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= 013038
(451 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 485 bits (1248), Expect = e-137, Method: Compositional matrix adjust.
Identities = 225/394 (57%), Positives = 289/394 (73%), Gaps = 23/394 (5%)
Query: 7 ISYFYDGDVGSVYFGPNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSA 66
++YFYD DVG+ ++G HPMKPHRL +TH LVL Y L+KKM +++P++A ++ +FHS
Sbjct: 5 VAYFYDPDVGNFHYGAGHPMKPHRLALTHSLVLHYGLYKKMIVFKPYQASQHDMCRFHSE 64
Query: 67 DYVEFLHRITPDTQHLFRQELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCD 126
DY++FL R++P F + L +N+G+DCPVF LFEFC Y G ++ A +LNN++CD
Sbjct: 65 DYIDFLQRVSPTNMQGFTKSLNAFNVGDDCPVFPGLFEFCSRYTGASLQGATQLNNKICD 124
Query: 127 IAINWAGGLHHAKKCEASGFCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFT 186
IAINWAGGLHHAKK EASGFCY+ND+V+GILELLKYH RVLYIDID+HHGDGV+EAFY T
Sbjct: 125 IAINWAGGLHHAKKFEASGFCYVNDIVIGILELLKYHPRVLYIDIDIHHGDGVQEAFYLT 184
Query: 187 DRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVP 246
DR VMTVSFHK+G+ FFPGTGD+ E+G G++Y +NVP
Sbjct: 185 DR----------------------VMTVSFHKYGNYFFPGTGDMYEVGAESGRYYCLNVP 222
Query: 247 LKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRF 306
L+DGIDD S+ LF+ +I++VV+ Y P IVLQCGADSL DRLGCFNLSI GH ECV +
Sbjct: 223 LRDGIDDQSYKHLFQPVINQVVDFYQPTCIVLQCGADSLGCDRLGCFNLSIRGHGECVEY 282
Query: 307 VKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIP- 365
VK FN+PLLV GGGGYT NVARCWT ET +L++ + E+P +EY +YFAP+ +L
Sbjct: 283 VKSFNIPLLVLGGGGYTVRNVARCWTYETSLLVEEAISEELPYSEYFEYFAPDFTLHPDV 342
Query: 366 NGHIENLNSKSYLSTIKMQVLENLRSIQHAPSVQ 399
+ IEN NS+ YL I+ + ENL+ + HAPSVQ
Sbjct: 343 STRIENQNSRQYLDQIRQTIFENLKMLNHAPSVQ 376
>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 = 476 bits (1226), Expect = e-135, Method: Compositional matrix adjust.
Identities = 226/390 (57%), Positives = 295/390 (75%), Gaps = 23/390 (5%)
Query: 3 SKDKISYFYDGDVGSVYFGPNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQ 62
+K K+ Y+YDGD+G+ Y+G HPMKPHR+ MTH+L+L+Y L++KMEIYRPHKA E+ +
Sbjct: 1 AKKKVCYYYDGDIGNYYYGQGHPMKPHRIRMTHNLLLNYGLYRKMEIYRPHKATAEEMTK 60
Query: 63 FHSADYVEFLHRITPDTQHLFRQELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNN 122
+HS +Y++FL I PD + +++ ++N+GEDCPVF+ LFEFCQ+ GG++ A +LN
Sbjct: 61 YHSDEYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGSVAGAVKLNR 120
Query: 123 QLCDIAINWAGGLHHAKKCEASGFCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEA 182
Q D+A+NWAGGLHHAKK EASGFCY+ND+VL ILELLKYH RVLYIDID+HHGDGVEEA
Sbjct: 121 QQTDMAVNWAGGLHHAKKSEASGFCYVNDIVLAILELLKYHQRVLYIDIDIHHGDGVEEA 180
Query: 183 FYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYA 242
FY TDR VMTVSFHK+G+ +FPGTGD+++IG +GK+YA
Sbjct: 181 FYTTDR----------------------VMTVSFHKYGE-YFPGTGDLRDIGAGKGKYYA 217
Query: 243 INVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAE 302
+N P++DGIDD S+ ++FK IISKV+E Y P A+VLQCGADSL+GDRLGCFNL++ GHA+
Sbjct: 218 VNFPMRDGIDDESYGQIFKPIISKVMEMYQPSAVVLQCGADSLSGDRLGCFNLTVKGHAK 277
Query: 303 CVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPENEYIKYFAPECSL 362
CV VK FNLPLL+ GGGGYT NVARCWT ET + LD E+PNE+P N+Y +YF P+ L
Sbjct: 278 CVEVVKTFNLPLLMLGGGGYTIRNVARCWTYETAVALDCEIPNELPYNDYFEYFGPDFKL 337
Query: 363 RIPNGHIENLNSKSYLSTIKMQVLENLRSI 392
I ++ N N+ Y+ IK ++ ENLR +
Sbjct: 338 HISPSNMTNQNTPEYMEKIKQRLFENLRML 367
>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 = 303 bits (775), Expect = 2e-82, Method: Compositional matrix adjust.
