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= 041063
(490 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MAX|A Chain A, Crystal Structure Of Human Hdac2 Complexed With An
N-(2-Amin Benzamide
pdb|3MAX|B Chain B, Crystal Structure Of Human Hdac2 Complexed With An
N-(2-Amin Benzamide
pdb|3MAX|C Chain C, Crystal Structure Of Human Hdac2 Complexed With An
N-(2-Amin Benzamide
Length = 367
Score = 537 bits (1384), Expect = e-153, Method: Compositional matrix adjust.
Identities = 249/368 (67%), Positives = 311/368 (84%), Gaps = 2/368 (0%)
Query: 61 KRRVSYFYEPTIGDYYYGQGHPMKPHRIRMAHNLIVHYGLHRRMEVNRPFPAGPSDIRRF 120
K++V Y+Y+ IG+YYYGQGHPMKPHRIRM HNL+++YGL+R+ME+ RP A ++ ++
Sbjct: 2 KKKVCYYYDGDIGNYYYGQGHPMKPHRIRMTHNLLLNYGLYRKMEIYRPHKATAEEMTKY 61
Query: 121 HTDEYVEFLASVSPESSGDPSFSRHLKRFNVGEDCPVFDGLFGFCQASAGGSIGAAVKLN 180
H+DEY++FL S+ P++ + +S+ ++RFNVGEDCPVFDGLF FCQ S GGS+ AVKLN
Sbjct: 62 HSDEYIKFLRSIRPDNMSE--YSKQMQRFNVGEDCPVFDGLFEFCQLSTGGSVAGAVKLN 119
Query: 181 RGDADIAVNWAGGLHHAKKSEASGFCYVNDIVLGILELLKVHRRVLYVDIDVHHGDGVEE 240
R D+AVNWAGGLHHAKKSEASGFCYVNDIVL ILELLK H+RVLY+DID+HHGDGVEE
Sbjct: 120 RQQTDMAVNWAGGLHHAKKSEASGFCYVNDIVLAILELLKYHQRVLYIDIDIHHGDGVEE 179
Query: 241 AFYTTDRVMTVSFHKFGDFFPGTGHIKDVGAGQGKFYALNVPLNDGLDDESFRGLFRPII 300
AFYTTDRVMTVSFHK+G++FPGTG ++D+GAG+GK+YA+N P+ DG+DDES+ +F+PII
Sbjct: 180 AFYTTDRVMTVSFHKYGEYFPGTGDLRDIGAGKGKYYAVNFPMRDGIDDESYGQIFKPII 239
Query: 301 QKVMEVYQPDAVVLQCGADSLSGDRLGCFNLSVKGHADCLRFLRSFNVPLMVLGGGGYTI 360
KVME+YQP AVVLQCGADSLSGDRLGCFNL+VKGHA C+ +++FN+PL++LGGGGYTI
Sbjct: 240 SKVMEMYQPSAVVLQCGADSLSGDRLGCFNLTVKGHAKCVEVVKTFNLPLLMLGGGGYTI 299
Query: 361 RNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHVEPCNMENLNAHKDMEKIRNT 420
RNVARCW YETAVA+ E N+LPYN+Y+EYFGPD+ LH+ P NM N N + MEKI+
Sbjct: 300 RNVARCWTYETAVALDCEIPNELPYNDYFEYFGPDFKLHISPSNMTNQNTPEYMEKIKQR 359
Query: 421 LLEQLSGL 428
L E L L
Sbjct: 360 LFENLRML 367
>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 = 488 bits (1255), Expect = e-138, Method: Compositional matrix adjust.
Identities = 221/375 (58%), Positives = 295/375 (78%), Gaps = 4/375 (1%)
Query: 62 RRVSYFYEPTIGDYYYGQGHPMKPHRIRMAHNLIVHYGLHRRMEVNRPFPAGPSDIRRFH 121
+ V+YFY+P +G+++YG GHPMKPHR+ + H+L++HYGL+++M V +P+ A D+ RFH
Sbjct: 3 KTVAYFYDPDVGNFHYGAGHPMKPHRLALTHSLVLHYGLYKKMIVFKPYQASQHDMCRFH 62
Query: 122 TDEYVEFLASVSPESSGDPSFSRHLKRFNVGEDCPVFDGLFGFCQASAGGSIGAAVKLNR 181
+++Y++FL VSP + F++ L FNVG+DCPVF GLF FC G S+ A +LN
Sbjct: 63 SEDYIDFLQRVSPTNM--QGFTKSLNAFNVGDDCPVFPGLFEFCSRYTGASLQGATQLNN 120
Query: 182 GDADIAVNWAGGLHHAKKSEASGFCYVNDIVLGILELLKVHRRVLYVDIDVHHGDGVEEA 241
DIA+NWAGGLHHAKK EASGFCYVNDIV+GILELLK H RVLY+DID+HHGDGV+EA
Sbjct: 121 KICDIAINWAGGLHHAKKFEASGFCYVNDIVIGILELLKYHPRVLYIDIDIHHGDGVQEA 180
Query: 242 FYTTDRVMTVSFHKFGD-FFPGTGHIKDVGAGQGKFYALNVPLNDGLDDESFRGLFRPII 300
FY TDRVMTVSFHK+G+ FFPGTG + +VGA G++Y LNVPL DG+DD+S++ LF+P+I
Sbjct: 181 FYLTDRVMTVSFHKYGNYFFPGTGDMYEVGAESGRYYCLNVPLRDGIDDQSYKHLFQPVI 240
Query: 301 QKVMEVYQPDAVVLQCGADSLSGDRLGCFNLSVKGHADCLRFLRSFNVPLMVLGGGGYTI 360
+V++ YQP +VLQCGADSL DRLGCFNLS++GH +C+ +++SFN+PL+VLGGGGYT+
Sbjct: 241 NQVVDFYQPTCIVLQCGADSLGCDRLGCFNLSIRGHGECVEYVKSFNIPLLVLGGGGYTV 300
Query: 361 RNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHVE-PCNMENLNAHKDMEKIRN 419
RNVARCW YET++ V +LPY+EY+EYF PD+TLH + +EN N+ + +++IR
Sbjct: 301 RNVARCWTYETSLLVEEAISEELPYSEYFEYFAPDFTLHPDVSTRIENQNSRQYLDQIRQ 360
Query: 420 TLLEQLSGLIHAPSV 434
T+ E L L HAPSV
Sbjct: 361 TIFENLKMLNHAPSV 375
>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 = 313 bits (803), Expect = 1e-85, Method: Compositional matrix adjust.
