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= psy8529
(436 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 72.4 bits (176), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 61/239 (25%), Positives = 104/239 (43%), Gaps = 32/239 (13%)
Query: 157 FITQDNIIEPQEVSEEQLLIAHTEKYLKSLKWSFNVAAISEVCPLVAVPNYFVQKCYLRP 216
I + +I+ + ++E+LL+ HTE Y+ +L A S+ P A Y + Y P
Sbjct: 40 LIDEKELIKSRPATKEELLLFHTEDYINTLME----AERSQSVPKGAREKYNIG-GYENP 94
Query: 217 MRYHV--------GGTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLVKLL 268
+ Y + G T++A L+ + N GG HHA +++ GFC + ++ ++ L
Sbjct: 95 VSYAMFTGSSLATGSTVQAIEEFLKGNVAFNPAGGMHHAFKSRANGFCYINNPAVGIEYL 154
Query: 269 FQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFI-----------------METCITSKA 311
+ K + +DLDAH +G ++ F + ++F+ +E K
Sbjct: 155 -RKKGFKRILYIDLDAHHCDGVQEAFYDTDQVFVLSLHQSPEYAFPFEKGFLEEIGEGKG 213
Query: 312 KEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAIS 370
K I L D +L +E LE F P++ + GTD LL D L +S
Sbjct: 214 K-GYNLNIPLPKGLNDNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKFNLS 271
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 13 LRRGWSINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQ 67
L+ + N GG HHA +++ GFC + ++ ++ L + K + +DLDAH
Sbjct: 118 LKGNVAFNPAGGMHHAFKSRANGFCYINNPAVGIEYL-RKKGFKRILYIDLDAHH 171
>pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog From Aquifex Aeolicus
Length = 375
Score = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 60/239 (25%), Positives = 103/239 (43%), Gaps = 32/239 (13%)
Query: 157 FITQDNIIEPQEVSEEQLLIAHTEKYLKSLKWSFNVAAISEVCPLVAVPNYFVQKCYLRP 216
I + +I+ + ++E+LL+ HTE Y+ +L A + P A Y + Y P
Sbjct: 40 LIDEKELIKSRPATKEELLLFHTEDYINTLME----AERCQCVPKGAREKYNIG-GYENP 94
Query: 217 MRYHV--------GGTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLVKLL 268
+ Y + G T++A L+ + N GG HHA +++ GFC + ++ ++ L
Sbjct: 95 VSYAMFTGSSLATGSTVQAIEEFLKGNVAFNPAGGMHHAFKSRANGFCYINNPAVGIEYL 154
Query: 269 FQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFI-----------------METCITSKA 311
+ K + +DLDAH +G ++ F + ++F+ +E K
Sbjct: 155 -RKKGFKRILYIDLDAHHCDGVQEAFYDTDQVFVLSLHQSPEYAFPFEKGFLEEIGEGKG 213
Query: 312 KEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAIS 370
K I L D +L +E LE F P++ + GTD LL D L +S
Sbjct: 214 K-GYNLNIPLPKGLNDNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKFNLS 271
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 13 LRRGWSINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQ 67
L+ + N GG HHA +++ GFC + ++ ++ L + K + +DLDAH
Sbjct: 118 LKGNVAFNPAGGMHHAFKSRANGFCYINNPAVGIEYL-RKKGFKRILYIDLDAHH 171
>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 = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 74/337 (21%), Positives = 129/337 (38%), Gaps = 52/337 (15%)
Query: 97 EITSEPQESVVTRPWPIVYRPEYNVHFFKLEKLHPFDSKKWKHIFNYLWKHIFNYLVEAK 156
E EP +S + +Y PEY L K+ S + + L+EA
Sbjct: 2 EEPEEPADSGQSLVPVYIYSPEYVSMCDSLAKIPKRAS-------------MVHSLIEAY 48
Query: 157 FI-TQDNIIEPQEVSEEQLLIAHTEKYLKSLKWSFNVA----------AISEVCPLVAVP 205
+ Q I++P+ S E++ HT+ YL+ L+ + +CP A
Sbjct: 49 ALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYLCP--ATE 106
Query: 206 NYFVQKCYLRPMRYHVGGTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLV 265
F + L G + WS GG+HHA + + GFC D L
Sbjct: 107 GIFDYAAAIGGATITAAQCLIDGMCKVAINWS----GGWHHAKKDEASGFCYLNDAVL-- 160
Query: 266 KLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIME---------------TCITSK 310
+L + + VDLD H G+G E F +++ + + +
Sbjct: 161 GILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLG 220
Query: 311 AKEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAIS 370
+ + +D+ Y + E+ L+ ++F P +V G D + DP+ ++
Sbjct: 221 KGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMT 280
Query: 371 PQGIIRRDELVFMKARERRVPIVMLTSGGY-LKQTAR 406
P GI + + + + ++ ++L GGY L TAR
Sbjct: 281 PVGIGKCLKYIL----QWQLATLILGGGGYNLANTAR 313
Score = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 18 SINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQ 67
+IN GG+HHA + + GFC D L +L + + VDLD H
Sbjct: 134 AINWSGGWHHAKKDEASGFCYLNDAVL--GILRLRRKFERILYVDLDLHH 181
>pdb|3EW8|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101l Variant
Length = 388
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 74/337 (21%), Positives = 129/337 (38%), Gaps = 52/337 (15%)
Query: 97 EITSEPQESVVTRPWPIVYRPEYNVHFFKLEKLHPFDSKKWKHIFNYLWKHIFNYLVEAK 156
E EP +S + +Y PEY L K+ S + + L+EA
Sbjct: 2 EEPEEPADSGQSLVPVYIYSPEYVSMCDSLAKIPKRAS-------------MVHSLIEAY 48
Query: 157 FI-TQDNIIEPQEVSEEQLLIAHTEKYLKSLKWSFNVA----------AISEVCPLVAVP 205
+ Q I++P+ S E++ HT+ YL+ L+ + +CP A
