4OYDB

Crystal structure of a computationally designed inhibitor of an epstein-barr viral bcl-2 protein
Total Genus 53
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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
53
sequence length
117
structure length
117
Chain Sequence
ADPKKVLDKAKDQAENRVRELKQKLEELYKEARKLDLTQEMRRKLELRYIAAMLMAIGDIYNAIRQAKQEADKLKKAGLVNSQQLDELKRRLEELKEEASRKARDYGREFQLKLEYG
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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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publication title A computationally designed inhibitor of an epstein-barr viral bcl-2 protein induces apoptosis in infected cells.
pubmed doi rcsb
molecule tags Viral protein/inhibitor
source organism Epstein-barr virus
molecule keywords Apoptosis regulator BHRF1
total genus 53
structure length 117
sequence length 117
chains with identical sequence D
ec nomenclature
pdb deposition date 2014-02-11
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.132.20 Mainly Alpha Orthogonal Bundle Topoisomerase I; Chain A, domain 4 Topoisomerase I; Chain A, domain 4 4oydB00
4L8IA 3LF9A 4KB4A 1WQGA 3LHPS 1DD5A 1IS1A 5JSNB 1GE9A 1EK8A 1WQFA 1EH1A 4KAWX 4KB2A 4KDDA 1Y698 4JLRC 5MLC9 4GFQA 4OYDB 1ISEA 4KC6A 5JSBB 1WQHA
chains in the Genus database with same CATH superfamily
4D3ZA 3WVOA 4KB4A 3LHPS 1DD5A 2YU9A 2E2IA 3FKIA 3GTLA 4Q5VA 3K59A 4FXDA 1RRJA 2NVXA 1Y698 1TWFA 1TL8A 1R49A 4FGUA 2R4GA 3DU6A 3P9AA 1A35A 4NOLA 2CW0D 1I3QA 4FYDA 4KC6A 1YNJD 1WQHA 1K4TA 1TWAA 4AYBA 1SMYD 2A6ED 4IP9A 5CQGA 1NH3A 4NOKA 2JA5A 2A68D 1WQFA 1T8IA 3K5LA 3KYLA 2B63A 4KB2A 3GTJA 1K4SA 3GTGA 3DU5A 3K5OA 4NOMA 3K5MA 1Y1VA 5MLC9 2PMZA 4EJ3A 4QCLA 2NVYA 4H3TA 2B9SB 2JA6A 3K5NA 1MIUA 3K57A 4OYDB 3GTKA 1TWHA 1IW7D 1A36A 1ISEA 1YNND 4Q5GA 2Y0SA 2BE5D 3LF9A 3HKZA 4LMOA 3SJRA 1I50A 2JA7A 1EJ9A 1WQGA 4AN8A 1IS1A 5JSNB 1GE9A 5C9HA 1TWGA 1EK8A 1TGOA 3H0GA 1K83A 4KDDA 1A31A 2WB1A 1HQMD 4O26A 2A69D 4JLRC 1V9MA 4IP8A 1Y1WA 3GTOA 4AHCA 4GFQA 2E2HA 3K58A 4F3EA 4QIWA 3GTPA 1ZYRD 5JSBB 2F4QA 3M4AA 4L8IA 2O5JD 1Q8IA 1I6VD 1R5ZA 3GTQA 3CQZA 2R92A 1R9TA 1SEUA 4D3YA 1EH1A 2VUMA 4KAWX 2R93A 1TWCA 1LPQA 1SFOA 1RR8C 3GTMA 3IAYA 1WCMA 3MAQA 2R7ZA 4C2MA 2A6HD 2WAQA 1SC7A
