4W9F | Genus

Total Genus 22

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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	22
sequence length	96
structure length	86
Chain Sequence	MMYVKLISSDGHEFIVKREHALTSGTIKAMLSNEVNFREIPSHVLSKVCMYFTYKVRYTNSSTEIPEFPIAPEIALELLMAANFLD

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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

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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

molecule tags	Ligase
source organism	Homo sapiens
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 keywords	Transcription elongation factor B polypeptide 2
total genus	22
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	Class	Architecture	Topology	Homology	Domain
3.30.710.10	Alpha Beta	2-Layer Sandwich	Potassium Channel Kv1.1; Chain A	Potassium Channel Kv1.1; Chain A	4w9fB00

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

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

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

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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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4W9FB

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations