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= 006415
(646 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 278 bits (711), Expect = 7e-75, Method: Compositional matrix adjust.
Identities = 155/387 (40%), Positives = 228/387 (58%), Gaps = 32/387 (8%)
Query: 9 RTIKRRVGLLYDERMCKHNTPDGD--YHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAK 66
RT+ GL+YD M KH GD HPE+ RI++IW++LQ G+ +C L ++A
Sbjct: 34 RTLPFTTGLIYDSVMLKHQCSCGDNSRHPEHAGRIQSIWSRLQERGLRSQCECLRGRKAS 93
Query: 67 DKNLLSVHTENHVNLIKNISSKQFDSRRDRIASKL-----------------NSIYLNEG 109
+ L SVH+E HV L + ++A L ++I+
Sbjct: 94 LEELQSVHSERHVLLYGTNPLSRLKLDNGKLAGLLAQRMFVMLPCGGVGVDTDTIWNELH 153
Query: 110 SSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLL 169
SS AA AAGSV ++A +VA EL + FA+VRPPGHHA+ AMGFC +N+VA+A L
Sbjct: 154 SSNAARWAAGSVTDLAFKVASRELKNGFAVVRPPGHHADHSTAMGFCFFNSVAIACRQLQ 213
Query: 170 NERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIG 229
+ +KILIVDWDVHHGN TQ+ F++DP VL+ S+HRH+ G F+P + G +G
Sbjct: 214 QQSKA---SKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNFFPGS--GAVDEVG 268
Query: 230 EGPGLGYNINVPWENGR---CGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGD-- 284
G G G+N+NV W G GD +YLA + +++P+A++F PD++++SAGFDAA G
Sbjct: 269 AGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPA 328
Query: 285 PLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGS 344
PLGG V+ + M ++LM+ A G +VLALEGG++L +I ++ AC+ LL ++ S
Sbjct: 329 PLGGYHVSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNRVDPLS 388
Query: 345 SEAY---PFESTWRVIQAVRKKLSAFW 368
E + P + R ++AV + S +W
Sbjct: 389 EEGWKQKPNLNAIRSLEAVIRVHSKYW 415
>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 = 277 bits (709), Expect = 1e-74, Method: Compositional matrix adjust.
Identities = 161/418 (38%), Positives = 245/418 (58%), Gaps = 42/418 (10%)
Query: 15 VGLLYDERMCKHNTPDGDY--HPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLS 72
GL+YD M KH G HPE+ RI++IW++LQ G+ +C + ++A + L +
Sbjct: 10 TGLVYDTLMLKHQCTAGSSSSHPEHAGRIQSIWSRLQETGLRGKCEAIRGRKATLEELQT 69
Query: 73 VHTENHVNLIKN--ISSKQFDSRRDRIASKLNSIYL---------------NE-GSSEAA 114
VH+E H L ++ ++ DS++ + L S+++ NE S+ AA
Sbjct: 70 VHSEAHTLLYGTNPLNRQKLDSKK--LLGSLASVFVRLPCGGVGVDSDTIWNEVHSAGAA 127
Query: 115 YLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPE 174
LA G V+E+ +VA GEL + FA+VRPPGHHAE MGFC +N+VAVAA LL +R
Sbjct: 128 RLAVGCVVELVFKVATGELKNGFAVVRPPGHHAEESTPMGFCYFNSVAVAAK-LLQQR-- 184
Query: 175 LGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGL 234
L ++KILIVDWDVHHGN TQ+ F+ DP VL+ S+HR++ G F+P + G +G GPG+
Sbjct: 185 LSVSKILIVDWDVHHGNGTQQAFYSDPSVLYMSLHRYDDGNFFPGS--GAPDEVGTGPGV 242
Query: 235 GYNINVPWENGR---CGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAG--DPLGGC 289
G+N+N+ + G GDA+YLA + +++P+A +F PD++++S+GFDA G PLGG
Sbjct: 243 GFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGY 302
Query: 290 RVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLL--EDKPVAGSS-E 346
++ + + K+LM A G+IVLALEGGY+L +I ++ AC++ LL E P+ +
Sbjct: 303 NLSARCFGYLTKQLMGLAGGRIVLALEGGYDLTAICDASEACVSALLGNELDPLPEKVLQ 362
Query: 347 AYPFESTWRVIQAVRKKLSAFWPTLADELPTKLTSLKAPPAHMISSSDSEDEDTKVET 404
P + R ++ V + S +W L T SL I + E+E+ + T
Sbjct: 363 QRPNANAVRSMEKVMEIHSKYWRCLQRTTSTAGRSL-------IEAQTCENEEAETVT 413
>pdb|2VQW|G Chain G, Structure Of Inhibitor-Free Hdac4 Catalytic Domain (With
Gain-Of-Function Mutation His332tyr)
Length = 413
Score = 277 bits (708), Expect = 2e-74, Method: Compositional matrix adjust.
