5EFBD

Crystal structure of danio rerio histone deacetylase 6 catalytic domain 2 in complex with oxamflatin
Total Genus 147
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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
147
sequence length
357
structure length
355
Chain Sequence
PITGLVYDQRMMLHHNMWDSHHPELPQRISRIFSRHEELRLLSRCHRIPARLATEEELALCHSSKHISIIKSSEHMKPRDLNRLGDEYNSIFISNESYTCALLAAGSCFNSAQAILTGQVRNAVAIVRPPGHHAEKDTACGFCFFNTAALTARYAQSITRESLRVLIVDWDVHHGNGTQHIFEEDDSVLYISLHRYEDGAFFPNSEDANYDKVGLGKGRGYNVNIPWNGGKMGDPEYMAAFHHLVMPIAREFAPELVLVSAGFDAARGDPLGGFQVTPEGYAHLTHQLMSLAAGRVLIILEGGYNLTSISESMSMCTSMLLGDSPPSLLTPLKTSATVSINNVLRAHAPFWSSLR
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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.

molecule tags Hydrolase/hydrolase inhibitor
molecule keywords Hdac6 protein
publication title Histone deacetylase 6 structure and molecular basis of catalysis and inhibition.
pubmed doi rcsb
source organism Danio rerio
total genus 147
structure length 355
sequence length 357
ec nomenclature ec 3.5.1.98: Histone deacetylase.
pdb deposition date 2015-10-23

