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= 011109
(493 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 = 541 bits (1394), Expect = e-154, Method: Compositional matrix adjust.
Identities = 250/367 (68%), Positives = 312/367 (85%)
Query: 15 VKRKVCYFYDPEVGNYYYGQGHPMKPHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCR 74
K+KVCY+YD ++GNYYYGQGHPMKPHRIRMTH LL +YGL + M++ +P A ++ +
Sbjct: 1 AKKKVCYYYDGDIGNYYYGQGHPMKPHRIRMTHNLLLNYGLYRKMEIYRPHKATAEEMTK 60
Query: 75 FHADDYVSFLRSITPETQQDQLRQLKRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNH 134
+H+D+Y+ FLRSI P+ + +Q++RFNVGEDCPVFDGLF FCQ GGSV GAVKLN
Sbjct: 61 YHSDEYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGSVAGAVKLNR 120
Query: 135 GLCDIAINWAGGLHHAKKCEASGFCYVNDIVLAILELLKQHERVLYVDIDIHHGDGVEEA 194
D+A+NWAGGLHHAKK EASGFCYVNDIVLAILELLK H+RVLY+DIDIHHGDGVEEA
Sbjct: 121 QQTDMAVNWAGGLHHAKKSEASGFCYVNDIVLAILELLKYHQRVLYIDIDIHHGDGVEEA 180
Query: 195 FYTTDRVMTVSFHKFGDYFPGTGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIG 254
FYTTDRVMTVSFHK+G+YFPGTGD+RDIG KGK+Y++N P+ DGIDDESY +FKPII
Sbjct: 181 FYTTDRVMTVSFHKYGEYFPGTGDLRDIGAGKGKYYAVNFPMRDGIDDESYGQIFKPIIS 240
Query: 255 KVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIR 314
KVME+++P AVVLQCGADSLSGDRLGCFNL++KGHA+CV+ +++FN+PLL+LGGGGYTIR
Sbjct: 241 KVMEMYQPSAVVLQCGADSLSGDRLGCFNLTVKGHAKCVEVVKTFNLPLLMLGGGGYTIR 300
Query: 315 NVARCWCYETGVALGVEVDDKMPQHEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKL 374
NVARCW YET VAL E+ +++P ++Y+EYFGPD+ LH++PSNM N+N+ + +E+I+ +L
Sbjct: 301 NVARCWTYETAVALDCEIPNELPYNDYFEYFGPDFKLHISPSNMTNQNTPEYMEKIKQRL 360
Query: 375 LEYLSKL 381
E L L
Sbjct: 361 FENLRML 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 = 521 bits (1343), Expect = e-148, Method: Compositional matrix adjust.
Identities = 233/376 (61%), Positives = 300/376 (79%), Gaps = 2/376 (0%)
Query: 15 VKRKVCYFYDPEVGNYYYGQGHPMKPHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCR 74
+ + V YFYDP+VGN++YG GHPMKPHR+ +TH+L+ HYGL + M V KP+ A + D+CR
Sbjct: 1 MAKTVAYFYDPDVGNFHYGAGHPMKPHRLALTHSLVLHYGLYKKMIVFKPYQASQHDMCR 60
Query: 75 FHADDYVSFLRSITPETQQDQLRQLKRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNH 134
FH++DY+ FL+ ++P Q + L FNVG+DCPVF GLF FC Y G S+ GA +LN+
Sbjct: 61 FHSEDYIDFLQRVSPTNMQGFTKSLNAFNVGDDCPVFPGLFEFCSRYTGASLQGATQLNN 120
Query: 135 GLCDIAINWAGGLHHAKKCEASGFCYVNDIVLAILELLKQHERVLYVDIDIHHGDGVEEA 194
+CDIAINWAGGLHHAKK EASGFCYVNDIV+ ILELLK H RVLY+DIDIHHGDGV+EA
Sbjct: 121 KICDIAINWAGGLHHAKKFEASGFCYVNDIVIGILELLKYHPRVLYIDIDIHHGDGVQEA 180
Query: 195 FYTTDRVMTVSFHKFGDY-FPGTGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPII 253
FY TDRVMTVSFHK+G+Y FPGTGD+ ++G G++Y LNVPL DGIDD+SY +LF+P+I
Sbjct: 181 FYLTDRVMTVSFHKYGNYFFPGTGDMYEVGAESGRYYCLNVPLRDGIDDQSYKHLFQPVI 240
Query: 254 GKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTI 313
+V++ ++P +VLQCGADSL DRLGCFNLSI+GH ECV++++SFN+PLL+LGGGGYT+
Sbjct: 241 NQVVDFYQPTCIVLQCGADSLGCDRLGCFNLSIRGHGECVEYVKSFNIPLLVLGGGGYTV 300
Query: 314 RNVARCWCYETGVALGVEVDDKMPQHEYYEYFGPDYTLHV-APSNMENKNSRQLLEEIRN 372
RNVARCW YET + + + +++P EY+EYF PD+TLH + +EN+NSRQ L++IR
Sbjct: 301 RNVARCWTYETSLLVEEAISEELPYSEYFEYFAPDFTLHPDVSTRIENQNSRQYLDQIRQ 360
Query: 373 KLLEYLSKLQHAPSVQ 388
+ E L L HAPSVQ
Sbjct: 361 TIFENLKMLNHAPSVQ 376
>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 = 329 bits (844), Expect = 2e-90, Method: Compositional matrix adjust.