Identities = 161/418 (38%), Positives = 245/418 (58%), Gaps = 42/418 (10%)
Query: 15 VGLLYDERMCKHNTPDGDY--HPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLS 72
GL+YD M KH G HPE+ RI++IW++LQ G+ +C + ++A + L +
Sbjct: 10 TGLVYDTLMLKHQCTCGSSSSHPEHAGRIQSIWSRLQETGLRGKCECIRGRKATLEELQT 69
Query: 73 VHTENHVNLIKN--ISSKQFDSRRDRIASKLNSIYL---------------NE-GSSEAA 114
VH+E H L ++ ++ DS++ + L S+++ NE S+ AA
Sbjct: 70 VHSEAHTLLYGTNPLNRQKLDSKK--LLGSLASVFVRLPCGGVGVDSDTIWNEVHSAGAA 127
Query: 115 YLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPE 174
LA G V+E+ +VA GEL + FA+VRPPGHHAE MGFC +N+VAVAA LL +R
Sbjct: 128 RLAVGCVVELVFKVATGELKNGFAVVRPPGHHAEESTPMGFCYFNSVAVAAK-LLQQR-- 184
Query: 175 LGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGL 234
L ++KILIVDWDVHHGN TQ+ F+ DP VL+ S+HR++ G F+P + G +G GPG+
Sbjct: 185 LSVSKILIVDWDVHHGNGTQQAFYSDPSVLYMSLHRYDDGNFFPGS--GAPDEVGTGPGV 242
Query: 235 GYNINVPWENGR---CGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAG--DPLGGC 289
G+N+N+ + G GDA+YLA + +++P+A +F PD++++S+GFDA G PLGG
Sbjct: 243 GFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGY 302
Query: 290 RVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLL--EDKPVAGSS-E 346
++ + + K+LM A G+IVLALEGGY+L +I ++ AC++ LL E P+ +
Sbjct: 303 NLSARCFGYLTKQLMGLAGGRIVLALEGGYDLTAICDASEACVSALLGNELDPLPEKVLQ 362
Query: 347 AYPFESTWRVIQAVRKKLSAFWPTLADELPTKLTSLKAPPAHMISSSDSEDEDTKVET 404
P + R ++ V + S +W L T SL I + E+E+ + T
Sbjct: 363 QRPNANAVRSMEKVMEIHSKYWRCLQRTTSTAGRSL-------IEAQTCENEEAETVT 413
>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 = 275 bits (704), Expect = 4e-74, Method: Compositional matrix adjust.
Identities = 160/418 (38%), Positives = 245/418 (58%), Gaps = 42/418 (10%)
Query: 15 VGLLYDERMCKHNTPDGDY--HPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLS 72
GL+YD M KH G HPE+ RI++IW++LQ G+ +C + ++A + L +
Sbjct: 10 TGLVYDTLMLKHQCTAGSSSSHPEHAGRIQSIWSRLQETGLRGKCEAIRGRKATLEELQT 69
Query: 73 VHTENHVNLIKN--ISSKQFDSRRDRIASKLNSIYL---------------NE-GSSEAA 114
VH+E H L ++ ++ DS++ + L S+++ NE S+ AA
Sbjct: 70 VHSEAHTLLYGTNPLNRQKLDSKK--LLGSLASVFVRLPCGGVGVDSDTIWNEVHSAGAA 127
Query: 115 YLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPE 174
LA G V+E+ +VA GEL + FA+VRPPGHHAE MGFC +N+VAVAA LL +R
Sbjct: 128 RLAVGCVVELVFKVATGELKNGFAVVRPPGHHAEESTPMGFCYFNSVAVAAK-LLQQR-- 184
Query: 175 LGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGL 234
L ++KILIVDWDVHHGN TQ+ F+ DP VL+ S+HR++ G F+P + G +G GPG+
Sbjct: 185 LSVSKILIVDWDVHHGNGTQQAFYSDPSVLYMSLHRYDDGNFFPGS--GAPDEVGTGPGV 242
Query: 235 GYNINVPWENGR---CGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAG--DPLGGC 289
G+N+N+ + G GDA+YLA + +++P+A +F PD++++S+GFDA G PLGG
Sbjct: 243 GFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGY 302
Query: 290 RVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLL--EDKPVAGSS-E 346
++ + + K+LM A G+IVLALEGG++L +I ++ AC++ LL E P+ +
Sbjct: 303 NLSARCFGYLTKQLMGLAGGRIVLALEGGHDLTAICDASEACVSALLGNELDPLPEKVLQ 362
Query: 347 AYPFESTWRVIQAVRKKLSAFWPTLADELPTKLTSLKAPPAHMISSSDSEDEDTKVET 404
P + R ++ V + S +W L T SL I + E+E+ + T
Sbjct: 363 QRPNANAVRSMEKVMEIHSKYWRCLQRTTSTAGRSL-------IEAQTCENEEAETVT 413
>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 = 275 bits (703), Expect = 6e-74, Method: Compositional matrix adjust.