Identities = 149/367 (40%), Positives = 223/367 (60%), Gaps = 27/367 (7%)
Query: 28 PHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITP--DTQHLFRQ 85
P R M H L+ +Y LHK+M I +P A E+A FH+ Y++ L +++ D H
Sbjct: 36 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDH---P 92
Query: 86 ELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASG 145
+ +Y LG DCP E +F++ G TI AA+ L + +C +AINW+GG HHAKK EASG
Sbjct: 93 DSIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASG 152
Query: 146 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT
Sbjct: 153 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTS------------------ 194
Query: 206 YPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIIS 265
KVMTVS HKF FFPGTGDV ++G +G++Y++NVP++DGI D + ++ ++++
Sbjct: 195 ----KVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLK 250
Query: 266 KVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325
+V + + P A+VLQ GAD++AGD + FN++ G +C++++ ++ L L+ GGGGY
Sbjct: 251 EVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLA 310
Query: 326 NVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQV 385
N ARCWT TG++L L +EIP++E+ + P+ L I + N + I +
Sbjct: 311 NTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 370
Query: 386 LENLRSI 392
NL+ +
Sbjct: 371 KGNLKHV 377
>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 = 302 bits (774), Expect = 2e-82, Method: Compositional matrix adjust.
Identities = 149/367 (40%), Positives = 223/367 (60%), Gaps = 27/367 (7%)
Query: 28 PHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITP--DTQHLFRQ 85
P R M H L+ +Y LHK+M I +P A E+A FH+ Y++ L +++ D H
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDH---P 91
Query: 86 ELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASG 145
+ +Y LG DCP E +F++ G TI AA+ L + +C +AINW+GG HHAKK EASG
Sbjct: 92 DSIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASG 151
Query: 146 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTS------------------ 193
Query: 206 YPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIIS 265
KVMTVS HKF FFPGTGDV ++G +G++Y++NVP++DGI D + ++ ++++
Sbjct: 194 ----KVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLK 249
Query: 266 KVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325
+V + + P A+VLQ GAD++AGD + FN++ G +C++++ ++ L L+ GGGGY
Sbjct: 250 EVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLA 309
Query: 326 NVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQV 385
N ARCWT TG++L L +EIP++E+ + P+ L I + N + I +
Sbjct: 310 NTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
Query: 386 LENLRSI 392
NL+ +
Sbjct: 370 KGNLKHV 376
>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 = 302 bits (774), Expect = 2e-82, Method: Compositional matrix adjust.
Identities = 149/367 (40%), Positives = 223/367 (60%), Gaps = 27/367 (7%)
Query: 28 PHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITP--DTQHLFRQ 85
P R M H L+ +Y LHK+M I +P A E+A FH+ Y++ L +++ D H
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDH---P 91
Query: 86 ELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASG 145
+ +Y LG DCP E +F++ G TI AA+ L + +C +AINW+GG HHAKK EASG
Sbjct: 92 DSIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASG 151
Query: 146 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTS------------------ 193
Query: 206 YPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIIS 265
KVMTVS HKF FFPGTGDV ++G +G++Y++NVP++DGI D + ++ ++++
Sbjct: 194 ----KVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLK 249
Query: 266 KVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325
+V + + P A+VLQ GAD++AGD + FN++ G +C++++ ++ L L+ GGGGY
Sbjct: 250 EVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLA 309
Query: 326 NVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQV 385
N ARCWT TG++L L +EIP++E+ + P+ L I + N + I +
Sbjct: 310 NTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
Query: 386 LENLRSI 392
NL+ +
Sbjct: 370 KGNLKHV 376
>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 = 302 bits (773), Expect = 3e-82, Method: Compositional matrix adjust.
Identities = 149/367 (40%), Positives = 223/367 (60%), Gaps = 27/367 (7%)
Query: 28 PHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITP--DTQHLFRQ 85
P R M H L+ +Y LHK+M I +P A E+A FH+ Y++ L +++ D H
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDH---P 91
Query: 86 ELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASG 145
+ +Y LG DCP E +F++ G TI AA+ L + +C +AINW+GG HHAKK EASG
Sbjct: 92 DSIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASG 151
Query: 146 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTS------------------ 193
Query: 206 YPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIIS 265
KVMTVS HKF FFPGTGDV ++G +G++Y++NVP++DGI D + ++ ++++
Sbjct: 194 ----KVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLK 249
Query: 266 KVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325
+V + + P A+VLQ GAD++AGD + FN++ G +C++++ ++ L L+ GGGGY
Sbjct: 250 EVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLA 309
Query: 326 NVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQV 385
N ARCWT TG++L L +EIP++E+ + P+ L I + N + I +
Sbjct: 310 NTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
Query: 386 LENLRSI 392
NL+ +
Sbjct: 370 KGNLKHV 376
>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 = 301 bits (771), Expect = 5e-82, Method: Compositional matrix adjust.