Identities = 149/336 (44%), Positives = 222/336 (66%), Gaps = 2/336 (0%)
Query: 40 PHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQLRQL 99
P R M H+L+ Y L + M+++KP A ++ FH D Y+ L+ ++ E D +
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 100 KRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFC 159
+ + +G DCP +G+F + G ++ A L G+C +AINW+GG HHAKK EASGFC
Sbjct: 95 E-YGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFC 153
Query: 160 YVNDIVLAILELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFG-DYFPGTGD 218
Y+ND VL IL L ++ ER+LYVD+D+HHGDGVE+AF T +VMTVS HKF +FPGTGD
Sbjct: 154 YLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGD 213
Query: 219 IRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDR 278
+ D+G KG++YS+NVP+ DGI DE Y+ + + ++ +V + F P AVVLQ GAD+++GD
Sbjct: 214 VSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDP 273
Query: 279 LGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALGVEVDDKMPQ 338
+ FN++ G +C+K++ + + L+LGGGGY + N ARCW Y TGV LG + ++P
Sbjct: 274 MCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPD 333
Query: 339 HEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKL 374
HE++ +GPDY L + PS ++N +++I N +
Sbjct: 334 HEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
>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 = 329 bits (844), Expect = 2e-90, Method: Compositional matrix adjust.
Identities = 149/336 (44%), Positives = 222/336 (66%), Gaps = 2/336 (0%)
Query: 40 PHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQLRQL 99
P R M H+L+ Y L + M+++KP A ++ FH D Y+ L+ ++ E D +
Sbjct: 36 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 95
Query: 100 KRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFC 159
+ + +G DCP +G+F + G ++ A L G+C +AINW+GG HHAKK EASGFC
Sbjct: 96 E-YGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFC 154
Query: 160 YVNDIVLAILELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFG-DYFPGTGD 218
Y+ND VL IL L ++ ER+LYVD+D+HHGDGVE+AF T +VMTVS HKF +FPGTGD
Sbjct: 155 YLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGD 214
Query: 219 IRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDR 278
+ D+G KG++YS+NVP+ DGI DE Y+ + + ++ +V + F P AVVLQ GAD+++GD
Sbjct: 215 VSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDP 274
Query: 279 LGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALGVEVDDKMPQ 338
+ FN++ G +C+K++ + + L+LGGGGY + N ARCW Y TGV LG + ++P
Sbjct: 275 MCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPD 334
Query: 339 HEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKL 374
HE++ +GPDY L + PS ++N +++I N +
Sbjct: 335 HEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 370
>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 = 329 bits (844), Expect = 2e-90, Method: Compositional matrix adjust.
Identities = 149/336 (44%), Positives = 222/336 (66%), Gaps = 2/336 (0%)
Query: 40 PHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQLRQL 99
P R M H+L+ Y L + M+++KP A ++ FH D Y+ L+ ++ E D +
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 100 KRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFC 159
+ + +G DCP +G+F + G ++ A L G+C +AINW+GG HHAKK EASGFC
Sbjct: 95 E-YGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFC 153
Query: 160 YVNDIVLAILELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFG-DYFPGTGD 218
Y+ND VL IL L ++ ER+LYVD+D+HHGDGVE+AF T +VMTVS HKF +FPGTGD
Sbjct: 154 YLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGD 213
Query: 219 IRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDR 278
+ D+G KG++YS+NVP+ DGI DE Y+ + + ++ +V + F P AVVLQ GAD+++GD
Sbjct: 214 VSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDP 273
Query: 279 LGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALGVEVDDKMPQ 338
+ FN++ G +C+K++ + + L+LGGGGY + N ARCW Y TGV LG + ++P
Sbjct: 274 MCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPD 333
Query: 339 HEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKL 374
HE++ +GPDY L + PS ++N +++I N +
Sbjct: 334 HEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
>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 = 329 bits (844), Expect = 2e-90, Method: Compositional matrix adjust.
Identities = 149/336 (44%), Positives = 222/336 (66%), Gaps = 2/336 (0%)
Query: 40 PHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQLRQL 99
P R M H+L+ Y L + M+++KP A ++ FH D Y+ L+ ++ E D +
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 100 KRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFC 159
+ + +G DCP +G+F + G ++ A L G+C +AINW+GG HHAKK EASGFC
Sbjct: 95 E-YGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFC 153
Query: 160 YVNDIVLAILELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFG-DYFPGTGD 218
Y+ND VL IL L ++ ER+LYVD+D+HHGDGVE+AF T +VMTVS HKF +FPGTGD
Sbjct: 154 YLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGD 213
Query: 219 IRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDR 278
+ D+G KG++YS+NVP+ DGI DE Y+ + + ++ +V + F P AVVLQ GAD+++GD
Sbjct: 214 VSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDP 273
Query: 279 LGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALGVEVDDKMPQ 338
+ FN++ G +C+K++ + + L+LGGGGY + N ARCW Y TGV LG + ++P
Sbjct: 274 MCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPD 333
Query: 339 HEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKL 374
HE++ +GPDY L + PS ++N +++I N +
Sbjct: 334 HEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
>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 = 329 bits (843), Expect = 2e-90, Method: Compositional matrix adjust.
