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= 014167
(429 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 = 498 bits (1281), Expect = e-141, Method: Compositional matrix adjust.
Identities = 225/372 (60%), Positives = 289/372 (77%), Gaps = 1/372 (0%)
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 DRVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVV 246
DRVMTVSFHK+G+ FFPGTGD+ E+G G++Y +NVPL+DGIDD S+ LF+ +I++VV
Sbjct: 185 DRVMTVSFHKYGNYFFPGTGDMYEVGAESGRYYCLNVPLRDGIDDQSYKHLFQPVINQVV 244
Query: 247 ETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVA 306
+ Y P IVLQCGADSL DRLGCFNLSI GH ECV +VK FN+PLLV GGGGYT NVA
Sbjct: 245 DFYQPTCIVLQCGADSLGCDRLGCFNLSIRGHGECVEYVKSFNIPLLVLGGGGYTVRNVA 304
Query: 307 RCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIP-NGHIENLNSKSYLSTIKMQVLE 365
RCWT ET +L++ + E+P +EY +YFAP+ +L + IEN NS+ YL I+ + E
Sbjct: 305 RCWTYETSLLVEEAISEELPYSEYFEYFAPDFTLHPDVSTRIENQNSRQYLDQIRQTIFE 364
Query: 366 NLRSIQHAPSVQ 377
NL+ + HAPSVQ
Sbjct: 365 NLKMLNHAPSVQ 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 = 489 bits (1258), Expect = e-138, Method: Compositional matrix adjust.
Identities = 226/368 (61%), Positives = 295/368 (80%), Gaps = 1/368 (0%)
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 FYFTDRVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTII 242
FY TDRVMTVSFHK+G+ +FPGTGD+++IG +GK+YA+N P++DGIDD S+ ++FK II
Sbjct: 181 FYTTDRVMTVSFHKYGE-YFPGTGDLRDIGAGKGKYYAVNFPMRDGIDDESYGQIFKPII 239
Query: 243 SKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTK 302
SKV+E Y P A+VLQCGADSL+GDRLGCFNL++ GHA+CV VK FNLPLL+ GGGGYT
Sbjct: 240 SKVMEMYQPSAVVLQCGADSLSGDRLGCFNLTVKGHAKCVEVVKTFNLPLLMLGGGGYTI 299
Query: 303 ENVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQ 362
NVARCWT ET + LD E+PNE+P N+Y +YF P+ L I ++ N N+ Y+ IK +
Sbjct: 300 RNVARCWTYETAVALDCEIPNELPYNDYFEYFGPDFKLHISPSNMTNQNTPEYMEKIKQR 359
Query: 363 VLENLRSI 370
+ ENLR +
Sbjct: 360 LFENLRML 367
>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 = 314 bits (805), Expect = 6e-86, Method: Compositional matrix adjust.
Identities = 148/345 (42%), Positives = 223/345 (64%), Gaps = 5/345 (1%)
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 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT +VMTVS HKF FFPGT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGT 211
Query: 206 GDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG 265
GDV ++G +G++Y++NVP++DGI D + ++ ++++ +V + + P A+VLQ GAD++AG
Sbjct: 212 GDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAG 271
Query: 266 DRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEI 325
D + FN++ G +C++++ ++ L L+ GGGGY N ARCWT TG++L L +EI
Sbjct: 272 DPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEI 331
Query: 326 PENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSI 370
P++E+ + P+ L I + N + I + NL+ +
Sbjct: 332 PDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHV 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 = 314 bits (804), Expect = 6e-86, Method: Compositional matrix adjust.
