4W9JB

Pvhl:elob:eloc in complex with (2s,4r)-1-((s)-2-((s)-2-acetamido-4-methylpentanamido)-3,3-dimethylbutanoyl)-4-hydroxy-n-(4-(4-methylthiazol-5-yl)benzyl)pyrrolidine-2-carboxamide (ligand 13)
Total Genus 24
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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
24
sequence length
96
structure length
86
Chain Sequence
MYVKLISSDGHEFIVKREHALTSGTIKAMLSNEVNFREIPSHVLSKVCMYFTYKVRYTNSSTEIPEFPIAPEIALELLMAANFLDC
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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 Structure-Guided Design and Optimization of Small Molecules Targeting the Protein-Protein Interaction between the von Hippel-Lindau (VHL) E3 Ubiquitin Ligase and the Hypoxia Inducible Factor (HIF) Alpha Subunit with in Vitro Nanomolar Affinities.
pubmed doi rcsb
molecule tags Transcription
source organism Homo sapiens
molecule keywords Transcription elongation factor B polypeptide 2
total genus 24
structure length 86
sequence length 96
chains with identical sequence E, H, K
ec nomenclature
pdb deposition date 2014-08-27

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 4w9jB00
2P1QA 3M4TA 3FKCA 3HU6A 3DCGB 3C6OA 1QDVA 2ASSA 4W9DB 4HXIA 4BKTB 2P1OA 1EODA 4EOZA 4JTDB 5BXBA 1NEXA 2R9RB 3KVTA 3L2OA 3B84A 1NN7A 2OVPA 1CS3A 4CP3A 5BO4C 4W9GB 1VCBB 2Z8HA 3ZRCB 4B9KB 3OGLA 3HVEA 4N9F5 2E32B 2I2RA 5BXDA 3I3NA 1EXBE 4B9KE 4CXTA 4I6JC 4JTAB 4ZOUA 3ZNGB 3V7DA 2A79B 5IBKA 3ZTDB 3BIMA 5A6RA 4APFA 4JGHC 4CXIA 3OGMA 5HZGC 1LM8C 4W9FB 4UIJA 2OVRA 4UYIA 3M8VA 5LLIB 4W9IB 2IHCA 4U77A 3ZTCB 3WSOB 1LQBB 2VPKA 2MA9C 4B95B 2P1NA 4CRHA 5FTAA 3OHVA 3E4UA 3M5BA 1P22B 2P1PA 1T1DA 2E31B 3LUTB 4W9HH 4W9LB 1QDWA 3HQIA 3LBZA 1EOEA 4BGCA 1HV2A 1FS1B 2Q81A 5A15A 1LDKD 4W9HB 1A68A 1DSXA 4WQOC 2PPIA 3ZKJB 5DADA 4U2MA 2C9WC 1BUOA 4W9JB 5EUPA 2YY9A 3C6PA 4JTCB 2OVQA 3MKSA 4W9CB 2ASTA 2JZ3C 2NZ0B 5DAFA 4AJYC 3OHUA 1FS2B 4W9EB 3ZUNB 3LNMB 1S1GA 3C6NA 4U2NA 3HTMA 2NN2A 4W9KB 5BXHA 1R28A 2P1MA 5H7GA 2IF5A 2IZVC 4J8ZA 4CXJA 2VKPA 2FNJC 3GA1A 3OGKA 3DRZA 4AP2A 1R29A 3HVEB 1FQVB 1EOFA 3M52A 5H7HA 3ZRFB 4AWJB 5HYWB 4BKSB 1R2BA 5JH5B