Identities = 159/389 (40%), Positives = 232/389 (59%), Gaps = 15/389 (3%)
Query: 44 MEEPTEGASLVSGPDGKKRRVSYFYEPTIGDYYYGQGHPMK--PHRIRMAHNLIVHYGLH 101
MEEP E A G+ Y Y P Y + P R M H+LI Y LH
Sbjct: 2 MEEPEEPAD-----SGQSLVPVYIYSPE----YVSMCDSLAKIPKRASMVHSLIEAYALH 52
Query: 102 RRMEVNRPFPAGPSDIRRFHTDEYVEFLASVSPESSGDPSFSRHLKRFNVGEDCPVFDGL 161
++M + +P A ++ FHTD Y++ L VS E D S + +G DCP +G+
Sbjct: 53 KQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI---EYGLGYDCPATEGI 109
Query: 162 FGFCQASAGGSIGAAVKLNRGDADIAVNWAGGLHHAKKSEASGFCYVNDIVLGILELLKV 221
F + A G +I AA L G +A+NW+GG HHAKK EASGFCY+ND VLGIL L +
Sbjct: 110 FDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRK 169
Query: 222 HRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFHKFG-DFFPGTGHIKDVGAGQGKFYALN 280
R+LYVD+D+HHGDGVE+AF T +VMTVS HKF FFPGTG + DVG G+G++Y++N
Sbjct: 170 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 229
Query: 281 VPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGADSLSGDRLGCFNLSVKGHADCL 340
VP+ DG+ DE + + ++++V + + P AVVLQ GAD+++GD + FN++ G CL
Sbjct: 230 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 289
Query: 341 RFLRSFNVPLMVLGGGGYTIRNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHV 400
+++ + + ++LGGGGY + N ARCW Y T V +G +++P +E++ +GPDY L +
Sbjct: 290 KYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEI 349
Query: 401 EPCNMENLNAHKDMEKIRNTLLEQLSGLI 429
P + N +++I N + L ++
Sbjct: 350 TPSCRPDRNEPHRIQQILNYIKGNLKHVV 378
>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 = 313 bits (802), Expect = 1e-85, Method: Compositional matrix adjust.
Identities = 159/389 (40%), Positives = 232/389 (59%), Gaps = 15/389 (3%)
Query: 44 MEEPTEGASLVSGPDGKKRRVSYFYEPTIGDYYYGQGHPMK--PHRIRMAHNLIVHYGLH 101
MEEP E A G+ Y Y P Y + P R M H+LI Y LH
Sbjct: 1 MEEPEEPAD-----SGQSLVPVYIYSPE----YVSMCDSLAKIPKRASMVHSLIEAYALH 51
Query: 102 RRMEVNRPFPAGPSDIRRFHTDEYVEFLASVSPESSGDPSFSRHLKRFNVGEDCPVFDGL 161
++M + +P A ++ FHTD Y++ L VS E D S + +G DCP +G+
Sbjct: 52 KQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI---EYGLGYDCPATEGI 108
Query: 162 FGFCQASAGGSIGAAVKLNRGDADIAVNWAGGLHHAKKSEASGFCYVNDIVLGILELLKV 221
F + A G +I AA L G +A+NW+GG HHAKK EASGFCY+ND VLGIL L +
Sbjct: 109 FDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRK 168
Query: 222 HRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFHKFG-DFFPGTGHIKDVGAGQGKFYALN 280
R+LYVD+D+HHGDGVE+AF T +VMTVS HKF FFPGTG + DVG G+G++Y++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 281 VPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGADSLSGDRLGCFNLSVKGHADCL 340
VP+ DG+ DE + + ++++V + + P AVVLQ GAD+++GD + FN++ G CL
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 341 RFLRSFNVPLMVLGGGGYTIRNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHV 400
+++ + + ++LGGGGY + N ARCW Y T V +G +++P +E++ +GPDY L +
Sbjct: 289 KYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEI 348
Query: 401 EPCNMENLNAHKDMEKIRNTLLEQLSGLI 429
P + N +++I N + L ++
Sbjct: 349 TPSCRPDRNEPHRIQQILNYIKGNLKHVV 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 = 313 bits (802), Expect = 1e-85, Method: Compositional matrix adjust.
Identities = 159/389 (40%), Positives = 232/389 (59%), Gaps = 15/389 (3%)
Query: 44 MEEPTEGASLVSGPDGKKRRVSYFYEPTIGDYYYGQGHPMK--PHRIRMAHNLIVHYGLH 101
MEEP E A G+ Y Y P Y + P R M H+LI Y LH
Sbjct: 1 MEEPEEPAD-----SGQSLVPVYIYSPE----YVSMCDSLAKIPKRASMVHSLIEAYALH 51
Query: 102 RRMEVNRPFPAGPSDIRRFHTDEYVEFLASVSPESSGDPSFSRHLKRFNVGEDCPVFDGL 161
++M + +P A ++ FHTD Y++ L VS E D S + +G DCP +G+
Sbjct: 52 KQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI---EYGLGYDCPATEGI 108
Query: 162 FGFCQASAGGSIGAAVKLNRGDADIAVNWAGGLHHAKKSEASGFCYVNDIVLGILELLKV 221
F + A G +I AA L G +A+NW+GG HHAKK EASGFCY+ND VLGIL L +
Sbjct: 109 FDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRK 168
Query: 222 HRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFHKFG-DFFPGTGHIKDVGAGQGKFYALN 280
R+LYVD+D+HHGDGVE+AF T +VMTVS HKF FFPGTG + DVG G+G++Y++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 281 VPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGADSLSGDRLGCFNLSVKGHADCL 340
VP+ DG+ DE + + ++++V + + P AVVLQ GAD+++GD + FN++ G CL
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 341 RFLRSFNVPLMVLGGGGYTIRNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHV 400
+++ + + ++LGGGGY + N ARCW Y T V +G +++P +E++ +GPDY L +
Sbjct: 289 KYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEI 348
Query: 401 EPCNMENLNAHKDMEKIRNTLLEQLSGLI 429
P + N +++I N + L ++
Sbjct: 349 TPSCRPDRNEPHRIQQILNYIKGNLKHVV 377
>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 = 313 bits (801), Expect = 2e-85, Method: Compositional matrix adjust.
