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= psy14515
(586 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 155 bits (393), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 87/245 (35%), Positives = 131/245 (53%), Gaps = 16/245 (6%)
Query: 12 KELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHP 71
+E GL +C+ I+ R+AT EE+ H+ L T + ++L ++++
Sbjct: 46 QETGLRGKCEAIRGRKATLEELQTVHSEAHTLLYGTNPLNRQKLDSKKLLGSLASVFV-- 103
Query: 72 SSYKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIR 131
+L G + N+ + +ELV + GE+KNG AV+R
Sbjct: 104 ---RLPCGGVGVDSDTIWNEVHS------AGAARLAVGCVVELVFKVATGELKNGFAVVR 154
Query: 132 PPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
PPGHHA +S G+C+FN+VA+AA+ SVS++LIVDWDVHHG TQQ FY+D V+
Sbjct: 155 PPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVL 214
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKT---HMKDADYMAVFHQVLL 248
Y S+HRY+ G F+P D +G G G G+N N+ M DA+Y+A F V++
Sbjct: 215 YMSLHRYDDGNFFPG--SGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVM 272
Query: 249 PMVAE 253
P+ +E
Sbjct: 273 PIASE 277
Score = 100 bits (250), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 59/136 (43%), Positives = 80/136 (58%), Gaps = 8/136 (5%)
Query: 360 MSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVN--DPLGGCKVSPEAYAHFTHWLK 417
M D EY+AAF+ V++PIA +F P++VLVS+G+DA PLGG +S + + T L
Sbjct: 258 MGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGYNLSARCFGYLTKQLM 317
Query: 418 ALAQGRIILALEGGYNISSISYAMTLCTKALLG---DPLPLLESDLDINSSAVTSIKVXX 474
LA GRI+LALEGGY++++I A C ALLG DPLP N++AV S++
Sbjct: 318 GLAGGRIVLALEGGYDLTAICDASEACVSALLGNELDPLPEKVLQQRPNANAVRSME--- 374
Query: 475 XXXXXXSVYLYCSHRT 490
S Y C RT
Sbjct: 375 KVMEIHSKYWRCLQRT 390
>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 = 155 bits (393), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 87/245 (35%), Positives = 131/245 (53%), Gaps = 16/245 (6%)
Query: 12 KELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHP 71
+E GL +C+ I+ R+AT EE+ H+ L T + ++L ++++
Sbjct: 46 QETGLRGKCEAIRGRKATLEELQTVHSEAHTLLYGTNPLNRQKLDSKKLLGSLASVFV-- 103
Query: 72 SSYKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIR 131
+L G + N+ + +ELV + GE+KNG AV+R
Sbjct: 104 ---RLPCGGVGVDSDTIWNEVHS------AGAARLAVGCVVELVFKVATGELKNGFAVVR 154
Query: 132 PPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
PPGHHA +S G+C+FN+VA+AA+ SVS++LIVDWDVHHG TQQ FY+D V+
Sbjct: 155 PPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVL 214
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKT---HMKDADYMAVFHQVLL 248
Y S+HRY+ G F+P D +G G G G+N N+ M DA+Y+A F V++
Sbjct: 215 YMSLHRYDDGNFFPG--SGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVM 272
Query: 249 PMVAE 253
P+ +E
Sbjct: 273 PIASE 277
Score = 99.0 bits (245), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 58/136 (42%), Positives = 80/136 (58%), Gaps = 8/136 (5%)
Query: 360 MSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVN--DPLGGCKVSPEAYAHFTHWLK 417
M D EY+AAF+ V++PIA +F P++VLVS+G+DA PLGG +S + + T L
Sbjct: 258 MGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGYNLSARCFGYLTKQLM 317
Query: 418 ALAQGRIILALEGGYNISSISYAMTLCTKALLG---DPLPLLESDLDINSSAVTSIKVXX 474
LA GRI+LALEGG+++++I A C ALLG DPLP N++AV S++
Sbjct: 318 GLAGGRIVLALEGGHDLTAICDASEACVSALLGNELDPLPEKVLQQRPNANAVRSME--- 374
Query: 475 XXXXXXSVYLYCSHRT 490
S Y C RT
Sbjct: 375 KVMEIHSKYWRCLQRT 390
>pdb|2VQW|G Chain G, Structure Of Inhibitor-Free Hdac4 Catalytic Domain (With
Gain-Of-Function Mutation His332tyr)
Length = 413
Score = 155 bits (393), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 87/245 (35%), Positives = 131/245 (53%), Gaps = 16/245 (6%)
Query: 12 KELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHP 71
+E GL +C+ I+ R+AT EE+ H+ L T + ++L ++++
Sbjct: 46 QETGLRGKCECIRGRKATLEELQTVHSEAHTLLYGTNPLNRQKLDSKKLLGSLASVFV-- 103
Query: 72 SSYKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIR 131
+L G + N+ + +ELV + GE+KNG AV+R
Sbjct: 104 ---RLPCGGVGVDSDTIWNEVHS------AGAARLAVGCVVELVFKVATGELKNGFAVVR 154
Query: 132 PPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
PPGHHA +S G+C+FN+VA+AA+ SVS++LIVDWDVHHG TQQ FY+D V+
Sbjct: 155 PPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVL 214
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKT---HMKDADYMAVFHQVLL 248
Y S+HRY+ G F+P D +G G G G+N N+ M DA+Y+A F V++
Sbjct: 215 YMSLHRYDDGNFFPG--SGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVM 272
Query: 249 PMVAE 253
P+ +E
Sbjct: 273 PIASE 277
Score = 100 bits (250), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 59/136 (43%), Positives = 80/136 (58%), Gaps = 8/136 (5%)
Query: 360 MSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVN--DPLGGCKVSPEAYAHFTHWLK 417
M D EY+AAF+ V++PIA +F P++VLVS+G+DA PLGG +S + + T L
Sbjct: 258 MGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGYNLSARCFGYLTKQLM 317
Query: 418 ALAQGRIILALEGGYNISSISYAMTLCTKALLG---DPLPLLESDLDINSSAVTSIKVXX 474
LA GRI+LALEGGY++++I A C ALLG DPLP N++AV S++
