BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 020361
(327 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1ZZ0|A Chain A, Crystal Structure Of A Hdac-Like Protein With Acetate
Bound
pdb|1ZZ0|B Chain B, Crystal Structure Of A Hdac-Like Protein With Acetate
Bound
pdb|1ZZ0|C Chain C, Crystal Structure Of A Hdac-Like Protein With Acetate
Bound
pdb|1ZZ0|D Chain D, Crystal Structure Of A Hdac-Like Protein With Acetate
Bound
pdb|1ZZ1|A Chain A, Crystal Structure Of A Hdac-Like Protein With Saha Bound
pdb|1ZZ1|B Chain B, Crystal Structure Of A Hdac-Like Protein With Saha Bound
pdb|1ZZ1|C Chain C, Crystal Structure Of A Hdac-Like Protein With Saha Bound
pdb|1ZZ1|D Chain D, Crystal Structure Of A Hdac-Like Protein With Saha Bound
pdb|1ZZ3|A Chain A, Crystal Structure Of A Hdac-Like Protein With Cypx Bound
pdb|1ZZ3|B Chain B, Crystal Structure Of A Hdac-Like Protein With Cypx Bound
pdb|1ZZ3|C Chain C, Crystal Structure Of A Hdac-Like Protein With Cypx Bound
pdb|1ZZ3|D Chain D, Crystal Structure Of A Hdac-Like Protein With Cypx Bound
pdb|2GH6|A Chain A, Crystal Structure Of A Hdac-Like Protein With
9,9,9-Trifluoro-8-Oxo-N- Phenylnonan Amide Bound
pdb|2GH6|B Chain B, Crystal Structure Of A Hdac-Like Protein With
9,9,9-Trifluoro-8-Oxo-N- Phenylnonan Amide Bound
pdb|2GH6|C Chain C, Crystal Structure Of A Hdac-Like Protein With
9,9,9-Trifluoro-8-Oxo-N- Phenylnonan Amide Bound
pdb|2GH6|D Chain D, Crystal Structure Of A Hdac-Like Protein With
9,9,9-Trifluoro-8-Oxo-N- Phenylnonan Amide Bound
Length = 369
Score = 173 bits (439), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 98/280 (35%), Positives = 147/280 (52%), Gaps = 13/280 (4%)
Query: 25 DIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTYATATTFQESLAAAGAGIALVDSVV 84
DI H+ A++ + M R S G G T + + +AG + L V
Sbjct: 71 DILRAHSAAHL----ENMKRVSNLPTGGDTGDGITMMGNGGLEIARLSAGGAVELTRRVA 126
Query: 85 AASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDV 144
+ G+AL+ PPGHHA MGFC+F N ++AA YA+ G++RV I+D+DV
Sbjct: 127 TGELSA-----GYALVNPPGHHAPHNAAMGFCIFNNTSVAAGYARAVLGMERVAILDWDV 181
Query: 145 HHGNGTNDAFYDDPDIFFLSTHQDGSY-PGTGKIDEVGRGDGEGSTLNLPLPGGSGDTAM 203
HHGNGT D +++DP + +S HQ + P +G E G G+G G +N+PLP GSG+ A
Sbjct: 182 HHGNGTQDIWWNDPSVLTISLHQHLCFPPDSGYSTERGAGNGHGYNINVPLPPGSGNAAY 241
Query: 204 RTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCG 263
+V++P + ++P LI+V +G+DA +LDPLA + T + +A A D+C
Sbjct: 242 LHAMDQVVLPALRAYRPQLIIVGSGFDASMLDPLARMMVTADGFRQMARRTIDCAADICD 301
Query: 264 SRCVFFLEGGYNLNSLSY---SVADSFRAFLGEPSKASEF 300
R VF EGGY+ + L + +V + P EF
Sbjct: 302 GRIVFVQEGGYSPHYLPFCGLAVIEELTGVRSLPDPYHEF 341
>pdb|2VCG|A Chain A, Crystal Structure Of A Hdac-like Protein Hdah From
Bordetella Sp. With The Bound Inhibitor St-17
pdb|2VCG|B Chain B, Crystal Structure Of A Hdac-like Protein Hdah From
Bordetella Sp. With The Bound Inhibitor St-17
pdb|2VCG|C Chain C, Crystal Structure Of A Hdac-like Protein Hdah From
Bordetella Sp. With The Bound Inhibitor St-17
pdb|2VCG|D Chain D, Crystal Structure Of A Hdac-like Protein Hdah From
Bordetella Sp. With The Bound Inhibitor St-17
Length = 375
Score = 173 bits (439), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 98/280 (35%), Positives = 147/280 (52%), Gaps = 13/280 (4%)
Query: 25 DIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTYATATTFQESLAAAGAGIALVDSVV 84
DI H+ A++ + M R S G G T + + +AG + L V
Sbjct: 77 DILRAHSAAHL----ENMKRVSNLPTGGDTGDGITMMGNGGLEIARLSAGGAVELTRRVA 132
Query: 85 AASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDV 144
+ G+AL+ PPGHHA MGFC+F N ++AA YA+ G++RV I+D+DV
Sbjct: 133 TGELSA-----GYALVNPPGHHAPHNAAMGFCIFNNTSVAAGYARAVLGMERVAILDWDV 187
Query: 145 HHGNGTNDAFYDDPDIFFLSTHQDGSY-PGTGKIDEVGRGDGEGSTLNLPLPGGSGDTAM 203
HHGNGT D +++DP + +S HQ + P +G E G G+G G +N+PLP GSG+ A
Sbjct: 188 HHGNGTQDIWWNDPSVLTISLHQHLCFPPDSGYSTERGAGNGHGYNINVPLPPGSGNAAY 247
Query: 204 RTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCG 263
+V++P + ++P LI+V +G+DA +LDPLA + T + +A A D+C
Sbjct: 248 LHAMDQVVLPALRAYRPQLIIVGSGFDASMLDPLARMMVTADGFRQMARRTIDCAADICD 307
Query: 264 SRCVFFLEGGYNLNSLSY---SVADSFRAFLGEPSKASEF 300
R VF EGGY+ + L + +V + P EF
Sbjct: 308 GRIVFVQEGGYSPHYLPFCGLAVIEELTGVRSLPDPYHEF 347
>pdb|2VQO|A Chain A, Structure Of Hdac4 Catalytic Domain With A
Gain-Of-Function Muation Bound To A
Trifluoromethylketone Inhbitor
pdb|2VQO|B Chain B, Structure Of Hdac4 Catalytic Domain With A
Gain-Of-Function Muation Bound To A
Trifluoromethylketone Inhbitor
pdb|2VQV|A Chain A, Structure Of Hdac4 Catalytic Domain With A
Gain-Of-Function Mutation Bound To A Hydroxamic Acid
Inhibitor
pdb|2VQV|B Chain B, Structure Of Hdac4 Catalytic Domain With A
Gain-Of-Function Mutation Bound To A Hydroxamic Acid
Inhibitor
Length = 413
Score = 169 bits (429), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 96/243 (39%), Positives = 137/243 (56%), Gaps = 22/243 (9%)
Query: 96 GFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFY 155
GFA++RPPGHHA PMGFC F +VA+AA+ Q+ + ++ I+D+DVHHGNGT AFY
Sbjct: 149 GFAVVRPPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFY 208
Query: 156 DDPDIFFLSTHQ--DGS-YPGTGKIDEVGRGDGEGSTLNLPLPGG----SGDTAMRTVFH 208
DP + ++S H+ DG+ +PG+G DEVG G G G +N+ GG GD F
Sbjct: 209 SDPSVLYMSLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFR 268
