5EFNA

Crystal structure of danio rerio histone deacetylase 6 catalytic domain 2 (h574a) in complex with histone h4 lys6 tripeptide substrate
Total Genus 142
50100150200250300350020406080100120140
Genus TraceResidueGenus

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
142
sequence length
357
structure length
357
Chain Sequence
PITGLVYDQRMMLHHNMWDSHHPELPQRISRIFSRHEELRLLSRCHRIPARLATEEELALCHSSKHISIIKSSEHMKPRDLNRLGDEYNSIFISNESYTCALLAAGSCFNSAQAILTGQVRNAVAIVRPPGHAAEKDTACGFCFFNTAALTARYAQSITRESLRVLIVDWDVHHGNGTQHIFEEDDSVLYISLHRYEDGAFFPNSEDANYDKVGLGKGRGYNVNIPWNGGKMGDPEYMAAFHHLVMPIAREFAPELVLVSAGFDAARGDPLGGFQVTPEGYAHLTHQLMSLAAGRVLIILEGGYNLTSISESMSMCTSMLLGDSPPSLDHLTPLKTSATVSINNVLRAHAPFWSSLR
5010015020025030035035030025020015010050
020406080100120140Genus Matrix

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
source organism Danio rerio
publication title Histone deacetylase 6 structure and molecular basis of catalysis and inhibition.
pubmed doi rcsb
molecule keywords Hdac6 protein
total genus 142
structure length 357
sequence length 357
chains with identical sequence B
ec nomenclature ec 3.5.1.98: Histone deacetylase.
pdb deposition date 2015-10-24