Sbjct: 318 GLAGGRIVLALEGGYDLTAICDASEACVSALLGNELDPLPEKVLQQRPNANAVRSME--- 374
Query: 475 XXXXXXSVYLYCSHRT 490
S Y C RT
Sbjct: 375 KVMEIHSKYWRCLQRT 390
>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 = 155 bits (393), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 87/245 (35%), Positives = 131/245 (53%), Gaps = 16/245 (6%)
Query: 12 KELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHP 71
+E GL +C+ I+ R+AT EE+ H+ L T + ++L ++++
Sbjct: 46 QETGLRGKCECIRGRKATLEELQTVHSEAHTLLYGTNPLNRQKLDSKKLLGSLASVFV-- 103
Query: 72 SSYKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIR 131
+L G + N+ + +ELV + GE+KNG AV+R
Sbjct: 104 ---RLPCGGVGVDSDTIWNEVHS------AGAARLAVGCVVELVFKVATGELKNGFAVVR 154
Query: 132 PPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
PPGHHA +S G+C+FN+VA+AA+ SVS++LIVDWDVHHG TQQ FY+D V+
Sbjct: 155 PPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVL 214
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKT---HMKDADYMAVFHQVLL 248
Y S+HRY+ G F+P D +G G G G+N N+ M DA+Y+A F V++
Sbjct: 215 YMSLHRYDDGNFFPG--SGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVM 272
Query: 249 PMVAE 253
P+ +E
Sbjct: 273 PIASE 277
Score = 99.0 bits (245), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 58/136 (42%), Positives = 80/136 (58%), Gaps = 8/136 (5%)
Query: 360 MSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVN--DPLGGCKVSPEAYAHFTHWLK 417
M D EY+AAF+ V++PIA +F P++VLVS+G+DA PLGG +S + + T L
Sbjct: 258 MGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGYNLSARCFGYLTKQLM 317
Query: 418 ALAQGRIILALEGGYNISSISYAMTLCTKALLG---DPLPLLESDLDINSSAVTSIKVXX 474
LA GRI+LALEGG+++++I A C ALLG DPLP N++AV S++
Sbjct: 318 GLAGGRIVLALEGGHDLTAICDASEACVSALLGNELDPLPEKVLQQRPNANAVRSME--- 374
Query: 475 XXXXXXSVYLYCSHRT 490
S Y C RT
Sbjct: 375 KVMEIHSKYWRCLQRT 390
>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 = 139 bits (350), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 78/245 (31%), Positives = 121/245 (49%), Gaps = 15/245 (6%)
Query: 12 KELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHP 71
+E GL +C+ ++ R+A+ EE+ H+ + L G+ + L+ + +
Sbjct: 76 QERGLRSQCECLRGRKASLEELQSVHSERHVLLY----GTNPLSRLKLDNGKLAGLLAQR 131
Query: 72 SSYKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIR 131
L G + N+ + +L + E+KNG AV+R
Sbjct: 132 MFVMLPCGGVGVDTDTIWNELHS------SNAARWAAGSVTDLAFKVASRELKNGFAVVR 185
Query: 132 PPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
PPGHHA S G+CFFN+VA+A + + S++LIVDWDVHHG TQQ FY D V+
Sbjct: 186 PPGHHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQQTFYQDPSVL 245
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKT---HMKDADYMAVFHQVLL 248
Y S+HR++ G F+P D +G G G+G+N N+ M D +Y+A F V++
Sbjct: 246 YISLHRHDDGNFFPG--SGAVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVM 303
Query: 249 PMVAE 253
P+ E
Sbjct: 304 PIARE 308
Score = 96.7 bits (239), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 53/132 (40%), Positives = 77/132 (58%), Gaps = 2/132 (1%)
Query: 360 MSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVND--PLGGCKVSPEAYAHFTHWLK 417
M DPEY+AAF+ V++PIA +F+P+LVLVSAG+DA PLGG VS + + + T L
Sbjct: 289 MGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGYHVSAKCFGYMTQQLM 348
Query: 418 ALAQGRIILALEGGYNISSISYAMTLCTKALLGDPLPLLESDLDINSSAVTSIKVXXXXX 477
LA G ++LALEGG+++++I A C ALLG+ + L + + +I+
Sbjct: 349 NLAGGAVVLALEGGHDLTAICDASEACVAALLGNRVDPLSEEGWKQKPNLNAIRSLEAVI 408
Query: 478 XXXSVYLYCSHR 489
S Y C R
Sbjct: 409 RVHSKYWGCMQR 420
>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 = 108 bits (270), Expect = 8e-24, Method: Compositional matrix adjust.
Identities = 76/256 (29%), Positives = 113/256 (44%), Gaps = 49/256 (19%)
Query: 2 LKHVNIKDPCKEL----GLVQRCKFIQPREATQEEILKKHTIEQIELLATTE----GSTD 53
L H + K EL G ++ I AT +IL+ H+ +E + G
Sbjct: 37 LAHPDTKRRFHELVCASGQIEHLTPIAAVAATDADILRAHSAAHLENMKRVSNLPTGGDT 96
Query: 54 VDALEQLSSHYDAIYIHPSSYKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIE 113
D + + + +++ LSAG +EL R
Sbjct: 97 GDGITMMGN---------GGLEIARLSAGGAVELTRR----------------------- 124
Query: 114 LVDNICRGEIKNGMAVIRPPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWD 173
+ GE+ G A++ PPGHHA + G+C FNN ++AA +A + RV I+DWD
Sbjct: 125 ----VATGELSAGYALVNPPGHHAPHNAAMGFCIFNNTSVAAGYARAVLGMERVAILDWD 180
Query: 174 VHHGQATQQMFYNDNRVVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTH 233
VHHG TQ +++ND V+ S+H +H F P+ S G G G GYN N+PL
Sbjct: 181 VHHGNGTQDIWWNDPSVLTISLH--QHLCFPPDSGYST--ERGAGNGHGYNINVPLPPGS 236
Query: 234 MKDADYMAVFHQVLLP 249
+A Y+ QV+LP
Sbjct: 237 -GNAAYLHAMDQVVLP 251
Score = 49.3 bits (116), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 4/79 (5%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWL-- 416
G + Y+ A QV+LP + P+L++V +G+DA + DPL V+ + +
Sbjct: 235 GSGNAAYLHAMDQVVLPALRAYRPQLIIVGSGFDASMLDPLARMMVTADGFRQMARRTID 294
Query: 417 --KALAQGRIILALEGGYN 433
+ GRI+ EGGY+
Sbjct: 295 CAADICDGRIVFVQEGGYS 313
>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 = 108 bits (270), Expect = 8e-24, Method: Compositional matrix adjust.
