3DCGB

Crystal structure of the hiv vif bc-box in complex with human elonginb and elonginc
Total Genus 27
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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
27
sequence length
96
structure length
84
Chain Sequence
MYVKLISSDGHEFIVKREHALTSGTIKAMLTNEVNFREIPSHVLSKVCMYFTYKVRYTNSEIPEFPIAPEIALELLMAANFLDC
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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 Ligase/viral protein
source organism Homo sapiens
publication title Structural insight into the human immunodeficiency virus Vif SOCS box and its role in human E3 ubiquitin ligase assembly
pubmed doi rcsb
molecule keywords Transcription elongation factor B polypeptide 2
total genus 27
structure length 84
sequence length 96
chains with identical sequence D
ec nomenclature
pdb deposition date 2008-06-03

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
B PF03931 Skp1_POZ Skp1 family, tetramerisation domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.710.10 Alpha Beta 2-Layer Sandwich Potassium Channel Kv1.1; Chain A Potassium Channel Kv1.1; Chain A 3dcgB00
3FKCA 4JGHC 2JZ3C 2P1MA 3B84A 4W9IB 3I3NA 3ZNGB 4JTDB 2ASSA 1EODA 4CXTA 3BIMA 1QDWA 5EUPA 2E31B 2P1PA 5DAFA 5H7GA 4W9HB 3ZTDB 3ZRFB 4HXIA 1LQBB 3WSOB 3ZTCB 2P1OA 4W9DB 4UIJA 4W9CB 5FTAA 1R2BA 2A79B 3V7DA 1A68A 1QDVA 4W9HH 1EOFA 5JH5B 1EXBE 3HVEA 2OVQA 4UYIA 4EOZA 3ZRCB 4W9EB 1NEXA 5BXBA 2PPIA 1R28A 3MKSA 4W9JB 4APFA 4W9FB 3LBZA 2NZ0B 2P1QA 2IF5A 4W9KB 1NN7A 2MA9C 4U2NA 4CXJA 3C6NA 2C9WC 1FS2B 1DSXA 2VKPA 2IHCA 2Z8HA 5HYWB 4BGCA 5LLIB 5BXHA 5BXDA 4BKTB 5A6RA 2FNJC 4B95B 3M5BA 2OVPA 1T1DA 2VPKA 2OVRA 3M52A 2ASTA 1FS1B 3M4TA 4W9LB 1R29A 3GA1A 3HVEB 4U2MA 2P1NA 5A15A 1BUOA 4AJYC 3LUTB 3OGKA 3DRZA 4CXIA 3ZKJB 3ZUNB 2I2RA 4CP3A 3OGLA 4N9F5 4JTCB 3KVTA 4I6JC 3OHUA 2Q81A 4U77A 3HTMA 2R9RB 4WQOC 4J8ZA 3OHVA 2E32B 1LM8C 3C6PA 2NN2A 3HQIA 3L2OA 4B9KB 1HV2A 1S1GA 1VCBB 2IZVC 3LNMB 1P22B 3M8VA 4W9GB 3HU6A 1EOEA 4ZOUA 3C6OA 4B9KE 5BO4C 4CRHA 4JTAB 5IBKA 4AWJB 4BKSB 1FQVB 3DCGB 3E4UA 5DADA 3OGMA 5HZGC 1LDKD 2YY9A 4AP2A 1CS3A 5H7HA
chains in the Genus database with same CATH superfamily