Identities = 149/336 (44%), Positives = 222/336 (66%), Gaps = 2/336 (0%)
Query: 40 PHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQLRQL 99
P R M H+L+ Y L + M+++KP A ++ FH D Y+ L+ ++ E D +
Sbjct: 35 PKRADMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 100 KRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFC 159
+ + +G DCP +G+F + G ++ A L G+C +AINW+GG HHAKK EASGFC
Sbjct: 95 E-YGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFC 153
Query: 160 YVNDIVLAILELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFG-DYFPGTGD 218
Y+ND VL IL L ++ ER+LYVD+D+HHGDGVE+AF T +VMTVS HKF +FPGTGD
Sbjct: 154 YLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGD 213
Query: 219 IRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDR 278
+ D+G KG++YS+NVP+ DGI DE Y+ + + ++ +V + F P AVVLQ GAD+++GD
Sbjct: 214 VSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDP 273
Query: 279 LGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALGVEVDDKMPQ 338
+ FN++ G +C+K++ + + L+LGGGGY + N ARCW Y TGV LG + ++P
Sbjct: 274 MCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPD 333
Query: 339 HEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKL 374
HE++ +GPDY L + PS ++N +++I N +
Sbjct: 334 HEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
>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 = 328 bits (841), Expect = 4e-90, Method: Compositional matrix adjust.
Identities = 148/336 (44%), Positives = 222/336 (66%), Gaps = 2/336 (0%)
Query: 40 PHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQLRQL 99
P R M H+L+ Y L + M+++KP A ++ FH D Y+ L+ ++ E D +
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 100 KRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFC 159
+ + +G DCP +G+F + G ++ A L G+C +AINW+GG HHAKK EASGFC
Sbjct: 95 E-YGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFC 153
Query: 160 YVNDIVLAILELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFG-DYFPGTGD 218
Y+ND VL IL L ++ ER+LYVD+D+HHGDGVE+AF T +VMTVS HKF +FPGTGD
Sbjct: 154 YLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGD 213
Query: 219 IRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDR 278
+ D+G KG++YS+NVP+ DGI DE Y+ + + ++ +V + F P AVVLQ GAD+++GD
Sbjct: 214 VSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDP 273
Query: 279 LGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALGVEVDDKMPQ 338
+ FN++ G +C+K++ + + L+LGGGG+ + N ARCW Y TGV LG + ++P
Sbjct: 274 MCSFNMTPVGIGKCLKYILQWQLATLILGGGGFNLANTARCWTYLTGVILGKTLSSEIPD 333
Query: 339 HEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKL 374
HE++ +GPDY L + PS ++N +++I N +
Sbjct: 334 HEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
>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 = 328 bits (840), Expect = 5e-90, Method: Compositional matrix adjust.
Identities = 148/336 (44%), Positives = 222/336 (66%), Gaps = 2/336 (0%)
Query: 40 PHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQLRQL 99
P R M H+L+ Y L + M+++KP A ++ FH D Y+ L+ ++ E D +
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 100 KRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFC 159
+ + +G +CP +G+F + G ++ A L G+C +AINW+GG HHAKK EASGFC
Sbjct: 95 E-YGLGYNCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFC 153
Query: 160 YVNDIVLAILELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFG-DYFPGTGD 218
Y+ND VL IL L ++ ER+LYVD+D+HHGDGVE+AF T +VMTVS HKF +FPGTGD
Sbjct: 154 YLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGD 213
Query: 219 IRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDR 278
+ D+G KG++YS+NVP+ DGI DE Y+ + + ++ +V + F P AVVLQ GAD+++GD
Sbjct: 214 VSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDP 273
Query: 279 LGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALGVEVDDKMPQ 338
+ FN++ G +C+K++ + + L+LGGGGY + N ARCW Y TGV LG + ++P
Sbjct: 274 MCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPD 333
Query: 339 HEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKL 374
HE++ +GPDY L + PS ++N +++I N +
Sbjct: 334 HEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
>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 = 328 bits (840), Expect = 5e-90, Method: Compositional matrix adjust.
Identities = 148/336 (44%), Positives = 222/336 (66%), Gaps = 2/336 (0%)
Query: 40 PHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQLRQL 99
P R M H+L+ Y L + M+++KP A ++ FH D Y+ L+ ++ E D +
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 100 KRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFC 159
+ + +G +CP +G+F + G ++ A L G+C +AINW+GG HHAKK EASGFC
Sbjct: 95 E-YGLGYECPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFC 153
Query: 160 YVNDIVLAILELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFG-DYFPGTGD 218
Y+ND VL IL L ++ ER+LYVD+D+HHGDGVE+AF T +VMTVS HKF +FPGTGD
Sbjct: 154 YLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGD 213
Query: 219 IRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDR 278
+ D+G KG++YS+NVP+ DGI DE Y+ + + ++ +V + F P AVVLQ GAD+++GD
Sbjct: 214 VSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDP 273
Query: 279 LGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALGVEVDDKMPQ 338
+ FN++ G +C+K++ + + L+LGGGGY + N ARCW Y TGV LG + ++P
Sbjct: 274 MCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPD 333
Query: 339 HEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKL 374
HE++ +GPDY L + PS ++N +++I N +
Sbjct: 334 HEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
>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 = 327 bits (838), Expect = 9e-90, Method: Compositional matrix adjust.