Identities = 76/256 (29%), Positives = 113/256 (44%), Gaps = 49/256 (19%)
Query: 2 LKHVNIKDPCKEL----GLVQRCKFIQPREATQEEILKKHTIEQIELLATTE----GSTD 53
L H + K EL G ++ I AT +IL+ H+ +E + G
Sbjct: 43 LAHPDTKRRFHELVCASGQIEHLTPIAAVAATDADILRAHSAAHLENMKRVSNLPTGGDT 102
Query: 54 VDALEQLSSHYDAIYIHPSSYKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIE 113
D + + + +++ LSAG +EL R
Sbjct: 103 GDGITMMGN---------GGLEIARLSAGGAVELTRR----------------------- 130
Query: 114 LVDNICRGEIKNGMAVIRPPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWD 173
+ GE+ G A++ PPGHHA + G+C FNN ++AA +A + RV I+DWD
Sbjct: 131 ----VATGELSAGYALVNPPGHHAPHNAAMGFCIFNNTSVAAGYARAVLGMERVAILDWD 186
Query: 174 VHHGQATQQMFYNDNRVVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTH 233
VHHG TQ +++ND V+ S+H +H F P+ S G G G GYN N+PL
Sbjct: 187 VHHGNGTQDIWWNDPSVLTISLH--QHLCFPPDSGYST--ERGAGNGHGYNINVPLPPGS 242
Query: 234 MKDADYMAVFHQVLLP 249
+A Y+ QV+LP
Sbjct: 243 -GNAAYLHAMDQVVLP 257
Score = 49.3 bits (116), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 4/79 (5%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWL-- 416
G + Y+ A QV+LP + P+L++V +G+DA + DPL V+ + +
Sbjct: 241 GSGNAAYLHAMDQVVLPALRAYRPQLIIVGSGFDASMLDPLARMMVTADGFRQMARRTID 300
Query: 417 --KALAQGRIILALEGGYN 433
+ GRI+ EGGY+
Sbjct: 301 CAADICDGRIVFVQEGGYS 319
>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 = 88.6 bits (218), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 70/239 (29%), Positives = 104/239 (43%), Gaps = 42/239 (17%)
Query: 14 LGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSS 73
+ L+ + I+ R AT+EE+L HT + I L E S V + + Y +P S
Sbjct: 38 MNLIDEKELIKSRPATKEELLLFHTEDYINTLMEAERSQSVPKGAREKYNIGG-YENPVS 96
Query: 74 YKL---SLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVI 130
Y + S L+ GST++ IE E G
Sbjct: 97 YAMFTGSSLATGSTVQ------------------------AIE--------EFLKGNVAF 124
Query: 131 RPPG--HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDN 188
P G HHA KS G+C+ NN A+ ++ L R+L +D D HH Q+ FY+ +
Sbjct: 125 NPAGGMHHAFKSRANGFCYINNPAVGIEY-LRKKGFKRILYIDLDAHHCDGVQEAFYDTD 183
Query: 189 RVVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
+V S+H+ F + + IGEG GKGYN NIPL K + D +++ + L
Sbjct: 184 QVFVLSLHQSPEYAF--PFEKGFLEEIGEGKGKGYNLNIPLPKG-LNDNEFLFALEKSL 239
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 28/52 (53%)
Query: 358 KGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAY 409
KG++D E++ A ++ + + F PE+ L+ G D + D L +S A+
Sbjct: 224 KGLNDNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKFNLSNVAF 275
>pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog From Aquifex Aeolicus
Length = 375
Score = 85.1 bits (209), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 69/239 (28%), Positives = 103/239 (43%), Gaps = 42/239 (17%)
Query: 14 LGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSS 73
+ L+ + I+ R AT+EE+L HT + I L E V + + Y +P S
Sbjct: 38 MNLIDEKELIKSRPATKEELLLFHTEDYINTLMEAERCQCVPKGAREKYNIGG-YENPVS 96
Query: 74 YKL---SLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVI 130
Y + S L+ GST++ IE E G
Sbjct: 97 YAMFTGSSLATGSTVQ------------------------AIE--------EFLKGNVAF 124
Query: 131 RPPG--HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDN 188
P G HHA KS G+C+ NN A+ ++ L R+L +D D HH Q+ FY+ +
Sbjct: 125 NPAGGMHHAFKSRANGFCYINNPAVGIEY-LRKKGFKRILYIDLDAHHCDGVQEAFYDTD 183
Query: 189 RVVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
+V S+H+ F + + IGEG GKGYN NIPL K + D +++ + L
Sbjct: 184 QVFVLSLHQSPEYAF--PFEKGFLEEIGEGKGKGYNLNIPLPKG-LNDNEFLFALEKSL 239
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 28/52 (53%)
Query: 358 KGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAY 409
KG++D E++ A ++ + + F PE+ L+ G D + D L +S A+
Sbjct: 224 KGLNDNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKFNLSNVAF 275
>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 = 80.9 bits (198), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 46/121 (38%), Positives = 61/121 (50%), Gaps = 4/121 (3%)
Query: 111 TIELVDNICRGEIKNGMAVIRPPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIV 170
I+ D I G K ++ RPPGHHA + GYCF NN A+AAQ LD ++ I+
Sbjct: 135 AIDGADLIAAGH-KAAFSLCRPPGHHAGIDMFGGYCFINNAAVAAQRLLDK-GAKKIAIL 192
Query: 171 DWDVHHGQATQQMFYNDNRVVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLN 230
D D HHG TQ +FY V + S+H F L +E G+G G G N P+
Sbjct: 193 DVDFHHGNGTQDIFYERGDVFFASLHGDPAEAFPHFLGYAE--ETGKGAGAGTTANYPMG 250
Query: 231 K 231
+
Sbjct: 251 R 251
Score = 28.9 bits (63), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 31/71 (43%), Gaps = 1/71 (1%)
Query: 380 FNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALAQGRIILALEGGYNISSISY 439
F E ++VS G D DP+ K++ Y + A +++ +EGGY + I
Sbjct: 272 FGAEAIVVSLGVDTFEQDPISFFKLTSPDYITMGRTIAASGV-PLLVVMEGGYGVPEIGL 330
Query: 440 AMTLCTKALLG 450
+ K + G
Sbjct: 331 NVANVLKGVAG 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 = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 45/121 (37%), Positives = 60/121 (49%), Gaps = 4/121 (3%)