Sbjct: 49 ALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYLCP--ATE 106
Query: 206 NYFVQKCYLRPMRYHVGGTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLV 265
F + L G + WS GG+HHA + + GFC D L
Sbjct: 107 GIFDYAAAIGGATITAAQCLIDGMCKVAINWS----GGWHHAKKDEASGFCYLNDAVL-- 160
Query: 266 KLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIME---------------TCITSK 310
+L + + VDLD H G+G E F +++ + + +
Sbjct: 161 GILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLG 220
Query: 311 AKEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAIS 370
+ + +D+ Y + E+ L+ ++F P +V G D + DP+ ++
Sbjct: 221 KGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMT 280
Query: 371 PQGIIRRDELVFMKARERRVPIVMLTSGGY-LKQTAR 406
P GI + + + + ++ ++L GGY L TAR
Sbjct: 281 PVGIGKCLKYIL----QWQLATLILGGGGYNLANTAR 313
Score = 33.1 bits (74), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 18 SINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQ 67
+IN GG+HHA + + GFC D L +L + + VDLD H
Sbjct: 134 AINWSGGWHHAKKDEASGFCYLNDAVL--GILRLRRKFERILYVDLDLHH 181
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 74/337 (21%), Positives = 128/337 (37%), Gaps = 52/337 (15%)
Query: 97 EITSEPQESVVTRPWPIVYRPEYNVHFFKLEKLHPFDSKKWKHIFNYLWKHIFNYLVEAK 156
E EP +S + +Y PEY L K+ S + + L+EA
Sbjct: 2 EEPEEPADSGQSLVPVYIYSPEYVSMCDSLAKIPKRAS-------------MVHSLIEAY 48
Query: 157 FI-TQDNIIEPQEVSEEQLLIAHTEKYLKSLKWSFNVA----------AISEVCPLVAVP 205
+ Q I++P+ S E++ HT+ YL+ L+ + CP A
Sbjct: 49 ALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYACP--ATE 106
Query: 206 NYFVQKCYLRPMRYHVGGTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLV 265
F + L G + WS GG+HHA + + GFC D L
Sbjct: 107 GIFDYAAAIGGATITAAQCLIDGMCKVAINWS----GGWHHAKKDEASGFCYLNDAVL-- 160
Query: 266 KLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIME---------------TCITSK 310
+L + + VDLD H G+G E F +++ + + +
Sbjct: 161 GILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLG 220
Query: 311 AKEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAIS 370
+ + +D+ Y + E+ L+ ++F P +V G D + DP+ ++
Sbjct: 221 KGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMT 280
Query: 371 PQGIIRRDELVFMKARERRVPIVMLTSGGY-LKQTAR 406
P GI + + + + ++ ++L GGY L TAR
Sbjct: 281 PVGIGKCLKYIL----QWQLATLILGGGGYNLANTAR 313
Score = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 18 SINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQ 67
+IN GG+HHA + + GFC D L +L + + VDLD H
Sbjct: 134 AINWSGGWHHAKKDEASGFCYLNDAVL--GILRLRRKFERILYVDLDLHH 181
>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 = 62.0 bits (149), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 74/337 (21%), Positives = 128/337 (37%), Gaps = 52/337 (15%)
Query: 97 EITSEPQESVVTRPWPIVYRPEYNVHFFKLEKLHPFDSKKWKHIFNYLWKHIFNYLVEAK 156
E EP +S + +Y PEY L K+ S + + L+EA
Sbjct: 3 EEPEEPADSGQSLVPVYIYSPEYVSMCDSLAKIPKRAS-------------MVHSLIEAY 49
Query: 157 FI-TQDNIIEPQEVSEEQLLIAHTEKYLKSLKWSFNVA----------AISEVCPLVAVP 205
+ Q I++P+ S E++ HT+ YL+ L+ + CP A
Sbjct: 50 ALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCP--ATE 107
Query: 206 NYFVQKCYLRPMRYHVGGTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLV 265
F + L G + WS GG+HHA + + GFC D L
Sbjct: 108 GIFDYAAAIGGATITAAQCLIDGMCKVAINWS----GGWHHAKKDEASGFCYLNDAVL-- 161
Query: 266 KLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIME---------------TCITSK 310
+L + + VDLD H G+G E F +++ + + +
Sbjct: 162 GILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLG 221
Query: 311 AKEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAIS 370
+ + +D+ Y + E+ L+ ++F P +V G D + DP+ ++
Sbjct: 222 KGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMT 281
Query: 371 PQGIIRRDELVFMKARERRVPIVMLTSGGY-LKQTAR 406
P GI + + + + ++ ++L GGY L TAR
Sbjct: 282 PVGIGKCLKYIL----QWQLATLILGGGGYNLANTAR 314
Score = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 18 SINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQ 67
+IN GG+HHA + + GFC D L +L + + VDLD H
Sbjct: 135 AINWSGGWHHAKKDEASGFCYLNDAVL--GILRLRRKFERILYVDLDLHH 182
>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 = 62.0 bits (149), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 74/337 (21%), Positives = 128/337 (37%), Gaps = 52/337 (15%)
Query: 97 EITSEPQESVVTRPWPIVYRPEYNVHFFKLEKLHPFDSKKWKHIFNYLWKHIFNYLVEAK 156
E EP +S + +Y PEY L K+ S + + L+EA
Sbjct: 2 EEPEEPADSGQSLVPVYIYSPEYVSMCDSLAKIPKRAS-------------MVHSLIEAY 48
Query: 157 FI-TQDNIIEPQEVSEEQLLIAHTEKYLKSLKWSFNVA----------AISEVCPLVAVP 205
+ Q I++P+ S E++ HT+ YL+ L+ + CP A
Sbjct: 49 ALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYNCP--ATE 106