Identities = 149/367 (40%), Positives = 223/367 (60%), Gaps = 27/367 (7%)
Query: 28 PHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITP--DTQHLFRQ 85
P R M H L+ +Y LHK+M I +P A E+A FH+ Y++ L +++ D H
Sbjct: 35 PKRADMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDH---P 91
Query: 86 ELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASG 145
+ +Y LG DCP E +F++ G TI AA+ L + +C +AINW+GG HHAKK EASG
Sbjct: 92 DSIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASG 151
Query: 146 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTS------------------ 193
Query: 206 YPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIIS 265
KVMTVS HKF FFPGTGDV ++G +G++Y++NVP++DGI D + ++ ++++
Sbjct: 194 ----KVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLK 249
Query: 266 KVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325
+V + + P A+VLQ GAD++AGD + FN++ G +C++++ ++ L L+ GGGGY
Sbjct: 250 EVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLA 309
Query: 326 NVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQV 385
N ARCWT TG++L L +EIP++E+ + P+ L I + N + I +
Sbjct: 310 NTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
Query: 386 LENLRSI 392
NL+ +
Sbjct: 370 KGNLKHV 376
>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 = 301 bits (770), Expect = 6e-82, Method: Compositional matrix adjust.
Identities = 148/367 (40%), Positives = 223/367 (60%), Gaps = 27/367 (7%)
Query: 28 PHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITP--DTQHLFRQ 85
P R M H L+ +Y LHK+M I +P A E+A FH+ Y++ L +++ D H
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDH---P 91
Query: 86 ELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASG 145
+ +Y LG DCP E +F++ G TI AA+ L + +C +AINW+GG HHAKK EASG
Sbjct: 92 DSIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASG 151
Query: 146 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTS------------------ 193
Query: 206 YPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIIS 265
KVMTVS HKF FFPGTGDV ++G +G++Y++NVP++DGI D + ++ ++++
Sbjct: 194 ----KVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLK 249
Query: 266 KVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325
+V + + P A+VLQ GAD++AGD + FN++ G +C++++ ++ L L+ GGGG+
Sbjct: 250 EVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGFNLA 309
Query: 326 NVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQV 385
N ARCWT TG++L L +EIP++E+ + P+ L I + N + I +
Sbjct: 310 NTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
Query: 386 LENLRSI 392
NL+ +
Sbjct: 370 KGNLKHV 376
>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 = 301 bits (770), Expect = 7e-82, Method: Compositional matrix adjust.
Identities = 148/367 (40%), Positives = 223/367 (60%), Gaps = 27/367 (7%)
Query: 28 PHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITP--DTQHLFRQ 85
P R M H L+ +Y LHK+M I +P A E+A FH+ Y++ L +++ D H
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDH---P 91
Query: 86 ELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASG 145
+ +Y LG +CP E +F++ G TI AA+ L + +C +AINW+GG HHAKK EASG
Sbjct: 92 DSIEYGLGYECPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASG 151
Query: 146 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTS------------------ 193
Query: 206 YPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIIS 265
KVMTVS HKF FFPGTGDV ++G +G++Y++NVP++DGI D + ++ ++++
Sbjct: 194 ----KVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLK 249
Query: 266 KVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325
+V + + P A+VLQ GAD++AGD + FN++ G +C++++ ++ L L+ GGGGY
Sbjct: 250 EVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLA 309
Query: 326 NVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQV 385
N ARCWT TG++L L +EIP++E+ + P+ L I + N + I +
Sbjct: 310 NTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
Query: 386 LENLRSI 392
NL+ +
Sbjct: 370 KGNLKHV 376
>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 = 301 bits (770), Expect = 7e-82, Method: Compositional matrix adjust.
Identities = 148/367 (40%), Positives = 223/367 (60%), Gaps = 27/367 (7%)
Query: 28 PHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITP--DTQHLFRQ 85
P R M H L+ +Y LHK+M I +P A E+A FH+ Y++ L +++ D H
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDH---P 91
Query: 86 ELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASG 145
+ +Y LG +CP E +F++ G TI AA+ L + +C +AINW+GG HHAKK EASG
Sbjct: 92 DSIEYGLGYNCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASG 151
Query: 146 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTS------------------ 193
Query: 206 YPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIIS 265
KVMTVS HKF FFPGTGDV ++G +G++Y++NVP++DGI D + ++ ++++
Sbjct: 194 ----KVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLK 249
Query: 266 KVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325
+V + + P A+VLQ GAD++AGD + FN++ G +C++++ ++ L L+ GGGGY
Sbjct: 250 EVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLA 309
Query: 326 NVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQV 385
N ARCWT TG++L L +EIP++E+ + P+ L I + N + I +
Sbjct: 310 NTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
Query: 386 LENLRSI 392
NL+ +
Sbjct: 370 KGNLKHV 376
>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 = 300 bits (767), Expect = 1e-81, Method: Compositional matrix adjust.
Identities = 148/367 (40%), Positives = 222/367 (60%), Gaps = 27/367 (7%)
Query: 28 PHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITP--DTQHLFRQ 85
P R M H L+ +Y LHK+M I +P A E+A FH+ Y++ L +++ D H
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDH---P 91
Query: 86 ELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASG 145
+ +Y LG CP E +F++ G TI AA+ L + +C +AINW+GG HHAKK EASG
Sbjct: 92 DSIEYGLGYACPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASG 151
Query: 146 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTS------------------ 193
Query: 206 YPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIIS 265
KVMTVS HKF FFPGTGDV ++G +G++Y++NVP++DGI D + ++ ++++
Sbjct: 194 ----KVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLK 249
Query: 266 KVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325
+V + + P A+VLQ GAD++AGD + FN++ G +C++++ ++ L L+ GGGGY
Sbjct: 250 EVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLA 309
Query: 326 NVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQV 385
N ARCWT TG++L L +EIP++E+ + P+ L I + N + I +
Sbjct: 310 NTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
Query: 386 LENLRSI 392
NL+ +
Sbjct: 370 KGNLKHV 376
>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 = 299 bits (766), Expect = 2e-81, Method: Compositional matrix adjust.
