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= psy1924
(265 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 231 bits (590), Expect = 3e-61, Method: Compositional matrix adjust.
Identities = 105/120 (87%), Positives = 114/120 (95%)
Query: 25 NVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGFCYVN 84
NVGEDCPVFDGL+EFCQLS GGSVA AVKLN+Q +++ +NW GGLHHAKKSEASGFCYVN
Sbjct: 89 NVGEDCPVFDGLFEFCQLSTGGSVAGAVKLNRQQTDMAVNWAGGLHHAKKSEASGFCYVN 148
Query: 85 DIVLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGEYFPGTGDLRDM 144
DIVL ILELLKYHQRVLYID+D+HHGDGVEEAFYTTDRVMTVSFHKYGEYFPGTGDLRD+
Sbjct: 149 DIVLAILELLKYHQRVLYIDIDIHHGDGVEEAFYTTDRVMTVSFHKYGEYFPGTGDLRDI 208
Score = 157 bits (397), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 70/84 (83%), Positives = 78/84 (92%)
Query: 182 NVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGFCYVN 241
NVGEDCPVFDGL+EFCQLS GGSVA AVKLN+Q +++ +NW GGLHHAKKSEASGFCYVN
Sbjct: 89 NVGEDCPVFDGLFEFCQLSTGGSVAGAVKLNRQQTDMAVNWAGGLHHAKKSEASGFCYVN 148
Query: 242 DIVLGILELLKYHQRVLYIDVDVH 265
DIVL ILELLKYHQRVLYID+D+H
Sbjct: 149 DIVLAILELLKYHQRVLYIDIDIH 172
>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 = 189 bits (480), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 88/121 (72%), Positives = 101/121 (83%), Gaps = 1/121 (0%)
Query: 25 NVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGFCYVN 84
NVG+DCPVF GL+EFC G S+ A +LN + +I INW GGLHHAKK EASGFCYVN
Sbjct: 89 NVGDDCPVFPGLFEFCSRYTGASLQGATQLNNKICDIAINWAGGLHHAKKFEASGFCYVN 148
Query: 85 DIVLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGEY-FPGTGDLRD 143
DIV+GILELLKYH RVLYID+D+HHGDGV+EAFY TDRVMTVSFHKYG Y FPGTGD+ +
Sbjct: 149 DIVIGILELLKYHPRVLYIDIDIHHGDGVQEAFYLTDRVMTVSFHKYGNYFFPGTGDMYE 208
Query: 144 M 144
+
Sbjct: 209 V 209
Score = 131 bits (329), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 59/84 (70%), Positives = 68/84 (80%)
Query: 182 NVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGFCYVN 241
NVG+DCPVF GL+EFC G S+ A +LN + +I INW GGLHHAKK EASGFCYVN
Sbjct: 89 NVGDDCPVFPGLFEFCSRYTGASLQGATQLNNKICDIAINWAGGLHHAKKFEASGFCYVN 148
Query: 242 DIVLGILELLKYHQRVLYIDVDVH 265
DIV+GILELLKYH RVLYID+D+H
Sbjct: 149 DIVIGILELLKYHPRVLYIDIDIH 172
>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 = 139 bits (349), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 64/125 (51%), Positives = 87/125 (69%), Gaps = 1/125 (0%)
Query: 21 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 80
S +G DCP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 81 CYVNDIVLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGE-YFPGTG 139
CY+ND VLGIL L + +R+LY+D+D+HHGDGVE+AF T +VMTVS HK+ +FPGTG
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTG 212
Query: 140 DLRDM 144
D+ D+
Sbjct: 213 DVSDV 217
Score = 94.0 bits (232), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 41/88 (46%), Positives = 58/88 (65%)
Query: 178 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 237
S +G DCP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 238 CYVNDIVLGILELLKYHQRVLYIDVDVH 265
CY+ND VLGIL L + +R+LY+D+D+H
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLH 180
>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 = 139 bits (349), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 64/125 (51%), Positives = 87/125 (69%), Gaps = 1/125 (0%)
Query: 21 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 80
S +G DCP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 81 CYVNDIVLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGE-YFPGTG 139
CY+ND VLGIL L + +R+LY+D+D+HHGDGVE+AF T +VMTVS HK+ +FPGTG
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTG 212
Query: 140 DLRDM 144
D+ D+
Sbjct: 213 DVSDV 217
Score = 94.0 bits (232), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 41/88 (46%), Positives = 58/88 (65%)
Query: 178 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 237
S +G DCP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 238 CYVNDIVLGILELLKYHQRVLYIDVDVH 265
CY+ND VLGIL L + +R+LY+D+D+H
