4GP4A

Structure of recombinant cytochrome ba3 oxidase mutant y133f from thermus thermophilus
Total Genus 228
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
228
sequence length
554
structure length
554
Chain Sequence
SRVYEAYPEKKATLYFLVLGFLALIVGSLFGPFQALNYGNVDAYPLLKRLLPFVQSYYQGLTLHGVLNAIVFTQLFAQAIMVYLPARELNMRPNMGLMWLSWWMAFIGLVVAALPLLANEATVLFTFYPPLKGHWAFYLGASVFVLSTWVSIYIVLDLWRRWKAANPGKVTPLVTYMAVVFWLMWFLASLGLVLEAVLFLLPWSFGLVEGVDPLVARTLFWWTGHPIVYFWLLPAYAIIYTILPKQAGGKLVSDPMARLAFLLFLLLSTPVGFHHQFADPGIDPTWKMIHSVLTLFVAVPSLMTAFTVAASLEFAGRLRGGRGLFGWIRALPWDNPAFVAPVLGLLGFIPGGAGGIVNASFTLDYVVHNTAWVPGHFHLQVASLVTLTAMGSLYWLLPNLTGKPISDAQRRLGLAVVWLWFLGMMIMAVGLHWAGLLNVPRRAYIAQVPDAYPHAAVPMVFNVLAGIVLLVALLLFIYGLFSVLLSRERKPELAEAPLPFAEVISGPEDRRLVLAMDRIGFWFAVAAILVVLAYGPTLVQLFGHLNPVPGWRLW
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The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.


  Genus data interpretation
Chord Diagram
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publication title Ligand Access to the Active Site in Thermus thermophilusba(3) and Bovine Heart aa(3) Cytochrome Oxidases.
pubmed doi rcsb
molecule tags Oxidoreductase
source organism Thermus thermophilus
molecule keywords Cytochrome c oxidase subunit 1
total genus 228
structure length 554
sequence length 554
ec nomenclature ec 1.9.3.1: Cytochrome-c oxidase.
pdb deposition date 2012-08-20

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00115 COX1 Cytochrome C and Quinol oxidase polypeptide I
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.20.210.10 Mainly Alpha Up-down Bundle Cytochrome C Oxidase; Chain A Cytochrome c oxidase-like, subunit I domain 4gp4A00
2QPEA 1M57A 3QJQA 4G72A 3QJUA 2ZXWA 1QLEA 3AG1A 2Y69A 3X2QA 3S3DA 3DTUA 3HB3A 4FA7A 4XYDA 1AR1A 3AG3A 3AG2A 2DYRA 3ASNA 2QPDA 2GSMA 1OCOA 3QJTA 1M56A 3OMAA 1XMEA 2EINA 3WFBB 4G7RA 3WG7A 4G70A 3WFEB 1FFTA 4G71A 3ABLA 3EH3A 3ASOA 3WFDB 5DJQA 2EIMA 3O0RB 1V54A 2YEVA 5IY5A 5B1AA 2EILA 3OMNA 1OCCA 1OCRA 4GP5A 3QJSA 3FYIA 3EH5A 3S8GA 3ABMA 3EHBA 3QJVA 4FAAA 3AG4A 3OM3A 3WFCB 2DYSA 5B3SA 3OMIA 3ABKA 1V55A 3S8FA 3BVDA 4N4YA 5B1BA 3S3CA 3EH4A 1OCZA 2OCCA 4G7QA 3S3BA 2EIKA 2EIJA 3AYFA 3AYGA 3FYEA 4GP8A 3QJRA 4GP4A 4G7SA 1EHKA 3MK7A
chains in the Genus database with same CATH superfamily
2QPEA 1M57A 3QJQA 4G72A 3QJUA 2ZXWA 1QLEA 3AG1A 2Y69A 3X2QA 3S3DA 3DTUA 3HB3A 4FA7A 4XYDA 1AR1A 3AG3A 3AG2A 2DYRA 3ASNA 2QPDA 2GSMA 1OCOA 3QJTA 1M56A 3OMAA 1XMEA 2EINA 3WFBB 4G7RA 3WG7A 4G70A 3WFEB 1FFTA 4G71A 3ABLA 3EH3A 3ASOA 3WFDB 5DJQA 2EIMA 3O0RB 1V54A 2YEVA 5IY5A 5B1AA 2EILA 3OMNA 1OCCA 1OCRA 4GP5A 3QJSA 3FYIA 3EH5A 3S8GA 3ABMA 3EHBA 3QJVA 4FAAA 3AG4A 3OM3A 3WFCB 2DYSA 5B3SA 3OMIA 3ABKA 1V55A 3S8FA 3BVDA 4N4YA 5B1BA 3S3CA 3EH4A 1OCZA 2OCCA 4G7QA 3S3BA 2EIKA 2EIJA 3AYFA 3AYGA 3FYEA 4GP8A 3QJRA 4GP4A 4G7SA 1EHKA 3MK7A
chains in the Genus database with same CATH topology
2QPEA 1M57A 3QJQA 4G72A 3QJUA 2ZXWA 1QLEA 3AG1A 2Y69A 3X2QA 3S3DA 3DTUA 3HB3A 4FA7A 4XYDA 1AR1A 3AG3A 3AG2A 2DYRA 3ASNA 2QPDA 2GSMA 1OCOA 3QJTA 1M56A 3OMAA 1XMEA 2EINA 3WFBB 4G7RA 3WG7A 4G70A 3WFEB 1FFTA 4G71A 3ABLA 3EH3A 3ASOA 3WFDB 5DJQA 2EIMA 3O0RB 1V54A 2YEVA 5IY5A 5B1AA 2EILA 3OMNA 1OCCA 1OCRA 4GP5A 3QJSA 3FYIA 3EH5A 3S8GA 3ABMA 3EHBA 3QJVA 4FAAA 3AG4A 3OM3A 3WFCB 2DYSA 5B3SA 3OMIA 3ABKA 1V55A 3S8FA 3BVDA 4N4YA 5B1BA 3S3CA 3EH4A 1OCZA 2OCCA 4G7QA 3S3BA 2EIKA 2EIJA 3AYFA 3AYGA 3FYEA 4GP8A 3QJRA 4GP4A 4G7SA 1EHKA 3MK7A
chains in the Genus database with same CATH homology

