2VQVA

Structure of hdac4 catalytic domain with a gain-of-function mutation bound to a hydroxamic acid inhibitor
Total Genus 116
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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
116
sequence length
399
structure length
354
Chain Sequence
RFTTGLVYDTLMLKAGRIQSIWSRLQETGLRGKCEAIRGRKATLEELQTVHSEAHTLLYGTNPDTIWNEVHSAGAARLAVGCVVELVFKVATGELKNGFAVVRPPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVLYMSLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGYNLSARCFGYLTKQLMGLAGGRIVLALEGGYDLTAICDASEACVSALLGNELDPLPEKVLQQRPNANAVRSMEKVMEIHSKYWRCLQRTTSTAGRSLIEAQTCE
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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 Hydrolase
molecule keywords HISTONE DEACETYLASE 4
publication title Structural and Functional Analysis of the Human Hdac4 Catalytic Domain Reveals a Regulatory Structural Zinc-Binding Domain.
pubmed doi rcsb
source organism Homo sapiens
total genus 116
structure length 354
sequence length 399
chains with identical sequence B
ec nomenclature ec 3.5.1.98: Histone deacetylase.
pdb deposition date 2008-03-19

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00850 Hist_deacetyl Histone deacetylase domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.800.20 Alpha Beta 3-Layer(aba) Sandwich Arginase; Chain A Histone deacetylase domain 2vqvA00
3MZ7A 5JI5A 4RN0A 3F06A 3EW8A 4QA6A 1T67A 5DC6A 3EZPA 5G11A 1ZZ1A 2VQWG 5BWZA 4CBYA 5G0JA 5LI3A 5G17A 4BKXB 4BZ6A 5G3WA 1ZZ0A 3C0ZA 5ICNB 2V5XA 3MZ6A 3MZ3A 5DC5A 5EF7A 3ZNRA 3RQDA 2GH6A 5DC7A 5EFBD 3MZ4A 4QA5A 4BZ8A 3Q9FA 5G10A 2V5WA 5IX0A 3F0RA 5G0IA 5EF8A 2VQJA 4ZUQA 5FUEA 3C10A 5G1AA 3MENA 4QA3A 5EEIA 3MAXA 3Q9EA 4QA0A 5G1CA 5G0XA 1C3RA 4BZ7A 4QA2A 5IWGA 5THTA 5D1BA 5EEFA 5FCWA 5EEMA 3Q9BA 3ZNSA 4CBTA 5G0GA 4ZUOA 2VQMA 5EEKA 4ZURA 2VQOA 3EZTA 4ZUNA 1T69A 2VQQA 5EFKB 5G12A 1W22A 3SFHA 3Q9CA 4QA1A 4QA7A 4A69A 3SFFA 4LXZA 5D1CA 2VQVA 5D1DA 5G0YA 4LY1A 4RN1A 5G13A 3F07A 4QA4A 4ZUMA 1VKGA 5DC8A 3C0YA 4CQFA 1ZZ3A 4ZUPA 5EFNA 1C3SA 5A2SA 2VCGA 5EFHA 4BZ5A 5THUA 5THSA 5EFJD 5EFGA 5THVA 5G1BA 4BZ9A 5G0HA 4RN2A 1C3PA 3EWFA 1T64A 5EENA
chains in the Genus database with same CATH superfamily