Identities = 160/418 (38%), Positives = 245/418 (58%), Gaps = 42/418 (10%)
Query: 15 VGLLYDERMCKHNTPDGDY--HPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLS 72
GL+YD M KH G HPE+ RI++IW++LQ G+ +C + ++A + L +
Sbjct: 10 TGLVYDTLMLKHQCTCGSSSSHPEHAGRIQSIWSRLQETGLRGKCECIRGRKATLEELQT 69
Query: 73 VHTENHVNLIKN--ISSKQFDSRRDRIASKLNSIYL---------------NE-GSSEAA 114
VH+E H L ++ ++ DS++ + L S+++ NE S+ AA
Sbjct: 70 VHSEAHTLLYGTNPLNRQKLDSKK--LLGSLASVFVRLPCGGVGVDSDTIWNEVHSAGAA 127
Query: 115 YLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPE 174
LA G V+E+ +VA GEL + FA+VRPPGHHAE MGFC +N+VAVAA LL +R
Sbjct: 128 RLAVGCVVELVFKVATGELKNGFAVVRPPGHHAEESTPMGFCYFNSVAVAAK-LLQQR-- 184
Query: 175 LGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGL 234
L ++KILIVDWDVHHGN TQ+ F+ DP VL+ S+HR++ G F+P + G +G GPG+
Sbjct: 185 LSVSKILIVDWDVHHGNGTQQAFYSDPSVLYMSLHRYDDGNFFPGS--GAPDEVGTGPGV 242
Query: 235 GYNINVPWENGR---CGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAG--DPLGGC 289
G+N+N+ + G GDA+YLA + +++P+A +F PD++++S+GFDA G PLGG
Sbjct: 243 GFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGY 302
Query: 290 RVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLL--EDKPVAGSS-E 346
++ + + K+LM A G+IVLALEGG++L +I ++ AC++ LL E P+ +
Sbjct: 303 NLSARCFGYLTKQLMGLAGGRIVLALEGGHDLTAICDASEACVSALLGNELDPLPEKVLQ 362
Query: 347 AYPFESTWRVIQAVRKKLSAFWPTLADELPTKLTSLKAPPAHMISSSDSEDEDTKVET 404
P + R ++ V + S +W L T SL I + E+E+ + T
Sbjct: 363 QRPNANAVRSMEKVMEIHSKYWRCLQRTTSTAGRSL-------IEAQTCENEEAETVT 413
>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 = 196 bits (499), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 113/293 (38%), Positives = 165/293 (56%), Gaps = 19/293 (6%)
Query: 33 YHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISS-KQFD 91
+H +P+ + + A+G + + A A D ++L H+ H+ +K +S+
Sbjct: 35 HHLAHPDTKRRFHELVCASGQIEHLTPIAAVAATDADILRAHSAAHLENMKRVSNLPTGG 94
Query: 92 SRRDRIASKLNSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDE 151
D I + G E A L+AG +E+ RVA GEL++ +A+V PPGHHA +
Sbjct: 95 DTGDGIT------MMGNGGLEIARLSAGGAVELTRRVATGELSAGYALVNPPGHHAPHNA 148
Query: 152 AMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRH 211
AMGFC++NN +VAA + R LG+ ++ I+DWDVHHGN TQ ++W DP VL S+H+H
Sbjct: 149 AMGFCIFNNTSVAAGY---ARAVLGMERVAILDWDVHHGNGTQDIWWNDPSVLTISLHQH 205
Query: 212 EFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDI 271
F P D G+ T G G G GYNINVP G G+A YL D ++LP + + P +
Sbjct: 206 L--CFPP--DSGYSTERGAGNGHGYNINVPLPPG-SGNAAYLHAMDQVVLPALRAYRPQL 260
Query: 272 IIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFA----QGKIVLALEGGYN 320
II+ +GFDA+ DPL VT G+ M ++ +D A G+IV EGGY+
Sbjct: 261 IIVGSGFDASMLDPLARMMVTADGFRQMARRTIDCAADICDGRIVFVQEGGYS 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 = 196 bits (499), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 113/293 (38%), Positives = 165/293 (56%), Gaps = 19/293 (6%)
Query: 33 YHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISS-KQFD 91
+H +P+ + + A+G + + A A D ++L H+ H+ +K +S+
Sbjct: 41 HHLAHPDTKRRFHELVCASGQIEHLTPIAAVAATDADILRAHSAAHLENMKRVSNLPTGG 100
Query: 92 SRRDRIASKLNSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDE 151
D I + G E A L+AG +E+ RVA GEL++ +A+V PPGHHA +
Sbjct: 101 DTGDGIT------MMGNGGLEIARLSAGGAVELTRRVATGELSAGYALVNPPGHHAPHNA 154
Query: 152 AMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRH 211
AMGFC++NN +VAA + R LG+ ++ I+DWDVHHGN TQ ++W DP VL S+H+H
Sbjct: 155 AMGFCIFNNTSVAAGY---ARAVLGMERVAILDWDVHHGNGTQDIWWNDPSVLTISLHQH 211
Query: 212 EFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDI 271
F P D G+ T G G G GYNINVP G G+A YL D ++LP + + P +
Sbjct: 212 L--CFPP--DSGYSTERGAGNGHGYNINVPLPPG-SGNAAYLHAMDQVVLPALRAYRPQL 266
Query: 272 IIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFA----QGKIVLALEGGYN 320
II+ +GFDA+ DPL VT G+ M ++ +D A G+IV EGGY+
Sbjct: 267 IIVGSGFDASMLDPLARMMVTADGFRQMARRTIDCAADICDGRIVFVQEGGYS 319
>pdb|3EW8|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101l Variant
Length = 388
Score = 115 bits (289), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 86/301 (28%), Positives = 145/301 (48%), Gaps = 14/301 (4%)
Query: 38 PNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRI 97
P R + + ++A + ++ ++ K A + + + HT+ ++ ++ +S + D D I
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 98 ASKLNSIY-LNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPG-HHAEPDEAMGF 155
L + EG + A G+ I A+ + +G AI G HHA+ DEA GF
Sbjct: 95 EYGLGYLCPATEGIFDYAAAIGGATITAAQCLIDGMCK--VAINWSGGWHHAKKDEASGF 152
Query: 156 CLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGT 215
C Y N AV L + E +IL VD D+HHG+ + F +V+ S+H+ G
Sbjct: 153 C-YLNDAVLGILRLRRKFE----RILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPG- 206