Query: 209 EVIVPCAQRFKPDLILVSAGYDA---HVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSR 265
V++P A F PD++LVS+G+DA H PL + + L + LA G R
Sbjct: 269 TVVMPIASEFAPDVVLVSSGFDAVEGHP-TPLGGYNLSARCFGYLTKQLMGLA----GGR 323
Query: 266 CVFFLEGGYNLNSLSYSVADSFRAFLGEPSKASEFD--NPAILYEEPSAKVKQAIERVKH 323
V LEGGY+L ++ + A LG +E D +L + P+A +++E+V
Sbjct: 324 IVLALEGGYDLTAICDASEACVSALLG-----NELDPLPEKVLQQRPNANAVRSMEKVME 378
Query: 324 IHS 326
IHS
Sbjct: 379 IHS 381
>pdb|2VQW|G Chain G, Structure Of Inhibitor-Free Hdac4 Catalytic Domain (With
Gain-Of-Function Mutation His332tyr)
Length = 413
Score = 169 bits (428), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 96/243 (39%), Positives = 137/243 (56%), Gaps = 22/243 (9%)
Query: 96 GFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFY 155
GFA++RPPGHHA PMGFC F +VA+AA+ Q+ + ++ I+D+DVHHGNGT AFY
Sbjct: 149 GFAVVRPPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFY 208
Query: 156 DDPDIFFLSTHQ--DGS-YPGTGKIDEVGRGDGEGSTLNLPLPGG----SGDTAMRTVFH 208
DP + ++S H+ DG+ +PG+G DEVG G G G +N+ GG GD F
Sbjct: 209 SDPSVLYMSLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFR 268
Query: 209 EVIVPCAQRFKPDLILVSAGYDA---HVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSR 265
V++P A F PD++LVS+G+DA H PL + + L + LA G R
Sbjct: 269 TVVMPIASEFAPDVVLVSSGFDAVEGHP-TPLGGYNLSARCFGYLTKQLMGLA----GGR 323
Query: 266 CVFFLEGGYNLNSLSYSVADSFRAFLGEPSKASEFD--NPAILYEEPSAKVKQAIERVKH 323
V LEGGY+L ++ + A LG +E D +L + P+A +++E+V
Sbjct: 324 IVLALEGGYDLTAICDASEACVSALLG-----NELDPLPEKVLQQRPNANAVRSMEKVME 378
Query: 324 IHS 326
IHS
Sbjct: 379 IHS 381
>pdb|2VQQ|A Chain A, Structure Of Hdac4 Catalytic Domain (A Double Cysteine-To-
Alanine Mutant) Bound To A Trifluoromethylketone
Inhbitor
pdb|2VQQ|B Chain B, Structure Of Hdac4 Catalytic Domain (A Double Cysteine-To-
Alanine Mutant) Bound To A Trifluoromethylketone
Inhbitor
Length = 413
Score = 167 bits (424), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 95/243 (39%), Positives = 137/243 (56%), Gaps = 22/243 (9%)
Query: 96 GFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFY 155
GFA++RPPGHHA PMGFC F +VA+AA+ Q+ + ++ I+D+DVHHGNGT AFY
Sbjct: 149 GFAVVRPPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFY 208
Query: 156 DDPDIFFLSTHQ--DGS-YPGTGKIDEVGRGDGEGSTLNLPLPGG----SGDTAMRTVFH 208
DP + ++S H+ DG+ +PG+G DEVG G G G +N+ GG GD F
Sbjct: 209 SDPSVLYMSLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFR 268
Query: 209 EVIVPCAQRFKPDLILVSAGYDA---HVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSR 265
V++P A F PD++LVS+G+DA H PL + + L + LA G R
Sbjct: 269 TVVMPIASEFAPDVVLVSSGFDAVEGHP-TPLGGYNLSARCFGYLTKQLMGLA----GGR 323
Query: 266 CVFFLEGGYNLNSLSYSVADSFRAFLGEPSKASEFD--NPAILYEEPSAKVKQAIERVKH 323
V LEGG++L ++ + A LG +E D +L + P+A +++E+V
Sbjct: 324 IVLALEGGHDLTAICDASEACVSALLG-----NELDPLPEKVLQQRPNANAVRSMEKVME 378
Query: 324 IHS 326
IHS
Sbjct: 379 IHS 381
>pdb|2VQJ|A Chain A, Structure Of Hdac4 Catalytic Domain Bound To A
Trifluoromethylketone Inhbitor
pdb|2VQM|A Chain A, Structure Of Hdac4 Catalytic Domain Bound To A Hydroxamic
Acid Inhbitor
Length = 413
Score = 167 bits (423), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 95/243 (39%), Positives = 137/243 (56%), Gaps = 22/243 (9%)
Query: 96 GFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFY 155
GFA++RPPGHHA PMGFC F +VA+AA+ Q+ + ++ I+D+DVHHGNGT AFY
Sbjct: 149 GFAVVRPPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFY 208
Query: 156 DDPDIFFLSTHQ--DGS-YPGTGKIDEVGRGDGEGSTLNLPLPGG----SGDTAMRTVFH 208
DP + ++S H+ DG+ +PG+G DEVG G G G +N+ GG GD F
Sbjct: 209 SDPSVLYMSLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFR 268
Query: 209 EVIVPCAQRFKPDLILVSAGYDA---HVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSR 265
V++P A F PD++LVS+G+DA H PL + + L + LA G R
Sbjct: 269 TVVMPIASEFAPDVVLVSSGFDAVEGHP-TPLGGYNLSARCFGYLTKQLMGLA----GGR 323
Query: 266 CVFFLEGGYNLNSLSYSVADSFRAFLGEPSKASEFD--NPAILYEEPSAKVKQAIERVKH 323
V LEGG++L ++ + A LG +E D +L + P+A +++E+V
Sbjct: 324 IVLALEGGHDLTAICDASEACVSALLG-----NELDPLPEKVLQQRPNANAVRSMEKVME 378
Query: 324 IHS 326
IHS
Sbjct: 379 IHS 381
>pdb|3C0Y|A Chain A, Crystal Structure Of Catalytic Domain Of Human Histone
Deacetylase Hdac7
pdb|3C0Y|B Chain B, Crystal Structure Of Catalytic Domain Of Human Histone
Deacetylase Hdac7
pdb|3C0Y|C Chain C, Crystal Structure Of Catalytic Domain Of Human Histone
Deacetylase Hdac7
pdb|3C0Z|A Chain A, Crystal Structure Of Catalytic Domain Of Human Histone
Deacetylase Hdac7 In Complex With Saha
pdb|3C0Z|B Chain B, Crystal Structure Of Catalytic Domain Of Human Histone
Deacetylase Hdac7 In Complex With Saha
pdb|3C0Z|C Chain C, Crystal Structure Of Catalytic Domain Of Human Histone
Deacetylase Hdac7 In Complex With Saha
pdb|3C10|A Chain A, Crystal Structure Of Catalytic Domain Of Human Histone
Deacetylase Hdac7 In Complex With Trichostatin A (Tsa)
pdb|3C10|B Chain B, Crystal Structure Of Catalytic Domain Of Human Histone
Deacetylase Hdac7 In Complex With Trichostatin A (Tsa)
pdb|3C10|C Chain C, Crystal Structure Of Catalytic Domain Of Human Histone
Deacetylase Hdac7 In Complex With Trichostatin A (Tsa)
Length = 423
Score = 159 bits (401), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 112/332 (33%), Positives = 170/332 (51%), Gaps = 37/332 (11%)
