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= psy16742
(620 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 = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHAF GFC +N+ A+ YL + G +++L +DLD H
Sbjct: 131 HHAFKSRANGFCYINNPAVGIEYLRKKGF-KRILYIDLDAH 170
>pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog From Aquifex Aeolicus
Length = 375
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHAF GFC +N+ A+ YL + G +++L +DLD H
Sbjct: 131 HHAFKSRANGFCYINNPAVGIEYLRKKGF-KRILYIDLDAH 170
>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 = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 36/81 (44%), Gaps = 6/81 (7%)
Query: 472 WVTFLSQRSEKMRNNGIFLFLLRLSDPEI-NRFST-----HHAFPDHGAGFCLMNDMALA 525
W S + + + +++ E+ N F+ HHA GFC N +A+A
Sbjct: 149 WNELHSSNAARWAAGSVTDLAFKVASRELKNGFAVVRPPGHHADHSTAMGFCFFNSVAIA 208
Query: 526 ARYLIRHGIVRKVLIVDLDVH 546
R L + K+LIVD DVH
Sbjct: 209 CRQLQQQSKASKILIVDWDVH 229
>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 = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/41 (48%), Positives = 25/41 (60%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA GFC N +A+AA+ L + V K+LIVD DVH
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVH 198
>pdb|2VQW|G Chain G, Structure Of Inhibitor-Free Hdac4 Catalytic Domain (With
Gain-Of-Function Mutation His332tyr)
Length = 413
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/41 (48%), Positives = 25/41 (60%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA GFC N +A+AA+ L + V K+LIVD DVH
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVH 198
>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 = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/41 (48%), Positives = 25/41 (60%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA GFC N +A+AA+ L + V K+LIVD DVH
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVH 198
>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 = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/41 (48%), Positives = 25/41 (60%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA GFC N +A+AA+ L + V K+LIVD DVH
Sbjct: 158 HHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWDVH 198
>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 = 37.4 bits (85), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVHQ 547
HHA D G+C +N+ A+AA+ L+ G +K+ I+D+D H
Sbjct: 158 HHAGIDMFGGYCFINNAAVAAQRLLDKG-AKKIAILDVDFHH 198
>pdb|3EW8|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101l Variant
Length = 388
Score = 37.0 bits (84), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA D +GFC +ND L L R ++L VDLD+H
Sbjct: 142 HHAKKDEASGFCYLNDAVLGILRLRRK--FERILYVDLDLH 180
>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 = 37.0 bits (84), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA D +GFC +ND L L R ++L VDLD+H
Sbjct: 142 HHAKKDEASGFCYLNDAVLGILRLRRK--FERILYVDLDLH 180
>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 = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA D +GFC +ND L L R ++L VDLD+H
Sbjct: 142 HHAKKDEASGFCYLNDAVLGILRLRRK--FERILYVDLDLH 180
>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 = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA D +GFC +ND L L R ++L VDLD+H
Sbjct: 142 HHAKKDEASGFCYLNDAVLGILRLRRK--FERILYVDLDLH 180
>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 = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA D +GFC +ND L L R ++L VDLD+H
Sbjct: 142 HHAKKDEASGFCYLNDAVLGILRLRRK--FERILYVDLDLH 180
>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 = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA D +GFC +ND L L R ++L VDLD+H
Sbjct: 142 HHAKKDEASGFCYLNDAVLGILRLRRK--FERILYVDLDLH 180
>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 = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA D +GFC +ND L L R ++L VDLD+H
Sbjct: 142 HHAKKDEASGFCYLNDAVLGILRLRRK--FERILYVDLDLH 180
>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 = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA D +GFC +ND L L R ++L VDLD+H
Sbjct: 142 HHAKKDEASGFCYLNDAVLGILRLRRK--FERILYVDLDLH 180
>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 = 37.0 bits (84), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA D +GFC +ND L L R ++L VDLD+H
Sbjct: 143 HHAKKDEASGFCYLNDAVLGILRLRRK--FERILYVDLDLH 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 = 37.0 bits (84), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA D +GFC +ND L L R ++L VDLD+H
Sbjct: 142 HHAKKDEASGFCYLNDAVLGILRLRRK--FERILYVDLDLH 180