Identities = 148/367 (40%), Positives = 222/367 (60%), Gaps = 27/367 (7%)
Query: 28 PHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITP--DTQHLFRQ 85
P R M H L+ +Y LHK+M I +P A E+A FH+ Y++ L +++ D H
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDH---P 91
Query: 86 ELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASG 145
+ +Y LG DCP E +F++ G TI AA+ L + +C +AINW+GG H AKK EASG
Sbjct: 92 DSIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHAAKKDEASG 151
Query: 146 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTS------------------ 193
Query: 206 YPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIIS 265
KVMTVS HKF FFPGTGDV ++G +G++Y++NVP++DGI D + ++ ++++
Sbjct: 194 ----KVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLK 249
Query: 266 KVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325
+V + + P A+VLQ GAD++AGD + FN++ G +C++++ ++ L L+ GGGGY
Sbjct: 250 EVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLA 309
Query: 326 NVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQV 385
N ARCWT TG++L L +EIP++E+ + P+ L I + N + I +
Sbjct: 310 NTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
Query: 386 LENLRSI 392
NL+ +
Sbjct: 370 KGNLKHV 376
>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 = 299 bits (765), Expect = 3e-81, Method: Compositional matrix adjust.
Identities = 148/367 (40%), Positives = 222/367 (60%), Gaps = 27/367 (7%)
Query: 28 PHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITP--DTQHLFRQ 85
P R M H L+ +Y LHK+M I +P A E+A FH+ Y++ L +++ D H
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDH---P 91
Query: 86 ELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASG 145
+ +Y LG CP E +F++ G TI AA+ L + +C +AINW+GG HHAKK EASG
Sbjct: 92 DSIEYGLGYLCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASG 151
Query: 146 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTS------------------ 193
Query: 206 YPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIIS 265
KVMTVS HKF FFPGTGDV ++G +G++Y++NVP++DGI D + ++ ++++
Sbjct: 194 ----KVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLK 249
Query: 266 KVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325
+V + + P A+VLQ GAD++AGD + FN++ G +C++++ ++ L L+ GGGGY
Sbjct: 250 EVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLA 309
Query: 326 NVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQV 385
N ARCWT TG++L L +EIP++E+ + P+ L I + N + I +
Sbjct: 310 NTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
Query: 386 LENLRSI 392
NL+ +
Sbjct: 370 KGNLKHV 376
>pdb|3EW8|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101l Variant
Length = 388
Score = 298 bits (764), Expect = 3e-81, Method: Compositional matrix adjust.
Identities = 148/367 (40%), Positives = 222/367 (60%), Gaps = 27/367 (7%)
Query: 28 PHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITP--DTQHLFRQ 85
P R M H L+ +Y LHK+M I +P A E+A FH+ Y++ L +++ D H
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDH---P 91
Query: 86 ELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASG 145
+ +Y LG CP E +F++ G TI AA+ L + +C +AINW+GG HHAKK EASG
Sbjct: 92 DSIEYGLGYLCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASG 151
Query: 146 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTS------------------ 193
Query: 206 YPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIIS 265
KVMTVS HKF FFPGTGDV ++G +G++Y++NVP++DGI D + ++ ++++
Sbjct: 194 ----KVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLK 249
Query: 266 KVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325
+V + + P A+VLQ GAD++AGD + FN++ G +C++++ ++ L L+ GGGGY
Sbjct: 250 EVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLA 309
Query: 326 NVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQV 385
N ARCWT TG++L L +EIP++E+ + P+ L I + N + I +
Sbjct: 310 NTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
Query: 386 LENLRSI 392
NL+ +
Sbjct: 370 KGNLKHV 376
>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 = 151 bits (381), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 116/343 (33%), Positives = 166/343 (48%), Gaps = 40/343 (11%)