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLH 180
>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 = 139 bits (349), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 64/125 (51%), Positives = 87/125 (69%), Gaps = 1/125 (0%)
Query: 21 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 80
S +G DCP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 94 SIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 153
Query: 81 CYVNDIVLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGE-YFPGTG 139
CY+ND VLGIL L + +R+LY+D+D+HHGDGVE+AF T +VMTVS HK+ +FPGTG
Sbjct: 154 CYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTG 213
Query: 140 DLRDM 144
D+ D+
Sbjct: 214 DVSDV 218
Score = 94.0 bits (232), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 41/88 (46%), Positives = 58/88 (65%)
Query: 178 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 237
S +G DCP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 94 SIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 153
Query: 238 CYVNDIVLGILELLKYHQRVLYIDVDVH 265
CY+ND VLGIL L + +R+LY+D+D+H
Sbjct: 154 CYLNDAVLGILRLRRKFERILYVDLDLH 181
>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 = 139 bits (349), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 64/125 (51%), Positives = 87/125 (69%), Gaps = 1/125 (0%)
Query: 21 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 80
S +G DCP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 81 CYVNDIVLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGE-YFPGTG 139
CY+ND VLGIL L + +R+LY+D+D+HHGDGVE+AF T +VMTVS HK+ +FPGTG
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTG 212
Query: 140 DLRDM 144
D+ D+
Sbjct: 213 DVSDV 217
Score = 94.0 bits (232), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 41/88 (46%), Positives = 58/88 (65%)
Query: 178 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 237
S +G DCP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 238 CYVNDIVLGILELLKYHQRVLYIDVDVH 265
CY+ND VLGIL L + +R+LY+D+D+H
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLH 180
>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 = 138 bits (348), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 64/125 (51%), Positives = 87/125 (69%), Gaps = 1/125 (0%)
Query: 21 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 80
S +G DCP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 81 CYVNDIVLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGE-YFPGTG 139
CY+ND VLGIL L + +R+LY+D+D+HHGDGVE+AF T +VMTVS HK+ +FPGTG
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTG 212
Query: 140 DLRDM 144
D+ D+
Sbjct: 213 DVSDV 217
Score = 94.0 bits (232), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 41/88 (46%), Positives = 58/88 (65%)
Query: 178 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 237
S +G DCP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 238 CYVNDIVLGILELLKYHQRVLYIDVDVH 265
CY+ND VLGIL L + +R+LY+D+D+H
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLH 180
>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 = 138 bits (348), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 64/125 (51%), Positives = 87/125 (69%), Gaps = 1/125 (0%)
Query: 21 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 80
S +G DCP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 81 CYVNDIVLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGE-YFPGTG 139
CY+ND VLGIL L + +R+LY+D+D+HHGDGVE+AF T +VMTVS HK+ +FPGTG
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTG 212
Query: 140 DLRDM 144
D+ D+
Sbjct: 213 DVSDV 217
Score = 94.0 bits (232), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 41/88 (46%), Positives = 58/88 (65%)
Query: 178 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 237
S +G DCP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 238 CYVNDIVLGILELLKYHQRVLYIDVDVH 265
CY+ND VLGIL L + +R+LY+D+D+H
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLH 180
>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 = 137 bits (345), Expect = 7e-33, Method: Compositional matrix adjust.