chains in the Genus database with same CATH topology
4D3ZA 3WVOA 4KB4A 3LHPS 1DD5A 2YU9A 2E2IA 3FKIA 3GTLA 4Q5VA 3K59A 4FXDA 1RRJA 2NVXA 1Y698 1TWFA 1TL8A 1R49A 4FGUA 2R4GA 3DU6A 3P9AA 1A35A 4NOLA 2CW0D 1I3QA 4FYDA 4KC6A 1YNJD 1WQHA 1K4TA 1TWAA 4AYBA 1SMYD 2A6ED 4IP9A 5CQGA 1NH3A 4NOKA 2JA5A 2A68D 1WQFA 1T8IA 3K5LA 3KYLA 2B63A 4KB2A 3GTJA 1K4SA 3GTGA 3DU5A 3K5OA 4NOMA 3K5MA 1Y1VA 5MLC9 2PMZA 4EJ3A 4QCLA 2NVYA 4H3TA 2B9SB 2JA6A 3K5NA 1MIUA 3K57A 4OYDB 3GTKA 1TWHA 1IW7D 1A36A 1ISEA 1YNND 4Q5GA 2Y0SA 2BE5D 3LF9A 3HKZA 4LMOA 3SJRA 1I50A 2JA7A 1EJ9A 1WQGA 4AN8A 1IS1A 5JSNB 1GE9A 5C9HA 1TWGA 1EK8A 1TGOA 3H0GA 1K83A 4KDDA 1A31A 2WB1A 1HQMD 4O26A 2A69D 4JLRC 1V9MA 4IP8A 1Y1WA 3GTOA 4AHCA 4GFQA 2E2HA 3K58A 4F3EA 4QIWA 3GTPA 1ZYRD 5JSBB 2F4QA 3M4AA 4L8IA 2O5JD 1Q8IA 1I6VD 1R5ZA 3GTQA 3CQZA 2R92A 1R9TA 1SEUA 4D3YA 1EH1A 2VUMA 4KAWX 2R93A 1TWCA 1LPQA 1SFOA 1RR8C 3GTMA 3IAYA 1WCMA 3MAQA 2R7ZA 4C2MA 2A6HD 2WAQA 1SC7A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4L8I A;  3LF9 A;  4KB4 A;  1WQG A;  3LHP S;  1DD5 A;  1IS1 A;  5JSN B;  1GE9 A;  1EK8 A;  1WQF A;  1EH1 A;  4KAW X;  4KB2 A;  4KDD A;  1Y69 8;  4JLR C;  5MLC 9;  4GFQ A;  4OYD B;  1ISE A;  4KC6 A;  5JSB B;  1WQH A; 
#chains in the Genus database with same CATH topology
 4D3Z A;  3WVO A;  4KB4 A;  3LHP S;  1DD5 A;  2YU9 A;  2E2I A;  3FKI A;  3GTL A;  4Q5V A;  3K59 A;  4FXD A;  1RRJ A;  2NVX A;  1Y69 8;  1TWF A;  1TL8 A;  1R49 A;  4FGU A;  2R4G A;  3DU6 A;  3P9A A;  1A35 A;  4NOL A;  2CW0 D;  1I3Q A;  4FYD A;  4KC6 A;  1YNJ D;  1WQH A;  1K4T A;  1TWA A;  4AYB A;  1SMY D;  2A6E D;  4IP9 A;  5CQG A;  1NH3 A;  4NOK A;  2JA5 A;  2A68 D;  1WQF A;  1T8I A;  3K5L A;  3KYL A;  2B63 A;  4KB2 A;  3GTJ A;  1K4S A;  3GTG A;  3DU5 A;  3K5O A;  4NOM A;  3K5M A;  1Y1V A;  5MLC 9;  2PMZ A;  4EJ3 A;  4QCL A;  2NVY A;  4H3T A;  2B9S B;  2JA6 A;  3K5N A;  1MIU A;  3K57 A;  4OYD B;  3GTK A;  1TWH A;  1IW7 D;  1A36 A;  1ISE A;  1YNN D;  4Q5G A;  2Y0S A;  2BE5 D;  3LF9 