Query: 111 TIELVDNICRGEIKNGMAVIRPPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIV 170
I+ D I G K ++ RPPGH A + GYCF NN A+AAQ LD ++ I+
Sbjct: 135 AIDGADLIAAGH-KAAFSLCRPPGHAAGIDMFGGYCFINNAAVAAQRLLDK-GAKKIAIL 192
Query: 171 DWDVHHGQATQQMFYNDNRVVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLN 230
D D HHG TQ +FY V + S+H F L +E G+G G G N P+
Sbjct: 193 DVDFHHGNGTQDIFYERGDVFFASLHGDPAEAFPHFLGYAE--ETGKGAGAGTTANYPMG 250
Query: 231 K 231
+
Sbjct: 251 R 251
Score = 28.9 bits (63), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 31/71 (43%), Gaps = 1/71 (1%)
Query: 380 FNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALAQGRIILALEGGYNISSISY 439
F E ++VS G D DP+ K++ Y + A +++ +EGGY + I
Sbjct: 272 FGAEAIVVSLGVDTFEQDPISFFKLTSPDYITMGRTIAASGV-PLLVVMEGGYGVPEIGL 330
Query: 440 AMTLCTKALLG 450
+ K + G
Sbjct: 331 NVANVLKGVAG 341
>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 = 75.9 bits (185), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 65/243 (26%), Positives = 105/243 (43%), Gaps = 53/243 (21%)
Query: 15 GLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHY--DAIYIHPS 72
GL ++ + +P +AT EE+ K H+ E I+ L + + +Q+ + +
Sbjct: 40 GLYRKMEIYRPHKATAEEMTKYHSDEYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDG 99
Query: 73 SYKLSLLSAGSTI----ELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMA 128
++ LS G ++ +L R Q MA
Sbjct: 100 LFEFCQLSTGGSVAGAVKLNRQQ---------------------------------TDMA 126
Query: 129 VIRPPG-HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYND 187
V G HHA KSE G+C+ N++ LA L RVL +D D+HHG ++ FY
Sbjct: 127 VNWAGGLHHAKKSEASGFCYVNDIVLAILELLKYHQ--RVLYIDIDIHHGDGVEEAFYTT 184
Query: 188 NRVVYFSIHRYEHGTFWP---NLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFH 244
+RV+ S H+Y G ++P +LR+ IG G GK Y N P+ + + D Y +F
Sbjct: 185 DRVMTVSFHKY--GEYFPGTGDLRD-----IGAGKGKYYAVNFPM-RDGIDDESYGQIFK 236
Query: 245 QVL 247
++
Sbjct: 237 PII 239
>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 = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 43/102 (42%), Positives = 60/102 (58%), Gaps = 4/102 (3%)
Query: 128 AVIRPPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYND 187
A+ RPPGHHA G+C+ NN A+AAQ +RV ++D D+HHGQ Q++FY
Sbjct: 170 ALCRPPGHHARVDAAGGFCYLNNAAIAAQALRARH--ARVAVLDTDMHHGQGIQEIFYAR 227
Query: 188 NRVVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPL 229
V+Y SIH + F+P + + D G G G GYN N+P+
Sbjct: 228 RDVLYVSIHG-DPTNFYPAVAGFD-DERGAGEGLGYNVNLPM 267
Score = 36.6 bits (83), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 379 QFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALAQGRIILALEGGYNISSI 437
+F P+ +++S G+D +DP V+ + + H + AL +I+ EGGY+I S+
Sbjct: 289 RFAPDALVLSLGFDVYRDDPQSQVAVTTDGFGRLGHLIGALRLPTVIVQ-EGGYHIESL 346
>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 = 65.1 bits (157), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 55/236 (23%), Positives = 102/236 (43%), Gaps = 41/236 (17%)
Query: 16 LVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSS-- 73
L ++ + ++P+ A+ EE+ HT ++ L D D + + Y Y+ P++
Sbjct: 50 LHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI--EYGLGYLCPATEG 107
Query: 74 -YKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIRP 132
+ + G+TI + L+D +C+ +A+
Sbjct: 108 IFDYAAAIGGATITAAQC-----------------------LIDGMCK------VAINWS 138
Query: 133 PG-HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
G HHA K E G+C+ N+ L R+L VD D+HHG + F ++V+
Sbjct: 139 GGWHHAKKDEASGFCYLNDAVLGILRL--RRKFERILYVDLDLHHGDGVEDAFSFTSKVM 196
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
S+H++ G F+P + +G G G+ Y+ N+P+ + ++D Y + VL
Sbjct: 197 TVSLHKFSPG-FFPG--TGDVSDVGLGKGRYYSVNVPI-QDGIQDEKYYQICESVL 248
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 1/95 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D +Y + V+ + FNP+ V++ G D DP+ ++P ++
Sbjct: 234 GIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQ 293
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPL 453
+IL GGYN+++ + T T +LG L
Sbjct: 294 WQLATLILG-GGGYNLANTARCWTYLTGVILGKTL 327
>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 = 65.1 bits (157), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 56/233 (24%), Positives = 95/233 (40%), Gaps = 35/233 (15%)
Query: 16 LVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSSYK 75
L ++ + ++P+ A+ EE+ HT ++ L D D HP S +
Sbjct: 50 LHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDD--------------HPDSIE 95
Query: 76 LSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIRPPG- 134
L A E G L+D +C+ +A+ G
Sbjct: 96 YGLGYACPATE--------GIFDYAAAIGGATITAAQCLIDGMCK------VAINWSGGW 141
Query: 135 HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVVYFS 194
HHA K E G+C+ N+ L R+L VD D+HHG + F ++V+ S
Sbjct: 142 HHAKKDEASGFCYLNDAVLGILRL--RRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVS 199
Query: 195 IHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
+H++ G F+P + +G G G+ Y+ N+P+ + ++D Y + VL
Sbjct: 200 LHKFSPG-FFPG--TGDVSDVGLGKGRYYSVNVPI-QDGIQDEKYYQICESVL 248