Query: 14 DVGSVYFGPNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLH 73
D G + NHP+K R+ + + +L + E+ + A EL FH+ DY+ L
Sbjct: 11 DYGKYRYPKNHPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLLFHTEDYINTLM 70
Query: 74 RITPDTQHLFRQELTKYNLGE-DCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWA 132
+Q + + KYN+G + PV +F + G T+ A ++A N A
Sbjct: 71 E-AERSQSVPKGAREKYNIGGYENPVSYAMFTGSSLATGSTVQAIEEFLK--GNVAFNPA 127
Query: 133 GGLHHAKKCEASGFCYINDLVLGILELLKY-HARVLYIDIDVHHGDGVEEAFYFTDRLLQ 191
GG+HHA K A+GFCYIN+ +GI L K R+LYID+D HH DGV+EAFY TD+
Sbjct: 128 GGMHHAFKSRANGFCYINNPAVGIEYLRKKGFKRILYIDLDAHHCDGVQEAFYDTDQ--- 184
Query: 192 TCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFP-GTGDVKEIGEREGKFYAINVPLKDG 250
V +S H+ + FP G ++EIGE +GK Y +N+PL G
Sbjct: 185 -------------------VFVLSLHQSPEYAFPFEKGFLEEIGEGKGKGYNLNIPLPKG 225
Query: 251 IDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKF 310
++D F + + V E + P +LQ G D L D L FNLS V F+K F
Sbjct: 226 LNDNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKFNLS------NVAFLKAF 279
Query: 311 NLPLLV------TGGGGYTKENVARCWTVETGILLDTELPNEI 347
N+ V GGGGY +AR WT+ L E+P ++
Sbjct: 280 NIVREVFGEGVYLGGGGYHPYALARAWTLIWCELSGREVPEKL 322
>pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog From Aquifex Aeolicus
Length = 375
Score = 148 bits (374), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 116/343 (33%), Positives = 165/343 (48%), Gaps = 40/343 (11%)
Query: 14 DVGSVYFGPNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLH 73
D G + NHP+K R+ + + +L + E+ + A EL FH+ DY+ L
Sbjct: 11 DYGKYRYPKNHPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLLFHTEDYINTLM 70
Query: 74 RITPDTQHLFRQELTKYNLGE-DCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWA 132
Q + + KYN+G + PV +F + G T+ A ++A N A
Sbjct: 71 E-AERCQCVPKGAREKYNIGGYENPVSYAMFTGSSLATGSTVQAIEEFLK--GNVAFNPA 127
Query: 133 GGLHHAKKCEASGFCYINDLVLGILELLKY-HARVLYIDIDVHHGDGVEEAFYFTDRLLQ 191
GG+HHA K A+GFCYIN+ +GI L K R+LYID+D HH DGV+EAFY TD+
Sbjct: 128 GGMHHAFKSRANGFCYINNPAVGIEYLRKKGFKRILYIDLDAHHCDGVQEAFYDTDQ--- 184
Query: 192 TCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFP-GTGDVKEIGEREGKFYAINVPLKDG 250
V +S H+ + FP G ++EIGE +GK Y +N+PL G
Sbjct: 185 -------------------VFVLSLHQSPEYAFPFEKGFLEEIGEGKGKGYNLNIPLPKG 225
Query: 251 IDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKF 310
++D F + + V E + P +LQ G D L D L FNLS V F+K F
Sbjct: 226 LNDNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKFNLS------NVAFLKAF 279
Query: 311 NLPLLV------TGGGGYTKENVARCWTVETGILLDTELPNEI 347
N+ V GGGGY +AR WT+ L E+P ++
Sbjct: 280 NIVREVFGEGVYLGGGGYHPYALARAWTLIWCELSGREVPEKL 322
>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 = 89.0 bits (219), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 83/319 (26%), Positives = 134/319 (42%), Gaps = 66/319 (20%)
Query: 23 NHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITPDTQHL 82
+HP R+ + L K E R KA EL HS H + T L
Sbjct: 30 SHPEHAGRIQSIWSRLQETGLRGKCEAIRGRKATLEELQTVHSEA-----HTLLYGTNPL 84
Query: 83 FRQEL-TKYNLGEDCPVFENL----------FEFCQIYAGGTIDAARRLNNQLCDIAINW 131
RQ+L +K LG VF L + ++++ G AAR + ++
Sbjct: 85 NRQKLDSKKLLGSLASVFVRLPCGGVGVDSDTIWNEVHSAG---AARLAVGCVVELVFKV 141
Query: 132 AGG------------LHHAKKCEASGFCYINDLVLG--ILELLKYHARVLYIDIDVHHGD 177
A G HHA++ GFCY N + + +L+ +++L +D DVHHG+
Sbjct: 142 ATGELKNGFAVVRPPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGN 201
Query: 178 GVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDL-FFPGTGDVKEIGER 236
G ++AF Y D V+ +S H++ D FFPG+G E+G
Sbjct: 202 GTQQAF----------------------YSDPSVLYMSLHRYDDGNFFPGSGAPDEVGTG 239
Query: 237 EGKFYAINVPLKDGID----DTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG--DRL 290
G + +N+ G+D D + F+T++ + +AP +++ G D++ G L
Sbjct: 240 PGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPL 299
Query: 291 GCFNLSIDGHAECVRFVKK 309
G +NLS A C ++ K
Sbjct: 300 GGYNLS----ARCFGYLTK 314