Query: 21 ASVDDIASVHARAYV--------SGLE----KAMDRASQQGIILIEGSGPTYATATTFQE 68
AS++++ SVH+ +V S L+ K +Q+ +++ G T T + E
Sbjct: 92 ASLEELQSVHSERHVLLYGTNPLSRLKLDNGKLAGLLAQRMFVMLPCGGVGVDTDTIWNE 151
Query: 69 ---SLAAAGAGIALVD-SVVAASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIA 124
S AA A ++ D + AS+ + GFA++RPPGHHA MGFC F +VAIA
Sbjct: 152 LHSSNAARWAAGSVTDLAFKVASRELKN---GFAVVRPPGHHADHSTAMGFCFFNSVAIA 208
Query: 125 ARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ--DGS-YPGTGKIDEVG 181
R Q+ ++ I+D+DVHHGNGT FY DP + ++S H+ DG+ +PG+G +DEVG
Sbjct: 209 CRQLQQQSKASKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNFFPGSGAVDEVG 268
Query: 182 RGDGEGSTLNLPLPGG----SGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPL 237
G GEG +N+ GG GD F V++P A+ F PDL+LVSAG+DA P
Sbjct: 269 AGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPA 328
Query: 238 ASLQFTTGTYYMLAAN---IKQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFRAFLGEP 294
G Y++ A + Q +L G V LEGG++L ++ + A LG
Sbjct: 329 -----PLGGYHVSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNR 383
Query: 295 SKASEFDNPAILYEEPSAKVKQAIERVKHIHS 326
+ ++P+ +++E V +HS
Sbjct: 384 VDPLSEEG---WKQKPNLNAIRSLEAVIRVHS 412
>pdb|3Q9B|A Chain A, Crystal Structure Of Apah Complexed With M344
pdb|3Q9B|B Chain B, Crystal Structure Of Apah Complexed With M344
pdb|3Q9B|C Chain C, Crystal Structure Of Apah Complexed With M344
pdb|3Q9B|D Chain D, Crystal Structure Of Apah Complexed With M344
pdb|3Q9B|E Chain E, Crystal Structure Of Apah Complexed With M344
pdb|3Q9B|F Chain F, Crystal Structure Of Apah Complexed With M344
pdb|3Q9B|G Chain G, Crystal Structure Of Apah Complexed With M344
pdb|3Q9B|H Chain H, Crystal Structure Of Apah Complexed With M344
pdb|3Q9B|I Chain I, Crystal Structure Of Apah Complexed With M344
pdb|3Q9B|J Chain J, Crystal Structure Of Apah Complexed With M344
pdb|3Q9B|K Chain K, Crystal Structure Of Apah Complexed With M344
pdb|3Q9B|L Chain L, Crystal Structure Of Apah Complexed With M344
pdb|3Q9F|A Chain A, Crystal Structure Of Apah Complexed With Caps
pdb|3Q9F|B Chain B, Crystal Structure Of Apah Complexed With Caps
pdb|3Q9F|C Chain C, Crystal Structure Of Apah Complexed With Caps
pdb|3Q9F|D Chain D, Crystal Structure Of Apah Complexed With Caps
pdb|3Q9F|E Chain E, Crystal Structure Of Apah Complexed With Caps
pdb|3Q9F|F Chain F, Crystal Structure Of Apah Complexed With Caps
pdb|3Q9F|G Chain G, Crystal Structure Of Apah Complexed With Caps
pdb|3Q9F|H Chain H, Crystal Structure Of Apah Complexed With Caps
pdb|3Q9F|I Chain I, Crystal Structure Of Apah Complexed With Caps
pdb|3Q9F|J Chain J, Crystal Structure Of Apah Complexed With Caps
pdb|3Q9F|K Chain K, Crystal Structure Of Apah Complexed With Caps
pdb|3Q9F|L Chain L, Crystal Structure Of Apah Complexed With Caps
Length = 341
Score = 110 bits (275), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 90/304 (29%), Positives = 134/304 (44%), Gaps = 52/304 (17%)
Query: 23 VDDIASVHARAYVSGLEKAMDRASQQGI-------------------ILIEGSGPTYATA 63
++ + VH Y++ LE A DR G IEG Y A
Sbjct: 56 LETVLKVHDAGYLNFLETAWDRWKAAGYKGEAIATSFPVRRTSPRIPTDIEGQIGYYCNA 115
Query: 64 T-------TFQESLAAAGAGIALVDSVVAASKNRPDPPLGFALIRPPGHHAIPKGPMGFC 116
T++ +L++ + I D + A K F+L RPPGHHA G+C
Sbjct: 116 AETAISPGTWEAALSSMASAIDGADLIAAGHKA------AFSLCRPPGHHAGIDMFGGYC 169
Query: 117 VFGNVAIAARYAQRA--HGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQD--GSYP 172
N A+AA QR G K++ I+D D HHGNGT D FY+ D+FF S H D ++P
Sbjct: 170 FINNAAVAA---QRLLDKGAKKIAILDVDFHHGNGTQDIFYERGDVFFASLHGDPAEAFP 226
Query: 173 G-TGKIDEVGRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCAQR---FKPDLILVSAG 228
G +E G+G G G+T N P+ G +V+ E + +R F + I+VS G
Sbjct: 227 HFLGYAEETGKGAGAGTTANYPM----GRGTPYSVWGEALTDSLKRIAAFGAEAIVVSLG 282
Query: 229 YDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFR 288
D DP++ + T+ Y + I G + +EGGY + + +VA+ +
Sbjct: 283 VDTFEQDPISFFKLTSPDYITMGRTIAA-----SGVPLLVVMEGGYGVPEIGLNVANVLK 337
Query: 289 AFLG 292
G
Sbjct: 338 GVAG 341
>pdb|3Q9C|A Chain A, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|B Chain B, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|C Chain C, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|D Chain D, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|E Chain E, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|F Chain F, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|G Chain G, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|H Chain H, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|I Chain I, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|J Chain J, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|K Chain K, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|L Chain L, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9E|A Chain A, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|B Chain B, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|C Chain C, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|D Chain D, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|E Chain E, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|F Chain F, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|G Chain G, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|H Chain H, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|I Chain I, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|J Chain J, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|K Chain K, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|L Chain L, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