Query: 206 NYFVQKCYLRPMRYHVGGTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLV 265
F + L G + WS GG+HHA + + GFC D L
Sbjct: 107 GIFDYAAAIGGATITAAQCLIDGMCKVAINWS----GGWHHAKKDEASGFCYLNDAVL-- 160
Query: 266 KLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIME---------------TCITSK 310
+L + + VDLD H G+G E F +++ + + +
Sbjct: 161 GILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLG 220
Query: 311 AKEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAIS 370
+ + +D+ Y + E+ L+ ++F P +V G D + DP+ ++
Sbjct: 221 KGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMT 280
Query: 371 PQGIIRRDELVFMKARERRVPIVMLTSGGY-LKQTAR 406
P GI + + + + ++ ++L GGY L TAR
Sbjct: 281 PVGIGKCLKYIL----QWQLATLILGGGGYNLANTAR 313
Score = 33.1 bits (74), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 18 SINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQ 67
+IN GG+HHA + + GFC D L +L + + VDLD H
Sbjct: 134 AINWSGGWHHAKKDEASGFCYLNDAVL--GILRLRRKFERILYVDLDLHH 181
>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 = 62.0 bits (149), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 74/337 (21%), Positives = 128/337 (37%), Gaps = 52/337 (15%)
Query: 97 EITSEPQESVVTRPWPIVYRPEYNVHFFKLEKLHPFDSKKWKHIFNYLWKHIFNYLVEAK 156
E EP +S + +Y PEY L K+ S + + L+EA
Sbjct: 2 EEPEEPADSGQSLVPVYIYSPEYVSMCDSLAKIPKRAS-------------MVHSLIEAY 48
Query: 157 FI-TQDNIIEPQEVSEEQLLIAHTEKYLKSLKWSFNVA----------AISEVCPLVAVP 205
+ Q I++P+ S E++ HT+ YL+ L+ + CP A
Sbjct: 49 ALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYECP--ATE 106
Query: 206 NYFVQKCYLRPMRYHVGGTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLV 265
F + L G + WS GG+HHA + + GFC D L
Sbjct: 107 GIFDYAAAIGGATITAAQCLIDGMCKVAINWS----GGWHHAKKDEASGFCYLNDAVL-- 160
Query: 266 KLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIME---------------TCITSK 310
+L + + VDLD H G+G E F +++ + + +
Sbjct: 161 GILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLG 220
Query: 311 AKEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAIS 370
+ + +D+ Y + E+ L+ ++F P +V G D + DP+ ++
Sbjct: 221 KGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMT 280
Query: 371 PQGIIRRDELVFMKARERRVPIVMLTSGGY-LKQTAR 406
P GI + + + + ++ ++L GGY L TAR
Sbjct: 281 PVGIGKCLKYIL----QWQLATLILGGGGYNLANTAR 313
Score = 33.1 bits (74), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 18 SINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQ 67
+IN GG+HHA + + GFC D L +L + + VDLD H
Sbjct: 134 AINWSGGWHHAKKDEASGFCYLNDAVL--GILRLRRKFERILYVDLDLHH 181
>pdb|3MZ3|A Chain A, Crystal Structure Of Co2+ Hdac8 Complexed With M344
pdb|3MZ3|B Chain B, Crystal Structure Of Co2+ Hdac8 Complexed With M344
pdb|3RQD|A Chain A, Ideal Thiolate-Zinc Coordination Geometry In Depsipeptide
Binding To Histone Deacetylase 8
pdb|3RQD|B Chain B, Ideal Thiolate-Zinc Coordination Geometry In Depsipeptide
Binding To Histone Deacetylase 8
Length = 389
Score = 62.0 bits (149), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 74/337 (21%), Positives = 128/337 (37%), Gaps = 52/337 (15%)
Query: 97 EITSEPQESVVTRPWPIVYRPEYNVHFFKLEKLHPFDSKKWKHIFNYLWKHIFNYLVEAK 156
E EP +S + +Y PEY L K+ S + + L+EA
Sbjct: 2 EEPEEPADSGQSLVPVYIYSPEYVSMCDSLAKIPKRAS-------------MVHSLIEAY 48
Query: 157 FI-TQDNIIEPQEVSEEQLLIAHTEKYLKSLKWSFNVA----------AISEVCPLVAVP 205
+ Q I++P+ S E++ HT+ YL+ L+ + CP A
Sbjct: 49 ALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCP--ATE 106
Query: 206 NYFVQKCYLRPMRYHVGGTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLV 265
F + L G + WS GG+HHA + + GFC D L
Sbjct: 107 GIFDYAAAIGGATITAAQCLIDGMCKVAINWS----GGWHHAKKDEASGFCYLNDAVL-- 160
Query: 266 KLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIME---------------TCITSK 310
+L + + VDLD H G+G E F +++ + + +
Sbjct: 161 GILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLG 220
Query: 311 AKEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAIS 370
+ + +D+ Y + E+ L+ ++F P +V G D + DP+ ++
Sbjct: 221 KGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMT 280
Query: 371 PQGIIRRDELVFMKARERRVPIVMLTSGGY-LKQTAR 406
P GI + + + + ++ ++L GGY L TAR
Sbjct: 281 PVGIGKCLKYIL----QWQLATLILGGGGYNLANTAR 313
Score = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 18 SINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQ 67
+IN GG+HHA + + GFC D L +L + + VDLD H
Sbjct: 134 AINWSGGWHHAKKDEASGFCYLNDAVL--GILRLRRKFERILYVDLDLHH 181
>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 = 62.0 bits (149), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 74/337 (21%), Positives = 128/337 (37%), Gaps = 52/337 (15%)
