2VQMA

Structure of hdac4 catalytic domain bound to a hydroxamic acid inhbitor
Total Genus 135
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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
135
sequence length
402
structure length
391
Chain Sequence
PRFTTGLVYDTLMLKHQCTCGHAGRIQSIWSRLQETGLRGKCECIRGRKATLEELQTVHSEAHTLLYGTNPLNRQKKLLGSLASVFVRLPCGGVGVDSDTIWNEVHSAGAARLAVGCVVELVFKVATGELKNGFAVVRPPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVLYMSLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGYNLSARCFGYLTKQLMGLAGGRIVLALEGGHDLTAICDASEACVSALLGNELDPLPEKVLQQRPNANAVRSMEKVMEIHSKYWRCLQRTTSTAGRSLIEAQTCENE
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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 Zinc-Binding Domain.
pubmed doi rcsb
source organism Homo sapiens
total genus 135
structure length 391
sequence length 402
ec nomenclature ec 3.5.1.98: Histone deacetylase.
pdb deposition date 2008-03-17

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 2vqmA00
4QA1A 5G12A 4CBYA 5IWGA 3SFHA 5G10A 2VQMA 3MZ6A 5G1CA 4BZ6A 1W22A 2VQWG 5EFKB 1C3RA 5EF7A 3F07A 3MAXA 1ZZ1A 4QA5A 5DC6A 2V5XA 5THTA 1T69A 2VCGA 4RN1A 4RN2A 5EEIA 5FUEA 3MENA 2VQOA 3MZ3A 3ZNRA 3RQDA 5EEFA 3F0RA 5DC5A 4ZUNA 1ZZ3A 5DC8A 5EF8A 5EFHA 4QA0A 5ICNB 4ZUPA 1C3PA 4QA6A 5THVA 5A2SA 3Q9BA 5G0IA 2V5WA 5FCWA 5G3WA 3C0YA 5THUA 3MZ7A 5G13A 3SFFA 4BKXB 5G0GA 3EZTA 2GH6A 4RN0A 5DC7A 5IX0A 5EEMA 4QA4A 5EFGA 4BZ5A 5G17A 4A69A 4BZ8A 2VQJA 5EEKA 4LXZA 3MZ4A 4LY1A 5LI3A 4ZUQA 4ZURA 5G0HA 4QA2A 5EFJD 5G0JA 4ZUOA 5THSA 4BZ9A 3C0ZA 5G11A 4QA7A 3Q9CA 3EWFA 1T67A 5EENA 2VQVA 4ZUMA 5BWZA 3Q9EA 5G0XA 5D1CA 3EW8A 5D1BA 1VKGA 3C10A 4QA3A 1T64A 3EZPA 4BZ7A 5G0YA 1C3SA 3ZNSA 5G1AA 2VQQA 1ZZ0A 4CQFA 3Q9FA 3F06A 5EFBD 5EFNA 5JI5A 5G1BA 4CBTA 5D1DA
chains in the Genus database with same CATH superfamily
4QA1A 1WVAA 4IE1A 5G12A 3LP7A 4IE3A 5HJAA 4CBYA 5IWGA 3SFHA 5G10A 3MFWA 4IU1A 2VQMA 3NIPA 3MZ6A 1T4TA 4Q3RC 2CEVA 5G1CA 3E8ZA 2ZAVA 2PHAA 3E6VA 4GWDA 1TBJA 1RLAA 4BZ6A 1W22A 1PQ3A 1ZPGA 3F80A 2VQWG 5EFKB 4CEVA 1C3RA 5EF7A 3F07A 1TA1A 1ZZ1A 3MAXA 4QA5A 4RHQA 5DC6A 2V5XA 5CEVA 1WOIA 5THTA 1T69A 2EF4A 3LHLA 2VCGA 3E6KA 