Length = 341
Score = 106 bits (265), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 89/304 (29%), Positives = 133/304 (43%), Gaps = 52/304 (17%)
Query: 23 VDDIASVHARAYVSGLEKAMDRASQQGI-------------------ILIEGSGPTYATA 63
++ + VH Y++ LE A DR G IEG Y A
Sbjct: 56 LETVLKVHDAGYLNFLETAWDRWKAAGYKGEAIATSFPVRRTSPRIPTDIEGQIGYYCNA 115
Query: 64 T-------TFQESLAAAGAGIALVDSVVAASKNRPDPPLGFALIRPPGHHAIPKGPMGFC 116
T++ +L++ + I D + A K F+L RPPGH A G+C
Sbjct: 116 AETAISPGTWEAALSSMASAIDGADLIAAGHKA------AFSLCRPPGHAAGIDMFGGYC 169
Query: 117 VFGNVAIAARYAQRA--HGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQD--GSYP 172
N A+AA QR G K++ I+D D HHGNGT D FY+ D+FF S H D ++P
Sbjct: 170 FINNAAVAA---QRLLDKGAKKIAILDVDFHHGNGTQDIFYERGDVFFASLHGDPAEAFP 226
Query: 173 G-TGKIDEVGRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCAQR---FKPDLILVSAG 228
G +E G+G G G+T N P+ G +V+ E + +R F + I+VS G
Sbjct: 227 HFLGYAEETGKGAGAGTTANYPM----GRGTPYSVWGEALTDSLKRIAAFGAEAIVVSLG 282
Query: 229 YDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFR 288
D DP++ + T+ Y + I G + +EGGY + + +VA+ +
Sbjct: 283 VDTFEQDPISFFKLTSPDYITMGRTIAA-----SGVPLLVVMEGGYGVPEIGLNVANVLK 337
Query: 289 AFLG 292
G
Sbjct: 338 GVAG 341
>pdb|3MEN|A Chain A, Crystal Structure Of Acetylpolyamine Aminohydrolase From
Burkholderia Pseudomallei, Iodide Soak
pdb|3MEN|B Chain B, Crystal Structure Of Acetylpolyamine Aminohydrolase From
Burkholderia Pseudomallei, Iodide Soak
pdb|3MEN|C Chain C, Crystal Structure Of Acetylpolyamine Aminohydrolase From
Burkholderia Pseudomallei, Iodide Soak
pdb|3MEN|D Chain D, Crystal Structure Of Acetylpolyamine Aminohydrolase From
Burkholderia Pseudomallei, Iodide Soak
Length = 362
Score = 102 bits (255), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 73/204 (35%), Positives = 102/204 (50%), Gaps = 11/204 (5%)
Query: 90 RPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNG 149
R P +AL RPPGHHA GFC N AIAA+ + H RV ++D D+HHG G
Sbjct: 162 RDGAPAAYALCRPPGHHARVDAAGGFCYLNNAAIAAQALRARHA--RVAVLDTDMHHGQG 219
Query: 150 TNDAFYDDPDIFFLSTHQDGS--YPGT-GKIDEVGRGDGEGSTLNLPLPGGSGDTAMRTV 206
+ FY D+ ++S H D + YP G DE G G+G G +NLP+P GS + A
Sbjct: 220 IQEIFYARRDVLYVSIHGDPTNFYPAVAGFDDERGAGEGLGYNVNLPMPHGSSEAAFFER 279
Query: 207 FHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRC 266
+ + +RF PD +++S G+D + DP + + TT + L I L
Sbjct: 280 VDDALREL-RRFAPDALVLSLGFDVYRDDPQSQVAVTTDGFGRLGHLIGALRLP-----T 333
Query: 267 VFFLEGGYNLNSLSYSVADSFRAF 290
V EGGY++ SL + F F
Sbjct: 334 VIVQEGGYHIESLEANARSFFGGF 357
>pdb|1C3R|A Chain A, Crystal Structure Of An Hdac Homolog Complexed With
Trichostatin A
pdb|1C3R|B Chain B, Crystal Structure Of An Hdac Homolog Complexed With
Trichostatin A
pdb|1C3S|A Chain A, Crystal Structure Of An Hdac Homolog Complexed With Saha
Length = 375
Score = 99.4 bits (246), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 70/254 (27%), Positives = 108/254 (42%), Gaps = 30/254 (11%)
Query: 14 ELKNFSPASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTY--------ATATT 65
EL PA+ +++ H Y++ L M+ Q + +G+ Y +
Sbjct: 45 ELIKSRPATKEELLLFHTEDYINTL---MEAERSQSVP--KGAREKYNIGGYENPVSYAM 99
Query: 66 FQESLAAAGAGIALVDSVVAASKNRPDPPLGFALIRPPG--HHAIPKGPMGFCVFGNVAI 123
F S A G+ + ++ + G P G HHA GFC N A+
Sbjct: 100 FTGSSLATGSTVQAIEEFLK----------GNVAFNPAGGMHHAFKSRANGFCYINNPAV 149
Query: 124 AARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQDGSYP---GTGKIDEV 180
Y R G KR+ ID D HH +G +AFYD +F LS HQ Y G ++E+
Sbjct: 150 GIEYL-RKKGFKRILYIDLDAHHCDGVQEAFYDTDQVFVLSLHQSPEYAFPFEKGFLEEI 208
Query: 181 GRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASL 240
G G G+G LN+PLP G D + + + F+P++ L+ G D + D L+
Sbjct: 209 GEGKGKGYNLNIPLPKGLNDNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKF 268
Query: 241 QFTTGTYYMLAANI 254
+ ++ A NI
Sbjct: 269 NLSN-VAFLKAFNI 281
>pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog From Aquifex Aeolicus
Length = 375
Score = 99.4 bits (246), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 69/254 (27%), Positives = 109/254 (42%), Gaps = 30/254 (11%)
Query: 14 ELKNFSPASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTY--------ATATT 65
EL PA+ +++ H Y++ L +A ++ + +G+ Y +
Sbjct: 45 ELIKSRPATKEELLLFHTEDYINTLMEA-----ERCQCVPKGAREKYNIGGYENPVSYAM 99
Query: 66 FQESLAAAGAGIALVDSVVAASKNRPDPPLGFALIRPPG--HHAIPKGPMGFCVFGNVAI 123
F S A G+ + ++ + G P G HHA GFC N A+
Sbjct: 100 FTGSSLATGSTVQAIEEFLK----------GNVAFNPAGGMHHAFKSRANGFCYINNPAV 149
Query: 124 AARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQDGSYP---GTGKIDEV 180
Y R G KR+ ID D HH +G +AFYD +F LS HQ Y G ++E+
Sbjct: 150 GIEYL-RKKGFKRILYIDLDAHHCDGVQEAFYDTDQVFVLSLHQSPEYAFPFEKGFLEEI 208
Query: 181 GRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASL 240
G G G+G LN+PLP G D + + + F+P++ L+ G D + D L+
Sbjct: 209 GEGKGKGYNLNIPLPKGLNDNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKF 268
Query: 241 QFTTGTYYMLAANI 254
+ ++ A NI
Sbjct: 269 NLSN-VAFLKAFNI 281
>pdb|3F06|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101a Variant.