Identities = 148/336 (44%), Positives = 221/336 (65%), Gaps = 2/336 (0%)
Query: 40 PHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQLRQL 99
P R M H+L+ Y L + M+++KP A ++ FH D Y+ L+ ++ E D +
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 100 KRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFC 159
+ + +G CP +G+F + G ++ A L G+C +AINW+GG HHAKK EASGFC
Sbjct: 95 E-YGLGYACPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFC 153
Query: 160 YVNDIVLAILELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFG-DYFPGTGD 218
Y+ND VL IL L ++ ER+LYVD+D+HHGDGVE+AF T +VMTVS HKF +FPGTGD
Sbjct: 154 YLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGD 213
Query: 219 IRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDR 278
+ D+G KG++YS+NVP+ DGI DE Y+ + + ++ +V + F P AVVLQ GAD+++GD
Sbjct: 214 VSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDP 273
Query: 279 LGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALGVEVDDKMPQ 338
+ FN++ G +C+K++ + + L+LGGGGY + N ARCW Y TGV LG + ++P
Sbjct: 274 MCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPD 333
Query: 339 HEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKL 374
HE++ +GPDY L + PS ++N +++I N +
Sbjct: 334 HEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
>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 = 326 bits (836), Expect = 2e-89, Method: Compositional matrix adjust.
Identities = 148/336 (44%), Positives = 221/336 (65%), Gaps = 2/336 (0%)
Query: 40 PHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQLRQL 99
P R M H+L+ Y L + M+++KP A ++ FH D Y+ L+ ++ E D +
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 100 KRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFC 159
+ + +G DCP +G+F + G ++ A L G+C +AINW+GG H AKK EASGFC
Sbjct: 95 E-YGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHAAKKDEASGFC 153
Query: 160 YVNDIVLAILELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFG-DYFPGTGD 218
Y+ND VL IL L ++ ER+LYVD+D+HHGDGVE+AF T +VMTVS HKF +FPGTGD
Sbjct: 154 YLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGD 213
Query: 219 IRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDR 278
+ D+G KG++YS+NVP+ DGI DE Y+ + + ++ +V + F P AVVLQ GAD+++GD
Sbjct: 214 VSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDP 273
Query: 279 LGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALGVEVDDKMPQ 338
+ FN++ G +C+K++ + + L+LGGGGY + N ARCW Y TGV LG + ++P
Sbjct: 274 MCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPD 333
Query: 339 HEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKL 374
HE++ +GPDY L + PS ++N +++I N +
Sbjct: 334 HEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
>pdb|3EW8|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101l Variant
Length = 388
Score = 326 bits (835), Expect = 2e-89, Method: Compositional matrix adjust.
Identities = 148/336 (44%), Positives = 221/336 (65%), Gaps = 2/336 (0%)
Query: 40 PHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQLRQL 99
P R M H+L+ Y L + M+++KP A ++ FH D Y+ L+ ++ E D +
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 100 KRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFC 159
+ + +G CP +G+F + G ++ A L G+C +AINW+GG HHAKK EASGFC
Sbjct: 95 E-YGLGYLCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFC 153
Query: 160 YVNDIVLAILELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFG-DYFPGTGD 218
Y+ND VL IL L ++ ER+LYVD+D+HHGDGVE+AF T +VMTVS HKF +FPGTGD
Sbjct: 154 YLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGD 213
Query: 219 IRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDR 278
+ D+G KG++YS+NVP+ DGI DE Y+ + + ++ +V + F P AVVLQ GAD+++GD
Sbjct: 214 VSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDP 273
Query: 279 LGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALGVEVDDKMPQ 338
+ FN++ G +C+K++ + + L+LGGGGY + N ARCW Y TGV LG + ++P
Sbjct: 274 MCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPD 333
Query: 339 HEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKL 374
HE++ +GPDY L + PS ++N +++I N +
Sbjct: 334 HEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
>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 = 326 bits (835), Expect = 2e-89, Method: Compositional matrix adjust.