1P8QA 4MYFA 4Q3QA 3TF3A 1PQ3A 3MZ7A 1HQ5A 2CEVA 5JI5A 3NIPA 4RN0A 5CEVA 1T5GA 4IU1A 3F06A 4GWDA 3EW8A 4QA6A 2EF4A 1T67A 5DC6A 3EZPA 1R1OA 5G11A 1ZZ1A 2VQWG 5BWZA 3RLAA 4CBYA 5G0JA 5LI3A 5G17A 4BKXB 4RHIA 3E6VA 2EF5A 1T5FA 4IU5A 4BZ6A 4Q3RA 1HQFA 4Q3VA 5G3WA 1ZZ0A 3C0ZA 5ICNB 2V5XA 3MZ6A 3MZ3A 3E8QA 3NIOA 3E6KA 1TBHA 4MYNA 1T4TA 5DC5A 5EF7A 3ZNRA 4Q3UA 3RQDA 2GH6A 3PZLA 5DC7A 3MZ4A 5EFBD 3MMRA 4QA5A 4IE1A 4BZ8A 3SKKA 1D3VA 5RLAA 3Q9FA 5G10A 1HQGA 4IU0A 3SL0A 4Q40A 2V5WA 3MJLA 5IX0A 2ZAVA 1T4PA 3F0RA 1P8MA 1WOGA 4RHJA 5G0IA 1TA1A 5EF8A 2VQJA 3LP7A 1XFKA 4Q3SA 4ZUQA 5FUEA 3SJTA 4Q41A 3C10A 4FCIA 4RHQA 5G1AA 1WOIA 3MENA 4QA3A 1TBLA 5EEIA 4IE2A 4ITYA 2PLLA 4RLAA 3MAXA 3Q9EA 4HXQA 4QA0A 5G1CA 1GQ6A 1GQ7A 1TBJA 4Q3PA 4HZEA 5G0XA 1P8RA 1C3RA 4BZ7A 4G3HA 4Q3RC 4QA2A 5IWGA 1HQHA 5HJ9A 4GSZA 3KV2A 4IE3A 5THTA 2RLAA 1T4RA 4MXRA 5D1BA 4I06A 5EEFA 3LHLA 4GWCA 5FCWA 5EEMA 3Q9BA 4RHLA 3ZNSA 4CBTA 5G0GA 4ZUOA 3SL1A 2VQMA 1WVBA 1RLAA 5EEKA 3DJ8A 4ZURA 4Q42A 2VQOA 3EZTA 4ZUNA 1T69A 2VQQA 3E8ZA 4IXVA 1WVAA 1P8PA 5EFKB 1T4SA 1ZPEA 4RHKA 1W22A 3GN0A 3M1RA 5G12A 3SFHA 3Q9CA 4QA1A 4CEVA 1P8SA 4QA7A 4A69A 3SFFA 4LXZA 4IU4A 5D1CA 2VQVA 3F80A 3NIQA 3MFVA 2AEBA 5D1DA 5G0YA 4DZ4A 4LY1A 4RN1A 5G13A 3F07A 3CEVA 1P8OA 4GSMA 4QA4A 4ZUMA 1VKGA 5DC8A 3C0YA 4CQFA 1ZZ3A 3E9BA 4ZUPA 3GMZA 1ZPGA 3MFWA 5EFNA 1C3SA 5HJAA 1HQXA 4MYLA 5A2SA 1CEVA 2EIVA 2PHOA 3TH7A 2VCGA 5EFHA 3THEA 1WOHA 5THUA 5THSA 4IXUA 4BZ5A 5EFJD 5EFGA 5THVA 4Q3TA 3THJA 2PHAA 4FCKA 4RHMA 5G0HA 5G1BA 4RN2A 4GSVA 1C3PA 1P8NA 4BZ9A 3THHA 4MYKA 3EWFA 1T64A 4HWWA 5EENA 3LP4A 2A0MA
chains in the Genus database with same CATH topology
3MZ7A 5JI5A 4RN0A 3F06A 3EW8A 4QA6A 1T67A 5DC6A 3EZPA 5G11A 1ZZ1A 2VQWG 5BWZA 4CBYA 5G0JA 5LI3A 5G17A 4BKXB 4BZ6A 5G3WA 1ZZ0A 3C0ZA 5ICNB 2V5XA 3MZ6A 3MZ3A 5DC5A 5EF7A 3ZNRA 3RQDA 2GH6A 5DC7A 5EFBD 3MZ4A 4QA5A 4BZ8A 3Q9FA 5G10A 2V5WA 5IX0A 3F0RA 5G0IA 5EF8A 2VQJA 4ZUQA 5FUEA 3C10A 5G1AA 3MENA 4QA3A 5EEIA 3MAXA 3Q9EA 4QA0A 5G1CA 5G0XA 1C3RA 4BZ7A 4QA2A 5IWGA 5THTA 5D1BA 5EEFA 5FCWA 5EEMA 3Q9BA 3ZNSA 4CBTA 5G0GA 4ZUOA 2VQMA 5EEKA 4ZURA 2VQOA 3EZTA 4ZUNA 1T69A 2VQQA 5EFKB 5G12A 1W22A 3SFHA 3Q9CA 4QA1A 4QA7A 4A69A 3SFFA 4LXZA 5D1CA 2VQVA 5D1DA 5G0YA 4LY1A 4RN1A 5G13A 3F07A 4QA4A 4ZUMA 1VKGA 5DC8A 3C0YA 4CQFA 1ZZ3A 4ZUPA 5EFNA 1C3SA 5A2SA 2VCGA 5EFHA 4BZ5A 5THUA 5THSA 5EFJD 5EFGA 5THVA 5G1BA 4BZ9A 5G0HA 4RN2A 1C3PA 3EWFA 1T64A 5EENA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3MZ7 A;  5JI5 A;  4RN0 A;  3F06 A;  3EW8 A;  4QA6 A;  1T67 A;  5DC6 A;  3EZP A;  5G11 