5D1BA

Crystal structure of g117e hdac8 in complex with tsa
Total Genus 122
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
122
sequence length
364
structure length
356
Chain Sequence
LVPVYIYSPEYVSMCDSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGEYGLGYDCPATEGIFDYAAAIGEATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHVV
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
AH2 (37-48)TI1 (31-34)TII1 (34-37)TIV1 (32-35)TIV7 (305-308)TII'1 (99-102)3H1 (51-53)EMPTYTIV4 (141-144)S2 (55-57)AH3 (64-68)AH4 (73-84)AH5 (108-128)S3 (133-136)TI'1 (95-98)TIV3 (100-103)TI8 (272-275)AH8 (237-255)TVIII1 (153-156)TI'2 (150-153)AH6 (157-166)AH9 (281-293)O1 (181-183)TI4 (189-192)TII3 (204-207)TI3 (166-169)TVIII2 (169-172)S5 (195-202)S4 (172-176)TVIa1 (207-210)AH7 (183-189)TI5 (192-195)TI6 (213-216)3H2 (220-222)S7 (259-263)TII4 (222-225)S6 (226-231)S8 (297-301)TI9 (334-337)TIV8 (340-343)TIV9 (341-344)AH1 (22-30)TIV2 (68-71)TII2 (105-108)TI2 (136-139)TI7 (266-269)TII5 (269-272)AH10 (308-323)S1 (17-19)3H3 (337-339)TIV5 (145-148)O2 (351-353)Updating...
connected with : NaN
molecule tags Hydrolase
source organism Homo sapiens
publication title Biochemical and Structural Characterization of HDAC8 Mutants Associated with Cornelia de Lange Syndrome Spectrum Disorders.
pubmed doi rcsb
molecule keywords Histone deacetylase 8
total genus 122
structure length 356
sequence length 364
chains with identical sequence B
ec nomenclature ec 3.5.1.98: Histone deacetylase.
pdb deposition date 2015-08-04