Identities = 148/345 (42%), Positives = 223/345 (64%), Gaps = 5/345 (1%)
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 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT +VMTVS HKF FFPGT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGT 211
Query: 206 GDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG 265
GDV ++G +G++Y++NVP++DGI D + ++ ++++ +V + + P A+VLQ GAD++AG
Sbjct: 212 GDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAG 271
Query: 266 DRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEI 325
D + FN++ G +C++++ ++ L L+ GGGGY N ARCWT TG++L L +EI
Sbjct: 272 DPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEI 331
Query: 326 PENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSI 370
P++E+ + P+ L I + N + I + NL+ +
Sbjct: 332 PDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHV 376
>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 = 314 bits (804), Expect = 7e-86, Method: Compositional matrix adjust.
Identities = 148/345 (42%), Positives = 223/345 (64%), Gaps = 5/345 (1%)
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 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT +VMTVS HKF FFPGT
Sbjct: 153 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGT 212
Query: 206 GDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG 265
GDV ++G +G++Y++NVP++DGI D + ++ ++++ +V + + P A+VLQ GAD++AG
Sbjct: 213 GDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAG 272
Query: 266 DRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEI 325
D + FN++ G +C++++ ++ L L+ GGGGY N ARCWT TG++L L +EI
Sbjct: 273 DPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEI 332
Query: 326 PENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSI 370
P++E+ + P+ L I + N + I + NL+ +
Sbjct: 333 PDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHV 377
>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 = 314 bits (804), Expect = 7e-86, Method: Compositional matrix adjust.
Identities = 148/345 (42%), Positives = 223/345 (64%), Gaps = 5/345 (1%)
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 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT +VMTVS HKF FFPGT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGT 211
Query: 206 GDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG 265
GDV ++G +G++Y++NVP++DGI D + ++ ++++ +V + + P A+VLQ GAD++AG
Sbjct: 212 GDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAG 271
Query: 266 DRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEI 325
D + FN++ G +C++++ ++ L L+ GGGGY N ARCWT TG++L L +EI
Sbjct: 272 DPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEI 331
Query: 326 PENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSI 370
P++E+ + P+ L I + N + I + NL+ +
Sbjct: 332 PDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHV 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 = 313 bits (801), Expect = 2e-85, Method: Compositional matrix adjust.
Identities = 148/345 (42%), Positives = 223/345 (64%), Gaps = 5/345 (1%)
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 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT +VMTVS HKF FFPGT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGT 211
Query: 206 GDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG 265
GDV ++G +G++Y++NVP++DGI D + ++ ++++ +V + + P A+VLQ GAD++AG
Sbjct: 212 GDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAG 271
Query: 266 DRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEI 325
D + FN++ G +C++++ ++ L L+ GGGGY N ARCWT TG++L L +EI
Sbjct: 272 DPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEI 331
Query: 326 PENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSI 370
P++E+ + P+ L I + N + I + NL+ +
Sbjct: 332 PDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHV 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 = 312 bits (800), Expect = 2e-85, Method: Compositional matrix adjust.
Identities = 147/345 (42%), Positives = 223/345 (64%), Gaps = 5/345 (1%)
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 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT +VMTVS HKF FFPGT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGT 211
Query: 206 GDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG 265
GDV ++G +G++Y++NVP++DGI D + ++ ++++ +V + + P A+VLQ GAD++AG
Sbjct: 212 GDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAG 271
Query: 266 DRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEI 325
D + FN++ G +C++++ ++ L L+ GGGG+ N ARCWT TG++L L +EI
Sbjct: 272 DPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGFNLANTARCWTYLTGVILGKTLSSEI 331
Query: 326 PENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSI 370
P++E+ + P+ L I + N + I + NL+ +
Sbjct: 332 PDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHV 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 = 312 bits (800), Expect = 2e-85, Method: Compositional matrix adjust.