Identities = 63/125 (50%), Positives = 87/125 (69%), Gaps = 1/125 (0%)
Query: 21 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 80
S +G +CP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYECPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 81 CYVNDIVLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGE-YFPGTG 139
CY+ND VLGIL L + +R+LY+D+D+HHGDGVE+AF T +VMTVS HK+ +FPGTG
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTG 212
Query: 140 DLRDM 144
D+ D+
Sbjct: 213 DVSDV 217
Score = 92.4 bits (228), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 40/88 (45%), Positives = 58/88 (65%)
Query: 178 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 237
S +G +CP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYECPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 238 CYVNDIVLGILELLKYHQRVLYIDVDVH 265
CY+ND VLGIL L + +R+LY+D+D+H
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLH 180
>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 = 137 bits (344), Expect = 7e-33, Method: Compositional matrix adjust.
Identities = 63/125 (50%), Positives = 87/125 (69%), Gaps = 1/125 (0%)
Query: 21 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 80
S +G +CP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYNCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 81 CYVNDIVLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGE-YFPGTG 139
CY+ND VLGIL L + +R+LY+D+D+HHGDGVE+AF T +VMTVS HK+ +FPGTG
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTG 212
Query: 140 DLRDM 144
D+ D+
Sbjct: 213 DVSDV 217
Score = 92.0 bits (227), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 40/88 (45%), Positives = 58/88 (65%)
Query: 178 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 237
S +G +CP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYNCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 238 CYVNDIVLGILELLKYHQRVLYIDVDVH 265
CY+ND VLGIL L + +R+LY+D+D+H
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLH 180
>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 = 135 bits (341), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 63/125 (50%), Positives = 86/125 (68%), Gaps = 1/125 (0%)
Query: 21 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 80
S +G CP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYACPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 81 CYVNDIVLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGE-YFPGTG 139
CY+ND VLGIL L + +R+LY+D+D+HHGDGVE+AF T +VMTVS HK+ +FPGTG
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTG 212
Query: 140 DLRDM 144
D+ D+
Sbjct: 213 DVSDV 217
Score = 90.9 bits (224), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 40/88 (45%), Positives = 57/88 (64%)
Query: 178 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 237
S +G CP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYACPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 238 CYVNDIVLGILELLKYHQRVLYIDVDVH 265
CY+ND VLGIL L + +R+LY+D+D+H
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLH 180
>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 = 135 bits (340), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 63/125 (50%), Positives = 86/125 (68%), Gaps = 1/125 (0%)
Query: 21 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 80
S +G DCP +G++++ G ++ AA L ++ INW GG H AKK EASGF
Sbjct: 93 SIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHAAKKDEASGF 152