>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 = 37.0 bits (84), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA D +GFC +ND L L R ++L VDLD+H
Sbjct: 142 HHAKKDEASGFCYLNDAVLGILRLRRK--FERILYVDLDLH 180
>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 = 36.6 bits (83), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 27/41 (65%), Gaps = 2/41 (4%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA +GFC +ND+ LA L+++ ++VL +D+D+H
Sbjct: 134 HHAKKSEASGFCYVNDIVLAILELLKYH--QRVLYIDIDIH 172
Score = 29.3 bits (64), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 34/164 (20%), Positives = 63/164 (38%), Gaps = 26/164 (15%)
Query: 104 KEQKVTGFEWSAGLASRVRTDP-----VPTHVIAVYLPFFLQRRPVFFDIAAVLADLICI 158
++Q W+ GL +++ V V+A+ +R ++ DI D +
Sbjct: 120 RQQTDMAVNWAGGLHHAKKSEASGFCYVNDIVLAILELLKYHQRVLYIDIDIHHGDGVEE 179
Query: 159 AVY-----LTFFLQRRPVFFDIAAVLADL---------IHFMV--GINTQPVSGYQATLK 202
A Y +T + +F L D+ ++F + GI+ + Y K
Sbjct: 180 AFYTTDRVMTVSFHKYGEYFPGTGDLRDIGAGKGKYYAVNFPMRDGIDDES---YGQIFK 236
Query: 203 EHLPGILAQFKPDLVIYDAGVDPHQHDELGKLNLT--DHGECIS 244
+ ++ ++P V+ G D D LG NLT H +C+
Sbjct: 237 PIISKVMEMYQPSAVVLQCGADSLSGDRLGCFNLTVKGHAKCVE 280
>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 = 33.5 bits (75), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
H A D +GFC +ND L L R ++L VDLD+H
Sbjct: 142 HAAKKDEASGFCYLNDAVLGILRLRRK--FERILYVDLDLH 180
>pdb|3B6U|A Chain A, Crystal Structure Of The Motor Domain Of Human Kinesin
Family Member 3b In Complex With Adp
pdb|3B6U|B Chain B, Crystal Structure Of The Motor Domain Of Human Kinesin
Family Member 3b In Complex With Adp
Length = 372
Score = 33.1 bits (74), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 39/175 (22%), Positives = 66/175 (37%), Gaps = 18/175 (10%)
Query: 124 DPVPTHVIAVYLPFFLQRRPVFFDIAAVLADLICIAVYLTFFLQRRPVFFDIAAVLADLI 183
D + TH+ +L R + DL+ L+ RP D + DL
Sbjct: 137 DHIFTHISRSQNQQYLVRASYLEIYQEEIRDLLSKDQTKRLELKERP---DTGVYVKDLS 193
Query: 184 HFM----------VGINTQPVSGYQATLKEHLPGILAQFKPDLVIYDAGVDPHQHDELGK 233
F+ + + Q S + EH A F + + G+D H +GK
Sbjct: 194 SFVTKSVKEIEHVMNVGNQNRSVGATNMNEHSSRSHAIFVITIECSEVGLDGENHIRVGK 253
Query: 234 LNLTDHGECISSSARISSEAGVDPHQHDELGKLNLTDHGVKYILNDRTDPVPTHV 288
LNL D ++ S R ++ G + E K+NL+ + +++ D TH+
Sbjct: 254 LNLVD----LAGSER-QAKTGAQGERLKEATKINLSLSALGNVISALVDGKSTHI 303
>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 = 32.3 bits (72), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 24/42 (57%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVHQ 547
HHA + GFC+ N+ ++AA Y + +V I+D DVH
Sbjct: 142 HHAPHNAAMGFCIFNNTSVAAGYARAVLGMERVAILDWDVHH 183
>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 = 32.3 bits (72), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 24/42 (57%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVHQ 547
HHA + GFC+ N+ ++AA Y + +V I+D DVH
Sbjct: 148 HHAPHNAAMGFCIFNNTSVAAGYARAVLGMERVAILDWDVHH 189
>pdb|2DNT|A Chain A, Solution Structure Of Rsgi Ruh-064, A Chromo Domain From
Human Cdna
Length = 78
Score = 32.0 bits (71), Expect = 0.93, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 7/48 (14%)
Query: 60 YLVRDKVIDKSKQLIEPQQISESIAELVHTKEYVHKFFNGKTTEKEQK 107
YLVR K D EP+Q LV+ +EY+H FN + TEK+++
Sbjct: 32 YLVRWKGYDSEDDTWEPEQ------HLVNCEEYIHD-FNRRHTEKQKE 72
>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 = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 3/55 (5%)
Query: 494 RLSDPEINRFST-HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVHQ 547
++ D IN HHA +GFC +ND+ + L+++ +VL +D+D+H
Sbjct: 121 KICDIAINWAGGLHHAKKFEASGFCYVNDIVIGILELLKYH--PRVLYIDIDIHH 173
>pdb|3BKP|A Chain A, Crystal Structure Of The Toxoplasma Gondii Cyclophilin,
49.m03261
Length = 232
Score = 30.0 bits (66), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 3/64 (4%)
Query: 531 RHGIVRKVLIVDLDVHQHTRSIPVPSLTVLSSCVPGLYMRDYY---VLDTAISAGIPVAT 587
R +V + DLDV R P+ + C+ G Y+ + V D + G P T
Sbjct: 21 RGKVVLHTSLGDLDVELWARECPLACRNFVQLCLEGYYVNTIFHRVVKDFIVQGGDPTGT 80
Query: 588 VTGG 591
GG
Sbjct: 81 GRGG 84
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
0.325 0.139 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,655,809
Number of Sequences: 62578
Number of extensions: 775289
Number of successful extensions: 2146
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 2085
Number of HSP's gapped (non-prelim): 82
length of query: 620
length of database: 14,973,337
effective HSP length: 105
effective length of query: 515
effective length of database: 8,402,647
effective search space: 4327363205
effective search space used: 4327363205
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)