Identities = 147/345 (42%), Positives = 223/345 (64%), Gaps = 5/345 (1%)
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 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT +VMTVS HKF FFPGT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGT 211
Query: 206 GDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG 265
GDV ++G +G++Y++NVP++DGI D + ++ ++++ +V + + P A+VLQ GAD++AG
Sbjct: 212 GDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAG 271
Query: 266 DRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEI 325
D + FN++ G +C++++ ++ L L+ GGGGY N ARCWT TG++L L +EI
Sbjct: 272 DPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEI 331
Query: 326 PENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSI 370
P++E+ + P+ L I + N + I + NL+ +
Sbjct: 332 PDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHV 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 = 312 bits (800), Expect = 2e-85, Method: Compositional matrix adjust.
Identities = 147/345 (42%), Positives = 223/345 (64%), Gaps = 5/345 (1%)
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 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT +VMTVS HKF FFPGT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGT 211
Query: 206 GDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG 265
GDV ++G +G++Y++NVP++DGI D + ++ ++++ +V + + P A+VLQ GAD++AG
Sbjct: 212 GDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAG 271
Query: 266 DRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEI 325
D + FN++ G +C++++ ++ L L+ GGGGY N ARCWT TG++L L +EI
Sbjct: 272 DPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEI 331
Query: 326 PENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSI 370
P++E+ + P+ L I + N + I + NL+ +
Sbjct: 332 PDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHV 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 = 311 bits (797), Expect = 4e-85, Method: Compositional matrix adjust.
Identities = 147/345 (42%), Positives = 222/345 (64%), Gaps = 5/345 (1%)
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 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT +VMTVS HKF FFPGT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGT 211
Query: 206 GDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG 265
GDV ++G +G++Y++NVP++DGI D + ++ ++++ +V + + P A+VLQ GAD++AG
Sbjct: 212 GDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAG 271
Query: 266 DRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEI 325
D + FN++ G +C++++ ++ L L+ GGGGY N ARCWT TG++L L +EI
Sbjct: 272 DPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEI 331
Query: 326 PENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSI 370
P++E+ + P+ L I + N + I + NL+ +
Sbjct: 332 PDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHV 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 = 311 bits (797), Expect = 5e-85, Method: Compositional matrix adjust.
Identities = 147/345 (42%), Positives = 222/345 (64%), Gaps = 5/345 (1%)
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 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT +VMTVS HKF FFPGT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGT 211
Query: 206 GDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG 265
GDV ++G +G++Y++NVP++DGI D + ++ ++++ +V + + P A+VLQ GAD++AG
Sbjct: 212 GDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAG 271
Query: 266 DRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEI 325
D + FN++ G +C++++ ++ L L+ GGGGY N ARCWT TG++L L +EI
Sbjct: 272 DPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEI 331
Query: 326 PENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSI 370
P++E+ + P+ L I + N + I + NL+ +
Sbjct: 332 PDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHV 376
>pdb|3EW8|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101l Variant
Length = 388
Score = 310 bits (795), Expect = 7e-85, Method: Compositional matrix adjust.
Identities = 147/345 (42%), Positives = 222/345 (64%), Gaps = 5/345 (1%)
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 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT +VMTVS HKF FFPGT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGT 211
Query: 206 GDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG 265
GDV ++G +G++Y++NVP++DGI D + ++ ++++ +V + + P A+VLQ GAD++AG
Sbjct: 212 GDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAG 271
Query: 266 DRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEI 325
D + FN++ G +C++++ ++ L L+ GGGGY N ARCWT TG++L L +EI
Sbjct: 272 DPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEI 331
Query: 326 PENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSI 370
P++E+ + P+ L I + N + I + NL+ +
Sbjct: 332 PDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHV 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 = 310 bits (795), Expect = 8e-85, Method: Compositional matrix adjust.
