHIS D:96 , ASN D:97BINDING SITE FOR RESIDUE DMU D 6003
08AC8SOFTWARETRP C:20 , MET C:443 , SER C:444 , ILE C:515 , HOH C:1102BINDING SITE FOR RESIDUE DMU C 6004
09AC9SOFTWAREGLN C:61 , PHE C:62 , PRO C:82 , HOH C:1152 , HOH C:1164BINDING SITE FOR RESIDUE DMU C 6005
10BC1SOFTWAREPRO D:121 , PHE D:124 , ASN D:125 , GLU D:128BINDING SITE FOR RESIDUE DMU D 6011
11BC2SOFTWARECYS B:252 , GLU B:254 , CYS B:256 , HIS B:260 , CU B:3004BINDING SITE FOR RESIDUE CU B 3003
12BC3SOFTWAREHIS B:217 , CYS B:252 , CYS B:256 , MET B:263 , CU B:3003BINDING SITE FOR RESIDUE CU B 3004
13BC4SOFTWAREHIS A:284 , HIS A:333 , HIS A:334 , OH A:6501 , HOH A:6506BINDING SITE FOR RESIDUE CU A 3005
14BC5SOFTWAREHIS A:411 , ASP A:412 , GLU B:254 , HOH B:5042 , HOH B:5048 , HOH B:5055BINDING SITE FOR RESIDUE MG A 3006
15BC6SOFTWAREGLU A:54 , ALA A:57 , GLY A:59 , GLN A:61 , HOH A:6547 , HOH A:6559BINDING SITE FOR RESIDUE CA A 3007
16BC7SOFTWAREGLU B:280 , HIS B:283 , HIS B:285 , GLU D:152BINDING SITE FOR RESIDUE CD B 3008
17BC8SOFTWAREHIS B:96 , GLU B:101 , HOH B:5113 , HOH B:5114BINDING SITE FOR RESIDUE CD B 3009
18BC9SOFTWARECYS D:252 , GLU D:254 , CYS D:256 , HIS D:260 , CU D:4004BINDING SITE FOR RESIDUE CU D 4003
19CC1SOFTWAREHIS D:217 , CYS D:252 , CYS D:256 , MET D:263 , CU D:4003BINDING SITE FOR RESIDUE CU D 4004
20CC2SOFTWAREHIS C:284 , HIS C:333 , HIS C:334 , HOH C:1006 , OH C:7501BINDING SITE FOR RESIDUE CU C 4005
21CC3SOFTWAREHIS C:411 , ASP C:412 , GLU D:254 , HOH D:1071 , HOH D:1082 , HOH D:1094BINDING SITE FOR RESIDUE MG C 4006
22CC4SOFTWAREGLU C:54 , ALA C:57 , GLY C:59 , GLN C:61 , HOH C:1085 , HOH C:1107BINDING SITE FOR RESIDUE CA C 4007
23CC5SOFTWAREGLU B:152 , GLU D:280 , HIS D:283 , HIS D:285BINDING SITE FOR RESIDUE CD D 4008
24CC6SOFTWAREHIS D:96 , GLU D:101 , HOH D:1196 , HOH D:1197BINDING SITE FOR RESIDUE CD D 4009
25CC7SOFTWAREHIS A:284 , VAL A:287 , HIS A:334 , HEA A:2002 , CU A:3005 , HOH A:6506BINDING SITE FOR RESIDUE OH A 6501
26CC8SOFTWAREHIS C:284 , VAL C:287 , HIS C:334 , HOH C:1006 , HEA C:3002 , CU C:4005BINDING SITE FOR RESIDUE OH C 7501