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 1/95 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D +Y + V+ + FNP+ V++ G D DP+ ++P ++
Sbjct: 234 GIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQ 293
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPL 453
+IL GGYN+++ + T T +LG L
Sbjct: 294 WQLATLILG-GGGYNLANTARCWTYLTGVILGKTL 327
>pdb|3EW8|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101l Variant
Length = 388
Score = 65.1 bits (157), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 55/236 (23%), Positives = 102/236 (43%), Gaps = 41/236 (17%)
Query: 16 LVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSS-- 73
L ++ + ++P+ A+ EE+ HT ++ L D D + + Y Y+ P++
Sbjct: 50 LHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE--YGLGYLCPATEG 107
Query: 74 -YKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIRP 132
+ + G+TI + L+D +C+ +A+
Sbjct: 108 IFDYAAAIGGATITAAQC-----------------------LIDGMCK------VAINWS 138
Query: 133 PG-HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
G HHA K E G+C+ N+ L R+L VD D+HHG + F ++V+
Sbjct: 139 GGWHHAKKDEASGFCYLNDAVLGILRL--RRKFERILYVDLDLHHGDGVEDAFSFTSKVM 196
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
S+H++ G F+P + +G G G+ Y+ N+P+ + ++D Y + VL
Sbjct: 197 TVSLHKFSPG-FFPG--TGDVSDVGLGKGRYYSVNVPI-QDGIQDEKYYQICESVL 248
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 1/95 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D +Y + V+ + FNP+ V++ G D DP+ ++P ++
Sbjct: 234 GIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQ 293
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPL 453
+IL GGYN+++ + T T +LG L
Sbjct: 294 WQLATLILG-GGGYNLANTARCWTYLTGVILGKTL 327
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 55/236 (23%), Positives = 101/236 (42%), Gaps = 41/236 (17%)
Query: 16 LVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSS-- 73
L ++ + ++P+ A+ EE+ HT ++ L D D + + Y Y P++
Sbjct: 50 LHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI--EYGLGYDCPATEG 107
Query: 74 -YKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIRP 132
+ + G+TI + L+D +C+ +A+
Sbjct: 108 IFDYAAAIGGATITAAQC-----------------------LIDGMCK------VAINWS 138
Query: 133 PG-HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
G HHA K E G+C+ N+ L R+L VD D+HHG + F ++V+
Sbjct: 139 GGWHHAKKDEASGFCYLNDAVLGILRL--RRKFERILYVDLDLHHGDGVEDAFSFTSKVM 196
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
S+H++ G F+P + +G G G+ Y+ N+P+ + ++D Y + VL
Sbjct: 197 TVSLHKFSPG-FFPG--TGDVSDVGLGKGRYYSVNVPI-QDGIQDEKYYQICESVL 248
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 1/95 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D +Y + V+ + FNP+ V++ G D DP+ ++P ++
Sbjct: 234 GIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQ 293
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPL 453
+IL GGYN+++ + T T +LG L
Sbjct: 294 WQLATLILG-GGGYNLANTARCWTYLTGVILGKTL 327
>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 = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 55/236 (23%), Positives = 101/236 (42%), Gaps = 41/236 (17%)
Query: 16 LVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSS-- 73
L ++ + ++P+ A+ EE+ HT ++ L D D + + Y Y P++
Sbjct: 50 LHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI--EYGLGYDCPATEG 107
Query: 74 -YKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIRP 132
+ + G+TI + L+D +C+ +A+
Sbjct: 108 IFDYAAAIGGATITAAQC-----------------------LIDGMCK------VAINWS 138
Query: 133 PG-HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
G HHA K E G+C+ N+ L R+L VD D+HHG + F ++V+
Sbjct: 139 GGWHHAKKDEASGFCYLNDAVLGILRL--RRKFERILYVDLDLHHGDGVEDAFSFTSKVM 196
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
S+H++ G F+P + +G G G+ Y+ N+P+ + ++D Y + VL
Sbjct: 197 TVSLHKFSPG-FFPG--TGDVSDVGLGKGRYYSVNVPI-QDGIQDEKYYQICESVL 248
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/95 (24%), Positives = 43/95 (45%), Gaps = 1/95 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D +Y + V+ + FNP+ V++ G D DP+ ++P ++
Sbjct: 234 GIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQ 293
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPL 453
+IL GG+N+++ + T T +LG L
Sbjct: 294 WQLATLILG-GGGFNLANTARCWTYLTGVILGKTL 327
>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 = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 55/236 (23%), Positives = 101/236 (42%), Gaps = 41/236 (17%)
Query: 16 LVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSS-- 73
L ++ + ++P+ A+ EE+ HT ++ L D D + + Y Y P++
Sbjct: 50 LHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI--EYGLGYDCPATEG 107
Query: 74 -YKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIRP 132
+ + G+TI + L+D +C+ +A+
Sbjct: 108 IFDYAAAIGGATITAAQC-----------------------LIDGMCK------VAINWS 138
Query: 133 PG-HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
G HHA K E G+C+ N+ L R+L VD D+HHG + F ++V+
Sbjct: 139 GGWHHAKKDEASGFCYLNDAVLGILRL--RRKFERILYVDLDLHHGDGVEDAFSFTSKVM 196
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
S+H++ G F+P + +G G G+ Y+ N+P+ + ++D Y + VL