Identities = 147/345 (42%), Positives = 222/345 (64%), Gaps = 5/345 (1%)
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 FCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGT 205
FCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT +VMTVS HKF FFPGT
Sbjct: 152 FCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGT 211
Query: 206 GDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG 265
GDV ++G +G++Y++NVP++DGI D + ++ ++++ +V + + P A+VLQ GAD++AG
Sbjct: 212 GDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAG 271
Query: 266 DRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEI 325
D + FN++ G +C++++ ++ L L+ GGGGY N ARCWT TG++L L +EI
Sbjct: 272 DPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEI 331
Query: 326 PENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSI 370
P++E+ + P+ L I + N + I + NL+ +
Sbjct: 332 PDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHV 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 = 164 bits (414), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 116/321 (36%), Positives = 166/321 (51%), Gaps = 18/321 (5%)
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-HARVLYIDIDVHHGDGVEEAFYFTDRVMT 191
GG+HHA K A+GFCYIN+ +GI L K R+LYID+D HH DGV+EAFY TD+V
Sbjct: 128 GGMHHAFKSRANGFCYINNPAVGIEYLRKKGFKRILYIDLDAHHCDGVQEAFYDTDQVFV 187
Query: 192 VSFHKFGDLFFP-GTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYA 250
+S H+ + FP G ++EIGE +GK Y +N+PL G++D F + + V E +
Sbjct: 188 LSLHQSPEYAFPFEKGFLEEIGEGKGKGYNLNIPLPKGLNDNEFLFALEKSLEIVKEVFE 247
Query: 251 PGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLV------TGGGGYTKEN 304
P +LQ G D L D L FNLS V F+K FN+ V GGGGY
Sbjct: 248 PEVYLLQLGTDPLLEDYLSKFNLS------NVAFLKAFNIVREVFGEGVYLGGGGYHPYA 301
Query: 305 VARCWTVETGILLDTELPNEI 325
+AR WT+ L E+P ++
Sbjct: 302 LARAWTLIWCELSGREVPEKL 322
>pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog From Aquifex Aeolicus
Length = 375
Score = 161 bits (408), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 111/315 (35%), Positives = 162/315 (51%), Gaps = 6/315 (1%)
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-HARVLYIDIDVHHGDGVEEAFYFTDRVMT 191
GG+HHA K A+GFCYIN+ +GI L K R+LYID+D HH DGV+EAFY TD+V
Sbjct: 128 GGMHHAFKSRANGFCYINNPAVGIEYLRKKGFKRILYIDLDAHHCDGVQEAFYDTDQVFV 187
Query: 192 VSFHKFGDLFFP-GTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYA 250
+S H+ + FP G ++EIGE +GK Y +N+PL G++D F + + V E +
Sbjct: 188 LSLHQSPEYAFPFEKGFLEEIGEGKGKGYNLNIPLPKGLNDNEFLFALEKSLEIVKEVFE 247
Query: 251 PGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWT 310
P +LQ G D L D L FNLS + V++ + GGGGY +AR WT
Sbjct: 248 PEVYLLQLGTDPLLEDYLSKFNLSNVAFLKAFNIVREVFGEGVYLGGGGYHPYALARAWT 307
Query: 311 VETGILLDTELPNEI 325
+ L E+P ++
Sbjct: 308 LIWCELSGREVPEKL 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 = 98.6 bits (244), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 94/345 (27%), Positives = 149/345 (43%), Gaps = 54/345 (15%)
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 AGGL------------HHAKKCEASGFCYINDLVLG--ILELLKYHARVLYIDIDVHHGD 177