27CC9SOFTWARELEU A:34 , GLY A:38 , THR A:48 , MET A:51 , ARG A:52 , TRP A:95 , ILE A:99 , HIS A:102 , MET A:106 , GLY A:171 , TRP A:172 , TYR A:414 , PHE A:420 , HIS A:421 , SER A:425 , PHE A:468 , GLN A:471 , ARG A:481 , ARG A:482 , SER A:504 , HOH A:6502 , HOH A:6504 , HOH A:6569BINDING SITE FOR RESIDUE HEA A 2001
28DC1SOFTWARETRP A:172 , TRP A:280 , VAL A:287 , TYR A:288 , HIS A:333 , HIS A:334 , THR A:352 , ILE A:355 , THR A:359 , GLY A:360 , ILE A:363 , GLY A:395 , GLY A:398 , ILE A:399 , LEU A:401 , SER A:402 , ASP A:407 , HIS A:411 , VAL A:416 , HIS A:419 , PHE A:420 , VAL A:423 , MET A:424 , ARG A:481 , OH A:6501 , HOH A:6506 , HOH A:6515 , HOH A:6524 , HOH A:6533 , HOH A:6553BINDING SITE FOR RESIDUE HEA A 2002
29DC2SOFTWARELEU C:34 , THR C:48 , MET C:51 , ARG C:52 , TRP C:95 , ILE C:99 , HIS C:102 , MET C:106 , MET C:107 , VAL C:111 , GLY C:171 , TRP C:172 , TYR C:414 , PHE C:420 , HIS C:421 , MET C:424 , SER C:425 , VAL C:429 , PHE C:468 , GLN C:471 , ARG C:481 , ARG C:482 , SER C:504 , PHE C:508 , HOH C:1001 , HOH C:1003 , HOH C:1130BINDING SITE FOR RESIDUE HEA C 3001
30DC3SOFTWARETRP C:172 , TRP C:280 , VAL C:287 , TYR C:288 , HIS C:333 , HIS C:334 , THR C:352 , ILE C:355 , THR C:359 , GLY C:360 , GLY C:395 , GLY C:398 , LEU C:401 , SER C:402 , ASP C:407 , HIS C:411 , VAL C:416 , HIS C:419 , PHE C:420 , VAL C:423 , MET C:424 , ARG C:481 , HOH C:1006 , HOH C:1015 , HOH C:1030 , HOH C:1048 , HOH C:1096 , OH C:7501BINDING SITE FOR RESIDUE HEA C 3002
31DC4SOFTWAREMET A:56 , HOH A:6585BINDING SITE FOR RESIDUE TRD A 5005
32DC5SOFTWARETRP A:81BINDING SITE FOR RESIDUE TRD A 5006
33DC6SOFTWAREARG A:476 , THR B:41BINDING SITE FOR RESIDUE TRD A 5007
34DC7SOFTWAREMET A:350 , VAL A:354 , GLY B:116BINDING SITE FOR RESIDUE TRD B 5008
35DC8SOFTWAREHIS B:84BINDING SITE FOR RESIDUE TRD A 5010
36DC9SOFTWARETRP C:451 , GLY C:513 , DMU C:6002BINDING SITE FOR RESIDUE TRD C 6001
37EC1SOFTWARELEU C:80 , TRP C:81 , PRO C:82BINDING SITE FOR RESIDUE TRD C 6006
38EC2SOFTWAREARG C:476 , THR D:41BINDING SITE FOR RESIDUE TRD D 6007