Sbjct: 197 TVSLHKFSPG-FFPG--TGDVSDVGLGKGRYYSVNVPI-QDGIQDEKYYQICESVL 248
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 1/95 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D +Y + V+ + FNP+ V++ G D DP+ ++P ++
Sbjct: 234 GIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQ 293
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPL 453
+IL GGYN+++ + T T +LG L
Sbjct: 294 WQLATLILG-GGGYNLANTARCWTYLTGVILGKTL 327
>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 = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 55/236 (23%), Positives = 101/236 (42%), Gaps = 41/236 (17%)
Query: 16 LVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSS-- 73
L ++ + ++P+ A+ EE+ HT ++ L D D + + Y Y P++
Sbjct: 50 LHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE--YGLGYDCPATEG 107
Query: 74 -YKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIRP 132
+ + G+TI + L+D +C+ +A+
Sbjct: 108 IFDYAAAIGGATITAAQC-----------------------LIDGMCK------VAINWS 138
Query: 133 PG-HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
G HHA K E G+C+ N+ L R+L VD D+HHG + F ++V+
Sbjct: 139 GGWHHAKKDEASGFCYLNDAVLGILRL--RRKFERILYVDLDLHHGDGVEDAFSFTSKVM 196
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
S+H++ G F+P + +G G G+ Y+ N+P+ + ++D Y + VL
Sbjct: 197 TVSLHKFSPG-FFPG--TGDVSDVGLGKGRYYSVNVPI-QDGIQDEKYYQICESVL 248
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 1/95 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D +Y + V+ + FNP+ V++ G D DP+ ++P ++
Sbjct: 234 GIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQ 293
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPL 453
+IL GGYN+++ + T T +LG L
Sbjct: 294 WQLATLILG-GGGYNLANTARCWTYLTGVILGKTL 327
>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 = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 55/236 (23%), Positives = 101/236 (42%), Gaps = 41/236 (17%)
Query: 16 LVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSS-- 73
L ++ + ++P+ A+ EE+ HT ++ L D D + + Y Y P++
Sbjct: 50 LHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE--YGLGYDCPATEG 107
Query: 74 -YKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIRP 132
+ + G+TI + L+D +C+ +A+
Sbjct: 108 IFDYAAAIGGATITAAQC-----------------------LIDGMCK------VAINWS 138
Query: 133 PG-HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
G HHA K E G+C+ N+ L R+L VD D+HHG + F ++V+
Sbjct: 139 GGWHHAKKDEASGFCYLNDAVLGILRL--RRKFERILYVDLDLHHGDGVEDAFSFTSKVM 196
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
S+H++ G F+P + +G G G+ Y+ N+P+ + ++D Y + VL
Sbjct: 197 TVSLHKFSPG-FFPG--TGDVSDVGLGKGRYYSVNVPI-QDGIQDEKYYQICESVL 248
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 1/95 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D +Y + V+ + FNP+ V++ G D DP+ ++P ++
Sbjct: 234 GIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQ 293
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPL 453
+IL GGYN+++ + T T +LG L
Sbjct: 294 WQLATLILG-GGGYNLANTARCWTYLTGVILGKTL 327
>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 = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 55/236 (23%), Positives = 101/236 (42%), Gaps = 41/236 (17%)
Query: 16 LVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSS-- 73
L ++ + ++P+ A+ EE+ HT ++ L D D + + Y Y P++
Sbjct: 50 LHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE--YGLGYNCPATEG 107
Query: 74 -YKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIRP 132
+ + G+TI + L+D +C+ +A+
Sbjct: 108 IFDYAAAIGGATITAAQC-----------------------LIDGMCK------VAINWS 138
Query: 133 PG-HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
G HHA K E G+C+ N+ L R+L VD D+HHG + F ++V+
Sbjct: 139 GGWHHAKKDEASGFCYLNDAVLGILRL--RRKFERILYVDLDLHHGDGVEDAFSFTSKVM 196
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
S+H++ G F+P + +G G G+ Y+ N+P+ + ++D Y + VL
Sbjct: 197 TVSLHKFSPG-FFPG--TGDVSDVGLGKGRYYSVNVPI-QDGIQDEKYYQICESVL 248
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 1/95 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D +Y + V+ + FNP+ V++ G D DP+ ++P ++
Sbjct: 234 GIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQ 293
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPL 453
+IL GGYN+++ + T T +LG L
Sbjct: 294 WQLATLILG-GGGYNLANTARCWTYLTGVILGKTL 327
>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 = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 55/236 (23%), Positives = 101/236 (42%), Gaps = 41/236 (17%)
Query: 16 LVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSS-- 73
L ++ + ++P+ A+ EE+ HT ++ L D D + + Y Y P++
Sbjct: 50 LHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE--YGLGYECPATEG 107
Query: 74 -YKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIRP 132
+ + G+TI + L+D +C+ +A+
Sbjct: 108 IFDYAAAIGGATITAAQC-----------------------LIDGMCK------VAINWS 138
Query: 133 PG-HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
G HHA K E G+C+ N+ L R+L VD D+HHG + F ++V+
Sbjct: 139 GGWHHAKKDEASGFCYLNDAVLGILRL--RRKFERILYVDLDLHHGDGVEDAFSFTSKVM 196
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