Query: 216 FYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIIS 275
F+P D + +G G G Y++NVP ++G D Y + + +L V + F P +++
Sbjct: 207 FFPGTGD--VSDVGLGKGRYYSVNVPIQDG-IQDEKYYQICESVLKEVYQAFNPKAVVLQ 263
Query: 276 AGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVL 335
G D AGDP+ +TP G LK ++ + ++L GGYNL + + V+
Sbjct: 264 LGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILG-GGGYNLANTARCWTYLTGVI 322
Query: 336 L 336
L
Sbjct: 323 L 323
>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 = 115 bits (289), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 86/301 (28%), Positives = 145/301 (48%), Gaps = 14/301 (4%)
Query: 38 PNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRI 97
P R + + ++A + ++ ++ K A + + + HT+ ++ ++ +S + D D I
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 98 ASKLNSIY-LNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPG-HHAEPDEAMGF 155
L + EG + A G+ I A+ + +G AI G HHA+ DEA GF
Sbjct: 95 EYGLGYLCPATEGIFDYAAAIGGATITAAQCLIDGMCK--VAINWSGGWHHAKKDEASGF 152
Query: 156 CLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGT 215
C Y N AV L + E +IL VD D+HHG+ + F +V+ S+H+ G
Sbjct: 153 C-YLNDAVLGILRLRRKFE----RILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPG- 206
Query: 216 FYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIIS 275
F+P D + +G G G Y++NVP ++G D Y + + +L V + F P +++
Sbjct: 207 FFPGTGD--VSDVGLGKGRYYSVNVPIQDG-IQDEKYYQICESVLKEVYQAFNPKAVVLQ 263
Query: 276 AGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVL 335
G D AGDP+ +TP G LK ++ + ++L GGYNL + + V+
Sbjct: 264 LGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILG-GGGYNLANTARCWTYLTGVI 322
Query: 336 L 336
L
Sbjct: 323 L 323
>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 = 115 bits (287), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 86/301 (28%), Positives = 145/301 (48%), Gaps = 14/301 (4%)
Query: 38 PNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRI 97
P R + + ++A + ++ ++ K A + + + HT+ ++ ++ +S + D D I
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 98 ASKLN-SIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPG-HHAEPDEAMGF 155
L + EG + A G+ I A+ + +G AI G HHA+ DEA GF
Sbjct: 95 EYGLGYACPATEGIFDYAAAIGGATITAAQCLIDGMCK--VAINWSGGWHHAKKDEASGF 152
Query: 156 CLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGT 215
C Y N AV L + E +IL VD D+HHG+ + F +V+ S+H+ G
Sbjct: 153 C-YLNDAVLGILRLRRKFE----RILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPG- 206
Query: 216 FYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIIS 275
F+P D + +G G G Y++NVP ++G D Y + + +L V + F P +++
Sbjct: 207 FFPGTGD--VSDVGLGKGRYYSVNVPIQDG-IQDEKYYQICESVLKEVYQAFNPKAVVLQ 263
Query: 276 AGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVL 335
G D AGDP+ +TP G LK ++ + ++L GGYNL + + V+
Sbjct: 264 LGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILG-GGGYNLANTARCWTYLTGVI 322
Query: 336 L 336
L
Sbjct: 323 L 323
>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 = 115 bits (287), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 86/301 (28%), Positives = 145/301 (48%), Gaps = 14/301 (4%)
Query: 38 PNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRI 97
P R + + ++A + ++ ++ K A + + + HT+ ++ ++ +S + D D I
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 98 ASKLN-SIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPG-HHAEPDEAMGF 155
L + EG + A G+ I A+ + +G AI G HHA+ DEA GF
Sbjct: 95 EYGLGYNCPATEGIFDYAAAIGGATITAAQCLIDGMCK--VAINWSGGWHHAKKDEASGF 152
Query: 156 CLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGT 215
C Y N AV L + E +IL VD D+HHG+ + F +V+ S+H+ G
Sbjct: 153 C-YLNDAVLGILRLRRKFE----RILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPG- 206
Query: 216 FYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIIS 275
F+P D + +G G G Y++NVP ++G D Y + + +L V + F P +++
Sbjct: 207 FFPGTGD--VSDVGLGKGRYYSVNVPIQDG-IQDEKYYQICESVLKEVYQAFNPKAVVLQ 263
Query: 276 AGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVL 335
G D AGDP+ +TP G LK ++ + ++L GGYNL + + V+
Sbjct: 264 LGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILG-GGGYNLANTARCWTYLTGVI 322
Query: 336 L 336
L
Sbjct: 323 L 323
>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 = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 86/301 (28%), Positives = 144/301 (47%), Gaps = 14/301 (4%)
Query: 38 PNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRI 97
P R + + ++A + ++ ++ K A + + + HT+ ++ ++ +S + D D I
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 98 ASKLN-SIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPG-HHAEPDEAMGF 155
L EG + A G+ I A+ + +G AI G HHA+ DEA GF
Sbjct: 95 EYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCK--VAINWSGGWHHAKKDEASGF 152