Query: 97 EITSEPQESVVTRPWPIVYRPEYNVHFFKLEKLHPFDSKKWKHIFNYLWKHIFNYLVEAK 156
E EP +S + +Y PEY L K+ S + + L+EA
Sbjct: 2 EEPEEPADSGQSLVPVYIYSPEYVSMCDSLAKIPKRAS-------------MVHSLIEAY 48
Query: 157 FI-TQDNIIEPQEVSEEQLLIAHTEKYLKSLKWSFNVA----------AISEVCPLVAVP 205
+ Q I++P+ S E++ HT+ YL+ L+ + CP A
Sbjct: 49 ALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCP--ATE 106
Query: 206 NYFVQKCYLRPMRYHVGGTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLV 265
F + L G + WS GG+HHA + + GFC D L
Sbjct: 107 GIFDYAAAIGGATITAAQCLIDGMCKVAINWS----GGWHHAKKDEASGFCYLNDAVL-- 160
Query: 266 KLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIME---------------TCITSK 310
+L + + VDLD H G+G E F +++ + + +
Sbjct: 161 GILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLG 220
Query: 311 AKEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAIS 370
+ + +D+ Y + E+ L+ ++F P +V G D + DP+ ++
Sbjct: 221 KGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMT 280
Query: 371 PQGIIRRDELVFMKARERRVPIVMLTSGGY-LKQTAR 406
P GI + + + + ++ ++L GGY L TAR
Sbjct: 281 PVGIGKCLKYIL----QWQLATLILGGGGYNLANTAR 313
Score = 33.1 bits (74), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 18 SINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQ 67
+IN GG+HHA + + GFC D L +L + + VDLD H
Sbjct: 134 AINWSGGWHHAKKDEASGFCYLNDAVL--GILRLRRKFERILYVDLDLHH 181
>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 = 62.0 bits (149), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 74/337 (21%), Positives = 128/337 (37%), Gaps = 52/337 (15%)
Query: 97 EITSEPQESVVTRPWPIVYRPEYNVHFFKLEKLHPFDSKKWKHIFNYLWKHIFNYLVEAK 156
E EP +S + +Y PEY L K+ S + + L+EA
Sbjct: 2 EEPEEPADSGQSLVPVYIYSPEYVSMCDSLAKIPKRAS-------------MVHSLIEAY 48
Query: 157 FI-TQDNIIEPQEVSEEQLLIAHTEKYLKSLKWSFNVA----------AISEVCPLVAVP 205
+ Q I++P+ S E++ HT+ YL+ L+ + CP A
Sbjct: 49 ALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCP--ATE 106
Query: 206 NYFVQKCYLRPMRYHVGGTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLV 265
F + L G + WS GG+HHA + + GFC D L
Sbjct: 107 GIFDYAAAIGGATITAAQCLIDGMCKVAINWS----GGWHHAKKDEASGFCYLNDAVL-- 160
Query: 266 KLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIME---------------TCITSK 310
+L + + VDLD H G+G E F +++ + + +
Sbjct: 161 GILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLG 220
Query: 311 AKEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAIS 370
+ + +D+ Y + E+ L+ ++F P +V G D + DP+ ++
Sbjct: 221 KGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMT 280
Query: 371 PQGIIRRDELVFMKARERRVPIVMLTSGGY-LKQTAR 406
P GI + + + + ++ ++L GGY L TAR
Sbjct: 281 PVGIGKCLKYIL----QWQLATLILGGGGYNLANTAR 313
Score = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 18 SINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQ 67
+IN GG+HHA + + GFC D L +L + + VDLD H
Sbjct: 134 AINWSGGWHHAKKDEASGFCYLNDAVL--GILRLRRKFERILYVDLDLHH 181
>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 = 62.0 bits (149), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 63/282 (22%), Positives = 111/282 (39%), Gaps = 39/282 (13%)
Query: 152 LVEAKFI-TQDNIIEPQEVSEEQLLIAHTEKYLKSLKWSFNVA----------AISEVCP 200
L+EA + Q I++P+ S E++ HT+ YL+ L+ + CP
Sbjct: 44 LIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCP 103
Query: 201 LVAVPNYFVQKCYLRPMRYHVGGTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYAD 260
A F + L G + WS GG+HHA + + GFC D
Sbjct: 104 --ATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWS----GGWHHAKKDEASGFCYLND 157
Query: 261 ISLLVKLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIME---------------T 305
L +L + + VDLD H G+G E F +++ + +
Sbjct: 158 AVL--GILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVS 215
Query: 306 CITSKAKEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLG 365
+ + + +D+ Y + E+ L+ ++F P +V G D + DP+
Sbjct: 216 DVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMC 275
Query: 366 LLAISPQGIIRRDELVFMKARERRVPIVMLTSGGY-LKQTAR 406
++P GI + + + + ++ ++L GGY L TAR
Sbjct: 276 SFNMTPVGIGKCLKYIL----QWQLATLILGGGGYNLANTAR 313
Score = 33.1 bits (74), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 18 SINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQ 67
+IN GG+HHA + + GFC D L +L + + VDLD H
Sbjct: 134 AINWSGGWHHAKKDEASGFCYLNDAVL--GILRLRRKFERILYVDLDLHH 181
>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 = 62.0 bits (149), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 59/263 (22%), Positives = 106/263 (40%), Gaps = 45/263 (17%)
Query: 150 NYLVEAKFITQDNIIEPQEVSEEQLLIAHTEKYLKSLK--------------WSFNVAAI 195
N L+ + I P + + E++ H+++Y+K L+ FNV
Sbjct: 34 NLLLNYGLYRKMEIYRPHKATAEEMTKYHSDEYIKFLRSIRPDNMSEYSKQMQRFNVG-- 91