Identities = 148/336 (44%), Positives = 221/336 (65%), Gaps = 2/336 (0%)
Query: 40 PHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQLRQL 99
P R M H+L+ Y L + M+++KP A ++ FH D Y+ L+ ++ E D +
Sbjct: 35 PKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSI 94
Query: 100 KRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFC 159
+ + +G CP +G+F + G ++ A L G+C +AINW+GG HHAKK EASGFC
Sbjct: 95 E-YGLGYLCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFC 153
Query: 160 YVNDIVLAILELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFG-DYFPGTGD 218
Y+ND VL IL L ++ ER+LYVD+D+HHGDGVE+AF T +VMTVS HKF +FPGTGD
Sbjct: 154 YLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGD 213
Query: 219 IRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDR 278
+ D+G KG++YS+NVP+ DGI DE Y+ + + ++ +V + F P AVVLQ GAD+++GD
Sbjct: 214 VSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDP 273
Query: 279 LGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALGVEVDDKMPQ 338
+ FN++ G +C+K++ + + L+LGGGGY + N ARCW Y TGV LG + ++P
Sbjct: 274 MCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPD 333
Query: 339 HEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKL 374
HE++ +GPDY L + PS ++N +++I N +
Sbjct: 334 HEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYI 369
>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 = 168 bits (425), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 99/278 (35%), Positives = 154/278 (55%), Gaps = 13/278 (4%)
Query: 28 GNYYYGQGHPMKPHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSI 87
G Y Y + HP+K R+ + L+ +++K PA + +L FH +DY++ L
Sbjct: 13 GKYRYPKNHPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLLFHTEDYINTLME- 71
Query: 88 TPETQQDQLRQLKRFNVG-EDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGG 146
+Q +++N+G + PV +F+ G +V + G ++A N AGG
Sbjct: 72 AERSQSVPKGAREKYNIGGYENPVSYAMFTGSSLATGSTVQAIEEFLKG--NVAFNPAGG 129
Query: 147 LHHAKKCEASGFCYVNDIVLAILELLKQ-HERVLYVDIDIHHGDGVEEAFYTTDRVMTVS 205
+HHA K A+GFCY+N+ + I L K+ +R+LY+D+D HH DGV+EAFY TD+V +S
Sbjct: 130 MHHAFKSRANGFCYINNPAVGIEYLRKKGFKRILYIDLDAHHCDGVQEAFYDTDQVFVLS 189
Query: 206 FHKFGDY-FP-GTGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPG 263
H+ +Y FP G + +IG KGK Y+LN+PL G++D + + + + V EVF P
Sbjct: 190 LHQSPEYAFPFEKGFLEEIGEGKGKGYNLNIPLPKGLNDNEFLFALEKSLEIVKEVFEPE 249
Query: 264 AVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNV 301
+LQ G D L D L FNLS V F+++FN+
Sbjct: 250 VYLLQLGTDPLLEDYLSKFNLS------NVAFLKAFNI 281
>pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog From Aquifex Aeolicus
Length = 375
Score = 165 bits (417), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 99/278 (35%), Positives = 153/278 (55%), Gaps = 13/278 (4%)
Query: 28 GNYYYGQGHPMKPHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSI 87
G Y Y + HP+K R+ + L+ +++K PA + +L FH +DY++ L
Sbjct: 13 GKYRYPKNHPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLLFHTEDYINTLME- 71
Query: 88 TPETQQDQLRQLKRFNVG-EDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGG 146
Q +++N+G + PV +F+ G +V + G ++A N AGG
Sbjct: 72 AERCQCVPKGAREKYNIGGYENPVSYAMFTGSSLATGSTVQAIEEFLKG--NVAFNPAGG 129
Query: 147 LHHAKKCEASGFCYVNDIVLAILELLKQ-HERVLYVDIDIHHGDGVEEAFYTTDRVMTVS 205
+HHA K A+GFCY+N+ + I L K+ +R+LY+D+D HH DGV+EAFY TD+V +S
Sbjct: 130 MHHAFKSRANGFCYINNPAVGIEYLRKKGFKRILYIDLDAHHCDGVQEAFYDTDQVFVLS 189
Query: 206 FHKFGDY-FP-GTGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPG 263
H+ +Y FP G + +IG KGK Y+LN+PL G++D + + + + V EVF P
Sbjct: 190 LHQSPEYAFPFEKGFLEEIGEGKGKGYNLNIPLPKGLNDNEFLFALEKSLEIVKEVFEPE 249
Query: 264 AVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNV 301
+LQ G D L D L FNLS V F+++FN+
Sbjct: 250 VYLLQLGTDPLLEDYLSKFNLS------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 = 96.3 bits (238), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 73/254 (28%), Positives = 123/254 (48%), Gaps = 32/254 (12%)
Query: 148 HHAKKCEASGFCYVNDIVLAILELLKQH---ERVLYVDIDIHHGDGVEEAFYTTDRVMTV 204
HHA++ GFCY N + +A +LL+Q ++L VD D+HHG+G ++AFY+ V+ +
Sbjct: 158 HHAEESTPMGFCYFNSVAVAA-KLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVLYM 216
Query: 205 SFHKF--GDYFPGTGDIRDIGYSKGKFYSLNVPLDDGID----DESYHYLFKPIIGKVME 258
S H++ G++FPG+G ++G G +++N+ G+D D Y F+ ++ +