1HQXA 3GN0A 5RLAA 3THHA 3MMRA 4RN1A 4Q3UA 4RN2A 1XFKA 2PLLA 5EEIA 5FUEA 1WVBA 3MENA 1GQ7A 4Q3RA 2VQOA 3MZ3A 3THEA 4Q41A 1D3VA 1TBLA 4HWWA 3ZNRA 3RQDA 2EF5A 5EEFA 3F0RA 5DC5A 4Q3QA 4ZUNA 3LP4A 4GSVA 4Q3VA 1ZZ3A 5DC8A 5EF8A 5EFHA 4QA0A 3NIOA 1WOHA 1P8RA 1C3PA 3DJ8A 4QA6A 4ZUPA 5THVA 5A2SA 3Q9BA 4IE2A 1GQ6A 2V5WA 5FCWA 5G0IA 4MYKA 1HQ5A 5G3WA 1P8OA 3CEVA 1ZPEA 4MXRA 1P8NA 3C0YA 5THUA 3MZ7A 3MFVA 4I06A 3PZLA 5G13A 3SFFA 3SKKA 4BKXB 5G0GA 4HZEA 1TBHA 3EZTA 2GH6A 4RN0A 5DC7A 5IX0A 1P8QA 1HQFA 5EEMA 2PHOA 4QA4A 5EFGA 4IXVA 4RLAA 1P8SA 4Q40A 5G17A 4A69A 4MYLA 1T4SA 4BZ8A 4BZ5A 5ICNB 1R1OA 2VQJA 5EEKA 4ITYA 3MZ4A 4LXZA 3E9BA 3NIQA 4LY1A 4IXUA 4MYNA 5LI3A 3RLAA 4GSMA 4Q42A 4RHJA 3SL0A 4ZUQA 1T5GA 3TF3A 4FCKA 4ZURA 3SL1A 1P8PA 5G0HA 4QA2A 5EFJD 4IU0A 4MYFA 4ZUOA 5G0JA 5THSA 1T5FA 3C0ZA 3THJA 4BZ9A 5G11A 4QA7A 3Q9CA 4IU4A 4RHKA 4Q3TA 1T4RA 3EWFA 1T67A 2AEBA 2A0MA 5EENA 2VQVA 4HXQA 4ZUMA 3Q9EA 5G0XA 5BWZA 1WOGA 4Q3SA 4Q3PA 4IU5A 2EIVA 4G3HA 5D1CA 3SJTA 3EW8A 5D1BA 4DZ4A 1VKGA 3C10A 4QA3A 1T64A 4GWCA 4RHIA 3EZPA 4FCIA 3MJLA 5G0YA 4BZ7A 1T4PA 1C3SA 3ZNSA 2RLAA 3GMZA 4RHLA 1HQGA 4GSZA 5G1AA 1HQHA 3KV2A 3E8QA 3TH7A 1CEVA 2VQQA 1ZZ0A 4CQFA 3Q9FA 3F06A 4RHMA 5EFBD 5EFNA 5HJ9A 5G1BA 5JI5A 3M1RA 4CBTA 5D1DA 1P8MA
chains in the Genus database with same CATH topology
4QA1A 5G12A 4CBYA 5IWGA 3SFHA 5G10A 2VQMA 3MZ6A 5G1CA 4BZ6A 1W22A 2VQWG 5EFKB 1C3RA 5EF7A 3F07A 3MAXA 1ZZ1A 4QA5A 5DC6A 2V5XA 5THTA 1T69A 2VCGA 4RN1A 4RN2A 5EEIA 5FUEA 3MENA 2VQOA 3MZ3A 3ZNRA 3RQDA 5EEFA 3F0RA 5DC5A 4ZUNA 1ZZ3A 5DC8A 5EF8A 5EFHA 4QA0A 5ICNB 4ZUPA 1C3PA 4QA6A 5THVA 5A2SA 3Q9BA 5G0IA 2V5WA 5FCWA 5G3WA 3C0YA 5THUA 3MZ7A 5G13A 3SFFA 4BKXB 5G0GA 3EZTA 2GH6A 4RN0A 5DC7A 5IX0A 5EEMA 4QA4A 5EFGA 4BZ5A 5G17A 4A69A 4BZ8A 2VQJA 5EEKA 4LXZA 3MZ4A 4LY1A 5LI3A 4ZUQA 4ZURA 5G0HA 4QA2A 5EFJD 5G0JA 4ZUOA 5THSA 4BZ9A 3C0ZA 5G11A 4QA7A 3Q9CA 3EWFA 1T67A 5EENA 2VQVA 4ZUMA 5BWZA 3Q9EA 5G0XA 5D1CA 3EW8A 5D1BA 1VKGA 3C10A 4QA3A 1T64A 3EZPA 4BZ7A 5G0YA 1C3SA 3ZNSA 5G1AA 2VQQA 1ZZ0A 4CQFA 3Q9FA 3F06A 5EFBD 5EFNA 5JI5A 5G1BA 4CBTA 5D1DA
chains in the Genus database with same CATH homology


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