Query: 196 SEVCPLVAVPNYFVQKCYLRPMRYHVGGTLEAGFLALRR---GWSINIGGGFHHASETKG 252
E CP+ + + C L GG++ AG + L R ++N GG HHA +++
Sbjct: 92 -EDCPVF---DGLFEFCQLS-----TGGSV-AGAVKLNRQQTDMAVNWAGGLHHAKKSEA 141
Query: 253 GGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIME-------- 304
GFC DI L + L K + +D+D H G+G E+ F R+ +
Sbjct: 142 SGFCYVNDIVLAILELL--KYHQRVLYIDIDIHHGDGVEEAFYTTDRVMTVSFHKYGEYF 199
Query: 305 ------TCITSKAKEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDV 358
I + + + +D+ Y + + + + + + P +V G D
Sbjct: 200 PGTGDLRDIGAGKGKYYAVNFPMRDGIDDESYGQIFKPIISKVMEMYQPSAVVLQCGADS 259
Query: 359 LLNDPLGLLAISPQGIIRRDELV 381
L D LG ++ +G + E+V
Sbjct: 260 LSGDRLGCFNLTVKGHAKCVEVV 282
Score = 37.0 bits (84), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 5/63 (7%)
Query: 8 AGFLALRR---GWSINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLD 64
AG + L R ++N GG HHA +++ GFC DI L + L K + +D+D
Sbjct: 113 AGAVKLNRQQTDMAVNWAGGLHHAKKSEASGFCYVNDIVLAILELL--KYHQRVLYIDID 170
Query: 65 AHQ 67
H
Sbjct: 171 IHH 173
>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 = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 73/337 (21%), Positives = 128/337 (37%), Gaps = 52/337 (15%)
Query: 97 EITSEPQESVVTRPWPIVYRPEYNVHFFKLEKLHPFDSKKWKHIFNYLWKHIFNYLVEAK 156
E EP +S + +Y PEY L K+ S + + L+EA
Sbjct: 2 EEPEEPADSGQSLVPVYIYSPEYVSMCDSLAKIPKRAS-------------MVHSLIEAY 48
Query: 157 FI-TQDNIIEPQEVSEEQLLIAHTEKYLKSLKWSFNVA----------AISEVCPLVAVP 205
+ Q I++P+ S E++ HT+ YL+ L+ + CP A
Sbjct: 49 ALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCP--ATE 106
Query: 206 NYFVQKCYLRPMRYHVGGTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLV 265
F + L G + WS GG+HHA + + GFC D L
Sbjct: 107 GIFDYAAAIGGATITAAQCLIDGMCKVAINWS----GGWHHAKKDEASGFCYLNDAVL-- 160
Query: 266 KLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIME---------------TCITSK 310
+L + + VDLD H G+G E F +++ + + +
Sbjct: 161 GILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLG 220
Query: 311 AKEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAIS 370
+ + +D+ Y + E+ L+ ++F P +V G D + DP+ ++
Sbjct: 221 KGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMT 280
Query: 371 PQGIIRRDELVFMKARERRVPIVMLTSGGY-LKQTAR 406
P GI + + + + ++ ++L GG+ L TAR
Sbjct: 281 PVGIGKCLKYIL----QWQLATLILGGGGFNLANTAR 313
Score = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 18 SINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQ 67
+IN GG+HHA + + GFC D L +L + + VDLD H
Sbjct: 134 AINWSGGWHHAKKDEASGFCYLNDAVL--GILRLRRKFERILYVDLDLHH 181
>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 = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 67/301 (22%), Positives = 121/301 (40%), Gaps = 44/301 (14%)
Query: 163 IIEPQEVSEEQLLIAHTEKYLKSLKW-----------SFNVAAISEVCPLVAVPNYFVQK 211
+ +P + S+ + H+E Y+ L+ S N + + CP+ P F +
Sbjct: 47 VFKPYQASQHDMCRFHSEDYIDFLQRVSPTNMQGFTKSLNAFNVGDDCPVF--PGLF-EF 103
Query: 212 CYLRPMRYHVGGTLEAGFLALRR--GWSINIGGGFHHASETKGGGFCAYADISLLVKLLF 269
C RY G +L+ + +IN GG HHA + + GFC DI ++ +L
Sbjct: 104 C----SRY-TGASLQGATQLNNKICDIAINWAGGLHHAKKFEASGFCYVNDI--VIGILE 156
Query: 270 QSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIMETC---------------ITSKAKEA 314
K + +D+D H G+G ++ F R+ + + +++
Sbjct: 157 LLKYHPRVLYIDIDIHHGDGVQEAFYLTDRVMTVSFHKYGNYFFPGTGDMYEVGAESGRY 216
Query: 315 IRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAISPQGI 374
+ L +DQ Y + + + + + P IV G D L D LG +S +G
Sbjct: 217 YCLNVPLRDGIDDQSYKHLFQPVINQVVDFYQPTCIVLQCGADSLGCDRLGCFNLSIRGH 276
Query: 375 IRRDELVFMKARERRVPIVMLTSGGY-LKQTARIIADSILNLADLGLISR-PYNIWFIYY 432
E V + +P+++L GGY ++ AR L + + PY+ +F Y+
Sbjct: 277 GECVEYV----KSFNIPLLVLGGGGYTVRNVARCWTYETSLLVEEAISEELPYSEYFEYF 332
Query: 433 T 433
Sbjct: 333 A 333
Score = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 18 SINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQ 67
+IN GG HHA + + GFC DI ++ +L K + +D+D H
Sbjct: 126 AINWAGGLHHAKKFEASGFCYVNDI--VIGILELLKYHPRVLYIDIDIHH 173
>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 = 58.5 bits (140), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 73/337 (21%), Positives = 127/337 (37%), Gaps = 52/337 (15%)
Query: 97 EITSEPQESVVTRPWPIVYRPEYNVHFFKLEKLHPFDSKKWKHIFNYLWKHIFNYLVEAK 156
E EP +S + +Y PEY L K+ S + + L+EA
Sbjct: 2 EEPEEPADSGQSLVPVYIYSPEYVSMCDSLAKIPKRAS-------------MVHSLIEAY 48
Query: 157 FI-TQDNIIEPQEVSEEQLLIAHTEKYLKSLKWSFNVA----------AISEVCPLVAVP 205
+ Q I++P+ S E++ HT+ YL+ L+ + CP A
Sbjct: 49 ALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCP--ATE 106
Query: 206 NYFVQKCYLRPMRYHVGGTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLV 265