>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 = 89.0 bits (219), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 83/319 (26%), Positives = 134/319 (42%), Gaps = 66/319 (20%)
Query: 23 NHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITPDTQHL 82
+HP R+ + L K E R KA EL HS H + T L
Sbjct: 30 SHPEHAGRIQSIWSRLQETGLRGKCEAIRGRKATLEELQTVHSEA-----HTLLYGTNPL 84
Query: 83 FRQEL-TKYNLGEDCPVFENL----------FEFCQIYAGGTIDAARRLNNQLCDIAINW 131
RQ+L +K LG VF L + ++++ G AAR + ++
Sbjct: 85 NRQKLDSKKLLGSLASVFVRLPCGGVGVDSDTIWNEVHSAG---AARLAVGCVVELVFKV 141
Query: 132 AGG------------LHHAKKCEASGFCYINDLVLG--ILELLKYHARVLYIDIDVHHGD 177
A G HHA++ GFCY N + + +L+ +++L +D DVHHG+
Sbjct: 142 ATGELKNGFAVVRPPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGN 201
Query: 178 GVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDL-FFPGTGDVKEIGER 236
G ++AF Y D V+ +S H++ D FFPG+G E+G
Sbjct: 202 GTQQAF----------------------YSDPSVLYMSLHRYDDGNFFPGSGAPDEVGTG 239
Query: 237 EGKFYAINVPLKDGID----DTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG--DRL 290
G + +N+ G+D D + F+T++ + +AP +++ G D++ G L
Sbjct: 240 PGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPL 299
Query: 291 GCFNLSIDGHAECVRFVKK 309
G +NLS A C ++ K
Sbjct: 300 GGYNLS----ARCFGYLTK 314
>pdb|2VQW|G Chain G, Structure Of Inhibitor-Free Hdac4 Catalytic Domain (With
Gain-Of-Function Mutation His332tyr)
Length = 413
Score = 88.6 bits (218), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 95/366 (25%), Positives = 150/366 (40%), Gaps = 76/366 (20%)
Query: 23 NHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITPDTQHL 82
+HP R+ + L K E R KA EL HS H + T L
Sbjct: 30 SHPEHAGRIQSIWSRLQETGLRGKCECIRGRKATLEELQTVHSEA-----HTLLYGTNPL 84
Query: 83 FRQEL-TKYNLGEDCPVFENL----------FEFCQIYAGGTIDAARRLNNQLCDIAINW 131
RQ+L +K LG VF L + ++++ G AAR + ++
Sbjct: 85 NRQKLDSKKLLGSLASVFVRLPCGGVGVDSDTIWNEVHSAG---AARLAVGCVVELVFKV 141
Query: 132 AGG------------LHHAKKCEASGFCYINDLVLG--ILELLKYHARVLYIDIDVHHGD 177
A G HHA++ GFCY N + + +L+ +++L +D DVHHG+
Sbjct: 142 ATGELKNGFAVVRPPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGN 201
Query: 178 GVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDL-FFPGTGDVKEIGER 236
G ++AF Y D V+ +S H++ D FFPG+G E+G
Sbjct: 202 GTQQAF----------------------YSDPSVLYMSLHRYDDGNFFPGSGAPDEVGTG 239
Query: 237 EGKFYAINVPLKDGID----DTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG--DRL 290
G + +N+ G+D D + F+T++ + +AP +++ G D++ G L
Sbjct: 240 PGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPL 299
Query: 291 GCFNLSIDGHAECVRFVKKFNLPLLVTGG-------GGYTKENVARCWTVETGILLDTEL 343
G +NLS A C ++ K + L GG GGY + LL EL
Sbjct: 300 GGYNLS----ARCFGYLTKQLMGL--AGGRIVLALEGGYDLTAICDASEACVSALLGNEL 353
Query: 344 PNEIPE 349
+ +PE
Sbjct: 354 -DPLPE 358
>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 = 88.6 bits (218), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 83/319 (26%), Positives = 134/319 (42%), Gaps = 66/319 (20%)
Query: 23 NHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITPDTQHL 82
+HP R+ + L K E R KA EL HS H + T L
Sbjct: 30 SHPEHAGRIQSIWSRLQETGLRGKCECIRGRKATLEELQTVHSEA-----HTLLYGTNPL 84
Query: 83 FRQEL-TKYNLGEDCPVFENL----------FEFCQIYAGGTIDAARRLNNQLCDIAINW 131
RQ+L +K LG VF L + ++++ G AAR + ++
Sbjct: 85 NRQKLDSKKLLGSLASVFVRLPCGGVGVDSDTIWNEVHSAG---AARLAVGCVVELVFKV 141
Query: 132 AGG------------LHHAKKCEASGFCYINDLVLG--ILELLKYHARVLYIDIDVHHGD 177
A G HHA++ GFCY N + + +L+ +++L +D DVHHG+
Sbjct: 142 ATGELKNGFAVVRPPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGN 201
Query: 178 GVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDL-FFPGTGDVKEIGER 236
G ++AF Y D V+ +S H++ D FFPG+G E+G
Sbjct: 202 GTQQAF----------------------YSDPSVLYMSLHRYDDGNFFPGSGAPDEVGTG 239
Query: 237 EGKFYAINVPLKDGID----DTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG--DRL 290
G + +N+ G+D D + F+T++ + +AP +++ G D++ G L
Sbjct: 240 PGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPL 299
Query: 291 GCFNLSIDGHAECVRFVKK 309
G +NLS A C ++ K
Sbjct: 300 GGYNLS----ARCFGYLTK 314