pdb|3F06|B Chain B, Crystal Structure Analysis Of Human Hdac8 D101a Variant
Length = 388
Score = 87.8 bits (216), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 76/267 (28%), Positives = 115/267 (43%), Gaps = 31/267 (11%)
Query: 21 ASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTYATATT---FQESLAAAGAGI 77
AS++++A+ H AY+ L+K IE G YA T F + A GA I
Sbjct: 62 ASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE-YGLGYACPATEGIFDYAAAIGGATI 120
Query: 78 ----ALVDSVVAASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHG 133
L+D + + N G+ HHA GFC + + +R
Sbjct: 121 TAAQCLIDGMCKVAINWSG---GW-------HHAKKDEASGFCYLNDAVLGILRLRRK-- 168
Query: 134 LKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ--DGSYPGTGKIDEVGRGDGEGSTLN 191
+R+ +D D+HHG+G DAF + +S H+ G +PGTG + +VG G G ++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 192 LPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFT-TGTYYML 250
+P+ G D + V+ Q F P +++ G D DP+ S T G L
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 251 AANIK-QLAKDLCGSRCVFFLEGGYNL 276
++ QLA + G GGYNL
Sbjct: 289 KYILQWQLATLILGG-------GGYNL 308
>pdb|3F07|A Chain A, Crystal Structure Analysis Of Human Hdac8 Complexed With
Apha In A New Monoclinic Crystal Form
pdb|3F07|B Chain B, Crystal Structure Analysis Of Human Hdac8 Complexed With
Apha In A New Monoclinic Crystal Form
pdb|3F07|C Chain C, Crystal Structure Analysis Of Human Hdac8 Complexed With
Apha In A New Monoclinic Crystal Form
pdb|3F0R|A Chain A, Crystal Structure Analysis Of Human Hdac8 Complexed With
Trichostatin A In A New Monoclinic Crystal Form
pdb|3F0R|B Chain B, Crystal Structure Analysis Of Human Hdac8 Complexed With
Trichostatin A In A New Monoclinic Crystal Form
pdb|3F0R|C Chain C, Crystal Structure Analysis Of Human Hdac8 Complexed With
Trichostatin A In A New Monoclinic Crystal Form
Length = 388
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 76/267 (28%), Positives = 115/267 (43%), Gaps = 31/267 (11%)
Query: 21 ASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTY---ATATTFQESLAAAGAGI 77
AS++++A+ H AY+ L+K IE G Y AT F + A GA I
Sbjct: 62 ASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE-YGLGYDCPATEGIFDYAAAIGGATI 120
Query: 78 ----ALVDSVVAASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHG 133
L+D + + N G+ HHA GFC + + +R
Sbjct: 121 TAAQCLIDGMCKVAINWSG---GW-------HHAKKDEASGFCYLNDAVLGILRLRRK-- 168
Query: 134 LKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ--DGSYPGTGKIDEVGRGDGEGSTLN 191
+R+ +D D+HHG+G DAF + +S H+ G +PGTG + +VG G G ++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 192 LPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFT-TGTYYML 250
+P+ G D + V+ Q F P +++ G D DP+ S T G L
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 251 AANIK-QLAKDLCGSRCVFFLEGGYNL 276
++ QLA + G GGYNL
Sbjct: 289 KYILQWQLATLILGG-------GGYNL 308
>pdb|3SFF|A Chain A, Crystal Structure Of Human Hdac8 Inhibitor Complex, An
Amino Acid Derived Inhibitor
pdb|3SFH|A Chain A, Crystal Structure Of Human Hdac8 Inhibitor Complex, An
Amino Acid Derived Inhibitor
Length = 378
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 76/267 (28%), Positives = 115/267 (43%), Gaps = 31/267 (11%)
Query: 21 ASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTY---ATATTFQESLAAAGAGI 77
AS++++A+ H AY+ L+K IE G Y AT F + A GA I
Sbjct: 63 ASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE-YGLGYDCPATEGIFDYAAAIGGATI 121
Query: 78 ----ALVDSVVAASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHG 133
L+D + + N G+ HHA GFC + + +R
Sbjct: 122 TAAQCLIDGMCKVAINWSG---GW-------HHAKKDEASGFCYLNDAVLGILRLRRK-- 169
Query: 134 LKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ--DGSYPGTGKIDEVGRGDGEGSTLN 191
+R+ +D D+HHG+G DAF + +S H+ G +PGTG + +VG G G ++N
Sbjct: 170 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 229
Query: 192 LPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFT-TGTYYML 250
+P+ G D + V+ Q F P +++ G D DP+ S T G L
Sbjct: 230 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 289
Query: 251 AANIK-QLAKDLCGSRCVFFLEGGYNL 276
++ QLA + G GGYNL
Sbjct: 290 KYILQWQLATLILGG-------GGYNL 309
>pdb|3EZT|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101e Variant
pdb|3EZT|B Chain B, Crystal Structure Analysis Of Human Hdac8 D101e Variant
Length = 388
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 76/267 (28%), Positives = 115/267 (43%), Gaps = 31/267 (11%)
Query: 21 ASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTY---ATATTFQESLAAAGAGI 77
AS++++A+ H AY+ L+K IE G Y AT F + A GA I
Sbjct: 62 ASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE-YGLGYECPATEGIFDYAAAIGGATI 120
Query: 78 ----ALVDSVVAASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHG 133
L+D + + N G+ HHA GFC + + +R
Sbjct: 121 TAAQCLIDGMCKVAINWSG---GW-------HHAKKDEASGFCYLNDAVLGILRLRRK-- 168
Query: 134 LKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ--DGSYPGTGKIDEVGRGDGEGSTLN 191
+R+ +D D+HHG+G DAF + +S H+ G +PGTG + +VG G G ++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 192 LPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFT-TGTYYML 250
+P+ G D + V+ Q F P +++ G D DP+ S T G L
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 251 AANIK-QLAKDLCGSRCVFFLEGGYNL 276
++ QLA + G GGYNL
Sbjct: 289 KYILQWQLATLILGG-------GGYNL 308
>pdb|3EZP|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101n Variant