Query: 156 CLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGT 215
C Y N AV L + E +IL VD D+HHG+ + F +V+ S+H+ G
Sbjct: 153 C-YLNDAVLGILRLRRKFE----RILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPG- 206
Query: 216 FYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIIS 275
F+P D + +G G G Y++NVP ++G D Y + + +L V + F P +++
Sbjct: 207 FFPGTGD--VSDVGLGKGRYYSVNVPIQDG-IQDEKYYQICESVLKEVYQAFNPKAVVLQ 263
Query: 276 AGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVL 335
G D AGDP+ +TP G LK ++ + ++L GGYNL + + V+
Sbjct: 264 LGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILG-GGGYNLANTARCWTYLTGVI 322
Query: 336 L 336
L
Sbjct: 323 L 323
>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 = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 86/301 (28%), Positives = 144/301 (47%), Gaps = 14/301 (4%)
Query: 38 PNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRI 97
P R + + ++A + ++ ++ K A + + + HT+ ++ ++ +S + D D I
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 98 ASKLN-SIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPG-HHAEPDEAMGF 155
L EG + A G+ I A+ + +G AI G HHA+ DEA GF
Sbjct: 95 EYGLGYECPATEGIFDYAAAIGGATITAAQCLIDGMCK--VAINWSGGWHHAKKDEASGF 152
Query: 156 CLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGT 215
C Y N AV L + E +IL VD D+HHG+ + F +V+ S+H+ G
Sbjct: 153 C-YLNDAVLGILRLRRKFE----RILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPG- 206
Query: 216 FYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIIS 275
F+P D + +G G G Y++NVP ++G D Y + + +L V + F P +++
Sbjct: 207 FFPGTGD--VSDVGLGKGRYYSVNVPIQDG-IQDEKYYQICESVLKEVYQAFNPKAVVLQ 263
Query: 276 AGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVL 335
G D AGDP+ +TP G LK ++ + ++L GGYNL + + V+
Sbjct: 264 LGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILG-GGGYNLANTARCWTYLTGVI 322
Query: 336 L 336
L
Sbjct: 323 L 323
>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 = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 86/301 (28%), Positives = 144/301 (47%), Gaps = 14/301 (4%)
Query: 38 PNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRI 97
P R + + ++A + ++ ++ K A + + + HT+ ++ ++ +S + D D I
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 98 ASKLN-SIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPG-HHAEPDEAMGF 155
L EG + A G+ I A+ + +G AI G HHA+ DEA GF
Sbjct: 95 EYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCK--VAINWSGGWHHAKKDEASGF 152
Query: 156 CLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGT 215
C Y N AV L + E +IL VD D+HHG+ + F +V+ S+H+ G
Sbjct: 153 C-YLNDAVLGILRLRRKFE----RILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPG- 206
Query: 216 FYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIIS 275
F+P D + +G G G Y++NVP ++G D Y + + +L V + F P +++
Sbjct: 207 FFPGTGD--VSDVGLGKGRYYSVNVPIQDG-IQDEKYYQICESVLKEVYQAFNPKAVVLQ 263
Query: 276 AGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVL 335
G D AGDP+ +TP G LK ++ + ++L GGYNL + + V+
Sbjct: 264 LGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILG-GGGYNLANTARCWTYLTGVI 322
Query: 336 L 336
L
Sbjct: 323 L 323
>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 = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 86/301 (28%), Positives = 144/301 (47%), Gaps = 14/301 (4%)
Query: 38 PNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRI 97
P R + + ++A + ++ ++ K A + + + HT+ ++ ++ +S + D D I
Sbjct: 36 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 95
Query: 98 ASKLN-SIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPG-HHAEPDEAMGF 155
L EG + A G+ I A+ + +G AI G HHA+ DEA GF
Sbjct: 96 EYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCK--VAINWSGGWHHAKKDEASGF 153
Query: 156 CLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGT 215
C Y N AV L + E +IL VD D+HHG+ + F +V+ S+H+ G
Sbjct: 154 C-YLNDAVLGILRLRRKFE----RILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPG- 207
Query: 216 FYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIIS 275
F+P D + +G G G Y++NVP ++G D Y + + +L V + F P +++
Sbjct: 208 FFPGTGD--VSDVGLGKGRYYSVNVPIQDG-IQDEKYYQICESVLKEVYQAFNPKAVVLQ 264
Query: 276 AGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVL 335
G D AGDP+ +TP G LK ++ + ++L GGYNL + + V+
Sbjct: 265 LGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILG-GGGYNLANTARCWTYLTGVI 323
Query: 336 L 336
L
Sbjct: 324 L 324
>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 = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 86/301 (28%), Positives = 144/301 (47%), Gaps = 14/301 (4%)
Query: 38 PNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRI 97
P R + + ++A + ++ ++ K A + + + HT+ ++ ++ +S + D D I
