3EZPA

Crystal structure analysis of human hdac8 d101n variant
Total Genus 123
50100150200250300350020406080100120
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
123
sequence length
364
structure length
357
Chain Sequence
LVPVYIYSPEYVSMCDSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQDSIEYGLGYNCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHVV
5010015020025030035035030025020015010050
020406080100120Genus 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.

Chord Diagram
EMPTYTIV1 (31-34)TIV2 (32-35)AH2 (37-47)TII1 (34-37)AH10 (308-322)TIV7 (99-102)AH3 (64-68)AH4 (73-83)TIV8 (129-132)TIV4 (92-95)TIV6 (95-98)TVIII1 (100-103)AH5 (108-127)TI1 (136-139)TII2 (105-108)TIV10 (145-148)TI6 (272-275)S8 (297-301)AH8 (237-255)TVIII2 (153-156)S3 (133-136)S4 (172-176)AH6 (157-166)AH9 (281-293)O1 (181-183)TI4 (189-192)TVIa1 (207-210)TI3 (166-169)TVIII3 (169-172)S5 (195-202)TI5 (213-216)AH7 (183-189)TIV11 (192-195)TI7 (334-337)3H2 (220-222)S7 (259-263)TII4 (222-225)S6 (226-231)TIV12 (265-268)TIV13 (266-269)3H3 (337-339)TI8 (341-344)AH1 (22-29)3H1 (50-52)S2 (55-57)TIV5 (94-97)TI'1 (150-153)TII3 (204-207)S1 (17-19)TI2 (141-144)TIV3 (68-71)TII6 (269-272)TII5 (232-235)Updating...
connected with : NaN
molecule tags Hydrolase
source organism Homo sapiens
publication title Structural studies of human histone deacetylase 8 and its site-specific variants complexed with substrate and inhibitors.
pubmed doi rcsb
molecule keywords Histone deacetylase 8
total genus 123
structure length 357
sequence length 364
chains with identical sequence B
ec nomenclature ec 3.5.1.98: Histone deacetylase.
pdb deposition date 2008-10-23