pdb|3EZP|B Chain B, Crystal Structure Analysis Of Human Hdac8 D101n Variant
Length = 388
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 76/266 (28%), Positives = 115/266 (43%), Gaps = 29/266 (10%)
Query: 21 ASVDDIASVHARAYVSGLEKAMDRASQQGIILIE-GSGPTY-ATATTFQESLAAAGAGI- 77
AS++++A+ H AY+ L+K IE G G AT F + A GA I
Sbjct: 62 ASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYNCPATEGIFDYAAAIGGATIT 121
Query: 78 ---ALVDSVVAASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHGL 134
L+D + + N G+ HHA GFC + + +R
Sbjct: 122 AAQCLIDGMCKVAINWSG---GW-------HHAKKDEASGFCYLNDAVLGILRLRRK--F 169
Query: 135 KRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ--DGSYPGTGKIDEVGRGDGEGSTLNL 192
+R+ +D D+HHG+G DAF + +S H+ G +PGTG + +VG G G ++N+
Sbjct: 170 ERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNV 229
Query: 193 PLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFT-TGTYYMLA 251
P+ G D + V+ Q F P +++ G D DP+ S T G L
Sbjct: 230 PIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLK 289
Query: 252 ANIK-QLAKDLCGSRCVFFLEGGYNL 276
++ QLA + G GGYNL
Sbjct: 290 YILQWQLATLILGG-------GGYNL 308
>pdb|3EW8|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101l Variant
Length = 388
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 76/267 (28%), Positives = 115/267 (43%), Gaps = 31/267 (11%)
Query: 21 ASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTY---ATATTFQESLAAAGAGI 77
AS++++A+ H AY+ L+K IE G Y AT F + A GA I
Sbjct: 62 ASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE-YGLGYLCPATEGIFDYAAAIGGATI 120
Query: 78 ----ALVDSVVAASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHG 133
L+D + + N G+ HHA GFC + + +R
Sbjct: 121 TAAQCLIDGMCKVAINWSG---GW-------HHAKKDEASGFCYLNDAVLGILRLRRK-- 168
Query: 134 LKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ--DGSYPGTGKIDEVGRGDGEGSTLN 191
+R+ +D D+HHG+G DAF + +S H+ G +PGTG + +VG G G ++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 192 LPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFT-TGTYYML 250
+P+ G D + V+ Q F P +++ G D DP+ S T G L
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 251 AANIK-QLAKDLCGSRCVFFLEGGYNL 276
++ QLA + G GGYNL
Sbjct: 289 KYILQWQLATLILGG-------GGYNL 308
>pdb|3MZ3|A Chain A, Crystal Structure Of Co2+ Hdac8 Complexed With M344
pdb|3MZ3|B Chain B, Crystal Structure Of Co2+ Hdac8 Complexed With M344
pdb|3RQD|A Chain A, Ideal Thiolate-Zinc Coordination Geometry In Depsipeptide
Binding To Histone Deacetylase 8
pdb|3RQD|B Chain B, Ideal Thiolate-Zinc Coordination Geometry In Depsipeptide
Binding To Histone Deacetylase 8
Length = 389
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 76/267 (28%), Positives = 115/267 (43%), Gaps = 31/267 (11%)
Query: 21 ASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTY---ATATTFQESLAAAGAGI 77
AS++++A+ H AY+ L+K IE G Y AT F + A GA I
Sbjct: 62 ASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE-YGLGYDCPATEGIFDYAAAIGGATI 120
Query: 78 ----ALVDSVVAASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHG 133
L+D + + N G+ HHA GFC + + +R
Sbjct: 121 TAAQCLIDGMCKVAINWSG---GW-------HHAKKDEASGFCYLNDAVLGILRLRRK-- 168
Query: 134 LKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ--DGSYPGTGKIDEVGRGDGEGSTLN 191
+R+ +D D+HHG+G DAF + +S H+ G +PGTG + +VG G G ++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 192 LPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFT-TGTYYML 250
+P+ G D + V+ Q F P +++ G D DP+ S T G L
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 251 AANIK-QLAKDLCGSRCVFFLEGGYNL 276
++ QLA + G GGYNL
Sbjct: 289 KYILQWQLATLILGG-------GGYNL 308
>pdb|2V5X|A Chain A, Crystal Structure Of Hdac8-Inhibitor Complex
pdb|2V5X|B Chain B, Crystal Structure Of Hdac8-Inhibitor Complex
Length = 388
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 76/267 (28%), Positives = 115/267 (43%), Gaps = 31/267 (11%)
Query: 21 ASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTY---ATATTFQESLAAAGAGI 77
AS++++A+ H AY+ L+K IE G Y AT F + A GA I
Sbjct: 62 ASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE-YGLGYDCPATEGIFDYAAAIGGATI 120
Query: 78 ----ALVDSVVAASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHG 133
L+D + + N G+ HHA GFC + + +R
Sbjct: 121 TAAQCLIDGMCKVAINWSG---GW-------HHAKKDEASGFCYLNDAVLGILRLRRK-- 168
Query: 134 LKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ--DGSYPGTGKIDEVGRGDGEGSTLN 191
+R+ +D D+HHG+G DAF + +S H+ G +PGTG + +VG G G ++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 192 LPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFT-TGTYYML 250
+P+ G D + V+ Q F P +++ G D DP+ S T G L
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 251 AANIK-QLAKDLCGSRCVFFLEGGYNL 276
++ QLA + G GGYNL
Sbjct: 289 KYILQWQLATLILGG-------GGYNL 308
>pdb|3MZ4|A Chain A, Crystal Structure Of D101l Mn2+ Hdac8 Complexed With M344
pdb|3MZ4|B Chain B, Crystal Structure Of D101l Mn2+ Hdac8 Complexed With M344
pdb|3MZ6|A Chain A, Crystal Structure Of D101l Fe2+ Hdac8 Complexed With M344
pdb|3MZ7|A Chain A, Crystal Structure Of D101l Co2+ Hdac8 Complexed With M344
Length = 389
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 76/267 (28%), Positives = 115/267 (43%), Gaps = 31/267 (11%)
Query: 21 ASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTY---ATATTFQESLAAAGAGI 77
AS++++A+ H AY+ L+K IE G Y AT F + A GA I