Sbjct: 35 PKRADMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 98 ASKLN-SIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPG-HHAEPDEAMGF 155
L EG + A G+ I A+ + +G AI G HHA+ DEA GF
Sbjct: 95 EYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCK--VAINWSGGWHHAKKDEASGF 152
Query: 156 CLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGT 215
C Y N AV L + E +IL VD D+HHG+ + F +V+ S+H+ G
Sbjct: 153 C-YLNDAVLGILRLRRKFE----RILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPG- 206
Query: 216 FYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIIS 275
F+P D + +G G G Y++NVP ++G D Y + + +L V + F P +++
Sbjct: 207 FFPGTGD--VSDVGLGKGRYYSVNVPIQDG-IQDEKYYQICESVLKEVYQAFNPKAVVLQ 263
Query: 276 AGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVL 335
G D AGDP+ +TP G LK ++ + ++L GGYNL + + V+
Sbjct: 264 LGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILG-GGGYNLANTARCWTYLTGVI 322
Query: 336 L 336
L
Sbjct: 323 L 323
>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 = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 86/301 (28%), Positives = 144/301 (47%), Gaps = 14/301 (4%)
Query: 38 PNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRI 97
P R + + ++A + ++ ++ K A + + + HT+ ++ ++ +S + D D I
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 98 ASKLN-SIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPG-HHAEPDEAMGF 155
L EG + A G+ I A+ + +G AI G HHA+ DEA GF
Sbjct: 95 EYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCK--VAINWSGGWHHAKKDEASGF 152
Query: 156 CLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGT 215
C Y N AV L + E +IL VD D+HHG+ + F +V+ S+H+ G
Sbjct: 153 C-YLNDAVLGILRLRRKFE----RILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPG- 206
Query: 216 FYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIIS 275
F+P D + +G G G Y++NVP ++G D Y + + +L V + F P +++
Sbjct: 207 FFPGTGD--VSDVGLGKGRYYSVNVPIQDG-IQDEKYYQICESVLKEVYQAFNPKAVVLQ 263
Query: 276 AGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVL 335
G D AGDP+ +TP G LK ++ + ++L GGYNL + + V+
Sbjct: 264 LGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILG-GGGYNLANTARCWTYLTGVI 322
Query: 336 L 336
L
Sbjct: 323 L 323
>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 = 113 bits (282), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 85/301 (28%), Positives = 144/301 (47%), Gaps = 14/301 (4%)
Query: 38 PNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRI 97
P R + + ++A + ++ ++ K A + + + HT+ ++ ++ +S + D D I
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 98 ASKLN-SIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPG-HHAEPDEAMGF 155
L EG + A G+ I A+ + +G AI G HHA+ DEA GF
Sbjct: 95 EYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCK--VAINWSGGWHHAKKDEASGF 152
Query: 156 CLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGT 215
C Y N AV L + E +IL VD D+HHG+ + F +V+ S+H+ G
Sbjct: 153 C-YLNDAVLGILRLRRKFE----RILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPG- 206
Query: 216 FYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIIS 275
F+P D + +G G G Y++NVP ++G D Y + + +L V + F P +++
Sbjct: 207 FFPGTGD--VSDVGLGKGRYYSVNVPIQDG-IQDEKYYQICESVLKEVYQAFNPKAVVLQ 263
Query: 276 AGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVL 335
G D AGDP+ +TP G LK ++ + ++L GG+NL + + V+
Sbjct: 264 LGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILG-GGGFNLANTARCWTYLTGVI 322
Query: 336 L 336
L
Sbjct: 323 L 323
>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 = 110 bits (276), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 85/301 (28%), Positives = 143/301 (47%), Gaps = 14/301 (4%)
Query: 38 PNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRI 97
P R + + ++A + ++ ++ K A + + + HT+ ++ ++ +S + D D I
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 98 ASKLN-SIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPG-HHAEPDEAMGF 155
L EG + A G+ I A+ + +G AI G H A+ DEA GF
Sbjct: 95 EYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCK--VAINWSGGWHAAKKDEASGF 152
Query: 156 CLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGT 215
C Y N AV L + E +IL VD D+HHG+ + F +V+ S+H+ G
Sbjct: 153 C-YLNDAVLGILRLRRKFE----RILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPG- 206
Query: 216 FYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIIS 275
F+P D + +G G G Y++NVP ++G D Y + + +L V + F P +++
Sbjct: 207 FFPGTGD--VSDVGLGKGRYYSVNVPIQDG-IQDEKYYQICESVLKEVYQAFNPKAVVLQ 263
Query: 276 AGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVL 335
G D AGDP+ +TP G LK ++ + ++L GGYNL + + V+
Sbjct: 264 LGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILG-GGGYNLANTARCWTYLTGVI 322
Query: 336 L 336
L
Sbjct: 323 L 323
