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


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