F + L G + WS GG+H A + + GFC D L
Sbjct: 107 GIFDYAAAIGGATITAAQCLIDGMCKVAINWS----GGWHAAKKDEASGFCYLNDAVL-- 160
Query: 266 KLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIME---------------TCITSK 310
+L + + VDLD H G+G E F +++ + + +
Sbjct: 161 GILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLG 220
Query: 311 AKEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAIS 370
+ + +D+ Y + E+ L+ ++F P +V G D + DP+ ++
Sbjct: 221 KGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMT 280
Query: 371 PQGIIRRDELVFMKARERRVPIVMLTSGGY-LKQTAR 406
P GI + + + + ++ ++L GGY L TAR
Sbjct: 281 PVGIGKCLKYIL----QWQLATLILGGGGYNLANTAR 313
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 18 SINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQ 67
+IN GG+H A + + GFC D L +L + + VDLD H
Sbjct: 134 AINWSGGWHAAKKDEASGFCYLNDAVL--GILRLRRKFERILYVDLDLHH 181
>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 = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 51/202 (25%), Positives = 82/202 (40%), Gaps = 37/202 (18%)
Query: 223 GTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDL 282
G L+ GF +R HHA E+ GFC + +++ KLL Q S+S +IVD
Sbjct: 144 GELKNGFAVVRPPG--------HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDW 195
Query: 283 DAHQGNGYEKDFMNETRIFIMET--------CITSKAKEAIRC------RIELA------ 322
D H GNG ++ F ++ + M S A + + + +A
Sbjct: 196 DVHHGNGTQQAFYSDPSVLYMSLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLD 255
Query: 323 PYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLN--DPLGLLAISPQ--GIIRRD 378
P D YL + F PD+++ ++G D + PLG +S + G + +
Sbjct: 256 PPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGYNLSARCFGYLTKQ 315
Query: 379 ELVFMKARERRVPIVMLTSGGY 400
+ R IV+ GGY
Sbjct: 316 LMGLAGGR-----IVLALEGGY 332
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/106 (32%), Positives = 47/106 (44%), Gaps = 16/106 (15%)
Query: 4 GTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDL 63
G L+ GF +R HHA E+ GFC + +++ KLL Q S+S +IVD
Sbjct: 144 GELKNGFAVVRPPG--------HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDW 195
Query: 64 DAH-----QFSDYYFPSA--HSIKRKRKVEFLKERKALEDEITSEP 102
D H Q + Y PS S+ R F A DE+ + P
Sbjct: 196 DVHHGNGTQQAFYSDPSVLYMSLHRYDDGNFFPGSGA-PDEVGTGP 240
>pdb|2VQW|G Chain G, Structure Of Inhibitor-Free Hdac4 Catalytic Domain (With
Gain-Of-Function Mutation His332tyr)
Length = 413
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 51/202 (25%), Positives = 82/202 (40%), Gaps = 37/202 (18%)
Query: 223 GTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDL 282
G L+ GF +R HHA E+ GFC + +++ KLL Q S+S +IVD
Sbjct: 144 GELKNGFAVVRPPG--------HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDW 195
Query: 283 DAHQGNGYEKDFMNETRIFIMET--------CITSKAKEAIRC------RIELA------ 322
D H GNG ++ F ++ + M S A + + + +A
Sbjct: 196 DVHHGNGTQQAFYSDPSVLYMSLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLD 255
Query: 323 PYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLN--DPLGLLAISPQ--GIIRRD 378
P D YL + F PD+++ ++G D + PLG +S + G + +
Sbjct: 256 PPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGYNLSARCFGYLTKQ 315
Query: 379 ELVFMKARERRVPIVMLTSGGY 400
+ R IV+ GGY
Sbjct: 316 LMGLAGGR-----IVLALEGGY 332
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/106 (32%), Positives = 47/106 (44%), Gaps = 16/106 (15%)
Query: 4 GTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDL 63
G L+ GF +R HHA E+ GFC + +++ KLL Q S+S +IVD
Sbjct: 144 GELKNGFAVVRPPG--------HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDW 195
Query: 64 DAH-----QFSDYYFPSA--HSIKRKRKVEFLKERKALEDEITSEP 102
D H Q + Y PS S+ R F A DE+ + P
Sbjct: 196 DVHHGNGTQQAFYSDPSVLYMSLHRYDDGNFFPGSGA-PDEVGTGP 240
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 42/164 (25%), Positives = 67/164 (40%), Gaps = 28/164 (17%)
Query: 223 GTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDL 282
G L+ GF +R HHA E+ GFC + +++ KLL Q S+S +IVD
Sbjct: 144 GELKNGFAVVRPPG--------HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDW 195
Query: 283 DAHQGNGYEKDFMNETRIFIMET--------CITSKAKEAIRC------RIELA------ 322
D H GNG ++ F ++ + M S A + + + +A
Sbjct: 196 DVHHGNGTQQAFYSDPSVLYMSLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLD 255
Query: 323 PYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGL 366
P D YL + F PD+++ ++G D + P L
Sbjct: 256 PPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPL 299
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/106 (32%), Positives = 47/106 (44%), Gaps = 16/106 (15%)
Query: 4 GTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDL 63