S+H++ G F+P + +G G G+ Y+ N+P+ + ++D Y + VL
Sbjct: 197 TVSLHKFSPG-FFPG--TGDVSDVGLGKGRYYSVNVPI-QDGIQDEKYYQICESVL 248
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 1/95 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D +Y + V+ + FNP+ V++ G D DP+ ++P ++
Sbjct: 234 GIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQ 293
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPL 453
+IL GGYN+++ + T T +LG L
Sbjct: 294 WQLATLILG-GGGYNLANTARCWTYLTGVILGKTL 327
>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 = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 55/236 (23%), Positives = 101/236 (42%), Gaps = 41/236 (17%)
Query: 16 LVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSS-- 73
L ++ + ++P+ A+ EE+ HT ++ L D D + + Y Y P++
Sbjct: 51 LHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIE--YGLGYDCPATEG 108
Query: 74 -YKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIRP 132
+ + G+TI + L+D +C+ +A+
Sbjct: 109 IFDYAAAIGGATITAAQC-----------------------LIDGMCK------VAINWS 139
Query: 133 PG-HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
G HHA K E G+C+ N+ L R+L VD D+HHG + F ++V+
Sbjct: 140 GGWHHAKKDEASGFCYLNDAVLGILRL--RRKFERILYVDLDLHHGDGVEDAFSFTSKVM 197
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
S+H++ G F+P + +G G G+ Y+ N+P+ + ++D Y + VL
Sbjct: 198 TVSLHKFSPG-FFPG--TGDVSDVGLGKGRYYSVNVPI-QDGIQDEKYYQICESVL 249
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 1/95 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D +Y + V+ + FNP+ V++ G D DP+ ++P ++
Sbjct: 235 GIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQ 294
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPL 453
+IL GGYN+++ + T T +LG L
Sbjct: 295 WQLATLILG-GGGYNLANTARCWTYLTGVILGKTL 328
>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 = 62.4 bits (150), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 54/239 (22%), Positives = 101/239 (42%), Gaps = 36/239 (15%)
Query: 15 GLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHY--DAIYIHPS 72
GL ++ +P +A+Q ++ + H+ + I+ L + + L++ D + P
Sbjct: 40 GLYKKMIVFKPYQASQHDMCRFHSEDYIDFLQRVSPTNMQGFTKSLNAFNVGDDCPVFPG 99
Query: 73 SYKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIRP 132
++ G++++ +L + IC I +
Sbjct: 100 LFEFCSRYTGASLQ-----------------------GATQLNNKICDIAINWAGGL--- 133
Query: 133 PGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVVY 192
HHA K E G+C+ N++ + L RVL +D D+HHG Q+ FY +RV+
Sbjct: 134 --HHAKKFEASGFCYVNDIVIGILELLKYHP--RVLYIDIDIHHGDGVQEAFYLTDRVMT 189
Query: 193 FSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVLLPMV 251
S H+Y + F+P + +G G+ Y N+PL + + D Y +F V+ +V
Sbjct: 190 VSFHKYGN-YFFPG--TGDMYEVGAESGRYYCLNVPL-RDGIDDQSYKHLFQPVINQVV 244
>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 = 60.1 bits (144), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 54/236 (22%), Positives = 100/236 (42%), Gaps = 41/236 (17%)
Query: 16 LVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSS-- 73
L ++ + ++P+ A+ EE+ HT ++ L D D + + Y Y P++
Sbjct: 50 LHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI--EYGLGYDCPATEG 107
Query: 74 -YKLSLLSAGSTIELRRNQKRNGXXXXXXXXXXXXXXXTIELVDNICRGEIKNGMAVIRP 132
+ + G+TI + L+D +C+ +A+
Sbjct: 108 IFDYAAAIGGATITAAQC-----------------------LIDGMCK------VAINWS 138
Query: 133 PGHHAMK-SEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
G HA K E G+C+ N+ L R+L VD D+HHG + F ++V+
Sbjct: 139 GGWHAAKKDEASGFCYLNDAVLGILRL--RRKFERILYVDLDLHHGDGVEDAFSFTSKVM 196
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
S+H++ G F+P + +G G G+ Y+ N+P+ + ++D Y + VL
Sbjct: 197 TVSLHKFSPG-FFPG--TGDVSDVGLGKGRYYSVNVPI-QDGIQDEKYYQICESVL 248
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 1/95 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D +Y + V+ + FNP+ V++ G D DP+ ++P ++
Sbjct: 234 GIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQ 293
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPL 453
+IL GGYN+++ + T T +LG L
Sbjct: 294 WQLATLILG-GGGYNLANTARCWTYLTGVILGKTL 327
>pdb|1FJR|A Chain A, Crystal Structure Of The Ectodomain Of Methuselah
pdb|1FJR|B Chain B, Crystal Structure Of The Ectodomain Of Methuselah
Length = 195
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 32/65 (49%), Gaps = 12/65 (18%)
Query: 158 ALDNTSVSRV-----LIVDWDVHHGQATQQMFYNDNRVVYFSIHRYEHGTFWPN-----L 207
LD+ SVSR LIV WD+ MFY DNR +E+GTF+ + L
Sbjct: 101 TLDDGSVSRRHFKNELIVQWDL--PMPCDGMFYLDNREEQDKYTLFENGTFFRHFDRVTL 158
Query: 208 RESEY 212
R+ EY
Sbjct: 159 RKREY 163
>pdb|2PZX|A Chain A, Structure Of The Methuselah Ectodomain With Peptide
Inhibitor
pdb|2PZX|B Chain B, Structure Of The Methuselah Ectodomain With Peptide
Inhibitor
pdb|2PZX|C Chain C, Structure Of The Methuselah Ectodomain With Peptide
Inhibitor
pdb|2PZX|D Chain D, Structure Of The Methuselah Ectodomain With Peptide
Inhibitor
Length = 188
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 32/65 (49%), Gaps = 12/65 (18%)
Query: 158 ALDNTSVSRV-----LIVDWDVHHGQATQQMFYNDNRVVYFSIHRYEHGTFWPN-----L 207
LD+ SVSR LIV WD+ MFY DNR +E+GTF+ + L