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:64 -A:88
2C:64 -C:88

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Pro A:176 -Pro A:177
2Ser A:544 -Pro A:545
3Gln B:142 -Trp B:143
4Pro C:176 -Pro C:177
5Ser C:544 -Pro C:545
6Gln D:142 -Trp D:143

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2GSM)

(-) PROSITE Motifs  (5, 10)

Asymmetric Unit (5, 10)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1COX1PS50855 Cytochrome oxidase subunit I profile.COX1_RHOSH20-558
 		  2A:20-551
C:20-550
2COX2_TMPS50999 Cytochrome oxidase subunit II transmembrane region profile.COX2_RHOSH35-130
 		  2B:35-130
D:35-130
3COX2_CUAPS50857 Cytochrome oxidase subunit II copper A binding domain profile.COX2_RHOSH131-281
 		  2B:131-281
D:131-281
4COX2PS00078 CO II and nitrous oxide reductase dinuclear copper centers signature.COX2_RHOSH215-263
 		  2B:215-263
D:215-263
5COX1_CUBPS00077 Heme-copper oxidase catalytic subunit, copper B binding region signature.COX1_RHOSH280-334
 		  2A:280-334
C:280-334
Biological Unit 1 (5, 5)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1COX1PS50855 Cytochrome oxidase subunit I profile.COX1_RHOSH20-558
 		  1A:20-551
-
2COX2_TMPS50999 Cytochrome oxidase subunit II transmembrane region profile.COX2_RHOSH35-130
 		  1B:35-130
-
3COX2_CUAPS50857 Cytochrome oxidase subunit II copper A binding domain profile.COX2_RHOSH131-281
 		  1B:131-281
-
4COX2PS00078 CO II and nitrous oxide reductase dinuclear copper centers signature.COX2_RHOSH215-263
 		  1B:215-263
-
5COX1_CUBPS00077 Heme-copper oxidase catalytic subunit, copper B binding region signature.COX1_RHOSH280-334
 		  1A:280-334
-
Biological Unit 2 (5, 5)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1COX1PS50855 Cytochrome oxidase subunit I profile.COX1_RHOSH20-558
 		  1-
C:20-550
2COX2_TMPS50999 Cytochrome oxidase subunit II transmembrane region profile.COX2_RHOSH35-130
 		  1-
D:35-130
3COX2_CUAPS50857 Cytochrome oxidase subunit II copper A binding domain profile.COX2_RHOSH131-281
 		  1-
D:131-281
4COX2PS00078 CO II and nitrous oxide reductase dinuclear copper centers signature.COX2_RHOSH215-263
 		  1-
D:215-263
5COX1_CUBPS00077 Heme-copper oxidase catalytic subunit, copper B binding region signature.COX1_RHOSH280-334
 		  1-
C:280-334

(-) Exons   (0, 0)

(no "Exon" information available for 2GSM)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:535
 aligned with COX1_RHOSH | P33517 from UniProtKB/Swiss-Prot  Length:566

    Alignment length:535
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546     
           COX1_RHOSH    17 FTRWFMSTNHKDIGVLYLFTGGLVGLISVAFTVYMRMELMAPGVQFMCAEHLESGLVKGFFQSLWPSAVENCTPNGHLWNVMITGHGILMMFFVVIPALFGGFGNYFMPLHIGAPDMAFPRMNNLSYWLYVAGTSLAVASLFAPGGNGQLGSGIGWVLYPPLSTSESGYSTDLAIFAVHLSGASSILGAINMITTFLNMRAPGMTMHKVPLFAWSIFVTAWLILLALPVLAGAITMLLTDRNFGTTFFQPSGGGDPVLYQHILWFFGHPEVYIIVLPAFGIVSHVIATFAKKPIFGYLPMVYAMVAIGVLGFVVWAHHMYTAGLSLTQQSYFMMATMVIAVPTGIKIFSWIATMWGGSIELKTPMLWALGFLFLFTVGGVTGIVLSQASVDRYYHDTYYVVAHFHYVMSLGAVFGIFAGIYFWIGKMSGRQYPEWAGKLHFWMMFVGANLTFFPQHFLGRQGMPRRYIDYPEAFATWNFVSSLGAFLSFASFLFFLGVIFYTLTRGARVTANNYWNEHADTLEWTLTSPPPEHTF 551
               SCOP domains d2gsma_ A: Bacterial aa3 type cytochrome c oxidase subunit I                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains 2gsmA00 A:17-551 Cytochrome C Oxidase, chain A                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh....hhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh...hhhhh...........hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhee............hhhhhh......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---COX1  PDB: A:20-551 UniProt: 20-558                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------COX1_CUB  PDB: A:280-334 UniProt: 280-334              ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2gsm A  17 FTRWFMSTNHKDIGVLYLFTGGLVGLISVAFTVYMRMELMAPGVQFMCAEHLESGLVKGFFQSLWPSAVENCTPNGHLWNVMITGHGILMMFFVVIPALFGGFGNYFMPLHIGAPDMAFPRMNNLSYWLYVAGTSLAVASLFAPGGNGQLGSGIGWVLYPPLSTSESGYSTDLAIFAVHLSGASSILGAINMITTFLNMRAPGMTMHKVPLFAWSIFVTAWLILLALPVLAGAITMLLTDRNFGTTFFQPSGGGDPVLYQHILWFFGHPEVYIIVLPAFGIVSHVIATFAKKPIFGYLPMVYAMVAIGVLGFVVWAHHMYTAGLSLTQQSYFMMATMVIAVPTGIKIFSWIATMWGGSIELKTPMLWALGFLFLFTVGGVTGIVLSQASVDRYYHDTYYVVAHFHYVMSLGAVFGIFAGIYFWIGKMSGRQYPEWAGKLHFWMMFVGANLTFFPQHFLGRQGMPRRYIDYPEAFATWNFVSSLGAFLSFASFLFFLGVIFYTLTRGARVTANNYWNEHADTLEWTLTSPPPEHTF 551
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546     