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
D 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 5efbD00
5DC5A 3Q9EA 5D1DA 5G0JA 3RQDA 4CBYA 3MENA 2VQWG 4QA5A 5EFKB 5G12A 5EEMA 3F07A 4BZ7A 1VKGA 4BZ9A 1C3SA 4QA0A 5EEIA 2VQQA 5JI5A 4A69A 5G13A 3SFFA 5DC7A 4ZUPA 5G0HA 2VQVA 1ZZ3A 4QA2A 5EF7A 5IX0A 3MZ4A 5G0XA 1ZZ1A 5THTA 4CQFA 5THUA 3Q9CA 5G0YA 3EW8A 4ZUMA 3MAXA 3Q9BA 2V5WA 2VQMA 2VQJA 1T67A 3EZTA 4BZ8A 2GH6A 5EFNA 3EWFA 4ZUOA 5EENA 4BKXB 5G3WA 5D1BA 5EEKA 4BZ5A 5IWGA 4BZ6A 2V5XA 3Q9FA 4QA4A 5BWZA 5EF8A 1W22A 3F06A 3C10A 3C0YA 5EEFA 1C3RA 3MZ6A 4RN0A 4RN2A 5A2SA 5EFBD 5G17A 3EZPA 5FCWA 1C3PA 5DC8A 5G11A 5DC6A 4CBTA 5EFHA 2VCGA 3C0ZA 5G1CA 4ZUQA 3F0RA 5ICNB 1T69A 5G10A 4ZUNA 4RN1A 5G1BA 4QA1A 5EFGA 4QA6A 5G1AA 5D1CA 5THVA 3MZ7A 1T64A 5G0GA 4LY1A 4QA7A 5G0IA 5FUEA 3ZNSA 2VQOA 4QA3A 5LI3A 1ZZ0A 4ZURA 3MZ3A 5EFJD 3SFHA 5THSA 3ZNRA 4LXZA
chains in the Genus database with same CATH superfamily
3NIQA 4RHQA 1T5GA 5DC5A 1TBHA 5HJ9A 4Q3QA 3Q9EA 4LXZA 5D1DA 3SL0A 1CEVA 5G0JA 3RQDA 4CBYA 3PZLA 3MENA 2VQWG 4QA5A 5EFKB 5G12A 4Q3RC 5EEMA 3F07A 4DZ4A 4GSZA 4MXRA 4HWWA 4BZ7A 1P8QA 1VKGA 3M1RA 2PLLA 4BZ9A 1T4PA 3E6VA 1TA1A 1C3SA 3CEVA 4QA0A 1P8SA 4RHMA 5EEIA 2VQQA 5JI5A 1GQ6A 4A69A 5G13A 1WOGA 3SFFA 5DC7A 4ZUPA 4RHJA 5G0HA 1GQ7A 2VQVA 3E8QA 2AEBA 2CEVA 4Q3RA 1HQ5A 4IU4A 4IU5A 1ZZ3A 3E8ZA 1T4SA 4GWDA 4QA2A 2ZAVA 5EF7A 1T4TA 4IXVA 5IX0A 1PQ3A 3MZ4A 3GN0A 3MMRA 1T5FA 4MYKA 5G0XA 1ZZ1A 1RLAA 1TBJA 4MYNA 4RHKA 5THTA 3THJA 4CQFA 5THUA 3KV2A 3Q9CA 4IE3A 5G0YA 3EW8A 4FCIA 4ZUMA 4HZEA 4Q3PA 2EF4A 5HJAA 1WVAA 4GWCA 3NIOA 4FCKA 3MAXA 2EIVA 3Q9BA 4I06A 1P8RA 2VQMA 2VQJA 1T67A 1T4RA 2RLAA 3LP7A 3EZTA 1ZPEA 3MFWA 4G3HA 4BZ8A 4Q3UA 2GH6A 5RLAA 5EFNA 3LHLA 3EWFA 4ZUOA 4Q41A 4IE1A 4RHIA 5EENA 3SKKA 1P8PA 4ITYA 4BKXB 3DJ8A 5G3WA 5D1BA 5EEKA 3THEA 4BZ5A 4IXUA 4CEVA 2PHAA 3GMZA 5IWGA 4Q3VA 4BZ6A 2V5XA 1WOIA 3Q9FA 4QA4A 3MFVA 5BWZA 5EF8A 4Q42A 1W22A 3F06A 3C10A 3F80A 4GSVA 3C0YA 4RN0A 1C3RA 1WVBA 3MZ6A 4RN2A 2A0MA 5EEFA 5EFBD 5G17A 5A2SA 3EZPA 4GSMA 4HXQA 3THHA 5FCWA 1C3PA 5DC8A 5G11A 1D3VA 4IU1A 5DC6A 3TH7A 4CBTA 5EFHA 2VCGA 3C0ZA 4IU0A 3NIPA 1R1OA 4Q40A 4RHLA 3F0RA 1TBLA 4RLAA 5G1CA 4ZUQA 5ICNB 1T69A 5G10A 1HQGA 3E9BA 4ZUNA 4RN1A 5G1BA 4QA1A 1HQHA 5EFGA 1WOHA 4QA6A 5G1AA 5D1CA 3RLAA 4MYFA 1P8NA 3E6KA 1ZPGA 1P8OA 3MJLA 2EF5A 3MZ7A 5THVA 1T64A 5G0GA 4LY1A 3SJTA 4QA7A 5G0IA 5FUEA 3ZNSA 2VQOA 4QA3A 5LI3A 4Q3SA 1ZZ0A 4ZURA 3MZ3A 5EFJD 1XFKA 3TF3A 1HQXA 1HQFA 3SFHA 2PHOA 4IE2A 5THSA 4MYLA 3SL1A 1P8MA 4Q3TA 3LP4A 3ZNRA 2V5WA 5CEVA
chains in the Genus database with same CATH topology
5DC5A 3Q9EA 5D1DA 5G0JA 3RQDA 4CBYA 3MENA 2VQWG 4QA5A 5EFKB 5G12A 5EEMA 3F07A 4BZ7A 1VKGA 4BZ9A 1C3SA 4QA0A 5EEIA 2VQQA 5JI5A 4A69A 5G13A 3SFFA 5DC7A 4ZUPA 5G0HA 2VQVA 1ZZ3A 4QA2A 5EF7A 5IX0A 3MZ4A 5G0XA 1ZZ1A 5THTA 4CQFA 5THUA 3Q9CA 5G0YA 3EW8A 4ZUMA 3MAXA 3Q9BA 2V5WA 2VQMA 2VQJA 1T67A 3EZTA 4BZ8A 2GH6A 5EFNA 3EWFA 4ZUOA 5EENA 4BKXB 5G3WA 5D1BA 5EEKA 4BZ5A 5IWGA 4BZ6A 2V5XA 3Q9FA 4QA4A 5BWZA 5EF8A 1W22A 3F06A 3C10A 3C0YA 5EEFA 1C3RA 3MZ6A 4RN0A 4RN2A 5A2SA 5EFBD 5G17A 3EZPA 5FCWA 1C3PA 5DC8A 5G11A 5DC6A 4CBTA 5EFHA 2VCGA 3C0ZA 5G1CA 4ZUQA 3F0RA 5ICNB 1T69A 5G10A 4ZUNA 4RN1A 5G1BA 4QA1A 5EFGA 4QA6A 5G1AA 5D1CA 5THVA 3MZ7A 1T64A 5G0GA 4LY1A 4QA7A 5G0IA 5FUEA 3ZNSA 2VQOA 4QA3A 5LI3A 1ZZ0A 4ZURA 3MZ3A 5EFJD 3SFHA 5THSA 3ZNRA 4LXZA
chains in the Genus database with same CATH homology


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