>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 = 107 bits (267), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 92/309 (29%), Positives = 138/309 (44%), Gaps = 40/309 (12%)
Query: 39 NRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRIA 98
N ++ W++ +AAG + + + + E + N +
Sbjct: 69 NFLETAWDRWKAAGYKGEAIATSFPVRRTSPRIPTDIEGQIGYYCNAAETA--------- 119
Query: 99 SKLNSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLY 158
++ G+ EAA + S I+ A+ +A G +AF++ RPPGHHA D G+C
Sbjct: 120 -------ISPGTWEAALSSMASAIDGADLIAAGH-KAAFSLCRPPGHHAGIDMFGGYCFI 171
Query: 159 NNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYP 218
NN AVAA LL++ G KI I+D D HHGN TQ +F++ V F S+H F
Sbjct: 172 NNAAVAAQRLLDK----GAKKIAILDVDFHHGNGTQDIFYERGDVFFASLHGDPAEAF-- 225
Query: 219 ANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKD---FGPDIIIIS 275
+ G+ G+G G G N P G +VW L K FG + I++S
Sbjct: 226 PHFLGYAEETGKGAGAGTTANYPMGRGTP-----YSVWGEALTDSLKRIAAFGAEAIVVS 280
Query: 276 AGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQG-KIVLALEGGYNLGSISNSVLACMNV 334
G D DP+ ++T Y M + + A G +++ +EGGY + I L NV
Sbjct: 281 LGVDTFEQDPISFFKLTSPDYITMGRTIA--ASGVPLLVVMEGGYGVPEIG---LNVANV 335
Query: 335 LLEDKPVAG 343
L K VAG
Sbjct: 336 L---KGVAG 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 = 103 bits (257), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 91/309 (29%), Positives = 137/309 (44%), Gaps = 40/309 (12%)
Query: 39 NRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRIA 98
N ++ W++ +AAG + + + + E + N +
Sbjct: 69 NFLETAWDRWKAAGYKGEAIATSFPVRRTSPRIPTDIEGQIGYYCNAAETA--------- 119
Query: 99 SKLNSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLY 158
++ G+ EAA + S I+ A+ +A G +AF++ RPPGH A D G+C
Sbjct: 120 -------ISPGTWEAALSSMASAIDGADLIAAGH-KAAFSLCRPPGHAAGIDMFGGYCFI 171
Query: 159 NNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYP 218
NN AVAA LL++ G KI I+D D HHGN TQ +F++ V F S+H F
Sbjct: 172 NNAAVAAQRLLDK----GAKKIAILDVDFHHGNGTQDIFYERGDVFFASLHGDPAEAF-- 225
Query: 219 ANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKD---FGPDIIIIS 275
+ G+ G+G G G N P G +VW L K FG + I++S
Sbjct: 226 PHFLGYAEETGKGAGAGTTANYPMGRGTP-----YSVWGEALTDSLKRIAAFGAEAIVVS 280
Query: 276 AGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQG-KIVLALEGGYNLGSISNSVLACMNV 334
G D DP+ ++T Y M + + A G +++ +EGGY + I L NV
Sbjct: 281 LGVDTFEQDPISFFKLTSPDYITMGRTIA--ASGVPLLVVMEGGYGVPEIG---LNVANV 335
Query: 335 LLEDKPVAG 343
L K VAG
Sbjct: 336 L---KGVAG 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 (254), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 71/190 (37%), Positives = 101/190 (53%), Gaps = 10/190 (5%)
Query: 135 SAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQ 194
+A+A+ RPPGHHA D A GFC NN A+AA L ++ ++D D+HHG Q
Sbjct: 167 AAYALCRPPGHHARVDAAGGFCYLNNAAIAAQALRARH-----ARVAVLDTDMHHGQGIQ 221
Query: 195 KMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLA 254
++F+ VL+ S+H + FYPA GF G G GLGYN+N+P +G A +
Sbjct: 222 EIFYARRDVLYVSIHG-DPTNFYPAV-AGFDDERGAGEGLGYNVNLPMPHGSSEAAFFER 279
Query: 255 VWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLA 314
V D L + F PD +++S GFD DP VT G+ L L+ + V+
Sbjct: 280 VDD--ALRELRRFAPDALVLSLGFDVYRDDPQSQVAVTTDGFG-RLGHLIGALRLPTVIV 336
Query: 315 LEGGYNLGSI 324
EGGY++ S+
Sbjct: 337 QEGGYHIESL 346
>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 = 100 bits (248), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 74/300 (24%), Positives = 140/300 (46%), Gaps = 21/300 (7%)
Query: 12 KRRVGLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLL 71
K++V YD + + G HP P+RI+ N L G+ ++ + +A + +
Sbjct: 2 KKKVCYYYDGDIGNYYYGQG--HPMKPHRIRMTHNLLLNYGLYRKMEIYRPHKATAEEMT 59
Query: 72 SVHTENHVNLIKNISSKQFDSRRDRIASKLN---SIYLNEGSSEAAYLAAGSVIEVAERV 128
H++ ++ +++I S + + N + +G E L+ G + A ++
Sbjct: 60 KYHSDEYIKFLRSIRPDNM-SEYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGSVAGAVKL 118
Query: 129 AEGELNSAFAIVRPPG--HHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWD 186
+ + A V G HHA+ EA GFC N++ +A LL ++L +D D
Sbjct: 119 NRQQTDMA---VNWAGGLHHAKKSEASGFCYVNDIVLAILELLKYH-----QRVLYIDID 170
Query: 187 VHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGR 246
+HHG+ ++ F+ RV+ +V H++G ++P D IG G G Y +N P +G
Sbjct: 171 IHHGDGVEEAFYTTDRVM--TVSFHKYGEYFPGTGD--LRDIGAGKGKYYAVNFPMRDG- 225
Query: 247 CGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDF 306
D Y ++ I+ V + + P +++ G D+ +GD LG +T G++ ++ + F
Sbjct: 226 IDDESYGQIFKPIISKVMEMYQPSAVVLQCGADSLSGDRLGCFNLTVKGHAKCVEVVKTF 285
>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 = 95.9 bits (237), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 76/261 (29%), Positives = 115/261 (44%), Gaps = 24/261 (9%)
Query: 34 HPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSR 93