Identities = 159/389 (40%), Positives = 232/389 (59%), Gaps = 15/389 (3%)
Query: 44 MEEPTEGASLVSGPDGKKRRVSYFYEPTIGDYYYGQGHPMK--PHRIRMAHNLIVHYGLH 101
MEEP E A G+ Y Y P Y + P R M H+LI Y LH
Sbjct: 1 MEEPEEPAD-----SGQSLVPVYIYSPE----YVSMCDSLAKIPKRASMVHSLIEAYALH 51
Query: 102 RRMEVNRPFPAGPSDIRRFHTDEYVEFLASVSPESSGDPSFSRHLKRFNVGEDCPVFDGL 161
++M + +P A ++ FHTD Y++ L VS E D S + +G DCP +G+
Sbjct: 52 KQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI---EYGLGYDCPATEGI 108
Query: 162 FGFCQASAGGSIGAAVKLNRGDADIAVNWAGGLHHAKKSEASGFCYVNDIVLGILELLKV 221
F + A G +I AA L G +A+NW+GG HHAKK EASGFCY+ND VLGIL L +
Sbjct: 109 FDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRK 168
Query: 222 HRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFHKFG-DFFPGTGHIKDVGAGQGKFYALN 280
R+LYVD+D+HHGDGVE+AF T +VMTVS HKF FFPGTG + DVG G+G++Y++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 281 VPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGADSLSGDRLGCFNLSVKGHADCL 340
VP+ DG+ DE + + ++++V + + P AVVLQ GAD+++GD + FN++ G CL
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 341 RFLRSFNVPLMVLGGGGYTIRNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHV 400
+++ + + ++LGGGGY + N ARCW Y T V +G +++P +E++ +GPDY L +
Sbjct: 289 KYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEI 348
Query: 401 EPCNMENLNAHKDMEKIRNTLLEQLSGLI 429
P + N +++I N + L ++
Sbjct: 349 TPSCRPDRNEPHRIQQILNYIKGNLKHVV 377
>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 = 159/389 (40%), Positives = 232/389 (59%), Gaps = 15/389 (3%)
Query: 44 MEEPTEGASLVSGPDGKKRRVSYFYEPTIGDYYYGQGHPMK--PHRIRMAHNLIVHYGLH 101
MEEP E A G+ Y Y P Y + P R M H+LI Y LH
Sbjct: 1 MEEPEEPAD-----SGQSLVPVYIYSPE----YVSMCDSLAKIPKRADMVHSLIEAYALH 51
Query: 102 RRMEVNRPFPAGPSDIRRFHTDEYVEFLASVSPESSGDPSFSRHLKRFNVGEDCPVFDGL 161
++M + +P A ++ FHTD Y++ L VS E D S + +G DCP +G+
Sbjct: 52 KQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI---EYGLGYDCPATEGI 108
Query: 162 FGFCQASAGGSIGAAVKLNRGDADIAVNWAGGLHHAKKSEASGFCYVNDIVLGILELLKV 221
F + A G +I AA L G +A+NW+GG HHAKK EASGFCY+ND VLGIL L +
Sbjct: 109 FDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRK 168
Query: 222 HRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFHKFG-DFFPGTGHIKDVGAGQGKFYALN 280
R+LYVD+D+HHGDGVE+AF T +VMTVS HKF FFPGTG + DVG G+G++Y++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 281 VPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGADSLSGDRLGCFNLSVKGHADCL 340
VP+ DG+ DE + + ++++V + + P AVVLQ GAD+++GD + FN++ G CL
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 341 RFLRSFNVPLMVLGGGGYTIRNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHV 400
+++ + + ++LGGGGY + N ARCW Y T V +G +++P +E++ +GPDY L +
Sbjct: 289 KYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEI 348
Query: 401 EPCNMENLNAHKDMEKIRNTLLEQLSGLI 429
P + N +++I N + L ++
Sbjct: 349 TPSCRPDRNEPHRIQQILNYIKGNLKHVV 377
>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 (799), Expect = 3e-85, Method: Compositional matrix adjust.
Identities = 158/389 (40%), Positives = 232/389 (59%), Gaps = 15/389 (3%)
Query: 44 MEEPTEGASLVSGPDGKKRRVSYFYEPTIGDYYYGQGHPMK--PHRIRMAHNLIVHYGLH 101
MEEP E A G+ Y Y P Y + P R M H+LI Y LH
Sbjct: 1 MEEPEEPAD-----SGQSLVPVYIYSPE----YVSMCDSLAKIPKRASMVHSLIEAYALH 51
Query: 102 RRMEVNRPFPAGPSDIRRFHTDEYVEFLASVSPESSGDPSFSRHLKRFNVGEDCPVFDGL 161
++M + +P A ++ FHTD Y++ L VS E D S + +G DCP +G+
Sbjct: 52 KQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI---EYGLGYDCPATEGI 108
Query: 162 FGFCQASAGGSIGAAVKLNRGDADIAVNWAGGLHHAKKSEASGFCYVNDIVLGILELLKV 221
F + A G +I AA L G +A+NW+GG HHAKK EASGFCY+ND VLGIL L +
Sbjct: 109 FDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRK 168
Query: 222 HRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFHKFG-DFFPGTGHIKDVGAGQGKFYALN 280
R+LYVD+D+HHGDGVE+AF T +VMTVS HKF FFPGTG + DVG G+G++Y++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 281 VPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGADSLSGDRLGCFNLSVKGHADCL 340
VP+ DG+ DE + + ++++V + + P AVVLQ GAD+++GD + FN++ G CL
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 341 RFLRSFNVPLMVLGGGGYTIRNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHV 400
+++ + + ++LGGGG+ + N ARCW Y T V +G +++P +E++ +GPDY L +
Sbjct: 289 KYILQWQLATLILGGGGFNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEI 348
Query: 401 EPCNMENLNAHKDMEKIRNTLLEQLSGLI 429
P + N +++I N + L ++
Sbjct: 349 TPSCRPDRNEPHRIQQILNYIKGNLKHVV 377
>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 = 311 bits (798), Expect = 4e-85, Method: Compositional matrix adjust.
Identities = 158/389 (40%), Positives = 232/389 (59%), Gaps = 15/389 (3%)
Query: 44 MEEPTEGASLVSGPDGKKRRVSYFYEPTIGDYYYGQGHPMK--PHRIRMAHNLIVHYGLH 101
MEEP E A G+ Y Y P Y + P R M H+LI Y LH
Sbjct: 1 MEEPEEPAD-----SGQSLVPVYIYSPE----YVSMCDSLAKIPKRASMVHSLIEAYALH 51
Query: 102 RRMEVNRPFPAGPSDIRRFHTDEYVEFLASVSPESSGDPSFSRHLKRFNVGEDCPVFDGL 161
++M + +P A ++ FHTD Y++ L VS E D S + +G +CP +G+
Sbjct: 52 KQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI---EYGLGYECPATEGI 108
Query: 162 FGFCQASAGGSIGAAVKLNRGDADIAVNWAGGLHHAKKSEASGFCYVNDIVLGILELLKV 221
F + A G +I AA L G +A+NW+GG HHAKK EASGFCY+ND VLGIL L +
Sbjct: 109 FDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRK 168
Query: 222 HRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFHKFG-DFFPGTGHIKDVGAGQGKFYALN 280
R+LYVD+D+HHGDGVE+AF T +VMTVS HKF FFPGTG + DVG G+G++Y++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 281 VPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGADSLSGDRLGCFNLSVKGHADCL 340
VP+ DG+ DE + + ++++V + + P AVVLQ GAD+++GD + FN++ G CL
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 341 RFLRSFNVPLMVLGGGGYTIRNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHV 400
+++ + + ++LGGGGY + N ARCW Y T V +G +++P +E++ +GPDY L +
Sbjct: 289 KYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEI 348
Query: 401 EPCNMENLNAHKDMEKIRNTLLEQLSGLI 429
P + N +++I N + L ++
Sbjct: 349 TPSCRPDRNEPHRIQQILNYIKGNLKHVV 377
>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 = 311 bits (798), Expect = 4e-85, Method: Compositional matrix adjust.
Identities = 158/389 (40%), Positives = 232/389 (59%), Gaps = 15/389 (3%)
Query: 44 MEEPTEGASLVSGPDGKKRRVSYFYEPTIGDYYYGQGHPMK--PHRIRMAHNLIVHYGLH 101
MEEP E A G+ Y Y P Y + P R M H+LI Y LH
Sbjct: 1 MEEPEEPAD-----SGQSLVPVYIYSPE----YVSMCDSLAKIPKRASMVHSLIEAYALH 51
Query: 102 RRMEVNRPFPAGPSDIRRFHTDEYVEFLASVSPESSGDPSFSRHLKRFNVGEDCPVFDGL 161
++M + +P A ++ FHTD Y++ L VS E D S + +G +CP +G+
Sbjct: 52 KQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI---EYGLGYNCPATEGI 108
Query: 162 FGFCQASAGGSIGAAVKLNRGDADIAVNWAGGLHHAKKSEASGFCYVNDIVLGILELLKV 221
F + A G +I AA L G +A+NW+GG HHAKK EASGFCY+ND VLGIL L +
Sbjct: 109 FDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRK 168
Query: 222 HRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFHKFG-DFFPGTGHIKDVGAGQGKFYALN 280
R+LYVD+D+HHGDGVE+AF T +VMTVS HKF FFPGTG + DVG G+G++Y++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 281 VPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGADSLSGDRLGCFNLSVKGHADCL 340
VP+ DG+ DE + + ++++V + + P AVVLQ GAD+++GD + FN++ G CL
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 341 RFLRSFNVPLMVLGGGGYTIRNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHV 400
+++ + + ++LGGGGY + N ARCW Y T V +G +++P +E++ +GPDY L +
Sbjct: 289 KYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEI 348
Query: 401 EPCNMENLNAHKDMEKIRNTLLEQLSGLI 429
P + N +++I N + L ++
Sbjct: 349 TPSCRPDRNEPHRIQQILNYIKGNLKHVV 377
>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 = 310 bits (795), Expect = 9e-85, Method: Compositional matrix adjust.