A G HHA++ GFCY N + + +L+ +++L +D DVHHG+
Sbjct: 142 ATGELKNGFAVVRPPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGN 201
Query: 178 GVEEAFYFTDRVMTVSFHKFGDL-FFPGTGDVKEIGEREGKFYAINVPLKDGID----DT 232
G ++AFY V+ +S H++ D FFPG+G E+G G + +N+ G+D D
Sbjct: 202 GTQQAFYSDPSVLYMSLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDA 261
Query: 233 SFTRLFKTIISKVVETYAPGAIVLQCGADSLAG--DRLGCFNLSIDGHAECVRFVKKFNL 290
+ F+T++ + +AP +++ G D++ G LG +NLS A C ++ K +
Sbjct: 262 EYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGYNLS----ARCFGYLTKQLM 317
Query: 291 PLLVTGG-------GGYTKENVARCWTVETGILLDTELPNEIPEN 328
L GG GGY + LL EL + +PE
Sbjct: 318 GL--AGGRIVLALEGGYDLTAICDASEACVSALLGNEL-DPLPEK 359
>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 = 98.6 bits (244), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 82/297 (27%), Positives = 133/297 (44%), Gaps = 44/297 (14%)
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 GVEEAFYFTDRVMTVSFHKFGDL-FFPGTGDVKEIGEREGKFYAINVPLKDGID----DT 232
G ++AFY V+ +S H++ D FFPG+G E+G G + +N+ G+D D
Sbjct: 202 GTQQAFYSDPSVLYMSLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDA 261
Query: 233 SFTRLFKTIISKVVETYAPGAIVLQCGADSLAG--DRLGCFNLSIDGHAECVRFVKK 287
+ F+T++ + +AP +++ G D++ G LG +NLS A C ++ K
Sbjct: 262 EYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGYNLS----ARCFGYLTK 314
>pdb|2VQW|G Chain G, Structure Of Inhibitor-Free Hdac4 Catalytic Domain (With
Gain-Of-Function Mutation His332tyr)
Length = 413
Score = 98.2 bits (243), Expect = 8e-21, Method: Compositional matrix adjust.
Identities = 94/345 (27%), Positives = 149/345 (43%), Gaps = 54/345 (15%)
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 GVEEAFYFTDRVMTVSFHKFGDL-FFPGTGDVKEIGEREGKFYAINVPLKDGID----DT 232
G ++AFY V+ +S H++ D FFPG+G E+G G + +N+ G+D D
Sbjct: 202 GTQQAFYSDPSVLYMSLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDA 261
Query: 233 SFTRLFKTIISKVVETYAPGAIVLQCGADSLAG--DRLGCFNLSIDGHAECVRFVKKFNL 290
+ F+T++ + +AP +++ G D++ G LG +NLS A C ++ K +
Sbjct: 262 EYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGYNLS----ARCFGYLTKQLM 317
Query: 291 PLLVTGG-------GGYTKENVARCWTVETGILLDTELPNEIPEN 328
L GG GGY + LL EL + +PE
Sbjct: 318 GL--AGGRIVLALEGGYDLTAICDASEACVSALLGNEL-DPLPEK 359
>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 = 98.2 bits (243), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 82/297 (27%), Positives = 133/297 (44%), Gaps = 44/297 (14%)
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 AGGL------------HHAKKCEASGFCYINDLVLG--ILELLKYHARVLYIDIDVHHGD 177
A G HHA++ GFCY N + + +L+ +++L +D DVHHG+
Sbjct: 142 ATGELKNGFAVVRPPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGN 201
Query: 178 GVEEAFYFTDRVMTVSFHKFGDL-FFPGTGDVKEIGEREGKFYAINVPLKDGID----DT 232
G ++AFY V+ +S H++ D FFPG+G E+G G + +N+ G+D D
Sbjct: 202 GTQQAFYSDPSVLYMSLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDA 261
Query: 233 SFTRLFKTIISKVVETYAPGAIVLQCGADSLAG--DRLGCFNLSIDGHAECVRFVKK 287
+ F+T++ + +AP +++ G D++ G LG +NLS A C ++ K
Sbjct: 262 EYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGYNLS----ARCFGYLTK 314