Chain B from PDB  Type:PROTEIN  Length:256
 aligned with COX2_RHOSH | Q03736 from UniProtKB/Swiss-Prot  Length:303

    Alignment length:256
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279      
           COX2_RHOSH    30 LEIIGRPQPGGTGFQPSASPVATQIHWLDGFILVIIAAITIFVTLLILYAVWRFHEKRNKVPARFTHNSPLEIAWTIVPIVILVAIGAFSLPVLFNQQEIPEADVTVKVTGYQWYWGYEYPDEEISFESYMIGSPATGGDNRMSPEVEQQLIEAGYSRDEFLLATDTAMVVPVNKTVVVQVTGADVIHSWTVPAFGVKQDAVPGRLAQLWFRAEREGIFFGQCSELCGISHAYMPITVKVVSEEAYAAWLEQARGG 285
               SCOP domains d2gsmb2 B:30-129 Bacterial aa3 type cytochrome c oxidase subunit II                                 d2gsmb1 B:130-285 Cytochrome c oxidase                                                                                                                       SCOP domains
               CATH domains -----2gsmB01 B:35-130  [code=1.10.287.90, no name defined]                                           2gsmB02 B:131-283 Cupredoxins -  blue copper proteins                                                                                                    -- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeee..eeeee......eeee....hhhhh.....hhhhhhhhhhh..hhhhh.......eeee...eeeeeeee....eeeeehhhheeeee.....eeeeee....eeeee........hhhhh.eeeeeehhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) -----COX2_TM  PDB: B:35-130 UniProt: 35-130                                                          COX2_CUA  PDB: B:131-281 UniProt: 131-281                                                                                                              ---- PROSITE (2)
                PROSITE (3) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------COX2  PDB: B:215-263 UniProt: 215-263            ---------------------- PROSITE (3)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2gsm B  30 LEIIGRPQPGGTGFQPSASPVATQIHWLDGFILVIIAAITIFVTLLILYAVWRFHEKRNKVPARFTHNSPLEIAWTIVPIVILVAIGAFSLPVLFNQQEIPEADVTVKVTGYQWYWGYEYPDEEISFESYMIGSPATGGDNRMSPEVEQQLIEAGYSRDEFLLATDTAMVVPVNKTVVVQVTGADVIHSWTVPAFGVKQDAVPGRLAQLWFRAEREGIFFGQCSELCGISHAYMPITVKVVSEEAYAAWLEQHHHH 285
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279      


Chain C from PDB  Type:PROTEIN  Length:534
 aligned with COX1_RHOSH | P33517 from UniProtKB/Swiss-Prot  Length:566