Query: 81 CYVNDIVLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGE-YFPGTG 139
CY+ND VLGIL L + +R+LY+D+D+HHGDGVE+AF T +VMTVS HK+ +FPGTG
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTG 212
Query: 140 DLRDM 144
D+ D+
Sbjct: 213 DVSDV 217
Score = 90.5 bits (223), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 40/88 (45%), Positives = 57/88 (64%)
Query: 178 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 237
S +G DCP +G++++ G ++ AA L ++ INW GG H AKK EASGF
Sbjct: 93 SIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHAAKKDEASGF 152
Query: 238 CYVNDIVLGILELLKYHQRVLYIDVDVH 265
CY+ND VLGIL L + +R+LY+D+D+H
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLH 180
>pdb|3EW8|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101l Variant
Length = 388
Score = 135 bits (339), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 63/125 (50%), Positives = 86/125 (68%), Gaps = 1/125 (0%)
Query: 21 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 80
S +G CP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYLCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 81 CYVNDIVLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGE-YFPGTG 139
CY+ND VLGIL L + +R+LY+D+D+HHGDGVE+AF T +VMTVS HK+ +FPGTG
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTG 212
Query: 140 DLRDM 144
D+ D+
Sbjct: 213 DVSDV 217
Score = 90.1 bits (222), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 40/88 (45%), Positives = 57/88 (64%)
Query: 178 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 237
S +G CP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYLCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 238 CYVNDIVLGILELLKYHQRVLYIDVDVH 265
CY+ND VLGIL L + +R+LY+D+D+H
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLH 180
>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 = 135 bits (339), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 63/125 (50%), Positives = 86/125 (68%), Gaps = 1/125 (0%)
Query: 21 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 80
S +G CP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYLCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 81 CYVNDIVLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGE-YFPGTG 139
CY+ND VLGIL L + +R+LY+D+D+HHGDGVE+AF T +VMTVS HK+ +FPGTG
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTG 212
Query: 140 DLRDM 144
D+ D+
Sbjct: 213 DVSDV 217
Score = 90.1 bits (222), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 40/88 (45%), Positives = 57/88 (64%)
Query: 178 SFPVNVGEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGF 237
S +G CP +G++++ G ++ AA L ++ INW GG HHAKK EASGF
Sbjct: 93 SIEYGLGYLCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGF 152
Query: 238 CYVNDIVLGILELLKYHQRVLYIDVDVH 265
CY+ND VLGIL L + +R+LY+D+D+H
Sbjct: 153 CYLNDAVLGILRLRRKFERILYVDLDLH 180
>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 = 90.9 bits (224), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 50/112 (44%), Positives = 69/112 (61%), Gaps = 4/112 (3%)
Query: 27 GEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGFCYVNDI 86
G + PV ++ L+ G +V A + K + N GG+HHA KS A+GFCY+N+
Sbjct: 90 GYENPVSYAMFTGSSLATGSTVQAIEEFLK--GNVAFNPAGGMHHAFKSRANGFCYINNP 147
Query: 87 VLGILELLKY-HQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGEY-FP 136
+GI L K +R+LYID+D HH DGV+EAFY TD+V +S H+ EY FP
Sbjct: 148 AVGIEYLRKKGFKRILYIDLDAHHCDGVQEAFYDTDQVFVLSLHQSPEYAFP 199