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 5d1bA00
1ZZ3A 5EENA 5G17A 4QA1A 5EEFA 1ZZ1A 5G0XA 4QA7A 1W22A 3SFHA 3Q9EA 5G12A 5THVA 5JI5A 5G0HA 5DC8A 3EW8A 3MZ6A 5D1DA 5ICNB 3EZPA 4BZ7A 3F06A 5G0GA 5DC6A 4BZ5A 3F07A 3Q9FA 3EZTA 4ZURA 5G1BA 5IWGA 4RN0A 1T69A 4A69A 3RQDA 5EFJD 4ZUNA 5G0IA 2VQMA 5THSA 5D1BA 5EFGA 4BZ6A 4RN1A 5G1CA 4LXZA 2VQOA 5EF8A 5FCWA 1C3SA 5A2SA 5G13A 5FUEA 4BZ9A 3MZ3A 4ZUOA 1T64A 4CBYA 4QA4A 2GH6A 3ZNSA 3Q9CA 5EEKA 3MZ7A 4BKXB 3EWFA 2VQQA 5EFBD 4QA2A 4BZ8A 5THTA 2VQJA 5EF7A 5D1CA 4LY1A 3MAXA 4CQFA 1T67A 5EFKB 4QA0A 2VQVA 3Q9BA 5EFHA 5G11A 5THUA 3C0YA 4QA5A 3C0ZA 4ZUPA 3C10A 5G3WA 4ZUQA 3F0RA 1C3RA 1ZZ0A 5G10A 4ZUMA 4QA3A 1C3PA 3MZ4A 1VKGA 4CBTA 3ZNRA 5G0JA 5EEIA 5DC5A 5EEMA 3SFFA 2V5XA 4RN2A 5EFNA 2VCGA 2V5WA 5BWZA 5LI3A 5G1AA 3MENA 2VQWG 5G0YA 5IX0A 4QA6A 5DC7A
chains in the Genus database with same CATH superfamily
1ZZ3A 4MYKA 3LP7A 1HQHA 5EENA 4Q3PA 5G17A 4QA1A 3CEVA 2EIVA 4RHKA 1ZZ1A 5EEFA 3MMRA 4RHLA 4QA7A 5G0XA 1GQ6A 1TA1A 1W22A 3SFHA 3F80A 1P8QA 3Q9EA 5G12A 5THVA 5JI5A 5G0HA 5DC8A 4MYNA 3EW8A 3MZ6A 5D1DA 5ICNB 1R1OA 3EZPA 4BZ7A 3F06A 5G0GA 2AEBA 3THHA 5DC6A 1P8MA 4BZ5A 3F07A 3E9BA 5HJAA 4RHMA 3Q9FA 4IU4A 3EZTA 4GSMA 4CEVA 1HQFA 1P8OA 3LHLA 4G3HA 4RHIA 4ZURA 3E8QA 5G1BA 3RLAA 5IWGA 1ZPEA 2PHOA 4RN0A 1T69A 4IE3A 4HZEA 1P8SA 4A69A 3RQDA 5CEVA 4I06A 5EFJD 4ZUNA 2PLLA 5G0IA 2VQMA 4Q3UA 5THSA 5D1BA 5EFGA 3M1RA 1P8PA 4FCIA 1P8NA 4BZ6A 4RN1A 5G1CA 3GN0A 4LXZA 2VQOA 4FCKA 1HQXA 3MFVA 4IXUA 1WVAA 5EF8A 5FCWA 1T4PA 1C3SA 5A2SA 1RLAA 4IU5A 5FUEA 5G13A 4BZ9A 4IU1A 4HWWA 5RLAA 1T4TA 1T5GA 3LP4A 4Q42A 3MZ3A 4ZUOA 1T64A 4CBYA 4QA4A 2GH6A 4GSZA 3ZNSA 3Q9CA 4MYFA 1TBLA 5EEKA 3MZ7A 3THEA 4ITYA 3DJ8A 4BKXB 3EWFA 4RHQA 2VQQA 3SL1A 5EFBD 4QA2A 4IE1A 2EF4A 2CEVA 4Q3VA 4BZ8A 1D3VA 4IE2A 2VQJA 4HXQA 4IXVA 5THTA 5HJ9A 3MJLA 5EF7A 3SJTA 5D1CA 3E6KA 3MAXA 1HQGA 1T67A 1T4RA 4LY1A 4MYLA 4RLAA 4QA0A 5EFKB 4CQFA 2A0MA 1TBHA 2VQVA 3Q9BA 3TF3A 5EFHA 4RHJA 5G11A 1WVBA 4Q3RA 3SKKA 5THUA 3C0YA 4QA5A 3C0ZA 4ZUPA 3C10A 1TBJA 5G3WA 4ZUQA 3F0RA 1C3RA 1WOHA 1ZZ0A 1CEVA 5G10A 3TH7A 4ZUMA 3E8ZA 4QA3A 3KV2A 3MFWA 3NIOA 3THJA 1GQ7A 3PZLA 4GSVA 1C3PA 3MZ4A 1VKGA 4Q3SA 4Q3TA 3SL0A 4CBTA 3ZNRA 1T5FA 5G0JA 2EF5A 5EEIA 1PQ3A 1P8RA 1XFKA 5DC5A 4Q40A 2PHAA 5EEMA 4Q41A 3SFFA 3NIPA 2V5XA 2RLAA 3E6VA 4GWCA 4MXRA 4RN2A 5EFNA 1HQ5A 2ZAVA 2VCGA 1WOGA 2V5WA 4Q3QA 1T4SA 4GWDA 4IU0A 5BWZA 5LI3A 1ZPGA 5G1AA 3MENA 2VQWG 3NIQA 3GMZA 5G0YA 5IX0A 4QA6A 1WOIA 4DZ4A 4Q3RC 5DC7A
chains in the Genus database with same CATH topology
1ZZ3A 5EENA 5G17A 4QA1A 5EEFA 1ZZ1A 5G0XA 4QA7A 1W22A 3SFHA 3Q9EA 5G12A 5THVA 5JI5A 5G0HA 5DC8A 3EW8A 3MZ6A 5D1DA 5ICNB 3EZPA 4BZ7A 3F06A 5G0GA 5DC6A 4BZ5A 3F07A 3Q9FA 3EZTA 4ZURA 5G1BA 5IWGA 4RN0A 1T69A 4A69A 3RQDA 5EFJD 4ZUNA 5G0IA 2VQMA 5THSA 5D1BA 5EFGA 4BZ6A 4RN1A 5G1CA 4LXZA 2VQOA 5EF8A 5FCWA 1C3SA 5A2SA 5G13A 5FUEA 4BZ9A 3MZ3A 4ZUOA 1T64A 4CBYA 4QA4A 2GH6A 3ZNSA 3Q9CA 5EEKA 3MZ7A 4BKXB 3EWFA 2VQQA 5EFBD 4QA2A 4BZ8A 5THTA 2VQJA 5EF7A 5D1CA 4LY1A 3MAXA 4CQFA 1T67A 5EFKB 4QA0A 2VQVA 3Q9BA 5EFHA 5G11A 5THUA 3C0YA 4QA5A 3C0ZA 4ZUPA 3C10A 5G3WA 4ZUQA 3F0RA 1C3RA 1ZZ0A 5G10A 4ZUMA 4QA3A 1C3PA 3MZ4A 1VKGA 4CBTA 3ZNRA 5G0JA 5EEIA 5DC5A 5EEMA 3SFFA 2V5XA 4RN2A 5EFNA 2VCGA 2V5WA 5BWZA 5LI3A 5G1AA 3MENA 2VQWG 5G0YA 5IX0A 4QA6A 5DC7A
chains in the Genus database with same CATH homology


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