chains in the Genus database with same CATH superfamily
2P1QA 3M4TA 3FKCA 3HU6A 3DCGB 3C6OA 1QDVA 2ASSA 4W9DB 4HXIA 4BKTB 2P1OA 1EODA 4EOZA 4JTDB 5BXBA 1NEXA 2R9RB 3KVTA 3L2OA 3B84A 1NN7A 2OVPA 1CS3A 4CP3A 5BO4C 4W9GB 1VCBB 2Z8HA 3ZRCB 4B9KB 3OGLA 3HVEA 4N9F5 2E32B 2I2RA 5BXDA 3I3NA 1EXBE 4B9KE 4CXTA 4I6JC 4ZGCA 4JTAB 4ZOUA 3DRXA 3ZNGB 3V7DA 2A79B 5IBKA 3ZTDB 3BIMA 5A6RA 4APFA 4JGHC 4YY8A 4CXIA 3OGMA 5HZGC 1LM8C 4W9FB 4UIJA 2OVRA 4UYIA 3M8VA 5LLIB 4W9IB 2IHCA 4U77A 3ZTCB 3WSOB 1LQBB 2VPKA 2MA9C 4B95B 2P1NA 4CRHA 5FTAA 3OHVA 3E4UA 3M5BA 1P22B 2P1PA 1T1DA 2E31B 3LUTB 4W9HH 4W9LB 1QDWA 3HQIA 3LBZA 1EOEA 4BGCA 1HV2A 1FS1B 2Q81A 5A15A 1LDKD 4W9HB 1A68A 1DSXA 4WQOC 2PPIA 3ZKJB 5DADA 4U2MA 2C9WC 1BUOA 4W9JB 5EUPA 2YY9A 3C6PA 4JTCB 2OVQA 3MKSA 4W9CB 2ASTA 2JZ3C 2NZ0B 5DAFA 4AJYC 3OHUA 1FS2B 3DRYA 4W9EB 3ZUNB 3LNMB 1S1GA 3C6NA 4U2NA 3HTMA 2NN2A 4W9KB 5BXHA 1R28A 2P1MA 5H7GA 2IF5A 2IZVC 4J8ZA 4CXJA 2VKPA 2FNJC 3GA1A 3OGKA 3DRZA 4AP2A 1R29A 3HVEB 1FQVB 1EOFA 3M52A 5H7HA 3ZRFB 4AWJB 5HYWB 4BKSB 1R2BA 5JH5B
chains in the Genus database with same CATH topology
2P1QA 3M4TA 3FKCA 3HU6A 3DCGB 3C6OA 1QDVA 2ASSA 4W9DB 4HXIA 4BKTB 2P1OA 1EODA 4EOZA 4JTDB 5BXBA 1NEXA 2R9RB 3KVTA 3L2OA 3B84A 1NN7A 2OVPA 1CS3A 4CP3A 5BO4C 4W9GB 1VCBB 2Z8HA 3ZRCB 4B9KB 3OGLA 3HVEA 4N9F5 2E32B 2I2RA 5BXDA 3I3NA 1EXBE 4B9KE 4CXTA 4I6JC 4ZGCA 4JTAB 4ZOUA 3DRXA 3ZNGB 3V7DA 2A79B 5IBKA 3ZTDB 3BIMA 5A6RA 4APFA 4JGHC 4YY8A 4CXIA 3OGMA 5HZGC 1LM8C 4W9FB 4UIJA 2OVRA 4UYIA 3M8VA 5LLIB 4W9IB 2IHCA 4U77A 3ZTCB 3WSOB 1LQBB 2VPKA 2MA9C 4B95B 2P1NA 4CRHA 5FTAA 3OHVA 3E4UA 3M5BA 1P22B 2P1PA 1T1DA 2E31B 3LUTB 4W9HH 4W9LB 1QDWA 3HQIA 3LBZA 1EOEA 4BGCA 1HV2A 1FS1B 2Q81A 5A15A 1LDKD 4W9HB 1A68A 1DSXA 4WQOC 2PPIA 3ZKJB 5DADA 4U2MA 2C9WC 1BUOA 4W9JB 5EUPA 2YY9A 3C6PA 4JTCB 2OVQA 3MKSA 4W9CB 2ASTA 2JZ3C 2NZ0B 5DAFA 4AJYC 3OHUA 1FS2B 3DRYA 4W9EB 3ZUNB 3LNMB 1S1GA 3C6NA 4U2NA 3HTMA 2NN2A 4W9KB 5BXHA 1R28A 2P1MA 5H7GA 2IF5A 2IZVC 4J8ZA 4CXJA 2VKPA 2FNJC 3GA1A 3OGKA 3DRZA 4AP2A 1R29A 3HVEB 1FQVB 1EOFA 3M52A 5H7HA 3ZRFB 4AWJB 5HYWB 4BKSB 1R2BA 5JH5B
chains in the Genus database with same CATH homology


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