Sbjct: 101 TLDDGSVSRRHFKNELIVQWDL--PMPCDGMFYLDNREEQDKYTLFENGTFFRHFDRVTL 158
Query: 208 RESEY 212
R+ EY
Sbjct: 159 RKREY 163
>pdb|3MBX|L Chain L, Crystal Structure Of Chimeric Antibody X836
Length = 220
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 37/73 (50%), Gaps = 9/73 (12%)
Query: 178 QATQQMFYNDNRVVYFSIHRYEHGT------FWPNLRESEYDHIGEGIGKGYNFNIPLNK 231
+++Q + YN+N+ Y + ++ + G +W + RES G G G +F + ++
Sbjct: 24 KSSQSLLYNNNQKNYLAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISS 83
Query: 232 THMKDADYMAVFH 244
+D +AV++
Sbjct: 84 VKAED---LAVYY 93
>pdb|1IL1|B Chain B, Crystal Structure Of G3-519, An Anti-Hiv Monoclonal
Antibody
Length = 219
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 32/157 (20%), Positives = 67/157 (42%), Gaps = 22/157 (14%)
Query: 178 QATQQMFYNDNRVVYFSIHRYEHGT------FWPNLRESEYDHIGEGIGKGYNFNIPLNK 231
+++Q + Y+ N++ Y S ++ + G +W + RES G G G +F + ++
Sbjct: 24 KSSQSLLYSRNQMNYLSWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISS 83
Query: 232 THMKDADYMAVFHQVLLPMVAEGGYCLKSLAEGAALTLRALLDDPCPNFETLGTPSERPK 291
+D +AV++ + Y ++ G L +R D P SE+
Sbjct: 84 VKAED---LAVYY-------CQQYYHYRTFGGGTRLEIRRA--DAAPTVSIFPPSSEQ-- 129
Query: 292 IWKEGKQCLVLALKHIVPQN-SILSNLDRASRRFKLL 327
G +V L + P++ ++ +D + R+ +L
Sbjct: 130 -LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVL 165
>pdb|3DUS|A Chain A, Crystal Structure Of Sag506-01, Orthorhombic, Twinned,
Crystal 1
pdb|3DUS|C Chain C, Crystal Structure Of Sag506-01, Orthorhombic, Twinned,
Crystal 1
pdb|3DUU|A Chain A, Crystal Structure Of Sag506-01, Orthorhombic, Twinned,
Crystal 2
pdb|3DUU|C Chain C, Crystal Structure Of Sag506-01, Orthorhombic, Twinned,
Crystal 2
pdb|3DV4|A Chain A, Crystal Structure Of Sag506-01, Tetragonal, Crystal 1
pdb|3DV6|A Chain A, Crystal Structure Of Sag506-01, Tetragonal, Crystal 2
Length = 112
Score = 30.8 bits (68), Expect = 2.3, Method: Composition-based stats.
Identities = 22/99 (22%), Positives = 45/99 (45%), Gaps = 16/99 (16%)
Query: 178 QATQQMFYNDNRVVYFSIHRYEHGT------FWPNLRESEYDHIGEGIGKGYNFNIPLNK 231
+++Q +F + N+ Y + ++ + G +W + RES G G G +F + +N
Sbjct: 24 KSSQSLFKSRNQKNYLAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTING 83
Query: 232 THMKDADYMAVFHQVLLPMVAEGGYCLKSLAEGAALTLR 270
+D +AV++ + Y L++ G L L+
Sbjct: 84 VQAED---LAVYY-------CKQSYNLRTFGGGTKLELK 112
>pdb|3DUR|A Chain A, Crystal Structure Of Sag173-04
pdb|3DUR|C Chain C, Crystal Structure Of Sag173-04
Length = 112
Score = 30.8 bits (68), Expect = 2.3, Method: Composition-based stats.
Identities = 22/99 (22%), Positives = 45/99 (45%), Gaps = 16/99 (16%)
Query: 178 QATQQMFYNDNRVVYFSIHRYEHGT------FWPNLRESEYDHIGEGIGKGYNFNIPLNK 231
+++Q +F + N+ Y + ++ + G +W + RES G G G +F + +N
Sbjct: 24 KSSQSLFKSRNQKNYLAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTING 83
Query: 232 THMKDADYMAVFHQVLLPMVAEGGYCLKSLAEGAALTLR 270
+D +AV++ + Y L++ G L L+
Sbjct: 84 VQAED---LAVYY-------CKQSYNLRTFGGGTKLELK 112
>pdb|1SBS|L Chain L, Crystal Structure Of An Anti-Hcg Fab
Length = 220
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/73 (21%), Positives = 37/73 (50%), Gaps = 9/73 (12%)
Query: 178 QATQQMFYNDNRVVYFSIHRYEHGT------FWPNLRESEYDHIGEGIGKGYNFNIPLNK 231
+++Q + Y+ N++ Y + ++ + G +W + RES G G G +F + ++
Sbjct: 24 KSSQSLLYSSNQMNYLAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISS 83
Query: 232 THMKDADYMAVFH 244
+D +AV++
Sbjct: 84 VEAED---LAVYY 93
>pdb|3VST|A Chain A, The Complex Structure Of Xylc With Tris
pdb|3VST|B Chain B, The Complex Structure Of Xylc With Tris
pdb|3VST|C Chain C, The Complex Structure Of Xylc With Tris
pdb|3VST|D Chain D, The Complex Structure Of Xylc With Tris
pdb|3VSU|A Chain A, The Complex Structure Of Xylc With Xylobiose
pdb|3VSU|B Chain B, The Complex Structure Of Xylc With Xylobiose
pdb|3VSU|C Chain C, The Complex Structure Of Xylc With Xylobiose
pdb|3VSU|D Chain D, The Complex Structure Of Xylc With Xylobiose
pdb|3VSV|A Chain A, The Complex Structure Of Xylc With Xylose
pdb|3VSV|B Chain B, The Complex Structure Of Xylc With Xylose
pdb|3VSV|C Chain C, The Complex Structure Of Xylc With Xylose
pdb|3VSV|D Chain D, The Complex Structure Of Xylc With Xylose
Length = 638
Score = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 7/55 (12%)
Query: 168 LIVDWDVHHGQATQQMFYNDNRVVYFSIHRYEHGTFWP--NLRESEY--DHIGEG 218
L +DW+ + ++ +FYN+NR V+ + HG + N+ SEY D++ +G
Sbjct: 379 LWLDWEAQGTRVSKNLFYNNNRDVFVEV---SHGPYLVDHNILSSEYAIDNMSQG 430
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
0.321 0.137 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,143,701
Number of Sequences: 62578
Number of extensions: 695575
Number of successful extensions: 1581
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1456
Number of HSP's gapped (non-prelim): 80
length of query: 586
length of database: 14,973,337
effective HSP length: 104
effective length of query: 482
effective length of database: 8,465,225
effective search space: 4080238450
effective search space used: 4080238450
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)