Identities = 158/389 (40%), Positives = 231/389 (59%), Gaps = 15/389 (3%)
Query: 44 MEEPTEGASLVSGPDGKKRRVSYFYEPTIGDYYYGQGHPMK--PHRIRMAHNLIVHYGLH 101
MEEP E A G+ Y Y P Y + P R M H+LI Y LH
Sbjct: 1 MEEPEEPAD-----SGQSLVPVYIYSPE----YVSMCDSLAKIPKRASMVHSLIEAYALH 51
Query: 102 RRMEVNRPFPAGPSDIRRFHTDEYVEFLASVSPESSGDPSFSRHLKRFNVGEDCPVFDGL 161
++M + +P A ++ FHTD Y++ L VS E D S + +G CP +G+
Sbjct: 52 KQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI---EYGLGYACPATEGI 108
Query: 162 FGFCQASAGGSIGAAVKLNRGDADIAVNWAGGLHHAKKSEASGFCYVNDIVLGILELLKV 221
F + A G +I AA L G +A+NW+GG HHAKK EASGFCY+ND VLGIL L +
Sbjct: 109 FDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRK 168
Query: 222 HRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFHKFG-DFFPGTGHIKDVGAGQGKFYALN 280
R+LYVD+D+HHGDGVE+AF T +VMTVS HKF FFPGTG + DVG G+G++Y++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 281 VPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGADSLSGDRLGCFNLSVKGHADCL 340
VP+ DG+ DE + + ++++V + + P AVVLQ GAD+++GD + FN++ G CL
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 341 RFLRSFNVPLMVLGGGGYTIRNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHV 400
+++ + + ++LGGGGY + N ARCW Y T V +G +++P +E++ +GPDY L +
Sbjct: 289 KYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEI 348
Query: 401 EPCNMENLNAHKDMEKIRNTLLEQLSGLI 429
P + N +++I N + L ++
Sbjct: 349 TPSCRPDRNEPHRIQQILNYIKGNLKHVV 377
>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 = 310 bits (794), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 158/389 (40%), Positives = 231/389 (59%), Gaps = 15/389 (3%)
Query: 44 MEEPTEGASLVSGPDGKKRRVSYFYEPTIGDYYYGQGHPMK--PHRIRMAHNLIVHYGLH 101
MEEP E A G+ Y Y P Y + P R M H+LI Y LH
Sbjct: 1 MEEPEEPAD-----SGQSLVPVYIYSPE----YVSMCDSLAKIPKRASMVHSLIEAYALH 51
Query: 102 RRMEVNRPFPAGPSDIRRFHTDEYVEFLASVSPESSGDPSFSRHLKRFNVGEDCPVFDGL 161
++M + +P A ++ FHTD Y++ L VS E D S + +G DCP +G+
Sbjct: 52 KQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI---EYGLGYDCPATEGI 108
Query: 162 FGFCQASAGGSIGAAVKLNRGDADIAVNWAGGLHHAKKSEASGFCYVNDIVLGILELLKV 221
F + A G +I AA L G +A+NW+GG H AKK EASGFCY+ND VLGIL L +
Sbjct: 109 FDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHAAKKDEASGFCYLNDAVLGILRLRRK 168
Query: 222 HRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFHKFG-DFFPGTGHIKDVGAGQGKFYALN 280
R+LYVD+D+HHGDGVE+AF T +VMTVS HKF FFPGTG + DVG G+G++Y++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 281 VPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGADSLSGDRLGCFNLSVKGHADCL 340
VP+ DG+ DE + + ++++V + + P AVVLQ GAD+++GD + FN++ G CL
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 341 RFLRSFNVPLMVLGGGGYTIRNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHV 400
+++ + + ++LGGGGY + N ARCW Y T V +G +++P +E++ +GPDY L +
Sbjct: 289 KYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEI 348
Query: 401 EPCNMENLNAHKDMEKIRNTLLEQLSGLI 429
P + N +++I N + L ++
Sbjct: 349 TPSCRPDRNEPHRIQQILNYIKGNLKHVV 377
>pdb|3EW8|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101l Variant
Length = 388
Score = 310 bits (793), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 158/389 (40%), Positives = 231/389 (59%), Gaps = 15/389 (3%)
Query: 44 MEEPTEGASLVSGPDGKKRRVSYFYEPTIGDYYYGQGHPMK--PHRIRMAHNLIVHYGLH 101
MEEP E A G+ Y Y P Y + P R M H+LI Y LH
Sbjct: 1 MEEPEEPAD-----SGQSLVPVYIYSPE----YVSMCDSLAKIPKRASMVHSLIEAYALH 51
Query: 102 RRMEVNRPFPAGPSDIRRFHTDEYVEFLASVSPESSGDPSFSRHLKRFNVGEDCPVFDGL 161
++M + +P A ++ FHTD Y++ L VS E D S + +G CP +G+
Sbjct: 52 KQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI---EYGLGYLCPATEGI 108
Query: 162 FGFCQASAGGSIGAAVKLNRGDADIAVNWAGGLHHAKKSEASGFCYVNDIVLGILELLKV 221
F + A G +I AA L G +A+NW+GG HHAKK EASGFCY+ND VLGIL L +
Sbjct: 109 FDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRK 168
Query: 222 HRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFHKFG-DFFPGTGHIKDVGAGQGKFYALN 280
R+LYVD+D+HHGDGVE+AF T +VMTVS HKF FFPGTG + DVG G+G++Y++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 281 VPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGADSLSGDRLGCFNLSVKGHADCL 340
VP+ DG+ DE + + ++++V + + P AVVLQ GAD+++GD + FN++ G CL
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 341 RFLRSFNVPLMVLGGGGYTIRNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHV 400
+++ + + ++LGGGGY + N ARCW Y T V +G +++P +E++ +GPDY L +
Sbjct: 289 KYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEI 348
Query: 401 EPCNMENLNAHKDMEKIRNTLLEQLSGLI 429
P + N +++I N + L ++
Sbjct: 349 TPSCRPDRNEPHRIQQILNYIKGNLKHVV 377
>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 = 309 bits (792), Expect = 2e-84, Method: Compositional matrix adjust.