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 48/83 (57%), Gaps = 3/83 (3%)
Query: 184 GEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGFCYVNDI 243
G + PV ++ L+ G +V A + K + N GG+HHA KS A+GFCY+N+
Sbjct: 90 GYENPVSYAMFTGSSLATGSTVQAIEEFLK--GNVAFNPAGGMHHAFKSRANGFCYINNP 147
Query: 244 VLGILELLKY-HQRVLYIDVDVH 265
+GI L K +R+LYID+D H
Sbjct: 148 AVGIEYLRKKGFKRILYIDLDAH 170
>pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog From Aquifex Aeolicus
Length = 375
Score = 90.9 bits (224), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 50/112 (44%), Positives = 69/112 (61%), Gaps = 4/112 (3%)
Query: 27 GEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGFCYVNDI 86
G + PV ++ L+ G +V A + K + N GG+HHA KS A+GFCY+N+
Sbjct: 90 GYENPVSYAMFTGSSLATGSTVQAIEEFLK--GNVAFNPAGGMHHAFKSRANGFCYINNP 147
Query: 87 VLGILELLKY-HQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGEY-FP 136
+GI L K +R+LYID+D HH DGV+EAFY TD+V +S H+ EY FP
Sbjct: 148 AVGIEYLRKKGFKRILYIDLDAHHCDGVQEAFYDTDQVFVLSLHQSPEYAFP 199
Score = 59.3 bits (142), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 48/83 (57%), Gaps = 3/83 (3%)
Query: 184 GEDCPVFDGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGLHHAKKSEASGFCYVNDI 243
G + PV ++ L+ G +V A + K + N GG+HHA KS A+GFCY+N+
Sbjct: 90 GYENPVSYAMFTGSSLATGSTVQAIEEFLK--GNVAFNPAGGMHHAFKSRANGFCYINNP 147
Query: 244 VLGILELLKY-HQRVLYIDVDVH 265
+GI L K +R+LYID+D H
Sbjct: 148 AVGIEYLRKKGFKRILYIDLDAH 170
>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 = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 48/74 (64%), Gaps = 4/74 (5%)
Query: 70 HHAKKSEASGFCYVNDIVLG--ILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVS 127
HHA++S GFCY N + + +L+ ++L +D DVHHG+G ++AFY+ V+ +S
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVLYMS 217
Query: 128 FHKY--GEYFPGTG 139
H+Y G +FPG+G
Sbjct: 218 LHRYDDGNFFPGSG 231
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 227 HHAKKSEASGFCYVNDIVLG--ILELLKYHQRVLYIDVDVH 265
HHA++S GFCY N + + +L+ ++L +D DVH
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVH 198
>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 = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 48/74 (64%), Gaps = 4/74 (5%)
Query: 70 HHAKKSEASGFCYVNDIVLG--ILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVS 127
HHA++S GFCY N + + +L+ ++L +D DVHHG+G ++AFY+ V+ +S
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVLYMS 217
Query: 128 FHKY--GEYFPGTG 139
H+Y G +FPG+G
Sbjct: 218 LHRYDDGNFFPGSG 231
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 227 HHAKKSEASGFCYVNDIVLG--ILELLKYHQRVLYIDVDVH 265
HHA++S GFCY N + + +L+ ++L +D DVH
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVH 198
>pdb|2VQW|G Chain G, Structure Of Inhibitor-Free Hdac4 Catalytic Domain (With
Gain-Of-Function Mutation His332tyr)
Length = 413
Score = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 48/74 (64%), Gaps = 4/74 (5%)
Query: 70 HHAKKSEASGFCYVNDIVLG--ILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVS 127
HHA++S GFCY N + + +L+ ++L +D DVHHG+G ++AFY+ V+ +S
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVLYMS 217
Query: 128 FHKY--GEYFPGTG 139
H+Y G +FPG+G
Sbjct: 218 LHRYDDGNFFPGSG 231
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 227 HHAKKSEASGFCYVNDIVLG--ILELLKYHQRVLYIDVDVH 265
HHA++S GFCY N + + +L+ ++L +D DVH
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVH 198
