2CVCA

Crystal structure of high-molecular weight cytochrome c from desulfovibrio vulgaris (hildenborough)
Total Genus 123
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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
123
sequence length
506
structure length
500
Chain Sequence
EKRADLIEIGAMERFGKLDLPKVAFRHDQHTTAVTGMGKDCAACHKSKDGKMSLKFMRLDDNSAAELKEIYHANCIGCHTDLAKAGKKTGPQDGECRSCHNPKPSAASSWKEIGFDKSLHYRHVASKAIKPVGDPQKNCGACHHVYDEASKKLVWGKNKEDSCRACHGEKPVDKRPALDTAAHTACISCHMDVAKTKAETGPVNCAGCHAPEAQAKFKVVREVPRLDRGQPDAALILPVPGKDAPREMKGTMKPVAFDHKAHEAKANDCRTCHHVRIDTCTACHTVNGTADSKFVQLEKAMHQPDSMRSCVGCHNTRVQQPTCAGCHGFIKPTKSDAQCGVCHVAAPGFDAKQVEAGALLNLKAEQRSQVAASMLSARPQPKGTFDLNDIPEKVVIGSIAKEYQPSEFPHRKIVKTLIAGIGEDKLAATFHIEKGTLCQGCHHNSPASLTPPKCASCHGKPDRPGLKAAYHQQCMGCHDRMKIEKPANTACVDCHKERAK
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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.

Chord Diagram
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molecule tags Electron transport
molecule keywords High-molecular-weight cytochrome c precursor
publication title Structure of High-Molecular Weight Cytochrome c
rcsb
source organism Desulfovibrio vulgaris
total genus 123
structure length 500
sequence length 506
ec nomenclature
pdb deposition date 2005-06-02