Identities = 158/389 (40%), Positives = 231/389 (59%), Gaps = 15/389 (3%)
Query: 44 MEEPTEGASLVSGPDGKKRRVSYFYEPTIGDYYYGQGHPMK--PHRIRMAHNLIVHYGLH 101
MEEP E A G+ Y Y P Y + P R M H+LI Y LH
Sbjct: 1 MEEPEEPAD-----SGQSLVPVYIYSPE----YVSMCDSLAKIPKRASMVHSLIEAYALH 51
Query: 102 RRMEVNRPFPAGPSDIRRFHTDEYVEFLASVSPESSGDPSFSRHLKRFNVGEDCPVFDGL 161
++M + +P A ++ FHTD Y++ L VS E D S + +G CP +G+
Sbjct: 52 KQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI---EYGLGYLCPATEGI 108
Query: 162 FGFCQASAGGSIGAAVKLNRGDADIAVNWAGGLHHAKKSEASGFCYVNDIVLGILELLKV 221
F + A G +I AA L G +A+NW+GG HHAKK EASGFCY+ND VLGIL L +
Sbjct: 109 FDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRK 168
Query: 222 HRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFHKFG-DFFPGTGHIKDVGAGQGKFYALN 280
R+LYVD+D+HHGDGVE+AF T +VMTVS HKF FFPGTG + DVG G+G++Y++N
Sbjct: 169 FERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVN 228
Query: 281 VPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGADSLSGDRLGCFNLSVKGHADCL 340
VP+ DG+ DE + + ++++V + + P AVVLQ GAD+++GD + FN++ G CL
Sbjct: 229 VPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCL 288
Query: 341 RFLRSFNVPLMVLGGGGYTIRNVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHV 400
+++ + + ++LGGGGY + N ARCW Y T V +G +++P +E++ +GPDY L +
Sbjct: 289 KYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEI 348
Query: 401 EPCNMENLNAHKDMEKIRNTLLEQLSGLI 429
P + N +++I N + L ++
Sbjct: 349 TPSCRPDRNEPHRIQQILNYIKGNLKHVV 377
>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 = 169 bits (429), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 101/280 (36%), Positives = 159/280 (56%), Gaps = 15/280 (5%)
Query: 73 GDYYYGQGHPMKPHRIRMAHNLIVHYGLHRRMEVNRPFPAGPSDIRRFHTDEYVEFLASV 132
G Y Y + HP+K R+ + L E+ + PA ++ FHT++Y+ L
Sbjct: 13 GKYRYPKNHPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLLFHTEDYINTLME- 71
Query: 133 SPESSGDPSFSRHLKRFNVG-EDCPVFDGLFGFCQASAGGSIGAAVKLNRGDADIAVNWA 191
+ S P +R +++N+G + PV +F + G ++ A + +G+ +A N A
Sbjct: 72 AERSQSVPKGAR--EKYNIGGYENPVSYAMFTGSSLATGSTVQAIEEFLKGN--VAFNPA 127
Query: 192 GGLHHAKKSEASGFCYVNDIVLGILELLKV-HRRVLYVDIDVHHGDGVEEAFYTTDRVMT 250
GG+HHA KS A+GFCY+N+ +GI L K +R+LY+D+D HH DGV+EAFY TD+V
Sbjct: 128 GGMHHAFKSRANGFCYINNPAVGIEYLRKKGFKRILYIDLDAHHCDGVQEAFYDTDQVFV 187
Query: 251 VSFHKFGDF-FP-GTGHIKDVGAGQGKFYALNVPLNDGLDDESFRGLFRPIIQKVMEVYQ 308
+S H+ ++ FP G ++++G G+GK Y LN+PL GL+D F ++ V EV++
Sbjct: 188 LSLHQSPEYAFPFEKGFLEEIGEGKGKGYNLNIPLPKGLNDNEFLFALEKSLEIVKEVFE 247
Query: 309 PDAVVLQCGADSLSGDRLGCFNLSVKGHADCLRFLRSFNV 348
P+ +LQ G D L D L FNLS + FL++FN+
Sbjct: 248 PEVYLLQLGTDPLLEDYLSKFNLS------NVAFLKAFNI 281
>pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog From Aquifex Aeolicus
Length = 375
Score = 166 bits (421), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 100/280 (35%), Positives = 158/280 (56%), Gaps = 15/280 (5%)
Query: 73 GDYYYGQGHPMKPHRIRMAHNLIVHYGLHRRMEVNRPFPAGPSDIRRFHTDEYVEFLASV 132
G Y Y + HP+K R+ + L E+ + PA ++ FHT++Y+ L
Sbjct: 13 GKYRYPKNHPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLLFHTEDYINTLME- 71
Query: 133 SPESSGDPSFSRHLKRFNVG-EDCPVFDGLFGFCQASAGGSIGAAVKLNRGDADIAVNWA 191
+ P +R +++N+G + PV +F + G ++ A + +G+ +A N A
Sbjct: 72 AERCQCVPKGAR--EKYNIGGYENPVSYAMFTGSSLATGSTVQAIEEFLKGN--VAFNPA 127
Query: 192 GGLHHAKKSEASGFCYVNDIVLGILELLKV-HRRVLYVDIDVHHGDGVEEAFYTTDRVMT 250
GG+HHA KS A+GFCY+N+ +GI L K +R+LY+D+D HH DGV+EAFY TD+V
Sbjct: 128 GGMHHAFKSRANGFCYINNPAVGIEYLRKKGFKRILYIDLDAHHCDGVQEAFYDTDQVFV 187
Query: 251 VSFHKFGDF-FP-GTGHIKDVGAGQGKFYALNVPLNDGLDDESFRGLFRPIIQKVMEVYQ 308
+S H+ ++ FP G ++++G G+GK Y LN+PL GL+D F ++ V EV++
Sbjct: 188 LSLHQSPEYAFPFEKGFLEEIGEGKGKGYNLNIPLPKGLNDNEFLFALEKSLEIVKEVFE 247
Query: 309 PDAVVLQCGADSLSGDRLGCFNLSVKGHADCLRFLRSFNV 348
P+ +LQ G D L D L FNLS + FL++FN+
Sbjct: 248 PEVYLLQLGTDPLLEDYLSKFNLS------NVAFLKAFNI 281
>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 = 104 bits (260), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 77/242 (31%), Positives = 117/242 (48%), Gaps = 42/242 (17%)
Query: 195 HHAKKSEASGFCYVNDIVLG--ILELLKVHRRVLYVDIDVHHGDGVEEAFYTTDRVMTVS 252
HHA++S GFCY N + + +L+ ++L VD DVHHG+G ++AFY+ V+ +S
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVLYMS 217
Query: 253 FHKF--GDFFPGTGHIKDVGAGQGKFYALNVPLNDGLD----DESFRGLFRPIIQKVMEV 306
H++ G+FFPG+G +VG G G + +N+ GLD D + FR ++ +
Sbjct: 218 LHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASE 277
Query: 307 YQPDAVVLQCGADSLSG--DRLGCFNLSVKGHADCLRFLRSFNVPLMVLGG--------G 356
+ PD V++ G D++ G LG +NLS A C +L LM L G G
Sbjct: 278 FAPDVVLVSSGFDAVEGHPTPLGGYNLS----ARCFGYLTK---QLMGLAGGRIVLALEG 330
Query: 357 GYTIRNVARCWCYETAVAVGVEPDNKL-PYNEYYEYFGPDYTLHVEPCNMENLNAHKDME 415
GY + + C + V N+L P P+ L P N NA + ME
Sbjct: 331 GYDLTAI----CDASEACVSALLGNELDPL--------PEKVLQQRP----NANAVRSME 374
Query: 416 KI 417
K+
Sbjct: 375 KV 376
>pdb|2VQW|G Chain G, Structure Of Inhibitor-Free Hdac4 Catalytic Domain (With