Sbjct: 217 SLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIAS 276
Query: 259 VFRPGAVVLQCGADSLSG--DRLGCFNLSIKGHAECVKFMRSFNVPLLLLG-GGGYTIRN 315
F P V++ G D++ G LG +NLS + K + ++L GGY +
Sbjct: 277 EFAPDVVLVSSGFDAVEGHPTPLGGYNLSARCFGYLTKQLMGLAGGRIVLALEGGYDL-- 334
Query: 316 VARCWCYETGVA--LGVEVDDKMPQHEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNK 373
A C E V+ LG E+D P+ L P N N+ + +E++
Sbjct: 335 TAICDASEACVSALLGNELDPL-----------PEKVLQQRP----NANAVRSMEKVMEI 379
Query: 374 LLEYLSKLQHAPSV 387
+Y LQ S
Sbjct: 380 HSKYWRCLQRTTST 393
>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 = 95.9 bits (237), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 54/176 (30%), Positives = 94/176 (53%), Gaps = 17/176 (9%)
Query: 148 HHAKKCEASGFCYVNDIVLAILELLKQHE--RVLYVDIDIHHGDGVEEAFYTTDRVMTVS 205
HHA A GFC+ N + +A +L +Q + ++L VD D+HHG+G ++ FY V+ +S
Sbjct: 189 HHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQQTFYQDPSVLYIS 248
Query: 206 FHKF--GDYFPGTGDIRDIGYSKGKFYSLNVPLDDGID----DESYHYLFKPIIGKVMEV 259
H+ G++FPG+G + ++G G+ +++NV G+D D Y F+ ++ +
Sbjct: 249 LHRHDDGNFFPGSGAVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIARE 308
Query: 260 FRPGAVVLQCGADSLSG--DRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTI 313
F P V++ G D+ G LG +++S A+C +M L+ L GG +
Sbjct: 309 FSPDLVLVSAGFDAAEGHPAPLGGYHVS----AKCFGYMTQ---QLMNLAGGAVVL 357
>pdb|2VQW|G Chain G, Structure Of Inhibitor-Free Hdac4 Catalytic Domain (With
Gain-Of-Function Mutation His332tyr)
Length = 413
Score = 95.5 bits (236), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 73/254 (28%), Positives = 123/254 (48%), Gaps = 32/254 (12%)
Query: 148 HHAKKCEASGFCYVNDIVLAILELLKQH---ERVLYVDIDIHHGDGVEEAFYTTDRVMTV 204
HHA++ GFCY N + +A +LL+Q ++L VD D+HHG+G ++AFY+ V+ +
Sbjct: 158 HHAEESTPMGFCYFNSVAVAA-KLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVLYM 216
Query: 205 SFHKF--GDYFPGTGDIRDIGYSKGKFYSLNVPLDDGID----DESYHYLFKPIIGKVME 258
S H++ G++FPG+G ++G G +++N+ G+D D Y F+ ++ +
Sbjct: 217 SLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIAS 276
Query: 259 VFRPGAVVLQCGADSLSG--DRLGCFNLSIKGHAECVKFMRSFNVPLLLLG-GGGYTIRN 315
F P V++ G D++ G LG +NLS + K + ++L GGY +
Sbjct: 277 EFAPDVVLVSSGFDAVEGHPTPLGGYNLSARCFGYLTKQLMGLAGGRIVLALEGGYDL-- 334
Query: 316 VARCWCYETGVA--LGVEVDDKMPQHEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNK 373
A C E V+ LG E+D P+ L P N N+ + +E++
Sbjct: 335 TAICDASEACVSALLGNELDPL-----------PEKVLQQRP----NANAVRSMEKVMEI 379
Query: 374 LLEYLSKLQHAPSV 387
+Y LQ S
Sbjct: 380 HSKYWRCLQRTTST 393
>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 = 95.5 bits (236), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 56/173 (32%), Positives = 95/173 (54%), Gaps = 19/173 (10%)
Query: 148 HHAKKCEASGFCYVNDIVLAILELLKQH---ERVLYVDIDIHHGDGVEEAFYTTDRVMTV 204
HHA++ GFCY N + +A +LL+Q ++L VD D+HHG+G ++AFY+ V+ +
Sbjct: 158 HHAEESTPMGFCYFNSVAVAA-KLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVLYM 216
Query: 205 SFHKF--GDYFPGTGDIRDIGYSKGKFYSLNVPLDDGID----DESYHYLFKPIIGKVME 258
S H++ G++FPG+G ++G G +++N+ G+D D Y F+ ++ +
Sbjct: 217 SLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIAS 276
Query: 259 VFRPGAVVLQCGADSLSG--DRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGG 309
F P V++ G D++ G LG +NLS A C ++ L+ L GG
Sbjct: 277 EFAPDVVLVSSGFDAVEGHPTPLGGYNLS----ARCFGYLTK---QLMGLAGG 322
>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 = 95.1 bits (235), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 56/173 (32%), Positives = 95/173 (54%), Gaps = 19/173 (10%)
Query: 148 HHAKKCEASGFCYVNDIVLAILELLKQH---ERVLYVDIDIHHGDGVEEAFYTTDRVMTV 204
HHA++ GFCY N + +A +LL+Q ++L VD D+HHG+G ++AFY+ V+ +
Sbjct: 158 HHAEESTPMGFCYFNSVAVAA-KLLQQRLSVSKILIVDWDVHHGNGTQQAFYSDPSVLYM 216
Query: 205 SFHKF--GDYFPGTGDIRDIGYSKGKFYSLNVPLDDGID----DESYHYLFKPIIGKVME 258
S H++ G++FPG+G ++G G +++N+ G+D D Y F+ ++ +
Sbjct: 217 SLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIAS 276
Query: 259 VFRPGAVVLQCGADSLSG--DRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGG 309
F P V++ G D++ G LG +NLS A C ++ L+ L GG
Sbjct: 277 EFAPDVVLVSSGFDAVEGHPTPLGGYNLS----ARCFGYLTK---QLMGLAGG 322
>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 = 80.1 bits (196), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 62/269 (23%), Positives = 116/269 (43%), Gaps = 24/269 (8%)
