4GP5A

Structure of recombinant cytochrome ba3 oxidase mutant y133w from thermus thermophilus
Total Genus 233
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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
233
sequence length
554
structure length
552
Chain Sequence
SRVYEAYPEKKATLYFLVLGFLALIVGSLFGPFQALNYGNVDAYPLLKRLLPFVQSYYQGLTLHGVLNAIVFTQLFAQAIMVYLPARELNMRPNMGLMWLSWWMAFIGLVVAALPLLANEATVLWTFYPPLKGHWAFYLGASVFVLSTWVSIYIVLDLWRRWKAANPGKVTPLVTYMAVVFWLMWFLASLGLVLEAVLFLLPWSFGLVEGVDPLVARTLFWWTGHPIVYFWLLPAYAIIYTILPKQAGGKLVSDPMARLAFLLFLLLSTPVGFHHQFADPGIDPTWKMIHSVLTLFVAVPSLMTAFTVAASLEFAGRLRGGRGLFGWIRALPWDNPAFVAPVLGLLGFIPGGAGGIVNASFTLDYVVHNTAWVPGHFHLQVASLVTLTAMGSLYWLLPNLTGKPISDAQRRLGLAVVWLWFLGMMIMAVGLHWAGLLNVPRRAYIAQVPDAYPHAAVPMVFNVLAGIVLLVALLLFIYGLFSVLLSRERKPELAEAPLPFAEVIPEDRRLVLAMDRIGFWFAVAAILVVLAYGPTLVQLFGHLNPVPGWRLW
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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 233
structure length 552
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 4gp5A00
3S3CA 1OCZA 1XMEA 3X2QA 5B1BA 1EHKA 1V55A 2QPDA 2QPEA 3ASNA 3EH5A 3OMIA 3AYGA 5B1AA 3EH3A 4G7QA 4G70A 5IY5A 1M56A 4GP5A 3S3DA 3QJSA 1M57A 3QJTA 3FYIA 3S8FA 3ABLA 2Y69A 2EIMA 4G72A 2EIJA 3OMAA 3EH4A 1OCRA 5B3SA 3AYFA 3FYEA 3ABKA 4XYDA 3AG3A 2YEVA 3S8GA 3QJUA 3WFBB 2DYSA 1QLEA 3AG4A 1FFTA 1AR1A 3WFCB 2GSMA 1OCOA 3WFEB 5DJQA 3QJVA 3OMNA 3WFDB 3DTUA 3QJQA 2OCCA 4GP4A 3AG1A 1V54A 3MK7A 3QJRA 2EILA 2DYRA 4G7RA 3BVDA 4FA7A 4FAAA 2EIKA 3OM3A 3ABMA 2EINA 3AG2A 1OCCA 3ASOA 2ZXWA 3O0RB 3EHBA 4N4YA 3S3BA 4G71A 3HB3A 4G7SA 4GP8A 3WG7A
chains in the Genus database with same CATH superfamily
3S3CA 1OCZA 1XMEA 3X2QA 5B1BA 1EHKA 1V55A 2QPDA 2QPEA 3ASNA 3EH5A 3OMIA 3AYGA 5B1AA 3EH3A 4G7QA 4G70A 5IY5A 1M56A 4GP5A 3S3DA 3QJSA 1M57A 3QJTA 3FYIA 3S8FA 3ABLA 2Y69A 2EIMA 4G72A 2EIJA 3OMAA 3EH4A 1OCRA 5B3SA 3AYFA 3FYEA 3ABKA 4XYDA 3AG3A 2YEVA 3S8GA 3QJUA 3WFBB 2DYSA 1QLEA 3AG4A 1FFTA 1AR1A 3WFCB 2GSMA 1OCOA 3WFEB 5DJQA 3QJVA 3OMNA 3WFDB 3DTUA 3QJQA 2OCCA 4GP4A 3AG1A 1V54A 3MK7A 3QJRA 2EILA 2DYRA 4G7RA 3BVDA 4FA7A 4FAAA 2EIKA 3OM3A 3ABMA 2EINA 3AG2A 1OCCA 3ASOA 2ZXWA 3O0RB 3EHBA 4N4YA 3S3BA 4G71A 3HB3A 4G7SA 4GP8A 3WG7A
chains in the Genus database with same CATH topology
3S3CA 1OCZA 1XMEA 3X2QA 5B1BA 1EHKA 1V55A 2QPDA 2QPEA 3ASNA 3EH5A 3OMIA 3AYGA 5B1AA 3EH3A 4G7QA 4G70A 5IY5A 1M56A 4GP5A 3S3DA 3QJSA 1M57A 3QJTA 3FYIA 3S8FA 3ABLA 2Y69A 2EIMA 4G72A 2EIJA 3OMAA 3EH4A 1OCRA 5B3SA 3AYFA 3FYEA 3ABKA 4XYDA 3AG3A 2YEVA 3S8GA 3QJUA 3WFBB 2DYSA 1QLEA 3AG4A 1FFTA 1AR1A 3WFCB 2GSMA 1OCOA 3WFEB 5DJQA 3QJVA 3OMNA 3WFDB 3DTUA 3QJQA 2OCCA 4GP4A 3AG1A 1V54A 3MK7A 3QJRA 2EILA 2DYRA 4G7RA 3BVDA 4FA7A 4FAAA 2EIKA 3OM3A 3ABMA 2EINA 3AG2A 1OCCA 3ASOA 2ZXWA 3O0RB 3EHBA 4N4YA 3S3BA 4G71A 3HB3A 4G7SA 4GP8A 3WG7A
chains in the Genus database with same CATH homology

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