>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 = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 48/74 (64%), Gaps = 4/74 (5%)
Query: 70 HHAKKSEASGFCYVNDIVLG--ILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVS 127
HHA++S GFCY N + + +L+ ++L +D DVHHG+G ++AFY+ V+ +S
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVLYMS 217
Query: 128 FHKY--GEYFPGTG 139
H+Y G +FPG+G
Sbjct: 218 LHRYDDGNFFPGSG 231
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 227 HHAKKSEASGFCYVNDIVLG--ILELLKYHQRVLYIDVDVH 265
HHA++S GFCY N + + +L+ ++L +D DVH
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVH 198
>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 = 65.5 bits (158), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 32/89 (35%), Positives = 53/89 (59%), Gaps = 6/89 (6%)
Query: 70 HHAKKSEASGFCYVNDIVLGILELLKYHQ--RVLYIDVDVHHGDGVEEAFYTTDRVMTVS 127
HHA S A GFC+ N + + +L + + ++L +D DVHHG+G ++ FY V+ +S
Sbjct: 189 HHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQQTFYQDPSVLYIS 248
Query: 128 FHKY--GEYFPGTGDLRDM--ERVEKFNV 152
H++ G +FPG+G + ++ E FNV
Sbjct: 249 LHRHDDGNFFPGSGAVDEVGAGSGEGFNV 277
Score = 34.7 bits (78), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 227 HHAKKSEASGFCYVNDIVLGILELLKYHQ--RVLYIDVDVH 265
HHA S A GFC+ N + + +L + + ++L +D DVH
Sbjct: 189 HHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVH 229
>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 = 58.2 bits (139), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 36/113 (31%), Positives = 61/113 (53%), Gaps = 11/113 (9%)
Query: 34 DGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGL-----HHAKKSEASGFCYVND--I 86
+G E +LSAGG AV+L ++ + ++ G L HHA + A GFC N+ +
Sbjct: 105 NGGLEIARLSAGG----AVELTRRVATGELSAGYALVNPPGHHAPHNAAMGFCIFNNTSV 160
Query: 87 VLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGEYFPGTG 139
G + +RV +D DVHHG+G ++ ++ V+T+S H++ + P +G
Sbjct: 161 AAGYARAVLGMERVAILDWDVHHGNGTQDIWWNDPSVLTISLHQHLCFPPDSG 213
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 41/82 (50%), Gaps = 11/82 (13%)
Query: 191 DGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGL-----HHAKKSEASGFCYVND--I 243
+G E +LSAGG AV+L ++ + ++ G L HHA + A GFC N+ +
Sbjct: 105 NGGLEIARLSAGG----AVELTRRVATGELSAGYALVNPPGHHAPHNAAMGFCIFNNTSV 160
Query: 244 VLGILELLKYHQRVLYIDVDVH 265
G + +RV +D DVH
Sbjct: 161 AAGYARAVLGMERVAILDWDVH 182
>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 = 58.2 bits (139), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 36/113 (31%), Positives = 61/113 (53%), Gaps = 11/113 (9%)
Query: 34 DGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGL-----HHAKKSEASGFCYVND--I 86
+G E +LSAGG AV+L ++ + ++ G L HHA + A GFC N+ +
Sbjct: 111 NGGLEIARLSAGG----AVELTRRVATGELSAGYALVNPPGHHAPHNAAMGFCIFNNTSV 166
Query: 87 VLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFHKYGEYFPGTG 139
G + +RV +D DVHHG+G ++ ++ V+T+S H++ + P +G
Sbjct: 167 AAGYARAVLGMERVAILDWDVHHGNGTQDIWWNDPSVLTISLHQHLCFPPDSG 219
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 41/82 (50%), Gaps = 11/82 (13%)
Query: 191 DGLYEFCQLSAGGSVAAAVKLNKQASEICINWGGGL-----HHAKKSEASGFCYVND--I 243
+G E +LSAGG AV+L ++ + ++ G L HHA + A GFC N+ +
Sbjct: 111 NGGLEIARLSAGG----AVELTRRVATGELSAGYALVNPPGHHAPHNAAMGFCIFNNTSV 166
Query: 244 VLGILELLKYHQRVLYIDVDVH 265
G + +RV +D DVH
Sbjct: 167 AAGYARAVLGMERVAILDWDVH 188
>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 = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 26/60 (43%), Positives = 35/60 (58%)