>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 = 90.1 bits (222), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 55/171 (32%), Positives = 82/171 (47%), Gaps = 2/171 (1%)
Query: 136 HHAKKCEASGFCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFH 195
HHA+ A GFCY+N+ + L HARV +D D+HHG G++E FY V+ VS H
Sbjct: 177 HHARVDAAGGFCYLNNAAIAAQALRARHARVAVLDTDMHHGQGIQEIFYARRDVLYVSIH 236
Query: 196 KFGDLFFPG-TGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAI 254
F+P G E G EG Y +N+P+ G + +F + + + +AP A+
Sbjct: 237 GDPTNFYPAVAGFDDERGAGEGLGYNVNLPMPHGSSEAAFFERVDDALRE-LRRFAPDAL 295
Query: 255 VLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENV 305
VL G D D ++ DG + LP ++ GGY E++
Sbjct: 296 VLSLGFDVYRDDPQSQVAVTTDGFGRLGHLIGALRLPTVIVQEGGYHIESL 346
>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 = 88.6 bits (218), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 77/294 (26%), Positives = 128/294 (43%), Gaps = 39/294 (13%)
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 EAFYFTDRVMTVSFHKFGDL-FFPGTGDVKEIGEREGKFYAINVPLKDGID----DTSFT 235
+ FY V+ +S H+ D FFPG+G V E+G G+ + +NV G+D D +
Sbjct: 236 QTFYQDPSVLYISLHRHDDGNFFPGSGAVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYL 295
Query: 236 RLFKTIISKVVETYAPGAIVLQCGADSLAG--DRLGCFNLSIDGHAECVRFVKK 287
F+ ++ + ++P +++ G D+ G LG +++S A+C ++ +
Sbjct: 296 AAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGYHVS----AKCFGYMTQ 345
>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 = 81.6 bits (200), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 62/236 (26%), Positives = 104/236 (44%), Gaps = 17/236 (7%)
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 YIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKD 227
+D DVHHG+G ++ ++ V+T+S H+ F P +G E G G Y INVPL
Sbjct: 176 ILDWDVHHGNGTQDIWWNDPSVLTISLHQH-LCFPPDSGYSTERGAGNGHGYNINVPLPP 234
Query: 228 GIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVR 283
G + ++ ++ + Y P I++ G D+ D L ++ DG + R
Sbjct: 235 GSGNAAYLHAMDQVVLPALRAYRPQLIIVGSGFDASMLDPLARMMVTADGFRQMAR 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 = 81.6 bits (200), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 62/236 (26%), Positives = 104/236 (44%), Gaps = 17/236 (7%)
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 YIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKD 227
+D DVHHG+G ++ ++ V+T+S H+ F P +G E G G Y INVPL
Sbjct: 182 ILDWDVHHGNGTQDIWWNDPSVLTISLHQH-LCFPPDSGYSTERGAGNGHGYNINVPLPP 240
Query: 228 GIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVR 283
G + ++ ++ + Y P I++ G D+ D L ++ DG + R
Sbjct: 241 GSGNAAYLHAMDQVVLPALRAYRPQLIIVGSGFDASMLDPLARMMVTADGFRQMAR 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 = 65.1 bits (157), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 46/167 (27%), Positives = 73/167 (43%), Gaps = 3/167 (1%)
Query: 136 HHAKKCEASGFCYINDLVLGILELL-KYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSF 194
HHA G+C+IN+ + LL K ++ +D+D HHG+G ++ FY V S
Sbjct: 158 HHAGIDMFGGYCFINNAAVAAQRLLDKGAKKIAILDVDFHHGNGTQDIFYERGDVFFASL 217
