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
2EINA 3AYGA 3FYIA 3HB3A 3QJQA 1FFTA 3OMNA 3S3DA 1OCCA 3ASNA 4FA7A 4FAAA 1OCOA 3DTUA 2DYSA 5B1BA 4XYDA 2EIMA 4G7SA 3EH5A 3WG7A 2QPEA 3QJRA 3AG3A 4GP8A 3EH3A 5B3SA 3S3BA 3ABKA 3X2QA 1QLEA 4GP4A 3MK7A 3QJTA 1M56A 3S8FA 3WFBB 3FYEA 4G7QA 2OCCA 3AYFA 3OMAA 3EH4A 4N4YA 5IY5A 3ABMA 2ZXWA 3O0RB 3AG1A 2YEVA 1M57A 3ABLA 3AG4A 2Y69A 3ASOA 3BVDA 1OCRA 4G70A 3QJSA 3S8GA 4GP5A 2DYRA 3QJUA 2EIJA 2QPDA 5B1AA 4G72A 3WFCB 4G71A 4G7RA 3WFDB 1EHKA 1V55A 3QJVA 1V54A 3WFEB 2EIKA 5DJQA 1AR1A 2GSMA 2EILA 3OM3A 1XMEA 3AG2A 1OCZA 3OMIA 3S3CA 3EHBA
chains in the Genus database with same CATH superfamily
2EINA 3AYGA 3FYIA 3HB3A 3QJQA 1FFTA 3OMNA 3S3DA 1OCCA 3ASNA 4FA7A 4FAAA 1OCOA 3DTUA 2DYSA 5B1BA 4XYDA 2EIMA 4G7SA 3EH5A 3WG7A 2QPEA 3QJRA 3AG3A 4GP8A 3EH3A 5B3SA 3S3BA 3ABKA 3X2QA 1QLEA 4GP4A 3MK7A 3QJTA 1M56A 3S8FA 3WFBB 3FYEA 4G7QA 2OCCA 3AYFA 3OMAA 3EH4A 4N4YA 5IY5A 3ABMA 2ZXWA 3O0RB 3AG1A 2YEVA 1M57A 3ABLA 3AG4A 2Y69A 3ASOA 3BVDA 1OCRA 4G70A 3QJSA 3S8GA 4GP5A 2DYRA 3QJUA 2EIJA 2QPDA 5B1AA 4G72A 3WFCB 4G71A 4G7RA 3WFDB 1EHKA 1V55A 3QJVA 1V54A 3WFEB 2EIKA 5DJQA 1AR1A 2GSMA 2EILA 3OM3A 1XMEA 3AG2A 1OCZA 3OMIA 3S3CA 3EHBA
chains in the Genus database with same CATH topology
2EINA 3AYGA 3FYIA 3HB3A 3QJQA 1FFTA 3OMNA 3S3DA 1OCCA 3ASNA 4FA7A 4FAAA 1OCOA 3DTUA 2DYSA 5B1BA 4XYDA 2EIMA 4G7SA 3EH5A 3WG7A 2QPEA 3QJRA 3AG3A 4GP8A 3EH3A 5B3SA 3S3BA 3ABKA 3X2QA 1QLEA 4GP4A 3MK7A 3QJTA 1M56A 3S8FA 3WFBB 3FYEA 4G7QA 2OCCA 3AYFA 3OMAA 3EH4A 4N4YA 5IY5A 3ABMA 2ZXWA 3O0RB 3AG1A 2YEVA 1M57A 3ABLA 3AG4A 2Y69A 3ASOA 3BVDA 1OCRA 4G70A 3QJSA 3S8GA 4GP5A 2DYRA 3QJUA 2EIJA 2QPDA 5B1AA 4G72A 3WFCB 4G71A 4G7RA 3WFDB 1EHKA 1V55A 3QJVA 1V54A 3WFEB 2EIKA 5DJQA 1AR1A 2GSMA 2EILA 3OM3A 1XMEA 3AG2A 1OCZA 3OMIA 3S3CA 3EHBA
chains in the Genus database with same CATH homology

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