3FKCA 4JGHC 2JZ3C 2P1MA 3B84A 4W9IB 3I3NA 3ZNGB 4JTDB 2ASSA 1EODA 4CXTA 3DRXA 3BIMA 1QDWA 5EUPA 2E31B 2P1PA 5DAFA 5H7GA 4W9HB 3ZTDB 3ZRFB 4HXIA 1LQBB 3WSOB 3ZTCB 2P1OA 4W9DB 4UIJA 4W9CB 5FTAA 1R2BA 2A79B 3V7DA 1A68A 1QDVA 4W9HH 1EOFA 5JH5B 1EXBE 3HVEA 2OVQA 4UYIA 4EOZA 3ZRCB 4W9EB 1NEXA 5BXBA 2PPIA 1R28A 4YY8A 3MKSA 4W9JB 4APFA 4W9FB 3LBZA 2NZ0B 2P1QA 2IF5A 4W9KB 1NN7A 2MA9C 4U2NA 4CXJA 3C6NA 2C9WC 1FS2B 1DSXA 2VKPA 2IHCA 2Z8HA 5HYWB 4BGCA 5LLIB 5BXHA 5BXDA 4BKTB 5A6RA 2FNJC 4B95B 3M5BA 2OVPA 1T1DA 2VPKA 2OVRA 3M52A 2ASTA 1FS1B 3M4TA 4W9LB 1R29A 3GA1A 3HVEB 4U2MA 2P1NA 5A15A 1BUOA 4AJYC 3LUTB 3OGKA 3DRZA 4CXIA 3ZKJB 3ZUNB 2I2RA 4CP3A 4ZGCA 3OGLA 4N9F5 4JTCB 3KVTA 4I6JC 3OHUA 2Q81A 4U77A 3HTMA 2R9RB 4WQOC 4J8ZA 3OHVA 2E32B 1LM8C 3C6PA 2NN2A 3HQIA 3L2OA 4B9KB 1HV2A 1S1GA 1VCBB 2IZVC 3LNMB 1P22B 3M8VA 4W9GB 3HU6A 1EOEA 4ZOUA 3C6OA 4B9KE 5BO4C 4CRHA 4JTAB 5IBKA 4AWJB 4BKSB 3DRYA 1FQVB 3DCGB 3E4UA 5DADA 3OGMA 5HZGC 1LDKD 2YY9A 4AP2A 1CS3A 5H7HA
chains in the Genus database with same CATH topology
3FKCA 4JGHC 2JZ3C 2P1MA 3B84A 4W9IB 3I3NA 3ZNGB 4JTDB 2ASSA 1EODA 4CXTA 3DRXA 3BIMA 1QDWA 5EUPA 2E31B 2P1PA 5DAFA 5H7GA 4W9HB 3ZTDB 3ZRFB 4HXIA 1LQBB 3WSOB 3ZTCB 2P1OA 4W9DB 4UIJA 4W9CB 5FTAA 1R2BA 2A79B 3V7DA 1A68A 1QDVA 4W9HH 1EOFA 5JH5B 1EXBE 3HVEA 2OVQA 4UYIA 4EOZA 3ZRCB 4W9EB 1NEXA 5BXBA 2PPIA 1R28A 4YY8A 3MKSA 4W9JB 4APFA 4W9FB 3LBZA 2NZ0B 2P1QA 2IF5A 4W9KB 1NN7A 2MA9C 4U2NA 4CXJA 3C6NA 2C9WC 1FS2B 1DSXA 2VKPA 2IHCA 2Z8HA 5HYWB 4BGCA 5LLIB 5BXHA 5BXDA 4BKTB 5A6RA 2FNJC 4B95B 3M5BA 2OVPA 1T1DA 2VPKA 2OVRA 3M52A 2ASTA 1FS1B 3M4TA 4W9LB 1R29A 3GA1A 3HVEB 4U2MA 2P1NA 5A15A 1BUOA 4AJYC 3LUTB 3OGKA 3DRZA 4CXIA 3ZKJB 3ZUNB 2I2RA 4CP3A 4ZGCA 3OGLA 4N9F5 4JTCB 3KVTA 4I6JC 3OHUA 2Q81A 4U77A 3HTMA 2R9RB 4WQOC 4J8ZA 3OHVA 2E32B 1LM8C 3C6PA 2NN2A 3HQIA 3L2OA 4B9KB 1HV2A 1S1GA 1VCBB 2IZVC 3LNMB 1P22B 3M8VA 4W9GB 3HU6A 1EOEA 4ZOUA 3C6OA 4B9KE 5BO4C 4CRHA 4JTAB 5IBKA 4AWJB 4BKSB 3DRYA 1FQVB 3DCGB 3E4UA 5DADA 3OGMA 5HZGC 1LDKD 2YY9A 4AP2A 1CS3A 5H7HA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3FKC A;  4JGH C;  2JZ3 C;  2P1M A;  3B84 A;  4W9I B;  3I3N A;  3ZNG B;  4JTD B;  2ASS A;  1EOD A;  4CXT A;  3BIM A;  1QDW A;  5EUP A;  2E31 B;  2P1P A;  5DAF A;  5H7G