Query: 195 HKFGDLFFPG-TGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGA 253
H FP G +E G+ G N P+ G + + + ++ + A
Sbjct: 218 HGDPAEAFPHFLGYAEETGKGAGAGTTANYPMGRGTPYSVWGEALTDSLKRIA-AFGAEA 276
Query: 254 IVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGY 300
IV+ G D+ D + F L+ + R + +PLLV GGY
Sbjct: 277 IVVSLGVDTFEQDPISFFKLTSPDYITMGRTIAASGVPLLVVMEGGY 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 = 62.4 bits (150), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 43/159 (27%), Positives = 70/159 (44%), Gaps = 3/159 (1%)
Query: 144 SGFCYINDLVLGILELL-KYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFF 202
G+C+IN+ + LL K ++ +D+D HHG+G ++ FY V S H F
Sbjct: 166 GGYCFINNAAVAAQRLLDKGAKKIAILDVDFHHGNGTQDIFYERGDVFFASLHGDPAEAF 225
Query: 203 PG-TGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGAD 261
P G +E G+ G N P+ G + + + ++ + AIV+ G D
Sbjct: 226 PHFLGYAEETGKGAGAGTTANYPMGRGTPYSVWGEALTDSLKRIA-AFGAEAIVVSLGVD 284
Query: 262 SLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGY 300
+ D + F L+ + R + +PLLV GGY
Sbjct: 285 TFEQDPISFFKLTSPDYITMGRTIAASGVPLLVVMEGGY 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 = 0.76, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 28/68 (41%), Gaps = 17/68 (25%)
Query: 271 FNLSIDGHAECVRFVKKFNLPL-------LVTGGGGYTKENVARCWTVETGILLDTELPN 323
+ L+IDG + F+ K N+P + G Y E V W LP
Sbjct: 281 YWLNIDGQTRVIHFIGKDNIPFHAIFWPAFLMAYGKYKDEEVEAEWN----------LPY 330
Query: 324 EIPENEYI 331
+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 = 1.8, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 22/38 (57%), Gaps = 4/38 (10%)
Query: 280 ECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILL 317
CVRF + P++V+GG +N+ + W + TG L+
Sbjct: 156 SCVRFSPSLDAPVIVSGG----WDNLVKVWDLATGRLV 189
>pdb|1QCR|B Chain B, Crystal Structure Of Bovine Mitochondrial Cytochrome Bc1
Complex, Alpha Carbon Atoms Only
Length = 423
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 37/146 (25%), Positives = 61/146 (41%), Gaps = 21/146 (14%)
Query: 231 DTSFTRLFKTIISKVVETYAPGA---IVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKK 287
D FTRL ++ +E YAP + + ++ G+ + LG +L + +
Sbjct: 7 DLEFTRLPNGLVIASLENYAPASRIGLFIKAGSRYENSNNLGTSHLLRLASSLTTKGASS 66
Query: 288 FNLPLLVTGGGG-----YTKENVA---RCWTVETGILLDTELP-NEIPENEYIKYFAPEC 338
F + + GG T+EN+A C + IL++ L PE + A +
Sbjct: 67 FKITRGIEAVGGKLSVTSTRENMAYTVECLRDDVDILMEFLLNVTTAPEFRRWEVAALQP 126
Query: 339 SLRI--------PNGH-IENLNSKSY 355
LRI P H IENL++ +Y
Sbjct: 127 QLRIDKAVALQNPQAHVIENLHAAAY 152
>pdb|1SQB|B Chain B, Crystal Structure Analysis Of Bovine Bc1 With Azoxystrobin
pdb|1SQP|B Chain B, Crystal Structure Analysis Of Bovine Bc1 With Myxothiazol
Length = 453
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 37/147 (25%), Positives = 61/147 (41%), Gaps = 21/147 (14%)
Query: 230 DDTSFTRLFKTIISKVVETYAPGA---IVLQCGADSLAGDRLGCFNLSIDGHAECVRFVK 286
D FTRL ++ +E YAP + + ++ G+ + LG +L + +
Sbjct: 36 QDLEFTRLPNGLVIASLENYAPASRIGLFIKAGSRYENSNNLGTSHLLRLASSLTTKGAS 95
Query: 287 KFNLPLLVTGGGG-----YTKENVA---RCWTVETGILLDTELP-NEIPENEYIKYFAPE 337
F + + GG T+EN+A C + IL++ L PE + A +