Sbjct: 62 ASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE-YGLGYLCPATEGIFDYAAAIGGATI 120
Query: 78 ----ALVDSVVAASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHG 133
L+D + + N G+ HHA GFC + + +R
Sbjct: 121 TAAQCLIDGMCKVAINWSG---GW-------HHAKKDEASGFCYLNDAVLGILRLRRK-- 168
Query: 134 LKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ--DGSYPGTGKIDEVGRGDGEGSTLN 191
+R+ +D D+HHG+G DAF + +S H+ G +PGTG + +VG G G ++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 192 LPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFT-TGTYYML 250
+P+ G D + V+ Q F P +++ G D DP+ S T G L
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 251 AANIK-QLAKDLCGSRCVFFLEGGYNL 276
++ QLA + G GGYNL
Sbjct: 289 KYILQWQLATLILGG-------GGYNL 308
>pdb|1T64|A Chain A, Crystal Structure Of Human Hdac8 Complexed With
Trichostatin A
pdb|1T64|B Chain B, Crystal Structure Of Human Hdac8 Complexed With
Trichostatin A
pdb|1T67|A Chain A, Crystal Structure Of Human Hdac8 Complexed With Ms-344
pdb|1T69|A Chain A, Crystal Structure Of Human Hdac8 Complexed With Saha
pdb|1VKG|A Chain A, Crystal Structure Of Human Hdac8 Complexed With Cra-19156
pdb|1VKG|B Chain B, Crystal Structure Of Human Hdac8 Complexed With Cra-19156
pdb|1W22|A Chain A, Crystal Structure Of Inhibited Human Hdac8
pdb|1W22|B Chain B, Crystal Structure Of Inhibited Human Hdac8
Length = 377
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 76/267 (28%), Positives = 115/267 (43%), Gaps = 31/267 (11%)
Query: 21 ASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTY---ATATTFQESLAAAGAGI 77
AS++++A+ H AY+ L+K IE G Y AT F + A GA I
Sbjct: 62 ASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE-YGLGYDCPATEGIFDYAAAIGGATI 120
Query: 78 ----ALVDSVVAASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHG 133
L+D + + N G+ HHA GFC + + +R
Sbjct: 121 TAAQCLIDGMCKVAINWSG---GW-------HHAKKDEASGFCYLNDAVLGILRLRRK-- 168
Query: 134 LKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ--DGSYPGTGKIDEVGRGDGEGSTLN 191
+R+ +D D+HHG+G DAF + +S H+ G +PGTG + +VG G G ++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 192 LPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFT-TGTYYML 250
+P+ G D + V+ Q F P +++ G D DP+ S T G L
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 251 AANIK-QLAKDLCGSRCVFFLEGGYNL 276
++ QLA + G GGYNL
Sbjct: 289 KYILQWQLATLILGG-------GGYNL 308
>pdb|2V5W|A Chain A, Crystal Structure Of Hdac8-Substrate Complex
pdb|2V5W|B Chain B, Crystal Structure Of Hdac8-Substrate Complex
Length = 388
Score = 87.0 bits (214), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 78/285 (27%), Positives = 121/285 (42%), Gaps = 33/285 (11%)
Query: 21 ASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTY---ATATTFQESLAAAGAGI 77
AS++++A+ H AY+ L+K IE G Y AT F + A GA I
Sbjct: 62 ASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE-YGLGYDCPATEGIFDYAAAIGGATI 120
Query: 78 ----ALVDSVVAASKNRPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHG 133
L+D + + N G+ HHA GFC + + +R
Sbjct: 121 TAAQCLIDGMCKVAINWSG---GW-------HHAKKDEASGFCYLNDAVLGILRLRRK-- 168
Query: 134 LKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ--DGSYPGTGKIDEVGRGDGEGSTLN 191
+R+ +D D+HHG+G DAF + +S H+ G +PGTG + +VG G G ++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 192 LPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFT-TGTYYML 250
+P+ G D + V+ Q F P +++ G D DP+ S T G L
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 251 AANIK-QLAKDLCG---------SRCVFFLEGGYNLNSLSYSVAD 285
++ QLA + G +RC +L G +LS + D
Sbjct: 289 KYILQWQLATLILGGGGFNLANTARCWTYLTGVILGKTLSSEIPD 333
>pdb|3EWF|A Chain A, Crystal Structure Analysis Of Human Hdac8 H143a Variant
Complexed With Substrate.
pdb|3EWF|B Chain B, Crystal Structure Analysis Of Human Hdac8 H143a Variant
Complexed With Substrate.
pdb|3EWF|C Chain C, Crystal Structure Analysis Of Human Hdac8 H143a Variant
Complexed With Substrate.
pdb|3EWF|D Chain D, Crystal Structure Analysis Of Human Hdac8 H143a Variant
Complexed With Substrate
Length = 388
Score = 85.9 bits (211), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 75/264 (28%), Positives = 113/264 (42%), Gaps = 25/264 (9%)
Query: 21 ASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTY---ATATTFQESLAAAGAGI 77
AS++++A+ H AY+ L+K IE G Y AT F + A GA I
Sbjct: 62 ASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE-YGLGYDCPATEGIFDYAAAIGGATI 120
Query: 78 ALVDSVVAASKNRPDPPLGFALIRPPGHHAIPKGPM-GFCVFGNVAIAARYAQRAHGLKR 136
++ D A+ G HA K GFC + + +R +R
Sbjct: 121 TAAQCLI-------DGMCKVAINWSGGWHAAKKDEASGFCYLNDAVLGILRLRRK--FER 171
Query: 137 VFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ--DGSYPGTGKIDEVGRGDGEGSTLNLPL 194
+ +D D+HHG+G DAF + +S H+ G +PGTG + +VG G G ++N+P+
Sbjct: 172 ILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPI 231
Query: 195 PGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFT-TGTYYMLAAN 253
G D + V+ Q F P +++ G D DP+ S T G L
Sbjct: 232 QDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYI 291
Query: 254 IK-QLAKDLCGSRCVFFLEGGYNL 276
++ QLA + G GGYNL
Sbjct: 292 LQWQLATLILGG-------GGYNL 308
>pdb|3MAX|A Chain A, Crystal Structure Of Human Hdac2 Complexed With An
N-(2-Amin Benzamide
pdb|3MAX|B Chain B, Crystal Structure Of Human Hdac2 Complexed With An
N-(2-Amin Benzamide
pdb|3MAX|C Chain C, Crystal Structure Of Human Hdac2 Complexed With An
N-(2-Amin Benzamide
Length = 367