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 3ezpA00
4QA3A 1ZZ1A 5ICNB 5G0XA 5D1BA 4QA5A 4ZUOA 5EENA 5IWGA 5DC7A 5G1AA 3RQDA 3Q9BA 1VKGA 4RN0A 1ZZ3A 5G12A 4BZ9A 2VCGA 5THSA 3MZ6A 5EEIA 4A69A 5LI3A 3MZ7A 4ZUQA 5EF7A 5IX0A 4CQFA 5JI5A 2VQVA 3MENA 5EFBD 5EF8A 3Q9CA 4QA6A 4QA4A 5DC6A 5EFGA 4ZUNA 5A2SA 5EFKB 1T67A 3MZ4A 5FUEA 5THVA 3EWFA 1ZZ0A 1T69A 3F0RA 5DC5A 2V5WA 4ZUMA 1W22A 2GH6A 3MZ3A 4ZUPA 5THUA 3ZNRA 5G0IA 4BZ5A 5G17A 5G0YA 5EFJD 5G3WA 4BZ7A 3EZTA 3C0YA 4QA2A 5G13A 3Q9EA 4QA0A 2VQOA 3C10A 1C3RA 3C0ZA 5FCWA 5D1DA 5THTA 5G0GA 2V5XA 3EZPA 4BZ8A 5G0HA 1C3SA 3Q9FA 2VQWG 1T64A 3MAXA 4BZ6A 1C3PA 3EW8A 4CBTA 3F06A 2VQQA 3SFHA 5EFNA 5EEMA 5G1CA 4CBYA 4RN1A 5G11A 5G1BA 5EFHA 3SFFA 2VQJA 4ZURA 5G10A 4LXZA 4RN2A 5G0JA 4QA7A 4LY1A 5BWZA 3F07A 3ZNSA 2VQMA 4BKXB 5DC8A 5EEFA 5D1CA 4QA1A 5EEKA
chains in the Genus database with same CATH superfamily
4QA3A 4RLAA 1ZZ1A 1P8MA 2A0MA 1RLAA 5G0XA 5ICNB 4IU1A 2AEBA 5D1BA 4QA5A 4ZUOA 5EENA 5IWGA 5DC7A 5G1AA 3RQDA 3Q9BA 3LP4A 1VKGA 3MJLA 2PLLA 4RN0A 1ZZ3A 5G12A 1GQ7A 4BZ9A 2VCGA 3M1RA 5THSA 3MZ6A 1WOGA 3MMRA 5EEIA 4Q3PA 4IU0A 4A69A 5LI3A 3E8ZA 3MZ7A 1P8RA 3SKKA 1T4TA 4ZUQA 3E9BA 4G3HA 4RHMA 1T5GA 5EF7A 5IX0A 3E8QA 3LP7A 4MXRA 4CQFA 3LHLA 4Q3RC 1TBLA 2RLAA 3F80A 5JI5A 2EF5A 2VQVA 3TF3A 1GQ6A 3MENA 3KV2A 3MFWA 4MYFA 4GSMA 5EF8A 5EFBD 3Q9CA 4QA6A 1HQGA 1T4PA 4QA4A 5DC6A 5EFGA 3SJTA 4Q40A 4Q42A 4RHKA 4FCKA 5HJAA 4ZUNA 4HZEA 5A2SA 5EFKB 4Q3UA 1T67A 1HQXA 3MZ4A 5FUEA 5THVA 3THJA 3EWFA 1ZZ0A 1T69A 3F0RA 5HJ9A 3E6VA 5DC5A 2PHAA 3GN0A 2V5WA 4ZUMA 4Q41A 1W22A 4Q3RA 2GH6A 3MZ3A 4ZUPA 5THUA 4IE1A 4MYNA 3ZNRA 1ZPGA 5G0IA 4RHIA 4BZ5A 5G17A 4IU4A 4RHLA 5G0YA 4Q3VA 4HWWA 1TA1A 5EFJD 3SL0A 3THEA 2EF4A 3MFVA 4Q3SA 1T4SA 2PHOA 5G3WA 4BZ7A 3EZTA 4MYLA 4Q3TA 1WOHA 3C0YA 4I06A 3Q9EA 4GWDA 4QA0A 4QA2A 5G13A 3SL1A 1TBHA 1ZPEA 4GSVA 2VQOA 1HQFA 4IE3A 2ZAVA 3C10A 3CEVA 1C3RA 3C0ZA 5FCWA 4ITYA 5D1DA 5G0GA 5THTA 3RLAA 2V5XA 4IU5A 1P8SA 3EZPA 4BZ8A 5G0HA 1C3SA 3NIOA 3Q9FA 4RHJA 1PQ3A 2VQWG 1T64A 3MAXA 3GMZA 4BZ6A 1WVBA 1P8QA 1C3PA 4RHQA 3EW8A 1R1OA 4CBTA 4DZ4A 1HQHA 1P8NA 3F06A 2VQQA 3SFHA 5EFNA 5EEMA 5G1CA 3TH7A 4CBYA 4RN1A 5G11A 1WVAA 1CEVA 3NIQA 3THHA 5G1BA 3NIPA 5EFHA 3SFFA 2VQJA 4IXVA 1P8PA 4ZURA 4LXZA 5G10A 1XFKA 4IXUA 4RN2A 1D3VA 5G0JA 4GSZA 5RLAA 3DJ8A 4QA7A 5CEVA 4IE2A 1T4RA 4LY1A 5BWZA 4FCIA 3E6KA 3F07A 1T5FA 1TBJA 1HQ5A 3ZNSA 2VQMA 1WOIA 4MYKA 4CEVA 1P8OA 3PZLA 4BKXB 5DC8A 5EEFA 4HXQA 5D1CA 4Q3QA 4GWCA 2CEVA 4QA1A 2EIVA 5EEKA
chains in the Genus database with same CATH topology
4QA3A 1ZZ1A 5ICNB 5G0XA 5D1BA 4QA5A 4ZUOA 5EENA 5IWGA 5DC7A 5G1AA 3RQDA 3Q9BA 1VKGA 4RN0A 1ZZ3A 5G12A 4BZ9A 2VCGA 5THSA 3MZ6A 5EEIA 4A69A 5LI3A 3MZ7A 4ZUQA 5EF7A 5IX0A 4CQFA 5JI5A 2VQVA 3MENA 5EFBD 5EF8A 3Q9CA 4QA6A 4QA4A 5DC6A 5EFGA 4ZUNA 5A2SA 5EFKB 1T67A 3MZ4A 5FUEA 5THVA 3EWFA 1ZZ0A 1T69A 3F0RA 5DC5A 2V5WA 4ZUMA 1W22A 2GH6A 3MZ3A 4ZUPA 5THUA 3ZNRA 5G0IA 4BZ5A 5G17A 5G0YA 5EFJD 5G3WA 4BZ7A 3EZTA 3C0YA 4QA2A 5G13A 3Q9EA 4QA0A 2VQOA 3C10A 1C3RA 3C0ZA 5FCWA 5D1DA 5THTA 5G0GA 2V5XA 3EZPA 4BZ8A 5G0HA 1C3SA 3Q9FA 2VQWG 1T64A 3MAXA 4BZ6A 1C3PA 3EW8A 4CBTA 3F06A 2VQQA 3SFHA 5EFNA 5EEMA 5G1CA 4CBYA 4RN1A 5G11A 5G1BA 5EFHA 3SFFA 2VQJA 4ZURA 5G10A 4LXZA 4RN2A 5G0JA 4QA7A 4LY1A 5BWZA 3F07A 3ZNSA 2VQMA 4BKXB 5DC8A 5EEFA 5D1CA 4QA1A 5EEKA
chains in the Genus database with same CATH homology


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