HP R+ + A + ++ ++ A + LL HTE+++N + Q +
Sbjct: 21 HPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLLFHTEDYINTLMEAERSQSVPK 80
Query: 94 RDRIASKLN------SIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPG--H 145
R + S + GSS LA GS ++ E +G N AF P G H
Sbjct: 81 GAREKYNIGGYENPVSYAMFTGSS----LATGSTVQAIEEFLKG--NVAF---NPAGGMH 131
Query: 146 HAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLF 205
HA A GFC NN AV +L + G +IL +D D HH + Q+ F+ +V
Sbjct: 132 HAFKSRANGFCYINNPAVGIEYLRKK----GFKRILYIDLDAHHCDGVQEAFYDTDQVFV 187
Query: 206 FSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAK 265
S+H+ F + GF IGEG G GYN+N+P G D ++L + L V +
Sbjct: 188 LSLHQSPEYAF--PFEKGFLEEIGEGKGKGYNLNIPLPKG-LNDNEFLFALEKSLEIVKE 244
Query: 266 DFGPDIIIISAGFDAAAGDPL 286
F P++ ++ G D D L
Sbjct: 245 VFEPEVYLLQLGTDPLLEDYL 265
>pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog From Aquifex Aeolicus
Length = 375
Score = 95.5 bits (236), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 76/261 (29%), Positives = 115/261 (44%), Gaps = 24/261 (9%)
Query: 34 HPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSR 93
HP R+ + A + ++ ++ A + LL HTE+++N + Q +
Sbjct: 21 HPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLLFHTEDYINTLMEAERCQCVPK 80
Query: 94 RDRIASKLN------SIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPG--H 145
R + S + GSS LA GS ++ E +G N AF P G H
Sbjct: 81 GAREKYNIGGYENPVSYAMFTGSS----LATGSTVQAIEEFLKG--NVAF---NPAGGMH 131
Query: 146 HAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLF 205
HA A GFC NN AV +L + G +IL +D D HH + Q+ F+ +V
Sbjct: 132 HAFKSRANGFCYINNPAVGIEYLRKK----GFKRILYIDLDAHHCDGVQEAFYDTDQVFV 187
Query: 206 FSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAK 265
S+H+ F + GF IGEG G GYN+N+P G D ++L + L V +
Sbjct: 188 LSLHQSPEYAF--PFEKGFLEEIGEGKGKGYNLNIPLPKG-LNDNEFLFALEKSLEIVKE 244
Query: 266 DFGPDIIIISAGFDAAAGDPL 286
F P++ ++ G D D L
Sbjct: 245 VFEPEVYLLQLGTDPLLEDYL 265
>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 = 93.2 bits (230), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 78/354 (22%), Positives = 156/354 (44%), Gaps = 35/354 (9%)
Query: 11 IKRRVGLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNL 70
+ + V YD + + G HP P+R+ + + G+ ++ +V +A ++
Sbjct: 1 MAKTVAYFYDPDVGNFHYGAG--HPMKPHRLALTHSLVLHYGLYKKMIVFKPYQASQHDM 58
Query: 71 LSVHTENHVNLIKNISSKQFDSRRDRIASKLNSIYLNE------GSSEAAYLAAGSVIEV 124
H+E++++ ++ +S LN+ + + G E G+ ++
Sbjct: 59 CRFHSEDYIDFLQRVSPTNMQG----FTKSLNAFNVGDDCPVFPGLFEFCSRYTGASLQG 114
Query: 125 A----ERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKI 180
A ++ + +N A + HHA+ EA GFC N++ + LL P ++
Sbjct: 115 ATQLNNKICDIAINWAGGL-----HHAKKFEASGFCYVNDIVIGILELLKYHP-----RV 164
Query: 181 LIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINV 240
L +D D+HHG+ Q+ F+ RV+ S H++ F+P D + +G G Y +NV
Sbjct: 165 LYIDIDIHHGDGVQEAFYLTDRVMTVSFHKYG-NYFFPGTGDMY--EVGAESGRYYCLNV 221
Query: 241 PWENGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVML 300
P +G D Y ++ ++ V + P I++ G D+ D LG ++ G+ +
Sbjct: 222 PLRDG-IDDQSYKHLFQPVINQVVDFYQPTCIVLQCGADSLGCDRLGCFNLSIRGHGECV 280
Query: 301 KKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTW 354
+ + F +VL GGY + +++ ++L+E+ SE P+ +
Sbjct: 281 EYVKSFNIPLLVLG-GGGYTVRNVARCWTYETSLLVEE----AISEELPYSEYF 329
>pdb|3QY9|A Chain A, The Crystal Structure Of Dihydrodipicolinate Reductase
From Staphylococcus Aureus
pdb|3QY9|B Chain B, The Crystal Structure Of Dihydrodipicolinate Reductase
From Staphylococcus Aureus
pdb|3QY9|C Chain C, The Crystal Structure Of Dihydrodipicolinate Reductase
From Staphylococcus Aureus
pdb|3QY9|D Chain D, The Crystal Structure Of Dihydrodipicolinate Reductase
From Staphylococcus Aureus
Length = 243
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 47/97 (48%), Gaps = 13/97 (13%)
Query: 527 TLEQFNDVL--LQENVYSDDVSSPLFDTNDLNSVANKKAVSLEALKNGWY---HNVVYLG 581
TLE+ DV+ L+ENV +P++D ++LN + + + +++ G H V++ G
Sbjct: 149 TLEKLYDVIVSLKENV------TPVYDRHELNEKRQPQDIGIHSIRGGTIVGEHEVLFAG 202
Query: 582 KEHGIPILTMTCS--LSAVGKFKSGEFPLRAPAPPYT 616
+ I I S + A G ++ E + P YT
Sbjct: 203 TDETIQITHRAQSKDIFANGAIQAAERLVNKPNGFYT 239
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
0.318 0.135 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,239,903
Number of Sequences: 62578
Number of extensions: 951390
Number of successful extensions: 2171
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 2045
Number of HSP's gapped (non-prelim): 28
length of query: 646
length of database: 14,973,337
effective HSP length: 105
effective length of query: 541
effective length of database: 8,402,647
effective search space: 4545832027
effective search space used: 4545832027
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)