    Alignment length:534
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546    
           COX1_RHOSH    17 FTRWFMSTNHKDIGVLYLFTGGLVGLISVAFTVYMRMELMAPGVQFMCAEHLESGLVKGFFQSLWPSAVENCTPNGHLWNVMITGHGILMMFFVVIPALFGGFGNYFMPLHIGAPDMAFPRMNNLSYWLYVAGTSLAVASLFAPGGNGQLGSGIGWVLYPPLSTSESGYSTDLAIFAVHLSGASSILGAINMITTFLNMRAPGMTMHKVPLFAWSIFVTAWLILLALPVLAGAITMLLTDRNFGTTFFQPSGGGDPVLYQHILWFFGHPEVYIIVLPAFGIVSHVIATFAKKPIFGYLPMVYAMVAIGVLGFVVWAHHMYTAGLSLTQQSYFMMATMVIAVPTGIKIFSWIATMWGGSIELKTPMLWALGFLFLFTVGGVTGIVLSQASVDRYYHDTYYVVAHFHYVMSLGAVFGIFAGIYFWIGKMSGRQYPEWAGKLHFWMMFVGANLTFFPQHFLGRQGMPRRYIDYPEAFATWNFVSSLGAFLSFASFLFFLGVIFYTLTRGARVTANNYWNEHADTLEWTLTSPPPEHT 550
               SCOP domains d2gsmc_ C: Bacterial aa3 type cytochrome c oxidase subunit I                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains 2gsmC00 C:17-550 Cytochrome C Oxidase, chain A                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhh.hhhhhhhhh....hhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh...hhhhh...........hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..............hhhhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) ---COX1  PDB: C:20-550 UniProt: 20-558                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE (2)
                PROSITE (3) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------COX1_CUB  PDB: C:280-334 UniProt: 280-334              ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE (3)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2gsm C  17 FTRWFMSTNHKDIGVLYLFTGGLVGLISVAFTVYMRMELMAPGVQFMCAEHLESGLVKGFFQSLWPSAVENCTPNGHLWNVMITGHGILMMFFVVIPALFGGFGNYFMPLHIGAPDMAFPRMNNLSYWLYVAGTSLAVASLFAPGGNGQLGSGIGWVLYPPLSTSESGYSTDLAIFAVHLSGASSILGAINMITTFLNMRAPGMTMHKVPLFAWSIFVTAWLILLALPVLAGAITMLLTDRNFGTTFFQPSGGGDPVLYQHILWFFGHPEVYIIVLPAFGIVSHVIATFAKKPIFGYLPMVYAMVAIGVLGFVVWAHHMYTAGLSLTQQSYFMMATMVIAVPTGIKIFSWIATMWGGSIELKTPMLWALGFLFLFTVGGVTGIVLSQASVDRYYHDTYYVVAHFHYVMSLGAVFGIFAGIYFWIGKMSGRQYPEWAGKLHFWMMFVGANLTFFPQHFLGRQGMPRRYIDYPEAFATWNFVSSLGAFLSFASFLFFLGVIFYTLTRGARVTANNYWNEHADTLEWTLTSPPPEHT 550
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546    


Chain D from PDB  Type:PROTEIN  Length:256
 aligned with COX2_RHOSH | Q03736 from UniProtKB/Swiss-Prot  Length:303

    Alignment length:256
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279      
           COX2_RHOSH    30 LEIIGRPQPGGTGFQPSASPVATQIHWLDGFILVIIAAITIFVTLLILYAVWRFHEKRNKVPARFTHNSPLEIAWTIVPIVILVAIGAFSLPVLFNQQEIPEADVTVKVTGYQWYWGYEYPDEEISFESYMIGSPATGGDNRMSPEVEQQLIEAGYSRDEFLLATDTAMVVPVNKTVVVQVTGADVIHSWTVPAFGVKQDAVPGRLAQLWFRAEREGIFFGQCSELCGISHAYMPITVKVVSEEAYAAWLEQARGG 285
               SCOP domains d2gsmd2 D:30-129 Bacterial aa3 type cytochrome c oxidase subunit II                                 d2gsmd1 D:130-285 Cytochrome c oxidase                                                                                                                       SCOP domains
               CATH domains -----2gsmD01 D:35-130  [code=1.10.287.90, no name defined]                                           2gsmD02 D:131-283 Cupredoxins -  blue copper proteins                                                                                                    -- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeee..eeeeee....eeeee....hhhhh.....hhhhhhhhhhh..hhhhh.......eeee...eeeeeeee....eeeeehhhheeeee.....eeeeee....eeeee........hhhhh.eeeeeehhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) -----COX2_TM  PDB: D:35-130 UniProt: 35-130                                                          COX2_CUA  PDB: D:131-281 UniProt: 131-281                                                                                                              ---- PROSITE (2)
                PROSITE (3) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------COX2  PDB: D:215-263 UniProt: 215-263            ---------------------- PROSITE (3)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2gsm D  30 LEIIGRPQPGGTGFQPSASPVATQIHWLDGFILVIIAAITIFVTLLILYAVWRFHEKRNKVPARFTHNSPLEIAWTIVPIVILVAIGAFSLPVLFNQQEIPEADVTVKVTGYQWYWGYEYPDEEISFESYMIGSPATGGDNRMSPEVEQQLIEAGYSRDEFLLATDTAMVVPVNKTVVVQVTGADVIHSWTVPAFGVKQDAVPGRLAQLWFRAEREGIFFGQCSELCGISHAYMPITVKVVSEEAYAAWLEQHHHH 285
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (3, 6)