G L+ GF +R HHA E+ GFC + +++ KLL Q S+S +IVD
Sbjct: 144 GELKNGFAVVRPPG--------HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDW 195
Query: 64 DAH-----QFSDYYFPSA--HSIKRKRKVEFLKERKALEDEITSEP 102
D H Q + Y PS S+ R F A DE+ + P
Sbjct: 196 DVHHGNGTQQAFYSDPSVLYMSLHRYDDGNFFPGSGA-PDEVGTGP 240
>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 = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 42/164 (25%), Positives = 67/164 (40%), Gaps = 28/164 (17%)
Query: 223 GTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDL 282
G L+ GF +R HHA E+ GFC + +++ KLL Q S+S +IVD
Sbjct: 144 GELKNGFAVVRPPG--------HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDW 195
Query: 283 DAHQGNGYEKDFMNETRIFIMET--------CITSKAKEAIRC------RIELA------ 322
D H GNG ++ F ++ + M S A + + + +A
Sbjct: 196 DVHHGNGTQQAFYSDPSVLYMSLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLD 255
Query: 323 PYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGL 366
P D YL + F PD+++ ++G D + P L
Sbjct: 256 PPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPL 299
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/106 (32%), Positives = 47/106 (44%), Gaps = 16/106 (15%)
Query: 4 GTLEAGFLALRRGWSINIGGGFHHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDL 63
G L+ GF +R HHA E+ GFC + +++ KLL Q S+S +IVD
Sbjct: 144 GELKNGFAVVRPPG--------HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDW 195
Query: 64 DAH-----QFSDYYFPSA--HSIKRKRKVEFLKERKALEDEITSEP 102
D H Q + Y PS S+ R F A DE+ + P
Sbjct: 196 DVHHGNGTQQAFYSDPSVLYMSLHRYDDGNFFPGSGA-PDEVGTGP 240
>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 = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 52/256 (20%), Positives = 99/256 (38%), Gaps = 34/256 (13%)
Query: 169 VSEEQLLIAHTEKYLKSLKWSFNVAAISEVCPLVAVPNYFVQKCYLRPMRYHVGGTLEAG 228
++ +L AH+ +L+++K N+ + + + + L R GG +E
Sbjct: 67 ATDADILRAHSAAHLENMKRVSNLPTGGDTGDGITM----MGNGGLEIARLSAGGAVEL- 121
Query: 229 FLALRRGWSINIGGGF-------HHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVD 281
RR + + G+ HHA GFC + + S+ + I+D
Sbjct: 122 ---TRRVATGELSAGYALVNPPGHHAPHNAAMGFCIFNNTSVAAGYARAVLGMERVAILD 178
Query: 282 LDAHQGNGYEKDFMNETRIFIME----TCITSKA----------KEAIRCRIELAPYTED 327
D H GNG + + N+ + + C + + L P + +
Sbjct: 179 WDVHHGNGTQDIWWNDPSVLTISLHQHLCFPPDSGYSTERGAGNGHGYNINVPLPPGSGN 238
Query: 328 QHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAISPQG---IIRRDELVFMK 384
YL ++ + +LR++ P +I+ +G D + DPL + ++ G + RR
Sbjct: 239 AAYLHAMDQVVLPALRAYRPQLIIVGSGFDASMLDPLARMMVTADGFRQMARRTIDCAAD 298
Query: 385 ARERRVPIVMLTSGGY 400
+ R IV + GGY
Sbjct: 299 ICDGR--IVFVQEGGY 312
>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 = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 52/256 (20%), Positives = 99/256 (38%), Gaps = 34/256 (13%)
Query: 169 VSEEQLLIAHTEKYLKSLKWSFNVAAISEVCPLVAVPNYFVQKCYLRPMRYHVGGTLEAG 228
++ +L AH+ +L+++K N+ + + + + L R GG +E
Sbjct: 73 ATDADILRAHSAAHLENMKRVSNLPTGGDTGDGITM----MGNGGLEIARLSAGGAVEL- 127
Query: 229 FLALRRGWSINIGGGF-------HHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVD 281
RR + + G+ HHA GFC + + S+ + I+D
Sbjct: 128 ---TRRVATGELSAGYALVNPPGHHAPHNAAMGFCIFNNTSVAAGYARAVLGMERVAILD 184
Query: 282 LDAHQGNGYEKDFMNETRIFIME----TCITSKA----------KEAIRCRIELAPYTED 327
D H GNG + + N+ + + C + + L P + +
Sbjct: 185 WDVHHGNGTQDIWWNDPSVLTISLHQHLCFPPDSGYSTERGAGNGHGYNINVPLPPGSGN 244
Query: 328 QHYLEKIEAGLERSLRSFCPDIIVYNAGTDVLLNDPLGLLAISPQG---IIRRDELVFMK 384
YL ++ + +LR++ P +I+ +G D + DPL + ++ G + RR
Sbjct: 245 AAYLHAMDQVVLPALRAYRPQLIIVGSGFDASMLDPLARMMVTADGFRQMARRTIDCAAD 304
Query: 385 ARERRVPIVMLTSGGY 400
+ R IV + GGY
Sbjct: 305 ICDGR--IVFVQEGGY 318
>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 = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 44/172 (25%), Positives = 76/172 (44%), Gaps = 23/172 (13%)
Query: 245 HHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQGNGYEKDFM--------- 295
HHA GGFC Y + + + +++ A ++D D H G G ++ F
Sbjct: 177 HHARVDAAGGFC-YLNNAAIAAQALRARHARVA-VLDTDMHHGQGIQEIFYARRDVLYVS 234
Query: 296 ---NETRIFIMETCITSK--AKEAIRCRIELA-PY-TEDQHYLEKIEAGLERSLRSFCPD 348
+ T + + A E + + L P+ + + + E+++ L R LR F PD
Sbjct: 235 IHGDPTNFYPAVAGFDDERGAGEGLGYNVNLPMPHGSSEAAFFERVDDAL-RELRRFAPD 293
Query: 349 IIVYNAGTDVLLNDPLGLLAISPQGIIRRDELVFMKARERRVPIVMLTSGGY 400
+V + G DV +DP +A++ G R L+ R+P V++ GGY
Sbjct: 294 ALVLSLGFDVYRDDPQSQVAVTTDGFGRLGHLIGAL----RLPTVIVQEGGY 341
>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 = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 33/142 (23%), Positives = 54/142 (38%), Gaps = 20/142 (14%)
Query: 245 HHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIME 304
