5EEFA

Crystal structure of danio rerio histone deacetylase 6 catalytic domain 1 in complex with trichostatin a
Total Genus 144
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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
144
sequence length
359
structure length
354
Chain Sequence
SATGTGLVYVDAFTRFHSHPECPARVSTVMEMLETEGLLGRCVQVEARAVTEDELLLVHTKEYVELMKSTQNMTEEELKTLAEKYDSVYLHPGFFSSACLSVGSVLQLVDKVMTSQLRNGFSINRPPGHHAQADKMNGFCMFNNLAIAARYAQKRHRVQRVLIVDWDVHHGQGIQYIFEEDPSVLYFSVHRYEDGSFWPHLKESDSSSVGSGAGQGYNINLPWNKVGMESGDYITAFQQLLLPVAYEFQPQLVLVAAGFDAVIGDPKGGMQVSPECFSILTHMLKGVAQGRLVLALEGGYNLQSTAEGVCASMRSLLGDPCPHLPSSGAPCESALKSISKTISDLYPFWKSLQT
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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/hydrolase inhibitor
molecule keywords HDAC6
publication title Histone deacetylase 6 structure and molecular basis of catalysis and inhibition.
pubmed doi rcsb
source organism Danio rerio
total genus 144
structure length 354
sequence length 359
chains with identical sequence B
ec nomenclature
pdb deposition date 2015-10-22