A;  4W9H B;  3ZTD B;  3ZRF B;  4HXI A;  1LQB B;  3WSO B;  3ZTC B;  2P1O A;  4W9D B;  4UIJ A;  4W9C B;  5FTA A;  1R2B A;  2A79 B;  3V7D A;  1A68 A;  1QDV A;  4W9H H;  1EOF A;  5JH5 B;  1EXB E;  3HVE A;  2OVQ A;  4UYI A;  4EOZ A;  3ZRC B;  4W9E B;  1NEX A;  5BXB A;  2PPI A;  1R28 A;  3MKS A;  4W9J B;  4APF A;  4W9F B;  3LBZ A;  2NZ0 B;  2P1Q A;  2IF5 A;  4W9K B;  1NN7 A;  2MA9 C;  4U2N A;  4CXJ A;  3C6N A;  2C9W C;  1FS2 B;  1DSX A;  2VKP A;  2IHC A;  2Z8H A;  5HYW B;  4BGC A;  5LLI B;  5BXH A;  5BXD A;  4BKT B;  5A6R A;  2FNJ C;  4B95 B;  3M5B A;  2OVP A;  1T1D A;  2VPK A;  2OVR A;  3M52 A;  2AST A;  1FS1 B;  3M4T A;  4W9L B;  1R29 A;  3GA1 A;  3HVE B;  4U2M A;  2P1N A;  5A15 A;  1BUO A;  4AJY C;  3LUT B;  3OGK A;  3DRZ A;  4CXI A;  3ZKJ B;  3ZUN B;  2I2R A;  4CP3 A;  3OGL A;  4N9F 5;  4JTC B;  3KVT A;  4I6J C;  3OHU A;  2Q81 A;  4U77 A;  3HTM A;  2R9R B;  4WQO C;  4J8Z A;  3OHV A;  2E32 B;  1LM8 C;  3C6P A;  2NN2 A;  3HQI A;  3L2O A;  4B9K B;  1HV2 A;  1S1G A;  1VCB B;  2IZV C;  3LNM B;  1P22 B;  3M8V A;  4W9G B;  3HU6 A;  1EOE A;  4ZOU A;  3C6O A;  4B9K E;  5BO4 C;  4CRH A;  4JTA B;  5IBK A;  4AWJ B;  4BKS B;  1FQV B;  3DCG B;  3E4U A;  5DAD A;  3OGM A;  5HZG C;  1LDK D;  2YY9 A;  4AP2 A;  1CS3 A;  5H7H A; 
#chains in the Genus database with same CATH topology
 3FKC A;  4JGH C;  2JZ3 C;  2P1M A;  3B84 A;  4W9I B;  3I3N A;  3ZNG B;  4JTD B;  2ASS A;  1EOD A;  4CXT A;  3DRX A;  3BIM A;  1QDW A;  5EUP A;  2E31 B;  2P1P A;  5DAF A;  5H7G A;  4W9H B;  3ZTD B;  3ZRF B;  4HXI A;  1LQB B;  3WSO B;  3ZTC B;  2P1O A;  4W9D B;  4UIJ A;  4W9C B;  5FTA A;  1R2B A;  2A79 B;  3V7D A;  1A68 A;  1QDV A;  4W9H H;  1EOF A;  5JH5 B;  1EXB E;  3HVE A;  2OVQ A;  4UYI A;  4EOZ A;  3ZRC B;  4W9E B;  1NEX A;  5BXB A;  2PPI A;  1R28 A;  4YY8 A;  3MKS A;  4W9J B;  4APF A;  4W9F B;  3LBZ A;  2NZ0 B;  2P1Q A;  2IF5 A;  4W9K B;  1NN7 A;  2MA9 C;  4U2N A;  4CXJ A;  3C6N A;  2C9W C;  1FS2 B;  1DSX A;  2VKP A;  2IHC A;  2Z8H A;  5HYW B;  4BGC A;  5LLI B;  5BXH A;  5BXD A;  4BKT B;  5A6R A;  2FNJ C;  4B95 B;  3M5B A;  2OVP A;  1T1D A;  2VPK A;  2OVR A;  3M52 A;  2AST A;  1FS1 B;  3M4T A;  4W9L B;  1R29 A;  3GA1 A;  3HVE B;  4U2M A;  2P1N A;  5A15 