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

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