Score = 83.2 bits (204), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 43/141 (30%), Positives = 70/141 (49%), Gaps = 3/141 (2%)
Query: 105 HHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLS 164
HHA GFC ++ +A + H +RV ID D+HHG+G +AFY + +S
Sbjct: 134 HHAKKSEASGFCYVNDIVLAILELLKYH--QRVLYIDIDIHHGDGVEEAFYTTDRVMTVS 191
Query: 165 THQDGSY-PGTGKIDEVGRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLI 223
H+ G Y PGTG + ++G G G+ +N P+ G D + +F +I + ++P +
Sbjct: 192 FHKYGEYFPGTGDLRDIGAGKGKYYAVNFPMRDGIDDESYGQIFKPIISKVMEMYQPSAV 251
Query: 224 LVSAGYDAHVLDPLASLQFTT 244
++ G D+ D L T
Sbjct: 252 VLQCGADSLSGDRLGCFNLTV 272
>pdb|4A69|A Chain A, Structure Of Hdac3 Bound To Corepressor And Inositol
Tetraphosphate
pdb|4A69|B Chain B, Structure Of Hdac3 Bound To Corepressor And Inositol
Tetraphosphate
Length = 376
Score = 79.7 bits (195), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 47/141 (33%), Positives = 68/141 (48%), Gaps = 4/141 (2%)
Query: 105 HHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLS 164
HHA GFC ++ I + H RV ID D+HHG+G +AFY + +S
Sbjct: 134 HHAKKFEASGFCYVNDIVIGILELLKYH--PRVLYIDIDIHHGDGVQEAFYLTDRVMTVS 191
Query: 165 THQDGSY--PGTGKIDEVGRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDL 222
H+ G+Y PGTG + EVG G LN+PL G D + + +F VI ++P
Sbjct: 192 FHKYGNYFFPGTGDMYEVGAESGRYYCLNVPLRDGIDDQSYKHLFQPVINQVVDFYQPTC 251
Query: 223 ILVSAGYDAHVLDPLASLQFT 243
I++ G D+ D L +
Sbjct: 252 IVLQCGADSLGCDRLGCFNLS 272
>pdb|3N5M|A Chain A, Crystals Structure Of A Bacillus Anthracis
Aminotransferase
pdb|3N5M|B Chain B, Crystals Structure Of A Bacillus Anthracis
Aminotransferase
pdb|3N5M|C Chain C, Crystals Structure Of A Bacillus Anthracis
Aminotransferase
pdb|3N5M|D Chain D, Crystals Structure Of A Bacillus Anthracis
Aminotransferase
Length = 452
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 36/82 (43%), Gaps = 7/82 (8%)
Query: 222 LILVSAGYDAHVLDPLASLQFTTGTYYMLAAN-------IKQLAKDLCGSRCVFFLEGGY 274
L V++GY L A Q T +Y+ + + ++L + L G +FF G
Sbjct: 58 LWCVNSGYGRKELAEAAYKQLQTLSYFPXSQSHEPAIKLAEKLNEWLGGEYVIFFSNSGS 117
Query: 275 NLNSLSYSVADSFRAFLGEPSK 296
N ++ +A + A GEP +
Sbjct: 118 EANETAFKIARQYYAQKGEPHR 139
>pdb|2IFY|A Chain A, Structure Of Bacillus Anthracis Cofactor-Independent
Phosphoglucerate Mutase
Length = 508
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 29/70 (41%), Gaps = 1/70 (1%)
Query: 23 VDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTYATATTFQESLAAAGAGIALV-D 81
V A++ R Y +K DR + ++ G GPTY +A E A G V
Sbjct: 174 VGQFATISGRYYSMDRDKRWDRVEKCYRAMVNGEGPTYKSAEECVEDSYANGIYDEFVLP 233
Query: 82 SVVAASKNRP 91
SV+ N P
Sbjct: 234 SVIVNEDNTP 243
>pdb|3HMC|A Chain A, Endolysin From Bacillus Anthracis
Length = 192
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 48/113 (42%), Gaps = 11/113 (9%)
Query: 94 PLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQ----RAHGLKRVFIIDFDVHHGN- 148
PL ++ H IP G FC F ++A A + AQ R V++ D +V N
Sbjct: 42 PLYKGYVQAMKQHGIPFGNYAFCRFVSIADAKKEAQDFWNRGDKSATVWVADVEVKTMND 101
Query: 149 ---GTNDAFYDDPDIFFLSTHQDGSYPGTGKIDEVGRGDGEGSTLNLPLPGGS 198
GT AF D +++ L + G Y G G + + + +P GG+
Sbjct: 102 MRAGTQ-AFID--ELYRLGAKKVGLYVGHHMYTPFGMANVKSDFVWIPRYGGN 151
>pdb|3MC2|A Chain A, Crystal Structure Of The Murine Inhibitor Of Carbonic
Anhydrase
pdb|3MC2|B Chain B, Crystal Structure Of The Murine Inhibitor Of Carbonic
Anhydrase
pdb|3MC2|C Chain C, Crystal Structure Of The Murine Inhibitor Of Carbonic
Anhydrase
pdb|3MC2|D Chain D, Crystal Structure Of The Murine Inhibitor Of Carbonic
Anhydrase
Length = 687
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 180 VGRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCAQ-RFKPDLILVSAG 228
+G G L+ LP GS +TA T F VPCA + P L + AG
Sbjct: 128 LGWSAGWYVPLSTLLPSGSRETAAATFFSSSCVPCADGKMFPSLCQLCAG 177
>pdb|1EJJ|A Chain A, Crystal Structural Analysis Of Phosphoglycerate Mutase
Cocrystallized With 3-Phosphoglycerate
pdb|1EQJ|A Chain A, Crystal Structure Of Phosphoglycerate Mutase From Bacillus
Stearothermophilus Complexed With 2-Phosphoglycerate
pdb|1O98|A Chain A, 1.4a Crystal Structure Of Phosphoglycerate Mutase From
Bacillus Stearothermophilus Complexed With
2-Phosphoglycerate
Length = 511
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 20/38 (52%)
Query: 23 VDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTY 60
V +IA++ R Y +K DR + ++ G GPTY
Sbjct: 176 VGEIATLSGRYYSMDRDKRWDRVEKAYRAMVYGEGPTY 213
>pdb|1O99|A Chain A, Crystal Structure Of The S62a Mutant Of Phosphoglycerate
Mutase From Bacillus Stearothermophilus Complexed With
2-Phosphoglycerate
Length = 511
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 20/38 (52%)
Query: 23 VDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTY 60
V +IA++ R Y +K DR + ++ G GPTY
Sbjct: 176 VGEIATLSGRYYSMDRDKRWDRVEKAYRAMVYGEGPTY 213
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.137 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,772,944
Number of Sequences: 62578
Number of extensions: 494164
Number of successful extensions: 1331
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1240
Number of HSP's gapped (non-prelim): 35
length of query: 327
length of database: 14,973,337
effective HSP length: 99
effective length of query: 228
effective length of database: 8,778,115
effective search space: 2001410220
effective search space used: 2001410220
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)