Query: 36 HPMKPHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQ 95
H P R H L+ G ++++ + A + D+ R H+ ++ +
Sbjct: 36 HLAHPDTKRRFHELVCASGQIEHLTPIAAVAATDADILRAHSAAHL------------EN 83
Query: 96 LRQLKRFNVGEDCPVFDGLFSFCQ---TYAGGSVGGAVKLNHGLCDIAINWAGGL----- 147
++++ G D DG+ A S GGAV+L + ++ L
Sbjct: 84 MKRVSNLPTGGD--TGDGITMMGNGGLEIARLSAGGAVELTRRVATGELSAGYALVNPPG 141
Query: 148 HHAKKCEASGFCYVNDIVLAI--LELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVS 205
HHA A GFC N+ +A + ERV +D D+HHG+G ++ ++ V+T+S
Sbjct: 142 HHAPHNAAMGFCIFNNTSVAAGYARAVLGMERVAILDWDVHHGNGTQDIWWNDPSVLTIS 201
Query: 206 FHKFGDYFPGTGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAV 265
H+ + P +G + G G Y++NVPL G + +Y + ++ + +RP +
Sbjct: 202 LHQHLCFPPDSGYSTERGAGNGHGYNINVPLPPGSGNAAYLHAMDQVVLPALRAYRPQLI 261
Query: 266 VLQCGADSLSGDRLGCFNLSIKGHAECVK 294
++ G D+ D L ++ G + +
Sbjct: 262 IVGSGFDASMLDPLARMMVTADGFRQMAR 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 = 80.1 bits (196), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 62/269 (23%), Positives = 116/269 (43%), Gaps = 24/269 (8%)
Query: 36 HPMKPHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQ 95
H P R H L+ G ++++ + A + D+ R H+ ++ +
Sbjct: 42 HLAHPDTKRRFHELVCASGQIEHLTPIAAVAATDADILRAHSAAHL------------EN 89
Query: 96 LRQLKRFNVGEDCPVFDGLFSFCQ---TYAGGSVGGAVKLNHGLCDIAINWAGGL----- 147
++++ G D DG+ A S GGAV+L + ++ L
Sbjct: 90 MKRVSNLPTGGD--TGDGITMMGNGGLEIARLSAGGAVELTRRVATGELSAGYALVNPPG 147
Query: 148 HHAKKCEASGFCYVNDIVLAI--LELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVS 205
HHA A GFC N+ +A + ERV +D D+HHG+G ++ ++ V+T+S
Sbjct: 148 HHAPHNAAMGFCIFNNTSVAAGYARAVLGMERVAILDWDVHHGNGTQDIWWNDPSVLTIS 207
Query: 206 FHKFGDYFPGTGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAV 265
H+ + P +G + G G Y++NVPL G + +Y + ++ + +RP +
Sbjct: 208 LHQHLCFPPDSGYSTERGAGNGHGYNINVPLPPGSGNAAYLHAMDQVVLPALRAYRPQLI 267
Query: 266 VLQCGADSLSGDRLGCFNLSIKGHAECVK 294
++ G D+ D L ++ G + +
Sbjct: 268 IVGSGFDASMLDPLARMMVTADGFRQMAR 296
>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 = 79.7 bits (195), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 53/175 (30%), Positives = 88/175 (50%), Gaps = 11/175 (6%)
Query: 148 HHAKKCEASGFCYVNDIVLAILELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFH 207
HHA+ A GFCY+N+ +A L +H RV +D D+HHG G++E FY V+ VS H
Sbjct: 177 HHARVDAAGGFCYLNNAAIAAQALRARHARVAVLDTDMHHGQGIQEIFYARRDVLYVSIH 236
Query: 208 KFGD---YFPGTGDIRD-IGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEV--FR 261
GD ++P D G +G Y++N+P+ G + ++ F+ + + E+ F
Sbjct: 237 --GDPTNFYPAVAGFDDERGAGEGLGYNVNLPMPHGSSEAAF---FERVDDALRELRRFA 291
Query: 262 PGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNV 316
P A+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 = 65.1 bits (157), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 45/172 (26%), Positives = 78/172 (45%), Gaps = 4/172 (2%)
Query: 148 HHAKKCEASGFCYVNDIVLAILELL-KQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSF 206
HHA G+C++N+ +A LL K +++ +D+D HHG+G ++ FY V S
Sbjct: 158 HHAGIDMFGGYCFINNAAVAAQRLLDKGAKKIAILDVDFHHGNGTQDIFYERGDVFFASL 217
Query: 207 HK-FGDYFPG-TGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGA 264
H + FP G + G G + N P+ G + + K + F A
Sbjct: 218 HGDPAEAFPHFLGYAEETGKGAGAGTTANYPMGRGTPYSVWGEALTDSL-KRIAAFGAEA 276
Query: 265 VVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNV 316
+V+ G D+ D + F L+ + + + + VPLL++ 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 = 62.4 bits (150), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 42/163 (25%), Positives = 75/163 (46%), Gaps = 4/163 (2%)
Query: 157 GFCYVNDIVLAILELL-KQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHK-FGDYFP 214
G+C++N+ +A LL K +++ +D+D HHG+G ++ FY V S H + FP
Sbjct: 167 GYCFINNAAVAAQRLLDKGAKKIAILDVDFHHGNGTQDIFYERGDVFFASLHGDPAEAFP 226
Query: 215 G-TGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADS 273
G + G G + N P+ G + + K + F A+V+ G D+
Sbjct: 227 HFLGYAEETGKGAGAGTTANYPMGRGTPYSVWGEALTDSL-KRIAAFGAEAIVVSLGVDT 285
Query: 274 LSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNV 316
D + F L+ + + + + VPLL++ GGY + +
Sbjct: 286 FEQDPISFFKLTSPDYITMGRTIAASGVPLLVVMEGGYGVPEI 328
>pdb|1LRW|A Chain A, Crystal Structure Of Methanol Dehydrogenase From P.