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF02085 Cytochrom_CIII Class III cytochrome C family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.90.10.10 Alpha Beta Alpha-Beta Complex Cytochrome C3 Cytochrome C3 2cvcA01
3.90.10.10 Alpha Beta Alpha-Beta Complex Cytochrome C3 Cytochrome C3 2cvcA02
3.90.10.10 Alpha Beta Alpha-Beta Complex Cytochrome C3 Cytochrome C3 2cvcA03
3.90.10.10 Alpha Beta Alpha-Beta Complex Cytochrome C3 Cytochrome C3 2cvcA04
3SJ4X 2KMYA 4HB6A 2EWUA 1W7OA 1IT1A 1OS6A 2EWIA 1UPDA 1GWSA 3SJ1X 1RWJA 2EWKA 19HCA 1GYOA 1AQEA 1QN0A 2CYMA 1LM2A 1OFYA 2CDVA 3CYRA 2KSUA 3SELX 1GMBA 2A3MA 1OFWA 3OUEA 2LDOA 4HAJA 1J0OA 2YYWA 2MZ9A 1HH5A 1F22A 1I77A 1WR5A 2BQ4A 2BPNA 2YYXA 3CAOA 2A3PA 2E84A 2N91A 4HC3A 2YXCA 1MDVA 1Z1NX 3CARA 1KWJA 1NEWA 4HDLA 1QN1A 1WADA 1H29A 2FFNA 1UP9A 2CY3A 3SJ0X 1A2IA 1GM4A 3H34A 3OV0A 3OUQA 2Z47A 1DUWA 3H33A 3H4NA 1EHJA 4HBFA 1CZJA 1L3OA 3BXUA 4HB8A 1J0PA 2CVCA 2CTHA 2LZZA
chains in the Genus database with same CATH superfamily
3SJ4X 2KMYA 4HB6A 2EWUA 1W7OA 1IT1A 1OS6A 2EWIA 1UPDA 1GWSA 3SJ1X 1RWJA 2EWKA 19HCA 1GYOA 1AQEA 1QN0A 2CYMA 1LM2A 1OFYA 2CDVA 3CYRA 2KSUA 3SELX 1GMBA 2A3MA 1OFWA 3OUEA 2LDOA 4HAJA 1J0OA 2YYWA 2MZ9A 1HH5A 1F22A 1I77A 1WR5A 2BQ4A 2BPNA 2YYXA 3CAOA 2A3PA 2E84A 2N91A 4HC3A 2YXCA 1MDVA 1Z1NX 3CARA 1KWJA 1NEWA 4HDLA 1QN1A 1WADA 1H29A 2FFNA 1UP9A 2CY3A 3SJ0X 1A2IA 1GM4A 3H34A 3OV0A 3OUQA 2Z47A 1DUWA 3H33A 3H4NA 1EHJA 4HBFA 1CZJA 1L3OA 3BXUA 4HB8A 1J0PA 2CVCA 2CTHA 2LZZA
chains in the Genus database with same CATH topology
3SJ4X 2KMYA 4HB6A 2EWUA 1W7OA 1IT1A 1OS6A 2EWIA 1UPDA 1GWSA 3SJ1X 1RWJA 2EWKA 19HCA 1GYOA 1AQEA 1QN0A 2CYMA 1LM2A 1OFYA 2CDVA 3CYRA 2KSUA 3SELX 1GMBA 2A3MA 1OFWA 3OUEA 2LDOA 4HAJA 1J0OA 2YYWA 2MZ9A 1HH5A 1F22A 1I77A 1WR5A 2BQ4A 2BPNA 2YYXA 3CAOA 2A3PA 2E84A 2N91A 4HC3A 2YXCA 1MDVA 1Z1NX 3CARA 1KWJA 1NEWA 4HDLA 1QN1A 1WADA 1H29A 2FFNA 1UP9A 2CY3A 3SJ0X 1A2IA 1GM4A 3H34A 3OV0A 3OUQA 2Z47A 1DUWA 3H33A 3H4NA 1EHJA 4HBFA 1CZJA 1L3OA 3BXUA 4HB8A 1J0PA 2CVCA 2CTHA 2LZZA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3SJ4 X;  2KMY A;  4HB6 A;  2EWU A;  1W7O A;  1IT1 A;  1OS6 A;  2EWI A;  1UPD A;  1GWS A;  3SJ1 X;  1RWJ A;  2EWK A;  19HC A;  1GYO A;  1AQE A;  1QN0 A;  2CYM A;  1LM2 A;  1OFY A;  2CDV A;  3CYR A;  2KSU A;  3SEL X;  1GMB A;  2A3M A;  1OFW A;  3OUE A;  2LDO A;  4HAJ A;  1J0O A;  2YYW A;  2MZ9 A;  1HH5 A;  1F22 A;  1I77 A;  1WR5 A;  2BQ4 A;  2BPN A;  2YYX A;  3CAO A;  2A3P A;  2E84 A;  2N91 A;  4HC3 A;  2YXC A;  1MDV A;  1Z1N X;  3CAR A;  1KWJ A;  1NEW A;  4HDL A;  1QN1 A;  1WAD A;  1H29 A;  2FFN A;  1UP9 A;  2CY3 A;  3SJ0 X;  1A2I A;  1GM4 A;  3H34 A;  3OV0 A;  3OUQ A;  2Z47 A;  1DUW A;  3H33 A;  3H4N A;  1EHJ A;  4HBF A;  1CZJ A;  1L3O A;  3BXU A;  4HB8 A;  1J0P A;  2CVC A;  2CTH A;  2LZZ A; 
#chains in the Genus database with same CATH topology
 3SJ4 X;  2KMY A;  4HB6 A;  2EWU A;  1W7O A;  1IT1 A;  1OS6 A;  2EWI A;  1UPD A;  1GWS A;  3SJ1 X;  1RWJ A;  2EWK A;  19HC A;  1GYO A;  1AQE A;  1QN0 A;  2CYM A;  1LM2 A;  1OFY A;  2CDV A;  3CYR A;  2KSU A;  3SEL X;  1GMB A;  2A3M A;  1OFW A;  3OUE A;  2LDO A;  4HAJ A;  1J0O A;  2YYW A;  2MZ9 A;  1HH5 A;  1F22 A;  1I77 A;  1WR5 A;  2BQ4 A;  2BPN A;  2YYX A;  3CAO A;  2A3P A;  2E84 A;  2N91 A;  4HC3 A;  2YXC A;  1MDV A;  1Z1N X;  3CAR A;  1KWJ A;  1NEW A;  4HDL A;  1QN1 A;  1WAD A;  1H29 A;  2FFN A;  1UP9 A;  2CY3 A;  3SJ0 X;  1A2I A;  1GM4 A;  3H34 A;  3OV0 A;  3OUQ A;  2Z47 A;  1DUW A;  3H33 A;  3H4N A;  1EHJ A;  4HBF A;  1CZJ A;  1L3O A;  3BXU A;  4HB8 A;  1J0P A;  2CVC A;  2CTH A;  2LZZ A; 
#chains in the Genus database with same CATH homology
 3SJ4 X;  2KMY A;  4HB6 A;  2EWU A;  1W7O A;  1IT1 A;  1OS6 A;  2EWI A;  1UPD A;  1GWS A;  3SJ1 X;  1RWJ A;  2EWK A;  19HC A;  1GYO A;  1AQE A;  1QN0 A;  2CYM A;  1LM2 A;  1OFY A;  2CDV A;  3CYR A;  2KSU A;  3SEL X;  1GMB A;  2A3M A;  1OFW A;  3OUE A;  2LDO A;  4HAJ A;  1J0O A;  2YYW A;  2MZ9 A;  1HH5 A;  1F22 A;  1I77 A;  1WR5 A;  2BQ4 A;  2BPN A;  2YYX A;  3CAO A;  2A3P A;  2E84 A;  2N91 A;  4HC3 A;  2YXC A;  1MDV A;  1Z1N X;  3CAR A;  1KWJ A;  1NEW A;  4HDL A;  1QN1 A;  1WAD A;  1H29 A;  2FFN A;  1UP9 A;  2CY3 A;  3SJ0 X;  1A2I A;  1GM4 A;  3H34 A;  3OV0 A;  3OUQ A;  2Z47 A;  1DUW A;  3H33 A;  3H4N A;  1EHJ A;  4HBF A;  1CZJ A;  1L3O A;  3BXU A;  4HB8 A;  1J0P A;  2CVC A;  2CTH A;  2LZZ 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)

 
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#similar chains, but unknotted
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