  
#chains in the Genus database with same CATH superfamily
 2QPE A;  1M57 A;  3QJQ A;  4G72 A;  3QJU A;  2ZXW A;  1QLE A;  3AG1 A;  2Y69 A;  3X2Q A;  3S3D A;  3DTU A;  3HB3 A;  4FA7 A;  4XYD A;  1AR1 A;  3AG3 A;  3AG2 A;  2DYR A;  3ASN A;  2QPD A;  2GSM A;  1OCO A;  3QJT A;  1M56 A;  3OMA A;  1XME A;  2EIN A;  3WFB B;  4G7R A;  3WG7 A;  4G70 A;  3WFE B;  1FFT A;  4G71 A;  3ABL A;  3EH3 A;  3ASO A;  3WFD B;  5DJQ A;  2EIM A;  3O0R B;  1V54 A;  2YEV A;  5IY5 A;  5B1A A;  2EIL A;  3OMN A;  1OCC A;  1OCR A;  4GP5 A;  3QJS A;  3FYI A;  3EH5 A;  3S8G A;  3ABM A;  3EHB A;  3QJV A;  4FAA A;  3AG4 A;  3OM3 A;  3WFC B;  2DYS A;  5B3S A;  3OMI A;  3ABK A;  1V55 A;  3S8F A;  3BVD A;  4N4Y A;  5B1B A;  3S3C A;  3EH4 A;  1OCZ A;  2OCC A;  4G7Q A;  3S3B A;  2EIK A;  2EIJ A;  3AYF A;  3AYG A;  3FYE A;  4GP8 A;  3QJR A;  4GP4 A;  4G7S A;  1EHK A;  3MK7 A; 
#chains in the Genus database with same CATH topology
 2QPE A;  1M57 A;  3QJQ A;  4G72 A;  3QJU A;  2ZXW A;  1QLE A;  3AG1 A;  2Y69 A;  3X2Q A;  3S3D A;  3DTU A;  3HB3 A;  4FA7 A;  4XYD A;  1AR1 A;  3AG3 A;  3AG2 A;  2DYR A;  3ASN A;  2QPD A;  2GSM A;  1OCO A;  3QJT A;  1M56 A;  3OMA A;  1XME A;  2EIN A;  3WFB B;  4G7R A;  3WG7 A;  4G70 A;  3WFE B;  1FFT A;  4G71 A;  3ABL A;  3EH3 A;  3ASO A;  3WFD B;  5DJQ A;  2EIM A;  3O0R B;  1V54 A;  2YEV A;  5IY5 A;  5B1A A;  2EIL A;  3OMN A;  1OCC A;  1OCR A;  4GP5 A;  3QJS A;  3FYI A;  3EH5 A;  3S8G A;  3ABM A;  3EHB A;  3QJV A;  4FAA A;  3AG4 A;  3OM3 A;  3WFC B;  2DYS A;  5B3S A;  3OMI A;  3ABK A;  1V55 A;  3S8F A;  3BVD A;  4N4Y A;  5B1B A;  3S3C A;  3EH4 A;  1OCZ A;  2OCC A;  4G7Q A;  3S3B A;  2EIK A;  2EIJ A;  3AYF A;  3AYG A;  3FYE A;  4GP8 A;  3QJR A;  4GP4 A;  4G7S A;  1EHK A;  3MK7 A; 
#chains in the Genus database with same CATH homology
 2QPE A;  1M57 A;  3QJQ A;  4G72 A;  3QJU A;  2ZXW A;  1QLE A;  3AG1 A;  2Y69 A;  3X2Q A;  3S3D A;  3DTU A;  3HB3 A;  4FA7 A;  4XYD A;  1AR1 A;  3AG3 A;  3AG2 A;  2DYR A;  3ASN A;  2QPD A;  2GSM A;  1OCO A;  3QJT A;  1M56 A;  3OMA A;  1XME A;  2EIN A;  3WFB B;  4G7R A;  3WG7 A;  4G70 A;  3WFE B;  1FFT A;  4G71 A;  3ABL A;  3EH3 A;  3ASO A;  3WFD B;  5DJQ A;  2EIM A;  3O0R B;  1V54 A;  2YEV A;  5IY5 A;  5B1A A;  2EIL A;  3OMN A;  1OCC A;  1OCR A;  4GP5 A;  3QJS A;  3FYI A;  3EH5 A;  3S8G A;  3ABM A;  3EHB A;  3QJV A;  4FAA A;  3AG4 A;  3OM3 A;  3WFC B;  2DYS A;  5B3S A;  3OMI A;  3ABK A;  1V55 A;  3S8F A;  3BVD A;  4N4Y A;  5B1B A;  3S3C A;  3EH4 A;  1OCZ A;  2OCC A;  4G7Q A;  3S3B A;  2EIK A;  2EIJ A;  3AYF A;  3AYG A;  3FYE A;  4GP8 A;  3QJR A;  4GP4 A;  4G7S A;  1EHK A;  3MK7 A;
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

  
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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