>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 = 79.3 bits (194), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 78/316 (24%), Positives = 129/316 (40%), Gaps = 61/316 (19%)
Query: 24 HPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEF-----LHRITPD 78
HP R+ + L + E R KA EL HS +V L R+ D
Sbjct: 61 HPEHAGRIQSIWSRLQERGLRSQCECLRGRKASLEELQSVHSERHVLLYGTNPLSRLKLD 120
Query: 79 --------TQHLFRQELTKYNLGEDCPVFENLFEFCQI--YAGGTID------AARRLNN 122
Q +F L +G D N +A G++ A+R L N
Sbjct: 121 NGKLAGLLAQRMFVM-LPCGGVGVDTDTIWNELHSSNAARWAAGSVTDLAFKVASRELKN 179
Query: 123 QLCDIAINWAGGLHHAKKCEASGFCYINDLVLGILELLKYH--ARVLYIDIDVHHGDGVE 180
A+ G HHA A GFC+ N + + +L + +++L +D DVHHG+G +
Sbjct: 180 ---GFAVVRPPG-HHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQ 235
Query: 181 EAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDL-FFPGTGDVKEIGEREGK 239
+ F Y D V+ +S H+ D FFPG+G V E+G G+
Sbjct: 236 QTF----------------------YQDPSVLYISLHRHDDGNFFPGSGAVDEVGAGSGE 273
Query: 240 FYAINVPLKDGID----DTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG--DRLGCF 293
+ +NV G+D D + F+ ++ + ++P +++ G D+ G LG +
Sbjct: 274 GFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGY 333
Query: 294 NLSIDGHAECVRFVKK 309
++S A+C ++ +
Sbjct: 334 HVS----AKCFGYMTQ 345
>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 = 78.2 bits (191), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 55/193 (28%), Positives = 82/193 (42%), Gaps = 24/193 (12%)
Query: 136 HHAKKCEASGFCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRY 195
HHA+ A GFCY+N+ + L HARV +D D+HHG G++E FY
Sbjct: 177 HHARVDAAGGFCYLNNAAIAAQALRARHARVAVLDTDMHHGQGIQEIFYARR-------- 228
Query: 196 NLTKYLILVTYPDVKVMTVSFHKFGDLFFPG-TGDVKEIGEREGKFYAINVPLKDGIDDT 254
V+ VS H F+P G E G EG Y +N+P+ G +
Sbjct: 229 --------------DVLYVSIHGDPTNFYPAVAGFDDERGAGEGLGYNVNLPMPHGSSEA 274
Query: 255 SFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPL 314
+F + + + +AP A+VL G D D ++ DG + LP
Sbjct: 275 AFFERVDDALRE-LRRFAPDALVLSLGFDVYRDDPQSQVAVTTDGFGRLGHLIGALRLPT 333
Query: 315 LVTGGGGYTKENV 327
++ GGY E++
Sbjct: 334 VIVQEGGYHIESL 346
>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 = 72.4 bits (176), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 63/258 (24%), Positives = 105/258 (40%), Gaps = 39/258 (15%)
Query: 54 KAYPVELAQFHSADYVEFLHRITPDTQHLFRQELTKYNLGEDCPVFENL-FEFCQIYAGG 112
A ++ + HSA ++E + R++ T + G+ + N E ++ AGG
Sbjct: 66 AATDADILRAHSAAHLENMKRVS--------NLPTGGDTGDGITMMGNGGLEIARLSAGG 117
Query: 113 TIDAARRLNNQLCDIA---INWAGGLHHAKKCEASGFCYIND--LVLGILELLKYHARVL 167
++ RR+ +N G HHA A GFC N+ + G + RV
Sbjct: 118 AVELTRRVATGELSAGYALVNPPG--HHAPHNAAMGFCIFNNTSVAAGYARAVLGMERVA 175
Query: 168 YIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFPGT 227
+D DVHHG+G ++ + + D V+T+S H+ F P +
Sbjct: 176 ILDWDVHHGNGTQD----------------------IWWNDPSVLTISLHQH-LCFPPDS 212
Query: 228 GDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG 287
G E G G Y INVPL G + ++ ++ + Y P I++ G D+
Sbjct: 213 GYSTERGAGNGHGYNINVPLPPGSGNAAYLHAMDQVVLPALRAYRPQLIIVGSGFDASML 272
Query: 288 DRLGCFNLSIDGHAECVR 305
D L ++ DG + R
Sbjct: 273 DPLARMMVTADGFRQMAR 290
>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 = 72.4 bits (176), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 63/258 (24%), Positives = 105/258 (40%), Gaps = 39/258 (15%)
Query: 54 KAYPVELAQFHSADYVEFLHRITPDTQHLFRQELTKYNLGEDCPVFENL-FEFCQIYAGG 112
A ++ + HSA ++E + R++ T + G+ + N E ++ AGG
Sbjct: 72 AATDADILRAHSAAHLENMKRVS--------NLPTGGDTGDGITMMGNGGLEIARLSAGG 123
Query: 113 TIDAARRLNNQLCDIA---INWAGGLHHAKKCEASGFCYIND--LVLGILELLKYHARVL 167
++ RR+ +N G HHA A GFC N+ + G + RV
Sbjct: 124 AVELTRRVATGELSAGYALVNPPG--HHAPHNAAMGFCIFNNTSVAAGYARAVLGMERVA 181
Query: 168 YIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFPGT 227
+D DVHHG+G ++ + + D V+T+S H+ F P +
Sbjct: 182 ILDWDVHHGNGTQD----------------------IWWNDPSVLTISLHQH-LCFPPDS 218
Query: 228 GDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG 287
G E G G Y INVPL G + ++ ++ + Y P I++ G D+
Sbjct: 219 GYSTERGAGNGHGYNINVPLPPGSGNAAYLHAMDQVVLPALRAYRPQLIIVGSGFDASML 278
Query: 288 DRLGCFNLSIDGHAECVR 305