A;  3HKZ A;  4LMO A;  3SJR A;  1I50 A;  2JA7 A;  1EJ9 A;  1WQG A;  4AN8 A;  1IS1 A;  5JSN B;  1GE9 A;  5C9H A;  1TWG A;  1EK8 A;  1TGO A;  3H0G A;  1K83 A;  4KDD A;  1A31 A;  2WB1 A;  1HQM D;  4O26 A;  2A69 D;  4JLR C;  1V9M A;  4IP8 A;  1Y1W A;  3GTO A;  4AHC A;  4GFQ A;  2E2H A;  3K58 A;  4F3E A;  4QIW A;  3GTP A;  1ZYR D;  5JSB B;  2F4Q A;  3M4A A;  4L8I A;  2O5J D;  1Q8I A;  1I6V D;  1R5Z A;  3GTQ A;  3CQZ A;  2R92 A;  1R9T A;  1SEU A;  4D3Y A;  1EH1 A;  2VUM A;  4KAW X;  2R93 A;  1TWC A;  1LPQ A;  1SFO A;  1RR8 C;  3GTM A;  3IAY A;  1WCM A;  3MAQ A;  2R7Z A;  4C2M A;  2A6H D;  2WAQ A;  1SC7 A; 
#chains in the Genus database with same CATH homology
 4D3Z A;  3WVO A;  4KB4 A;  3LHP S;  1DD5 A;  2YU9 A;  2E2I A;  3FKI A;  3GTL A;  4Q5V A;  3K59 A;  4FXD A;  1RRJ A;  2NVX A;  1Y69 8;  1TWF A;  1TL8 A;  1R49 A;  4FGU A;  2R4G A;  3DU6 A;  3P9A A;  1A35 A;  4NOL A;  2CW0 D;  1I3Q A;  4FYD A;  4KC6 A;  1YNJ D;  1WQH A;  1K4T A;  1TWA A;  4AYB A;  1SMY D;  2A6E D;  4IP9 A;  5CQG A;  1NH3 A;  4NOK A;  2JA5 A;  2A68 D;  1WQF A;  1T8I A;  3K5L A;  3KYL A;  2B63 A;  4KB2 A;  3GTJ A;  1K4S A;  3GTG A;  3DU5 A;  3K5O A;  4NOM A;  3K5M A;  1Y1V A;  5MLC 9;  2PMZ A;  4EJ3 A;  4QCL A;  2NVY A;  4H3T A;  2B9S B;  2JA6 A;  3K5N A;  1MIU A;  3K57 A;  4OYD B;  3GTK A;  1TWH A;  1IW7 D;  1A36 A;  1ISE A;  1YNN D;  4Q5G A;  2Y0S A;  2BE5 D;  3LF9 A;  3HKZ A;  4LMO A;  3SJR A;  1I50 A;  2JA7 A;  1EJ9 A;  1WQG A;  4AN8 A;  1IS1 A;  5JSN B;  1GE9 A;  5C9H A;  1TWG A;  1EK8 A;  1TGO A;  3H0G A;  1K83 A;  4KDD A;  1A31 A;  2WB1 A;  1HQM D;  4O26 A;  2A69 D;  4JLR C;  1V9M A;  4IP8 A;  1Y1W A;  3GTO A;  4AHC A;  4GFQ A;  2E2H A;  3K58 A;  4F3E A;  4QIW A;  3GTP A;  1ZYR D;  5JSB B;  2F4Q A;  3M4A A;  4L8I A;  2O5J D;  1Q8I A;  1I6V D;  1R5Z A;  3GTQ A;  3CQZ A;  2R92 A;  1R9T A;  1SEU A;  4D3Y A;  1EH1 A;  2VUM A;  4KAW X;  2R93 A;  1TWC A;  1LPQ A;  1SFO A;  1RR8 C;  3GTM A;  3IAY A;  1WCM A;  3MAQ A;  2R7Z A;  4C2M A;  2A6H D;  2WAQ A;  1SC7 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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