Gain-Of-Function Mutation His332tyr)
Length = 413
Score = 104 bits (260), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 77/242 (31%), Positives = 117/242 (48%), Gaps = 42/242 (17%)
Query: 195 HHAKKSEASGFCYVNDIVLG--ILELLKVHRRVLYVDIDVHHGDGVEEAFYTTDRVMTVS 252
HHA++S GFCY N + + +L+ ++L VD DVHHG+G ++AFY+ V+ +S
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVLYMS 217
Query: 253 FHKF--GDFFPGTGHIKDVGAGQGKFYALNVPLNDGLD----DESFRGLFRPIIQKVMEV 306
H++ G+FFPG+G +VG G G + +N+ GLD D + FR ++ +
Sbjct: 218 LHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASE 277
Query: 307 YQPDAVVLQCGADSLSG--DRLGCFNLSVKGHADCLRFLRSFNVPLMVLGG--------G 356
+ PD V++ G D++ G LG +NLS A C +L LM L G G
Sbjct: 278 FAPDVVLVSSGFDAVEGHPTPLGGYNLS----ARCFGYLTK---QLMGLAGGRIVLALEG 330
Query: 357 GYTIRNVARCWCYETAVAVGVEPDNKL-PYNEYYEYFGPDYTLHVEPCNMENLNAHKDME 415
GY + + C + V N+L P P+ L P N NA + ME
Sbjct: 331 GYDLTAI----CDASEACVSALLGNELDPL--------PEKVLQQRP----NANAVRSME 374
Query: 416 KI 417
K+
Sbjct: 375 KV 376
>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 = 103 bits (258), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 77/239 (32%), Positives = 115/239 (48%), Gaps = 36/239 (15%)
Query: 195 HHAKKSEASGFCYVNDIVLG--ILELLKVHRRVLYVDIDVHHGDGVEEAFYTTDRVMTVS 252
HHA++S GFCY N + + +L+ ++L VD DVHHG+G ++AFY+ V+ +S
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVLYMS 217
Query: 253 FHKF--GDFFPGTGHIKDVGAGQGKFYALNVPLNDGLD----DESFRGLFRPIIQKVMEV 306
H++ G+FFPG+G +VG G G + +N+ GLD D + FR ++ +
Sbjct: 218 LHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASE 277
Query: 307 YQPDAVVLQCGADSLSG--DRLGCFNLSVKGHADCLRFLRSFNVPLMVLGGGGYTIR--- 361
+ PD V++ G D++ G LG +NLS A C +L LM L GG +
Sbjct: 278 FAPDVVLVSSGFDAVEGHPTPLGGYNLS----ARCFGYLTK---QLMGLAGGRIVLALEG 330
Query: 362 ---NVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHVEPCNMENLNAHKDMEKI 417
A C E V+ L NE P+ L P N NA + MEK+
Sbjct: 331 GHDLTAICDASEACVSA-------LLGNELDPL--PEKVLQQRP----NANAVRSMEKV 376
>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 = 103 bits (256), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 77/239 (32%), Positives = 115/239 (48%), Gaps = 36/239 (15%)
Query: 195 HHAKKSEASGFCYVNDIVLG--ILELLKVHRRVLYVDIDVHHGDGVEEAFYTTDRVMTVS 252
HHA++S GFCY N + + +L+ ++L VD DVHHG+G ++AFY+ V+ +S
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVLYMS 217
Query: 253 FHKF--GDFFPGTGHIKDVGAGQGKFYALNVPLNDGLD----DESFRGLFRPIIQKVMEV 306
H++ G+FFPG+G +VG G G + +N+ GLD D + FR ++ +
Sbjct: 218 LHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASE 277
Query: 307 YQPDAVVLQCGADSLSG--DRLGCFNLSVKGHADCLRFLRSFNVPLMVLGGGGYTIR--- 361
+ PD V++ G D++ G LG +NLS A C +L LM L GG +
Sbjct: 278 FAPDVVLVSSGFDAVEGHPTPLGGYNLS----ARCFGYLTK---QLMGLAGGRIVLALEG 330
Query: 362 ---NVARCWCYETAVAVGVEPDNKLPYNEYYEYFGPDYTLHVEPCNMENLNAHKDMEKI 417
A C E V+ L NE P+ L P N NA + MEK+
Sbjct: 331 GHDLTAICDASEACVSA-------LLGNELDPL--PEKVLQQRP----NANAVRSMEKV 376
>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 = 103 bits (256), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 59/176 (33%), Positives = 94/176 (53%), Gaps = 17/176 (9%)
Query: 195 HHAKKSEASGFCYVNDIVLGILELLKVHR--RVLYVDIDVHHGDGVEEAFYTTDRVMTVS 252
HHA S A GFC+ N + + +L + + ++L VD DVHHG+G ++ FY V+ +S
Sbjct: 189 HHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQQTFYQDPSVLYIS 248
Query: 253 FHKF--GDFFPGTGHIKDVGAGQGKFYALNVPLNDGLD----DESFRGLFRPIIQKVMEV 306
H+ G+FFPG+G + +VGAG G+ + +NV GLD D + FR ++ +
Sbjct: 249 LHRHDDGNFFPGSGAVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIARE 308
Query: 307 YQPDAVVLQCGADSLSG--DRLGCFNLSVKGHADCLRFLRSFNVPLMVLGGGGYTI 360
+ PD V++ G D+ G LG +++S K C ++ LM L GG +
Sbjct: 309 FSPDLVLVSAGFDAAEGHPAPLGGYHVSAK----CFGYMTQ---QLMNLAGGAVVL 357
>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 = 91.7 bits (226), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 85/343 (24%), Positives = 143/343 (41%), Gaps = 32/343 (9%)
Query: 81 HPMKPHRIRMAHNLIVHYGLHRRMEVNRPFPAGPSDIRRFHTDEYVEFLASVSPESSGDP 140
H P R H L+ G + A +DI R H+ ++E + VS +G
Sbjct: 36 HLAHPDTKRRFHELVCASGQIEHLTPIAAVAATDADILRAHSAAHLENMKRVSNLPTGG- 94
Query: 141 SFSRHLKRFNVGEDCPVF-DGLFGFCQASAGGSIGAAVKLNRGDADIA---VNWAGGLHH 196
+ G+ + +G + SAGG++ ++ G+ VN G HH
Sbjct: 95 ---------DTGDGITMMGNGGLEIARLSAGGAVELTRRVATGELSAGYALVNPPG--HH 143
Query: 197 AKKSEASGFCYVND--IVLGILELLKVHRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFH 254
A + A GFC N+ + G + RV +D DVHHG+G ++ ++ V+T+S H
Sbjct: 144 APHNAAMGFCIFNNTSVAAGYARAVLGMERVAILDWDVHHGNGTQDIWWNDPSVLTISLH 203
Query: 255 KFGDFFPGTGHIKDVGAGQGKFYALNVPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVL 314
+ F P +G+ + GAG G Y +NVPL G + ++ ++ + Y+P +++
Sbjct: 204 QHLCFPPDSGYSTERGAGNGHGYNINVPLPPGSGNAAYLHAMDQVVLPALRAYRPQLIIV 263
Query: 315 QCGADSLSGDRLGCFNLSVKGHADCLRFLRSFNVPLMVLGG-------GGYTIRNVARCW 367