D L ++ DG + R
Sbjct: 279 DPLARMMVTADGFRQMAR 296
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 46/189 (24%), Positives = 73/189 (38%), Gaps = 25/189 (13%)
Query: 136 HHAKKCEASGFCYINDLVLGILELL-KYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCR 194
HHA G+C+IN+ + LL K ++ +D+D HHG+G ++ FY
Sbjct: 158 HHAGIDMFGGYCFINNAAVAAQRLLDKGAKKIAILDVDFHHGNGTQDIFYERG------- 210
Query: 195 YNLTKYLILVTYPDVKVMTVSFHKFGDLFFPG-TGDVKEIGEREGKFYAINVPLKDGIDD 253
V S H FP G +E G+ G N P+ G
Sbjct: 211 ---------------DVFFASLHGDPAEAFPHFLGYAEETGKGAGAGTTANYPMGRGTPY 255
Query: 254 TSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLP 313
+ + + ++ + AIV+ G D+ D + F L+ + R + +P
Sbjct: 256 SVWGEALTDSLKRIA-AFGAEAIVVSLGVDTFEQDPISFFKLTSPDYITMGRTIAASGVP 314
Query: 314 LLVTGGGGY 322
LLV GGY
Sbjct: 315 LLVVMEGGY 323
>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 = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 43/181 (23%), Positives = 70/181 (38%), Gaps = 25/181 (13%)
Query: 144 SGFCYINDLVLGILELL-KYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLI 202
G+C+IN+ + LL K ++ +D+D HHG+G ++ FY
Sbjct: 166 GGYCFINNAAVAAQRLLDKGAKKIAILDVDFHHGNGTQDIFYERG--------------- 210
Query: 203 LVTYPDVKVMTVSFHKFGDLFFPG-TGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFK 261
V S H FP G +E G+ G N P+ G + +
Sbjct: 211 -------DVFFASLHGDPAEAFPHFLGYAEETGKGAGAGTTANYPMGRGTPYSVWGEALT 263
Query: 262 TIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGG 321
+ ++ + AIV+ G D+ D + F L+ + R + +PLLV GG
Sbjct: 264 DSLKRIA-AFGAEAIVVSLGVDTFEQDPISFFKLTSPDYITMGRTIAASGVPLLVVMEGG 322
Query: 322 Y 322
Y
Sbjct: 323 Y 323
>pdb|3FY3|A Chain A, Crystal Structure Of Truncated Hemolysin A From P.
Mirabilis
Length = 236
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 30/62 (48%)
Query: 69 VEFLHRITPDTQHLFRQELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIA 128
+ ++ +TP+ + + + +N+G+ VF N E Q G ++A LN Q +
Sbjct: 21 TQVINIVTPNNEGISHNQYQDFNVGKPGAVFNNALEAGQSQLAGHLNANSNLNGQAASLI 80
Query: 129 IN 130
+N
Sbjct: 81 LN 82
>pdb|1RQG|A Chain A, Methionyl-Trna Synthetase From Pyrococcus Abyssi
Length = 722
Score = 32.0 bits (71), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 28/68 (41%), Gaps = 17/68 (25%)
Query: 293 FNLSIDGHAECVRFVKKFNLPL-------LVTGGGGYTKENVARCWTVETGILLDTELPN 345
+ L+IDG + F+ K N+P + G Y E V W LP
Sbjct: 281 YWLNIDGQTRVIHFIGKDNIPFHAIFWPAFLMAYGKYKDEEVEAEWN----------LPY 330
Query: 346 EIPENEYI 353
+IP NEY+
Sbjct: 331 DIPANEYL 338
>pdb|3ZEY|7 Chain 7, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 318
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 22/38 (57%), Gaps = 4/38 (10%)
Query: 302 ECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILL 339
CVRF + P++V+GG +N+ + W + TG L+
Sbjct: 156 SCVRFSPSLDAPVIVSGG----WDNLVKVWDLATGRLV 189
>pdb|1O4U|A Chain A, Crystal Structure Of A Nicotinate Nucleotide
Pyrophosphorylase (Tm1645) From Thermotoga Maritima At
2.50 A Resolution
pdb|1O4U|B Chain B, Crystal Structure Of A Nicotinate Nucleotide
Pyrophosphorylase (Tm1645) From Thermotoga Maritima At
2.50 A Resolution
Length = 285
Score = 28.1 bits (61), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 5/69 (7%)
Query: 260 FKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGG 319
F T I VE ++ GAD + D NLS + + R +K N ++V
Sbjct: 192 FTTKIEVEVENLEDALRAVEAGADIVMLD-----NLSPEEVKDISRRIKDINPNVIVEVS 246
Query: 320 GGYTKENVA 328
GG T+ENV+
Sbjct: 247 GGITEENVS 255
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
0.322 0.141 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,382,965
Number of Sequences: 62578
Number of extensions: 687857
Number of successful extensions: 1344
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1254
Number of HSP's gapped (non-prelim): 39
length of query: 451
length of database: 14,973,337
effective HSP length: 102
effective length of query: 349
effective length of database: 8,590,381
effective search space: 2998042969
effective search space used: 2998042969
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)