Sbjct: 96 SFKITRGIEAVGGKLSVTSTRENMAYTVECLRDDVDILMEFLLNVTTAPEFRRWEVAALQ 155
Query: 338 CSLRI--------PNGH-IENLNSKSY 355
LRI P H IENL++ +Y
Sbjct: 156 PQLRIDKAVALQNPQAHVIENLHAAAY 182
>pdb|1BGY|B Chain B, Cytochrome Bc1 Complex From Bovine
pdb|1BGY|N Chain N, Cytochrome Bc1 Complex From Bovine
pdb|1BE3|B Chain B, Cytochrome Bc1 Complex From Bovine
pdb|1L0L|B Chain B, Structure Of Bovine Mitochondrial Cytochrome Bc1 Complex
With A Bound Fungicide Famoxadone
pdb|1L0N|B Chain B, Native Structure Of Bovine Mitochondrial Cytochrome Bc1
Complex
pdb|1NTK|B Chain B, Crystal Structure Of Mitochondrial Cytochrome Bc1 In
Complex With Antimycin A1
pdb|1NTM|B Chain B, Crystal Structure Of Mitochondrial Cytochrome Bc1 Complex
At 2.4 Angstrom
pdb|1NTZ|B Chain B, Crystal Structure Of Mitochondrial Cytochrome Bc1 Complex
Bound With Ubiquinone
pdb|1NU1|B Chain B, Crystal Structure Of Mitochondrial Cytochrome Bc1
Complexed With 2- Nonyl-4-Hydroxyquinoline N-Oxide
(Nqno)
pdb|1PP9|B Chain B, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|1PP9|O Chain O, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|1PPJ|B Chain B, Bovine Cytochrome Bc1 Complex With Stigmatellin And
Antimycin
pdb|1PPJ|O Chain O, Bovine Cytochrome Bc1 Complex With Stigmatellin And
Antimycin
pdb|2A06|B Chain B, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|2A06|O Chain O, Bovine Cytochrome Bc1 Complex With Stigmatellin Bound
pdb|1SQV|B Chain B, Crystal Structure Analysis Of Bovine Bc1 With Uhdbt
pdb|1SQX|B Chain B, Crystal Structure Analysis Of Bovine Bc1 With Stigmatellin
A
pdb|1SQQ|B Chain B, Crystal Structure Analysis Of Bovine Bc1 With Methoxy
Acrylate Stilbene (Moas)
pdb|2FYU|B Chain B, Crystal Structure Of Bovine Heart Mitochondrial Bc1 With
Jg144 Inhibitor
pdb|2YBB|B Chain B, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
pdb|2YBB|BB Chain b, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
Length = 439
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 37/146 (25%), Positives = 61/146 (41%), Gaps = 21/146 (14%)
Query: 231 DTSFTRLFKTIISKVVETYAPGA---IVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKK 287
D FTRL ++ +E YAP + + ++ G+ + LG +L + +
Sbjct: 23 DLEFTRLPNGLVIASLENYAPASRIGLFIKAGSRYENSNNLGTSHLLRLASSLTTKGASS 82
Query: 288 FNLPLLVTGGGG-----YTKENVA---RCWTVETGILLDTELP-NEIPENEYIKYFAPEC 338
F + + GG T+EN+A C + IL++ L PE + A +
Sbjct: 83 FKITRGIEAVGGKLSVTSTRENMAYTVECLRDDVDILMEFLLNVTTAPEFRRWEVAALQP 142
Query: 339 SLRI--------PNGH-IENLNSKSY 355
LRI P H IENL++ +Y
Sbjct: 143 QLRIDKAVALQNPQAHVIENLHAAAY 168
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: 14,730,523
Number of Sequences: 62578
Number of extensions: 665408
Number of successful extensions: 1303
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1226
Number of HSP's gapped (non-prelim): 41
length of query: 429
length of database: 14,973,337
effective HSP length: 102
effective length of query: 327
effective length of database: 8,590,381
effective search space: 2809054587
effective search space used: 2809054587
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)