A;  1ZZ1 A;  2VQW G;  5BWZ A;  4CBY A;  5G0J A;  5LI3 A;  5G17 A;  4BKX B;  4BZ6 A;  5G3W A;  1ZZ0 A;  3C0Z A;  5ICN B;  2V5X A;  3MZ6 A;  3MZ3 A;  5DC5 A;  5EF7 A;  3ZNR A;  3RQD A;  2GH6 A;  5DC7 A;  5EFB D;  3MZ4 A;  4QA5 A;  4BZ8 A;  3Q9F A;  5G10 A;  2V5W A;  5IX0 A;  3F0R A;  5G0I A;  5EF8 A;  2VQJ A;  4ZUQ A;  5FUE A;  3C10 A;  5G1A A;  3MEN A;  4QA3 A;  5EEI A;  3MAX A;  3Q9E A;  4QA0 A;  5G1C A;  5G0X A;  1C3R A;  4BZ7 A;  4QA2 A;  5IWG A;  5THT A;  5D1B A;  5EEF A;  5FCW A;  5EEM A;  3Q9B A;  3ZNS A;  4CBT A;  5G0G A;  4ZUO A;  2VQM A;  5EEK A;  4ZUR A;  2VQO A;  3EZT A;  4ZUN A;  1T69 A;  2VQQ A;  5EFK B;  5G12 A;  1W22 A;  3SFH A;  3Q9C A;  4QA1 A;  4QA7 A;  4A69 A;  3SFF A;  4LXZ A;  5D1C A;  2VQV A;  5D1D A;  5G0Y A;  4LY1 A;  4RN1 A;  5G13 A;  3F07 A;  4QA4 A;  4ZUM A;  1VKG A;  5DC8 A;  3C0Y A;  4CQF A;  1ZZ3 A;  4ZUP A;  5EFN A;  1C3S A;  5A2S A;  2VCG A;  5EFH A;  4BZ5 A;  5THU A;  5THS A;  5EFJ D;  5EFG A;  5THV A;  5G1B A;  4BZ9 A;  5G0H A;  4RN2 A;  1C3P A;  3EWF A;  1T64 A;  5EEN A; 
#chains in the Genus database with same CATH topology
 1P8Q A;  4MYF A;  4Q3Q A;  3TF3 A;  1PQ3 A;  3MZ7 A;  1HQ5 A;  2CEV A;  5JI5 A;  3NIP A;  4RN0 A;  5CEV A;  1T5G A;  4IU1 A;  3F06 A;  4GWD A;  3EW8 A;  4QA6 A;  2EF4 A;  1T67 A;  5DC6 A;  3EZP A;  1R1O A;  5G11 A;  1ZZ1 A;  2VQW G;  5BWZ A;  3RLA A;  4CBY A;  5G0J A;  5LI3 A;  5G17 A;  4BKX B;  4RHI A;  3E6V A;  2EF5 A;  1T5F A;  4IU5 A;  4BZ6 A;  4Q3R A;  1HQF A;  4Q3V A;  5G3W A;  1ZZ0 A;  3C0Z A;  5ICN B;  2V5X A;  3MZ6 A;  3MZ3 A;  3E8Q A;  3NIO A;  3E6K A;  1TBH A;  4MYN A;  1T4T A;  5DC5 A;  5EF7 A;  3ZNR A;  4Q3U A;  3RQD A;  2GH6 A;  3PZL A;  5DC7 A;  3MZ4 A;  5EFB D;  3MMR A;  4QA5 A;  4IE1 A;  4BZ8 A;  3SKK A;  1D3V A;  5RLA A;  3Q9F A;  5G10 A;  1HQG A;  4IU0 A;  3SL0 A;  4Q40 A;  2V5W A;  3MJL A;  5IX0 A;  2ZAV A;  1T4P A;  3F0R A;  1P8M A;  1WOG A;  4RHJ A;  5G0I A;  1TA1 A;  5EF8 A;  2VQJ A;  3LP7 A;  1XFK A;  4Q3S A;  4ZUQ A;  5FUE A;  3SJT A;  4Q41 A;  3C10 A;  4FCI A;  4RHQ A;  5G1A A;  1WOI A;  3MEN A;  4QA3 A;  1TBL A;  5EEI A;  4IE2 A;  4ITY A;  2PLL A;  4RLA A;  3MAX A;  3Q9E A;  4HXQ A;  4QA0 A;  5G1C A;  1GQ6 A;  1GQ7 A;  1TBJ A;  4Q3P A;  4HZE A;  5G0X A;  1P8R A;  1C3R A;  4BZ7 A;  4G3H A;  4Q3R C;  4QA2 A;  5IWG A;  1HQH A;  5HJ9 A;  4GSZ A;  3KV2 A;  4IE3 A;  5THT A;  2RLA A;  1T4R A;  4MXR A;  