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 5efnA00
4RN0A 5EFGA 5EEFA 1ZZ3A 3EWFA 5G0XA 4RN1A 5ICNB 1T69A 4QA3A 2VQJA 2VQWG 3Q9EA 3RQDA 5A2SA 5DC5A 2GH6A 4ZURA 5EFKB 4QA5A 4QA7A 4CQFA 3MAXA 4BZ9A 4LY1A 5FUEA 4ZUNA 4QA4A 5EFJD 3MZ7A 3EZPA 5THTA 5D1BA 3F06A 4QA0A 5DC7A 5EFBD 4BZ8A 5THVA 4BZ5A 3MZ3A 2VCGA 3F0RA 1VKGA 2VQQA 4A69A 2VQMA 1C3PA 3Q9FA 5G1AA 5G0JA 3Q9CA 5THUA 5LI3A 3F07A 5G13A 3EW8A 5JI5A 4QA1A 5IX0A 4LXZA 3MZ6A 5IWGA 5G3WA 5EEKA 5EF8A 5G10A 4ZUOA 3MZ4A 1ZZ1A 4QA6A 1C3SA 4ZUQA 3SFHA 4ZUPA 5D1CA 5EFHA 5EENA 4BKXB 4QA2A 1C3RA 3ZNRA 2VQVA 5EEMA 5G0GA 2V5WA 4ZUMA 5G0YA 5G1CA 3EZTA 3ZNSA 5EEIA 5DC6A 5EFNA 4BZ7A 3MENA 1T67A 1T64A 5G11A 5THSA 5G12A 1W22A 3Q9BA 5G17A 5BWZA 3C0ZA 3C0YA 2V5XA 5G1BA 5G0HA 5FCWA 5DC8A 4CBYA 1ZZ0A 4BZ6A 3C10A 5G0IA 5EF7A 5D1DA 4RN2A 4CBTA 2VQOA 3SFFA
chains in the Genus database with same CATH superfamily
4IU1A 1WOIA 4Q3TA 4RN0A 3MFVA 5EFGA 5EEFA 1HQ5A 1ZZ3A 4RLAA 2A0MA 3EWFA 5G0XA 2EIVA 1HQGA 4RN1A 4Q3UA 5ICNB 1P8MA 4Q3RA 1T69A 3SKKA 4QA3A 2VQJA 3F80A 2VQWG 3LHLA 3NIPA 3Q9EA 4Q42A 3RQDA 5A2SA 4IU5A 5DC5A 2GH6A 4I06A 4IXUA 4ZURA 3E6VA 5EFKB 4QA5A 4QA7A 4MYFA 4CQFA 3MAXA 3LP7A 3MJLA 4BZ9A 4FCKA 1P8SA 1GQ7A 3RLAA 4LY1A 3E9BA 5FUEA 2PLLA 4ZUNA 4QA4A 1TA1A 5EFJD 3MZ7A 4GWDA 3EZPA 4Q3VA 1P8NA 4FCIA 3KV2A 2EF5A 1HQFA 2PHAA 4GSVA 4MXRA 3F06A 5D1BA 4QA0A 5THTA 5DC7A 3SJTA 4DZ4A 5EFBD 4IE3A 5CEVA 1T4RA 1ZPEA 4BZ8A 1T5GA 1XFKA 5RLAA 3E8QA 5THVA 4BZ5A 1P8QA 2VCGA 3MZ3A 1T4SA 3PZLA 4RHLA 3F0RA 2RLAA 1VKGA 2VQQA 4A69A 2VQMA 1TBJA 3E6KA 1C3PA 4IE1A 3Q9FA 5G1AA 1T4PA 5G0JA 1D3VA 3Q9CA 4Q3QA 5THUA 1TBLA 3F07A 5LI3A 3GMZA 5G13A 3EW8A 5JI5A 1ZPGA 4Q3RC 4QA1A 5IX0A 4GSMA 4LXZA 3MZ6A 5IWGA 5G3WA 4IXVA 5EEKA 1WOGA 4RHJA 2CEVA 1WVBA 1T5FA 5EF8A 5G10A 3DJ8A 4HWWA 4ZUOA 3TF3A 3MZ4A 1ZZ1A 4QA6A 2EF4A 1C3SA 4ZUQA 3SFHA 4ZUPA 2ZAVA 5D1CA 1RLAA 4IU4A 5EFHA 5EENA 3GN0A 4BKXB 1TBHA 4QA2A 1P8RA 1C3RA 5HJ9A 1WVAA 3ZNRA 2VQVA 5EEMA 5G0GA 2V5WA 3THJA 3M1RA 4ZUMA 4G3HA 5G0YA 1GQ6A 4GWCA 3SL1A 5G1CA 3MMRA 3EZTA 3ZNSA 5DC6A 5EEIA 4Q40A 4RHKA 5EFNA 3THHA 4BZ7A 3CEVA 3LP4A 1T67A 1T64A 3MENA 5G11A 5THSA 5G12A 4HXQA 2PHOA 1W22A 1HQHA 3NIOA 1T4TA 3Q9BA 4GSZA 4ITYA 4MYLA 4Q3SA 5HJAA 5G17A 3SL0A 1P8OA 3MFWA 1CEVA 4MYNA 5BWZA 3C0ZA 3C0YA 2V5XA 5G1BA 4IU0A 5G0HA 4Q41A 1WOHA 5FCWA 3THEA 2AEBA 5DC8A 1PQ3A 4CBYA 4Q3PA 1R1OA 4RHQA 4RHMA 1ZZ0A 4BZ6A 1HQXA 3NIQA 4MYKA 3C10A 4HZEA 5EF7A 5G0IA 4CEVA 4IE2A 5D1DA 3E8ZA 4RN2A 3TH7A 2VQOA 4CBTA 1P8PA 4RHIA 3SFFA
chains in the Genus database with same CATH topology
4RN0A 5EFGA 5EEFA 1ZZ3A 3EWFA 5G0XA 4RN1A 5ICNB 1T69A 4QA3A 2VQJA 2VQWG 3Q9EA 3RQDA 5A2SA 5DC5A 2GH6A 4ZURA 5EFKB 4QA5A 4QA7A 4CQFA 3MAXA 4BZ9A 4LY1A 5FUEA 4ZUNA 4QA4A 5EFJD 3MZ7A 3EZPA 5THTA 5D1BA 3F06A 4QA0A 5DC7A 5EFBD 4BZ8A 5THVA 4BZ5A 3MZ3A 2VCGA 3F0RA 1VKGA 2VQQA 4A69A 2VQMA 1C3PA 3Q9FA 5G1AA 5G0JA 3Q9CA 5THUA 5LI3A 3F07A 5G13A 3EW8A 5JI5A 4QA1A 5IX0A 4LXZA 3MZ6A 5IWGA 5G3WA 5EEKA 5EF8A 5G10A 4ZUOA 3MZ4A 1ZZ1A 4QA6A 1C3SA 4ZUQA 3SFHA 4ZUPA 5D1CA 5EFHA 5EENA 4BKXB 4QA2A 1C3RA 3ZNRA 2VQVA 5EEMA 5G0GA 2V5WA 4ZUMA 5G0YA 5G1CA 3EZTA 3ZNSA 5EEIA 5DC6A 5EFNA 4BZ7A 3MENA 1T67A 1T64A 5G11A 5THSA 5G12A 1W22A 3Q9BA 5G17A 5BWZA 3C0ZA 3C0YA 2V5XA 5G1BA 5G0HA 5FCWA 5DC8A 4CBYA 1ZZ0A 4BZ6A 3C10A 5G0IA 5EF7A 5D1DA 4RN2A 4CBTA 2VQOA 3SFFA
chains in the Genus database with same CATH homology


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...

Application loaded.