G D+ D L ++ G R R+ + + G GGY+ + C
Sbjct: 264 GSGFDASMLDPLARMMVTADGFRQMAR--RTIDCAADICDGRIVFVQEGGYSPHYLPFCG 321
Query: 368 CYETAVAVGVE--PDNKLPYNEYYEYFGPDYTLHVEPCNMENL 408
GV PD PY+E+ G + L E +E +
Sbjct: 322 LAVIEELTGVRSLPD---PYHEFLAGMGGNTLLDAERAAIEEI 361
>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 = 91.7 bits (226), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 85/343 (24%), Positives = 143/343 (41%), Gaps = 32/343 (9%)
Query: 81 HPMKPHRIRMAHNLIVHYGLHRRMEVNRPFPAGPSDIRRFHTDEYVEFLASVSPESSGDP 140
H P R H L+ G + A +DI R H+ ++E + VS +G
Sbjct: 42 HLAHPDTKRRFHELVCASGQIEHLTPIAAVAATDADILRAHSAAHLENMKRVSNLPTGG- 100
Query: 141 SFSRHLKRFNVGEDCPVF-DGLFGFCQASAGGSIGAAVKLNRGDADIA---VNWAGGLHH 196
+ G+ + +G + SAGG++ ++ G+ VN G HH
Sbjct: 101 ---------DTGDGITMMGNGGLEIARLSAGGAVELTRRVATGELSAGYALVNPPG--HH 149
Query: 197 AKKSEASGFCYVND--IVLGILELLKVHRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFH 254
A + A GFC N+ + G + RV +D DVHHG+G ++ ++ V+T+S H
Sbjct: 150 APHNAAMGFCIFNNTSVAAGYARAVLGMERVAILDWDVHHGNGTQDIWWNDPSVLTISLH 209
Query: 255 KFGDFFPGTGHIKDVGAGQGKFYALNVPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVL 314
+ F P +G+ + GAG G Y +NVPL G + ++ ++ + Y+P +++
Sbjct: 210 QHLCFPPDSGYSTERGAGNGHGYNINVPLPPGSGNAAYLHAMDQVVLPALRAYRPQLIIV 269
Query: 315 QCGADSLSGDRLGCFNLSVKGHADCLRFLRSFNVPLMVLGG-------GGYTIRNVARCW 367
G D+ D L ++ G R R+ + + G GGY+ + C
Sbjct: 270 GSGFDASMLDPLARMMVTADGFRQMAR--RTIDCAADICDGRIVFVQEGGYSPHYLPFCG 327
Query: 368 CYETAVAVGVE--PDNKLPYNEYYEYFGPDYTLHVEPCNMENL 408
GV PD PY+E+ G + L E +E +
Sbjct: 328 LAVIEELTGVRSLPD---PYHEFLAGMGGNTLLDAERAAIEEI 367
>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 = 86.7 bits (213), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 56/175 (32%), Positives = 87/175 (49%), Gaps = 11/175 (6%)
Query: 195 HHAKKSEASGFCYVNDIVLGILELLKVHRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSFH 254
HHA+ A GFCY+N+ + L H RV +D D+HHG G++E FY V+ VS H
Sbjct: 177 HHARVDAAGGFCYLNNAAIAAQALRARHARVAVLDTDMHHGQGIQEIFYARRDVLYVSIH 236
Query: 255 KFGD---FFPGTGHIKD-VGAGQGKFYALNVPLNDGLDDESFRGLFRPIIQKVMEV--YQ 308
GD F+P D GAG+G Y +N+P+ G + +F F + + E+ +
Sbjct: 237 --GDPTNFYPAVAGFDDERGAGEGLGYNVNLPMPHGSSEAAF---FERVDDALRELRRFA 291
Query: 309 PDAVVLQCGADSLSGDRLGCFNLSVKGHADCLRFLRSFNVPLMVLGGGGYTIRNV 363
PDA+VL G D D ++ G + + +P +++ GGY I ++
Sbjct: 292 PDALVLSLGFDVYRDDPQSQVAVTTDGFGRLGHLIGALRLPTVIVQEGGYHIESL 346
>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 = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 44/172 (25%), Positives = 81/172 (47%), Gaps = 4/172 (2%)
Query: 195 HHAKKSEASGFCYVNDIVLGILELL-KVHRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSF 253
HHA G+C++N+ + LL K +++ +D+D HHG+G ++ FY V S
Sbjct: 158 HHAGIDMFGGYCFINNAAVAAQRLLDKGAKKIAILDVDFHHGNGTQDIFYERGDVFFASL 217
Query: 254 H-KFGDFFPG-TGHIKDVGAGQGKFYALNVPLNDGLDDESFRGLFRPIIQKVMEVYQPDA 311
H + FP G+ ++ G G G N P+ G + ++++ + +A
Sbjct: 218 HGDPAEAFPHFLGYAEETGKGAGAGTTANYPMGRGTPYSVWGEALTDSLKRIA-AFGAEA 276
Query: 312 VVLQCGADSLSGDRLGCFNLSVKGHADCLRFLRSFNVPLMVLGGGGYTIRNV 363
+V+ G D+ D + F L+ + R + + VPL+V+ GGY + +
Sbjct: 277 IVVSLGVDTFEQDPISFFKLTSPDYITMGRTIAASGVPLLVVMEGGYGVPEI 328
>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 = 67.8 bits (164), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 43/172 (25%), Positives = 80/172 (46%), Gaps = 4/172 (2%)
Query: 195 HHAKKSEASGFCYVNDIVLGILELL-KVHRRVLYVDIDVHHGDGVEEAFYTTDRVMTVSF 253
H A G+C++N+ + LL K +++ +D+D HHG+G ++ FY V S
Sbjct: 158 HAAGIDMFGGYCFINNAAVAAQRLLDKGAKKIAILDVDFHHGNGTQDIFYERGDVFFASL 217
Query: 254 H-KFGDFFPG-TGHIKDVGAGQGKFYALNVPLNDGLDDESFRGLFRPIIQKVMEVYQPDA 311
H + FP G+ ++ G G G N P+ G + ++++ + +A
Sbjct: 218 HGDPAEAFPHFLGYAEETGKGAGAGTTANYPMGRGTPYSVWGEALTDSLKRIA-AFGAEA 276
Query: 312 VVLQCGADSLSGDRLGCFNLSVKGHADCLRFLRSFNVPLMVLGGGGYTIRNV 363
+V+ G D+ D + F L+ + R + + VPL+V+ GGY + +
Sbjct: 277 IVVSLGVDTFEQDPISFFKLTSPDYITMGRTIAASGVPLLVVMEGGYGVPEI 328
>pdb|3NF1|A Chain A, Crystal Structure Of The Tpr Domain Of Kinesin Light Chain
1
Length = 311
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 75 YYYGQGHPMKPHRIRMAHNLIVHYGLHRRMEVNRPF 110
Y+ G G+ + P R+R HNL++ Y R EV P
Sbjct: 15 YFQGGGYEI-PARLRTLHNLVIQYASQGRYEVAVPL 49
>pdb|3DLI|A Chain A, Crystal Structure Of A Sam Dependent Methyltransferase
From Archaeoglobus Fulgidus
pdb|3DLI|B Chain B, Crystal Structure Of A Sam Dependent Methyltransferase
From Archaeoglobus Fulgidus
pdb|3DLI|C Chain C, Crystal Structure Of A Sam Dependent Methyltransferase
From Archaeoglobus Fulgidus
Length = 240
Score = 29.6 bits (65), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 231 DVHHGDG---VEEAFYTTDRVMTVSFHKFGDFFPGTGHIKDVGAGQGKFYAL 279
D+H D EE F + ++ ++ +F G + D+G G+G+F L
Sbjct: 7 DIHTSDYYFLFEEKFRGSRELVKARLRRYIPYFKGCRRVLDIGCGRGEFLEL 58
>pdb|1DNK|A Chain A, The X-Ray Structure Of The Dnase I-D(Ggtatacc)2 Complex At
2.3 Angstroms Resolution