A;  1BUO A;  4AJY C;  3LUT B;  3OGK A;  3DRZ A;  4CXI A;  3ZKJ B;  3ZUN B;  2I2R A;  4CP3 A;  4ZGC A;  3OGL A;  4N9F 5;  4JTC B;  3KVT A;  4I6J C;  3OHU A;  2Q81 A;  4U77 A;  3HTM A;  2R9R B;  4WQO C;  4J8Z A;  3OHV A;  2E32 B;  1LM8 C;  3C6P A;  2NN2 A;  3HQI A;  3L2O A;  4B9K B;  1HV2 A;  1S1G A;  1VCB B;  2IZV C;  3LNM B;  1P22 B;  3M8V A;  4W9G B;  3HU6 A;  1EOE A;  4ZOU A;  3C6O A;  4B9K E;  5BO4 C;  4CRH A;  4JTA B;  5IBK A;  4AWJ B;  4BKS B;  3DRY A;  1FQV B;  3DCG B;  3E4U A;  5DAD A;  3OGM A;  5HZG C;  1LDK D;  2YY9 A;  4AP2 A;  1CS3 A;  5H7H A; 
#chains in the Genus database with same CATH homology
 3FKC A;  4JGH C;  2JZ3 C;  2P1M A;  3B84 A;  4W9I B;  3I3N A;  3ZNG B;  4JTD B;  2ASS A;  1EOD A;  4CXT A;  3DRX A;  3BIM A;  1QDW A;  5EUP A;  2E31 B;  2P1P A;  5DAF A;  5H7G A;  4W9H B;  3ZTD B;  3ZRF B;  4HXI A;  1LQB B;  3WSO B;  3ZTC B;  2P1O A;  4W9D B;  4UIJ A;  4W9C B;  5FTA A;  1R2B A;  2A79 B;  3V7D A;  1A68 A;  1QDV A;  4W9H H;  1EOF A;  5JH5 B;  1EXB E;  3HVE A;  2OVQ A;  4UYI A;  4EOZ A;  3ZRC B;  4W9E B;  1NEX A;  5BXB A;  2PPI A;  1R28 A;  4YY8 A;  3MKS A;  4W9J B;  4APF A;  4W9F B;  3LBZ A;  2NZ0 B;  2P1Q A;  2IF5 A;  4W9K B;  1NN7 A;  2MA9 C;  4U2N A;  4CXJ A;  3C6N A;  2C9W C;  1FS2 B;  1DSX A;  2VKP A;  2IHC A;  2Z8H A;  5HYW B;  4BGC A;  5LLI B;  5BXH A;  5BXD A;  4BKT B;  5A6R A;  2FNJ C;  4B95 B;  3M5B A;  2OVP A;  1T1D A;  2VPK A;  2OVR A;  3M52 A;  2AST A;  1FS1 B;  3M4T A;  4W9L B;  1R29 A;  3GA1 A;  3HVE B;  4U2M A;  2P1N A;  5A15 A;  1BUO A;  4AJY C;  3LUT B;  3OGK A;  3DRZ A;  4CXI A;  3ZKJ B;  3ZUN B;  2I2R A;  4CP3 A;  4ZGC A;  3OGL A;  4N9F 5;  4JTC B;  3KVT A;  4I6J C;  3OHU A;  2Q81 A;  4U77 A;  3HTM A;  2R9R B;  4WQO C;  4J8Z A;  3OHV A;  2E32 B;  1LM8 C;  3C6P A;  2NN2 A;  3HQI A;  3L2O A;  4B9K B;  1HV2 A;  1S1G A;  1VCB B;  2IZV C;  3LNM B;  1P22 B;  3M8V A;  4W9G B;  3HU6 A;  1EOE A;  4ZOU A;  3C6O A;  4B9K E;  5BO4 C;  4CRH A;  4JTA B;  5IBK A;  4AWJ B;  4BKS B;  3DRY A;  1FQV B;  3DCG B;  3E4U A;  5DAD A;  3OGM A;  5HZG C;  1LDK D;  2YY9 A;  4AP2 A;  1CS3 A;  5H7H 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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