5D1B A;  4I06 A;  5EEF A;  3LHL A;  4GWC A;  5FCW A;  5EEM A;  3Q9B A;  4RHL A;  3ZNS A;  4CBT A;  5G0G A;  4ZUO A;  3SL1 A;  2VQM A;  1WVB A;  1RLA A;  5EEK A;  3DJ8 A;  4ZUR A;  4Q42 A;  2VQO A;  3EZT A;  4ZUN A;  1T69 A;  2VQQ A;  3E8Z A;  4IXV A;  1WVA A;  1P8P A;  5EFK B;  1T4S A;  1ZPE A;  4RHK A;  1W22 A;  3GN0 A;  3M1R A;  5G12 A;  3SFH A;  3Q9C A;  4QA1 A;  4CEV A;  1P8S A;  4QA7 A;  4A69 A;  3SFF A;  4LXZ A;  4IU4 A;  5D1C A;  2VQV A;  3F80 A;  3NIQ A;  3MFV A;  2AEB A;  5D1D A;  5G0Y A;  4DZ4 A;  4LY1 A;  4RN1 A;  5G13 A;  3F07 A;  3CEV A;  1P8O A;  4GSM A;  4QA4 A;  4ZUM A;  1VKG A;  5DC8 A;  3C0Y A;  4CQF A;  1ZZ3 A;  3E9B A;  4ZUP A;  3GMZ A;  1ZPG A;  3MFW A;  5EFN A;  1C3S A;  5HJA A;  1HQX A;  4MYL A;  5A2S A;  1CEV A;  2EIV A;  2PHO A;  3TH7 A;  2VCG A;  5EFH A;  3THE A;  1WOH A;  5THU A;  5THS A;  4IXU A;  4BZ5 A;  5EFJ D;  5EFG A;  5THV A;  4Q3T A;  3THJ A;  2PHA A;  4FCK A;  4RHM A;  5G0H A;  5G1B A;  4RN2 A;  4GSV A;  1C3P A;  1P8N A;  4BZ9 A;  3THH A;  4MYK A;  3EWF A;  1T64 A;  4HWW A;  5EEN A;  3LP4 A;  2A0M A; 
#chains in the Genus database with same CATH homology
 3MZ7 A;  5JI5 A;  4RN0 A;  3F06 A;  3EW8 A;  4QA6 A;  1T67 A;  5DC6 A;  3EZP A;  5G11 A;  1ZZ1 A;  2VQW G;  5BWZ A;  4CBY A;  5G0J A;  5LI3 A;  5G17 A;  4BKX B;  4BZ6 A;  5G3W A;  1ZZ0 A;  3C0Z A;  5ICN B;  2V5X A;  3MZ6 A;  3MZ3 A;  5DC5 A;  5EF7 A;  3ZNR A;  3RQD A;  2GH6 A;  5DC7 A;  5EFB D;  3MZ4 A;  4QA5 A;  4BZ8 A;  3Q9F A;  5G10 A;  2V5W A;  5IX0 A;  3F0R A;  5G0I A;  5EF8 A;  2VQJ A;  4ZUQ A;  5FUE A;  3C10 A;  5G1A A;  3MEN A;  4QA3 A;  5EEI A;  3MAX A;  3Q9E A;  4QA0 A;  5G1C A;  5G0X A;  1C3R A;  4BZ7 A;  4QA2 A;  5IWG A;  5THT A;  5D1B A;  5EEF A;  5FCW A;  5EEM A;  3Q9B A;  3ZNS A;  4CBT A;  5G0G A;  4ZUO A;  2VQM A;  5EEK A;  4ZUR A;  2VQO A;  3EZT A;  4ZUN A;  1T69 A;  2VQQ A;  5EFK B;  5G12 A;  1W22 A;  3SFH A;  3Q9C A;  4QA1 A;  4QA7 A;  4A69 A;  3SFF A;  4LXZ A;  5D1C A;  2VQV A;  5D1D A;  5G0Y A;  4LY1 A;  4RN1 A;  5G13 A;  3F07 A;  4QA4 A;  4ZUM A;  1VKG A;  5DC8 A;  3C0Y A;  4CQF A;  1ZZ3 A;  4ZUP A;  5EFN A;  1C3S A;  5A2S A;  2VCG A;  5EFH A;  4BZ5 A;  5THU A;  5THS A;  5EFJ D;  5EFG A;  5THV A;  5G1B A;  4BZ9 A;  5G0H A;  4RN2 A;  1C3P A;  3EWF A;  1T64 A;  5EEN 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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