pdb|2DNJ|A Chain A, Dnase I-Induced Dna Conformation. 2 Angstroms Structure Of
A Dnase I-Octamer Complex
pdb|2A3Z|B Chain B, Ternary Complex Of The Wh2 Domain Of Wasp With Actin-Dnase
I
pdb|2A40|B Chain B, Ternary Complex Of The Wh2 Domain Of Wave With Actin-Dnase
I
pdb|2A40|E Chain E, Ternary Complex Of The Wh2 Domain Of Wave With Actin-Dnase
I
pdb|2A41|B Chain B, Ternary Complex Of The Wh2 Domain Of Wip With Actin-Dnase
I
pdb|2A42|B Chain B, Actin-Dnase I Complex
pdb|2D1K|B Chain B, Ternary Complex Of The Wh2 Domain Of Mim With Actin-Dnase
I
pdb|3DNI|A Chain A, Crystallographic Refinement And Structure Of Dnase I At 2
Angstroms Resolution
pdb|3CJC|D Chain D, Actin Dimer Cross-Linked By V. Cholerae Martx Toxin And
Complexed With Dnase I And Gelsolin-Segment 1
pdb|3W3D|B Chain B, Crystal Structure Of Smooth Muscle G Actin Dnase I Complex
Length = 260
Score = 29.3 bits (64), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 22/46 (47%)
Query: 277 YALNVPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGADSLS 322
Y ++ PL E + LFRP V++ YQ D CG DS S
Sbjct: 65 YVVSEPLGRNSYKERYLFLFRPNKVSVLDTYQYDDGCESCGNDSFS 110
>pdb|3LST|A Chain A, Crystal Structure Of Calo1, Methyltransferase In
Calicheamicin Biosynthesis, Sah Bound Form
pdb|3LST|B Chain B, Crystal Structure Of Calo1, Methyltransferase In
Calicheamicin Biosynthesis, Sah Bound Form
Length = 348
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 5/43 (11%)
Query: 238 VEEAFYTTDRVMTVSFH----KFGDFFPGTGHIKDVGAGQGKF 276
VE +Y ++ + H + GDF P TG + DVG G+G F
Sbjct: 157 VEALYYEGXETVSAAEHLILARAGDF-PATGTVADVGGGRGGF 198
>pdb|2AHU|A Chain A, Crystal Structure Of Acyl-coa Transferase (ydif) Apoenzyme
From Escherichia Coli O157:h7.
pdb|2AHU|B Chain B, Crystal Structure Of Acyl-coa Transferase (ydif) Apoenzyme
From Escherichia Coli O157:h7.
pdb|2AHU|C Chain C, Crystal Structure Of Acyl-coa Transferase (ydif) Apoenzyme
From Escherichia Coli O157:h7.
pdb|2AHU|D Chain D, Crystal Structure Of Acyl-coa Transferase (ydif) Apoenzyme
From Escherichia Coli O157:h7
Length = 531
Score = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 41/100 (41%), Gaps = 11/100 (11%)
Query: 231 DVHHGDGVEE---AFYTTDRVMTVSFHKFGDFFPGTGHIKDVGAGQGKFY--------AL 279
D +HG G++ +F D+ V HKF GTG D+ A K +L
Sbjct: 364 DFYHGGGLDVCYLSFAEVDQHGNVGVHKFNGKIXGTGGFIDISATSKKIIFCGTLTAGSL 423
Query: 280 NVPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGAD 319
+ DG + G + I+++ E+ + L+ G D
Sbjct: 424 KTEIADGKLNIVQEGRVKKFIRELPEITFSGKIALERGLD 463
>pdb|1ATN|D Chain D, Atomic Structure Of The Actin:dnase I Complex
Length = 260
Score = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 22/46 (47%)
Query: 277 YALNVPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGADSLS 322
Y ++ PL E + LFRP V++ YQ D CG DS S
Sbjct: 65 YVVSEPLGRNSYKERYLFLFRPNKVSVLDTYQYDDGCGNCGNDSFS 110
>pdb|2AHV|A Chain A, Crystal Structure Of Acyl-Coa Transferase From E. Coli
O157:h7 (Ydif)- Thioester Complex With Coa- 1
pdb|2AHV|B Chain B, Crystal Structure Of Acyl-Coa Transferase From E. Coli
O157:h7 (Ydif)- Thioester Complex With Coa- 1
pdb|2AHV|C Chain C, Crystal Structure Of Acyl-Coa Transferase From E. Coli
O157:h7 (Ydif)- Thioester Complex With Coa- 1
pdb|2AHV|D Chain D, Crystal Structure Of Acyl-Coa Transferase From E. Coli
O157:h7 (Ydif)- Thioester Complex With Coa- 1
pdb|2AHW|A Chain A, Crystal Structure Of Acyl-Coa Transferase From E. Coli
O157:h7 (Ydif)- Thioester Complex With Coa- 2
pdb|2AHW|B Chain B, Crystal Structure Of Acyl-Coa Transferase From E. Coli
O157:h7 (Ydif)- Thioester Complex With Coa- 2
pdb|2AHW|C Chain C, Crystal Structure Of Acyl-Coa Transferase From E. Coli
O157:h7 (Ydif)- Thioester Complex With Coa- 2
pdb|2AHW|D Chain D, Crystal Structure Of Acyl-Coa Transferase From E. Coli
O157:h7 (Ydif)- Thioester Complex With Coa- 2
Length = 531
Score = 28.5 bits (62), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 41/100 (41%), Gaps = 11/100 (11%)
Query: 231 DVHHGDGVEE---AFYTTDRVMTVSFHKFGDFFPGTGHIKDVGAGQGKFY--------AL 279
D +HG G++ +F D+ V HKF GTG D+ A K +L
Sbjct: 364 DFYHGGGLDVCYLSFAEVDQHGNVGVHKFNGKIMGTGGFIDISATSKKIIFCGTLTAGSL 423
Query: 280 NVPLNDGLDDESFRGLFRPIIQKVMEVYQPDAVVLQCGAD 319
+ DG + G + I+++ E+ + L+ G D
Sbjct: 424 KTEIADGKLNIVQEGRVKKFIRELPEITFSGKIALERGLD 463
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.140 0.441
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,897,483
Number of Sequences: 62578
Number of extensions: 701652
Number of successful extensions: 1392
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1306
Number of HSP's gapped (non-prelim): 33
length of query: 490
length of database: 14,973,337
effective HSP length: 103
effective length of query: 387
effective length of database: 8,527,803
effective search space: 3300259761
effective search space used: 3300259761
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)