Denitrificans
pdb|1LRW|C Chain C, Crystal Structure Of Methanol Dehydrogenase From P.
Denitrificans
Length = 600
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 20/39 (51%), Gaps = 6/39 (15%)
Query: 20 CYFYDPEVGNYYYGQGHP------MKPHRIRMTHALLAH 52
Y YDPEV +YYG G+P M+P + T A+
Sbjct: 245 WYAYDPEVDLFYYGSGNPAPWNETMRPGDNKWTMAIWGR 283
>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 = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 40/100 (40%), Gaps = 11/100 (11%)
Query: 184 DIHHGDGVEE---AFYTTDRVMTVSFHKFGDYFPGTGDIRDIGYSKGKFY--------SL 232
D +HG G++ +F D+ V HKF GTG DI + K SL
Sbjct: 364 DFYHGGGLDVCYLSFAEVDQHGNVGVHKFNGKIXGTGGFIDISATSKKIIFCGTLTAGSL 423
Query: 233 NVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGAD 272
+ DG + K I ++ E+ G + L+ G D
Sbjct: 424 KTEIADGKLNIVQEGRVKKFIRELPEITFSGKIALERGLD 463
>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 = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 46/117 (39%), Gaps = 19/117 (16%)
Query: 167 AILELLKQHERVLYVDIDIHHGDGVEE---AFYTTDRVMTVSFHKFGDYFPGTGDIRDIG 223
AIL++ Q D +HG G++ +F D+ V HKF GTG DI
Sbjct: 355 AILDMTSQF--------DFYHGGGLDVCYLSFAEVDQHGNVGVHKFNGKIMGTGGFIDIS 406
Query: 224 YSKGKFY--------SLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGAD 272
+ K SL + DG + K I ++ E+ G + L+ G D
Sbjct: 407 ATSKKIIFCGTLTAGSLKTEIADGKLNIVQEGRVKKFIRELPEITFSGKIALERGLD 463
>pdb|1REP|C Chain C, Crystal Structure Of Replication Initiator Protein Repe54
Of Mini-F Plasmid Complexed With An Iteron Dna
Length = 251
Score = 29.3 bits (64), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 49/115 (42%), Gaps = 13/115 (11%)
Query: 147 LHHAKKCEASGFCYVNDIVLAILELLKQHERVLYVDID-IHHGDGVEEAFYTTDRVMTVS 205
++H K+ + ND+ A L + +R+LY+ +D I DG + D + +
Sbjct: 7 INHKKRKNSPRIVQSNDLTEAAYSLSRDQKRMLYLFVDQIRKSDGTLQEH---DGICEIH 63
Query: 206 FHKFGDYF-----PGTGDIRDIGYS-KGKFYSLNVPLDDGIDD---ESYHYLFKP 251
K+ + F + DIR S GK P +D D+ ES+ + KP
Sbjct: 64 VAKYAEIFGLTSAEASKDIRQALKSFAGKEVVFYRPEEDAGDEKGYESFPWFIKP 118
>pdb|3P26|A Chain A, Crystal Structure Of S. Cerevisiae Hbs1 Protein
(Apo-Form), A Translational Gtpase Involved In Rna
Quality Control Pathways And Interacting With
Dom34PELOTA
pdb|3P26|B Chain B, Crystal Structure Of S. Cerevisiae Hbs1 Protein
(Apo-Form), A Translational Gtpase Involved In Rna
Quality Control Pathways And Interacting With
Dom34PELOTA
Length = 483
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 321 CYETGVALGVEVDDKMPQHEYYEYFGPDYTLHVAPSNMENKN-SRQLLEEIRNKLLEYL 378
C G ++D + +H + L +A + M+N + S+Q EEI++KLL YL
Sbjct: 144 CSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDWSQQRFEEIKSKLLPYL 202
>pdb|3IZQ|1 Chain 1, Structure Of The Dom34-Hbs1-Gdpnp Complex Bound To A
Translating Ribosome
Length = 611
Score = 28.9 bits (63), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 321 CYETGVALGVEVDDKMPQHEYYEYFGPDYTLHVAPSNMENKN-SRQLLEEIRNKLLEYL 378
C G ++D + +H + L +A + M+N + S+Q EEI++KLL YL
Sbjct: 278 CSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDWSQQRFEEIKSKLLPYL 336
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
0.320 0.139 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,144,552
Number of Sequences: 62578
Number of extensions: 791760
Number of successful extensions: 1988
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1870
Number of HSP's gapped (non-prelim): 51
length of query: 493
length of database: 14,973,337
effective HSP length: 103
effective length of query: 390
effective length of database: 8,527,803
effective search space: 3325843170
effective search space used: 3325843170
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)