HHA + GFC + +++ + L Q S +IVD D H GNG ++ F + + +
Sbjct: 189 HHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQQTFYQDPSVLYIS 248
Query: 305 ----------------TCITSKAKEAIRCRIE----LAPYTEDQHYLEKIEAGLERSLRS 344
+ + + E + L P D YL + R
Sbjct: 249 LHRHDDGNFFPGSGAVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIARE 308
Query: 345 FCPDIIVYNAGTDVLLNDPLGL 366
F PD+++ +AG D P L
Sbjct: 309 FSPDLVLVSAGFDAAEGHPAPL 330
Score = 35.0 bits (79), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 32/111 (28%), Positives = 45/111 (40%), Gaps = 14/111 (12%)
Query: 26 HHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAH-----QFSDYYFPSAH--S 78
HHA + GFC + +++ + L Q S +IVD D H Q + Y PS S
Sbjct: 189 HHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQQTFYQDPSVLYIS 248
Query: 79 IKRKRKVEFLKERKALEDEITSEPQESV-VTRPW-----PIVYRPEYNVHF 123
+ R F A+ DE+ + E V W P + PEY F
Sbjct: 249 LHRHDDGNFFPGSGAV-DEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAF 298
>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 = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 35/172 (20%), Positives = 60/172 (34%), Gaps = 22/172 (12%)
Query: 245 HHASETKGGGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIME 304
HHA GG+C + ++ + L K I+D+D H GNG + F +F
Sbjct: 158 HHAGIDMFGGYCFINNAAVAAQRLLD-KGAKKIAILDVDFHHGNGTQDIFYERGDVFFAS 216
Query: 305 TC----------------ITSKAKEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPD 348
A + T + E + L+R + +F +
Sbjct: 217 LHGDPAEAFPHFLGYAEETGKGAGAGTTANYPMGRGTPYSVWGEALTDSLKR-IAAFGAE 275
Query: 349 IIVYNAGTDVLLNDPLGLLAISPQGIIRRDELVFMKARERRVPIVMLTSGGY 400
IV + G D DP+ ++ I + VP++++ GGY
Sbjct: 276 AIVVSLGVDTFEQDPISFFKLTSPDYITMGRTIAASG----VPLLVVMEGGY 323
>pdb|3Q9C|A Chain A, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|B Chain B, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|C Chain C, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|D Chain D, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|E Chain E, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|F Chain F, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|G Chain G, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|H Chain H, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|I Chain I, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|J Chain J, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|K Chain K, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9C|L Chain L, Crystal Structure Of H159a Apah Complexed With
N8-Acetylspermidine
pdb|3Q9E|A Chain A, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|B Chain B, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|C Chain C, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|D Chain D, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|E Chain E, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|F Chain F, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|G Chain G, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|H Chain H, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|I Chain I, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|J Chain J, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|K Chain K, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
pdb|3Q9E|L Chain L, Crystal Structure Of H159a Apah Complexed With
Acetylspermine
Length = 341
Score = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 32/164 (19%), Positives = 57/164 (34%), Gaps = 22/164 (13%)
Query: 253 GGFCAYADISLLVKLLFQSKSISTAMIVDLDAHQGNGYEKDFMNETRIFIMETC------ 306
GG+C + ++ + L K I+D+D H GNG + F +F
Sbjct: 166 GGYCFINNAAVAAQRLLD-KGAKKIAILDVDFHHGNGTQDIFYERGDVFFASLHGDPAEA 224
Query: 307 ----------ITSKAKEAIRCRIELAPYTEDQHYLEKIEAGLERSLRSFCPDIIVYNAGT 356
A + T + E + L+R + +F + IV + G
Sbjct: 225 FPHFLGYAEETGKGAGAGTTANYPMGRGTPYSVWGEALTDSLKR-IAAFGAEAIVVSLGV 283
Query: 357 DVLLNDPLGLLAISPQGIIRRDELVFMKARERRVPIVMLTSGGY 400
D DP+ ++ I + VP++++ GGY
Sbjct: 284 DTFEQDPISFFKLTSPDYITMGRTIAASG----VPLLVVMEGGY 323
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
0.323 0.139 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,149,906
Number of Sequences: 62578
Number of extensions: 546051
Number of successful extensions: 1262
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1159
Number of HSP's gapped (non-prelim): 82
length of query: 436
length of database: 14,973,337
effective HSP length: 102
effective length of query: 334
effective length of database: 8,590,381
effective search space: 2869187254
effective search space used: 2869187254
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)