Query: 70 HHAKKSEASGFCYVNDIVLGILELLKYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFH 129
HHA+ A GFCY+N+ + L H RV +D D+HHG G++E FY V+ VS H
Sbjct: 177 HHARVDAAGGFCYLNNAAIAAQALRARHARVAVLDTDMHHGQGIQEIFYARRDVLYVSIH 236
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%)
Query: 227 HHAKKSEASGFCYVNDIVLGILELLKYHQRVLYIDVDVH 265
HHA+ A GFCY+N+ + L H RV +D D+H
Sbjct: 177 HHARVDAAGGFCYLNNAAIAAQALRARHARVAVLDTDMH 215
>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 = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 42/84 (50%), Gaps = 5/84 (5%)
Query: 55 NKQASEICINWGGGLHHAKKSEASGFCYVNDIVLGILELL-KYHQRVLYIDVDVHHGDGV 113
+K A +C G HHA G+C++N+ + LL K +++ +DVD HHG+G
Sbjct: 146 HKAAFSLCRPPG---HHAGIDMFGGYCFINNAAVAAQRLLDKGAKKIAILDVDFHHGNGT 202
Query: 114 EEAFYTTDRVMTVSFH-KYGEYFP 136
++ FY V S H E FP
Sbjct: 203 QDIFYERGDVFFASLHGDPAEAFP 226
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 212 NKQASEICINWGGGLHHAKKSEASGFCYVNDIVLGILELL-KYHQRVLYIDVDVH 265
+K A +C G HHA G+C++N+ + LL K +++ +DVD H
Sbjct: 146 HKAAFSLCRPPG---HHAGIDMFGGYCFINNAAVAAQRLLDKGAKKIAILDVDFH 197
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 79 GFCYVNDIVLGILELL-KYHQRVLYIDVDVHHGDGVEEAFYTTDRVMTVSFH-KYGEYFP 136
G+C++N+ + LL K +++ +DVD HHG+G ++ FY V S H E FP
Sbjct: 167 GYCFINNAAVAAQRLLDKGAKKIAILDVDFHHGNGTQDIFYERGDVFFASLHGDPAEAFP 226
>pdb|3DIN|C Chain C, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
pdb|3DIN|F Chain F, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
Length = 431
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 2/62 (3%)
Query: 122 RVMTVSFHKYGEYFPGTGDLRDMERVEKFNVIESRVMFTPDFFLQILIVNPFFLYPSFPV 181
R ++ + KYG Y PG R E + + + +RV F FL ++ + P+ + + V
Sbjct: 329 REISENIRKYGGYIPGLRPGRSTE--QYLHRVLNRVTFIGAVFLVVIALLPYLVQGAIKV 386
Query: 182 NV 183
NV
Sbjct: 387 NV 388
>pdb|1REP|C Chain C, Crystal Structure Of Replication Initiator Protein Repe54
Of Mini-F Plasmid Complexed With An Iteron Dna
Length = 251
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 30/68 (44%), Gaps = 4/68 (5%)
Query: 69 LHHAKKSEASGFCYVNDIVLGILELLKYHQRVLYIDVD-VHHGDGVEEAFYTTDRVMTVS 127
++H K+ + ND+ L + +R+LY+ VD + DG + D + +
Sbjct: 7 INHKKRKNSPRIVQSNDLTEAAYSLSRDQKRMLYLFVDQIRKSDGTLQEH---DGICEIH 63
Query: 128 FHKYGEYF 135
KY E F
Sbjct: 64 VAKYAEIF 71
>pdb|2Z9O|A Chain A, Crystal Structure Of The Dimeric Form Of Repe In Complex
With The Repe Operator Dna
pdb|2Z9O|B Chain B, Crystal Structure Of The Dimeric Form Of Repe In Complex
With The Repe Operator Dna
Length = 266
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 29/68 (42%), Gaps = 4/68 (5%)
Query: 69 LHHAKKSEASGFCYVNDIVLGILELLKYHQRVLYIDVD-VHHGDGVEEAFYTTDRVMTVS 127
++H K+ + ND+ L + +R+LY+ VD + DG D + +
Sbjct: 22 INHKKRKNSPRIVQSNDLTEAAYSLSRDQKRMLYLFVDQIRKSDGT---LQEHDGICEIH 78
Query: 128 FHKYGEYF 135
KY E F
Sbjct: 79 VAKYAEIF 86
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
0.326 0.144 0.454
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,694,404
Number of Sequences: 62578
Number of extensions: 368803
Number of successful extensions: 1029
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 951
Number of HSP's gapped (non-prelim): 56
length of query: 265
length of database: 14,973,337
effective HSP length: 97
effective length of query: 168
effective length of database: 8,903,271
effective search space: 1495749528
effective search space used: 1495749528
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)