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 5eefA00
5EFBD 5G1CA 4BZ7A 5EEKA 5DC8A 2VQQA 2GH6A 4RN0A 4QA5A 5D1DA 4LY1A 4QA7A 2V5WA 4A69A 5G12A 4ZUMA 5THSA 3C0YA 1ZZ1A 5THTA 5G17A 3MZ4A 2VCGA 2VQWG 1W22A 5DC6A 1T67A 5G0GA 3MENA 5G0JA 3MAXA 5THVA 2VQVA 3EWFA 4BZ6A 3EW8A 5EF8A 4QA0A 4ZUOA 3F0RA 3EZTA 3Q9FA 4RN2A 5THUA 4QA6A 5G11A 4CBYA 3MZ6A 4QA3A 4BKXB 5EEIA 1VKGA 5D1BA 5EFHA 5DC5A 5JI5A 3C10A 5G0HA 3Q9BA 1ZZ0A 5DC7A 5G1BA 5D1CA 5FCWA 5EF7A 1C3RA 3F06A 5BWZA 3ZNSA 3ZNRA 5A2SA 2VQOA 5ICNB 5EEMA 5G0YA 5G0IA 5EEFA 4QA1A 5IX0A 2VQJA 5G3WA 4ZUNA 4QA2A 5LI3A 1ZZ3A 4ZUQA 4BZ9A 4QA4A 3F07A 3MZ7A 5EFNA 5EENA 3Q9CA 3RQDA 4ZURA 4LXZA 2V5XA 5G10A 3EZPA 1T69A 4CBTA 1C3SA 5EFGA 1C3PA 3Q9EA 1T64A 5EFJD 4CQFA 3SFHA 4BZ8A 3MZ3A 5EFKB 4RN1A 4BZ5A 3C0ZA 5IWGA 5G1AA 5FUEA 3SFFA 2VQMA 5G13A 4ZUPA 5G0XA
chains in the Genus database with same CATH superfamily
1GQ6A 1WOHA 5EFBD 3MJLA 4Q41A 5G1CA 1TBHA 4MYLA 4BZ7A 5EEKA 5DC8A 5CEVA 3MFVA 2VQQA 2A0MA 2GH6A 4RN0A 1T4PA 4QA5A 5D1DA 4LY1A 4QA7A 2V5WA 4RHMA 4A69A 1HQHA 5G12A 3THJA 4G3HA 4ZUMA 5THSA 5HJ9A 4Q40A 4GSVA 3C0YA 4I06A 4Q3QA 1ZZ1A 4HZEA 5THTA 3E6VA 4Q3UA 5G17A 4Q3RA 1GQ7A 3E8ZA 3MZ4A 2VCGA 2VQWG 1W22A 4MYFA 5DC6A 3THHA 1T67A 3TH7A 1CEVA 4RHKA 3SL0A 4GSZA 4FCKA 5G0GA 3MENA 4IU4A 3MAXA 5G0JA 3TF3A 1TA1A 4Q3PA 2VQVA 1WVAA 3EWFA 3EW8A 5THVA 4IXVA 4BZ6A 1P8PA 3SL1A 5EF8A 4QA0A 4ZUOA 3F0RA 4RLAA 3EZTA 1HQFA 2EIVA 4MXRA 3Q9FA 4RN2A 5THUA 1T4RA 1WOGA 3CEVA 4Q42A 4QA6A 1D3VA 3E6KA 5G11A 1WOIA 4CBYA 3MZ6A 4IU1A 4Q3RC 4QA3A 4BKXB 5EEIA 1VKGA 3NIQA 4IE3A 1ZPGA 4RHJA 5D1BA 5DC5A 5EFHA 4Q3VA 1HQGA 1P8QA 5RLAA 5JI5A 3C10A 1P8SA 3DJ8A 3Q9BA 5G0HA 1ZZ0A 5DC7A 4RHIA 1P8NA 5G1BA 5D1CA 4IE1A 5FCWA 5EF7A 1T5GA 2ZAVA 1C3RA 3F06A 4IU5A 5BWZA 1P8OA 3GMZA 4CEVA 4Q3TA 1WVBA 3ZNSA 3ZNRA 5A2SA 2VQOA 5ICNB 5EEMA 2PHOA 5G0YA 4RHLA 5G0IA 1HQ5A 3LP7A 4GWCA 5EEFA 4FCIA 4QA1A 4RHQA 2VQJA 2EF5A 5IX0A 5G3WA 2PLLA 4ZUNA 4HXQA 4QA2A 3SKKA 3KV2A 5LI3A 1ZZ3A 1PQ3A 1P8MA 4ZUQA 1HQXA 3F80A 4BZ9A 4QA4A 3F07A 1P8RA 3MFWA 3MZ7A 4GSMA 4ITYA 5EFNA 5EENA 3Q9CA 3RQDA 2EF4A 4ZURA 4IE2A 4LXZA 1R1OA 3SJTA 2V5XA 4Q3SA 3EZPA 3MMRA 1T4TA 5G10A 2PHAA 3LP4A 4GWDA 1T69A 3THEA 4CBTA 4HWWA 1T5FA 1C3SA 5EFGA 5HJAA 3E8QA 3RLAA 1C3PA 3NIOA 3NIPA 1RLAA 3PZLA 3Q9EA 1T64A 4IU0A 2AEBA 5EFJD 1XFKA 3E9BA 3LHLA 4CQFA 3SFHA 1ZPEA 4BZ8A 4MYNA 3MZ3A 2CEVA 3GN0A 1T4SA 2RLAA 5EFKB 4RN1A 4BZ5A 1TBJA 3C0ZA 5IWGA 5G1AA 3M1RA 4MYKA 4DZ4A 5FUEA 3SFFA 2VQMA 5G13A 1TBLA 4ZUPA 4IXUA 5G0XA
chains in the Genus database with same CATH topology
5EFBD 5G1CA 4BZ7A 5EEKA 5DC8A 2VQQA 2GH6A 4RN0A 4QA5A 5D1DA 4LY1A 4QA7A 2V5WA 4A69A 5G12A 4ZUMA 5THSA 3C0YA 1ZZ1A 5THTA 5G17A 3MZ4A 2VCGA 2VQWG 1W22A 5DC6A 1T67A 5G0GA 3MENA 5G0JA 3MAXA 5THVA 2VQVA 3EWFA 4BZ6A 3EW8A 5EF8A 4QA0A 4ZUOA 3F0RA 3EZTA 3Q9FA 4RN2A 5THUA 4QA6A 5G11A 4CBYA 3MZ6A 4QA3A 4BKXB 5EEIA 1VKGA 5D1BA 5EFHA 5DC5A 5JI5A 3C10A 5G0HA 3Q9BA 1ZZ0A 5DC7A 5G1BA 5D1CA 5FCWA 5EF7A 1C3RA 3F06A 5BWZA 3ZNSA 3ZNRA 5A2SA 2VQOA 5ICNB 5EEMA 5G0YA 5G0IA 5EEFA 4QA1A 5IX0A 2VQJA 5G3WA 4ZUNA 4QA2A 5LI3A 1ZZ3A 4ZUQA 4BZ9A 4QA4A 3F07A 3MZ7A 5EFNA 5EENA 3Q9CA 3RQDA 4ZURA 4LXZA 2V5XA 5G10A 3EZPA 1T69A 4CBTA 1C3SA 5EFGA 1C3PA 3Q9EA 1T64A 5EFJD 4CQFA 3SFHA 4BZ8A 3MZ3A 5EFKB 4RN1A 4BZ5A 3C0ZA 5IWGA 5G1AA 5FUEA 3SFFA 2VQMA 5G13A 4ZUPA 5G0XA
chains in the Genus database with same CATH homology


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