Asymmetric Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Membrane and cell surface proteins and peptides (2046)

(-) CATH Domains  (3, 6)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2GSM)

(-) Gene Ontology  (19, 30)

Asymmetric Unit(hide GO term definitions)
Chain A,C   (COX1_RHOSH | P33517)
molecular function
    GO:0005507    copper ion binding    Interacting selectively and non-covalently with copper (Cu) ions.
    GO:0004129    cytochrome-c oxidase activity    Catalysis of the reaction: 4 ferrocytochrome c + O2 + 4 H+ = 4 ferricytochrome c + 2 H2O.
    GO:0009055    electron carrier activity    Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:0020037    heme binding    Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
    GO:0005506    iron ion binding    Interacting selectively and non-covalently with iron (Fe) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0009060    aerobic respiration    The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which requires oxygen as the terminal electron acceptor.
    GO:0022900    electron transport chain    A process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:1902600    hydrogen ion transmembrane transport    The directed movement of hydrogen ion (proton) across a membrane.
    GO:0006811    ion transport    The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0006119    oxidative phosphorylation    The phosphorylation of ADP to ATP that accompanies the oxidation of a metabolite through the operation of the respiratory chain. Oxidation of compounds establishes a proton gradient across the membrane, providing the energy for ATP synthesis.
    GO:0015992    proton transport    The directed movement of protons (hydrogen ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
    GO:0070469    respiratory chain    The protein complexes that form the electron transport system (the respiratory chain), associated with a cell membrane, usually the plasma membrane (in prokaryotes) or the inner mitochondrial membrane (on eukaryotes). The respiratory chain complexes transfer electrons from an electron donor to an electron acceptor and are associated with a proton pump to create a transmembrane electrochemical gradient.

Chain B,D   (COX2_RHOSH | Q03736)
molecular function
    GO:0005507    copper ion binding    Interacting selectively and non-covalently with copper (Cu) ions.
    GO:0004129    cytochrome-c oxidase activity    Catalysis of the reaction: 4 ferrocytochrome c + O2 + 4 H+ = 4 ferricytochrome c + 2 H2O.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0022900    electron transport chain    A process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:1902600    hydrogen ion transmembrane transport    The directed movement of hydrogen ion (proton) across a membrane.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
    GO:0070469    respiratory chain    The protein complexes that form the electron transport system (the respiratory chain), associated with a cell membrane, usually the plasma membrane (in prokaryotes) or the inner mitochondrial membrane (on eukaryotes). The respiratory chain complexes transfer electrons from an electron donor to an electron acceptor and are associated with a proton pump to create a transmembrane electrochemical gradient.

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  2gsm
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  COX1_RHOSH | P33517
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  COX2_RHOSH | Q03736
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        COX1_RHOSH | P33517: 1m56 1m57 3dtu 3fye 3fyi
        COX2_RHOSH | Q03736: 1m56 1m57 3dtu 3fye 3fyi

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 2GSM)