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= psy10347
(67 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 58.9 bits (141), Expect = 6e-10, Method: Composition-based stats.
Identities = 25/39 (64%), Positives = 33/39 (84%)
Query: 1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
M ++I EL+ +VPTC+A++RK DKLT+LRMAV HMK LR
Sbjct: 28 MNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLR 66
>pdb|4H10|A Chain A, Intermolecular Recognition Revealed By The Complex
Structure Of Human Clock-bmal1 Basic Helix-loop-helix
Domains With E-box Dna
Length = 73
Score = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 25/39 (64%), Positives = 33/39 (84%)
Query: 1 MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALR 39
M ++I EL+ +VPTC+A++RK DKLT+LRMAV HMK LR
Sbjct: 24 MNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLR 62
>pdb|1DWO|A Chain A, Crystal Structure Of Hydroxynitrile Lyase From Manihot
Esculenta In Complex With Substrates Acetone And
Chloroacetone:implications For The Mechanism Of
Cyanogenesis
pdb|1DWO|B Chain B, Crystal Structure Of Hydroxynitrile Lyase From Manihot
Esculenta In Complex With Substrates Acetone And
Chloroacetone:implications For The Mechanism Of
Cyanogenesis
pdb|1DWP|A Chain A, Crystal Structure Of Hydroxynitrile Lyase From Manihot
Esculenta At 2.2 Angstrom Resolution
pdb|1DWP|B Chain B, Crystal Structure Of Hydroxynitrile Lyase From Manihot
Esculenta At 2.2 Angstrom Resolution
Length = 262
Score = 28.5 bits (62), Expect = 1.0, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 17 ALARKPDKLTILRMAVAHMKALRVTAVNTFRHHSQPWL 54
AL R K+T L MA + + ++ +N+F +S+P L
Sbjct: 29 ALERAGHKVTALDMAASGIDPRQIEQINSFDEYSEPLL 66
>pdb|1EB8|A Chain A, Structure Determinants Of Substrate Specificity Of
Hydroxynitrile Lyase From Manihot Esculenta
pdb|1EB8|B Chain B, Structure Determinants Of Substrate Specificity Of
Hydroxynitrile Lyase From Manihot Esculenta
pdb|1EB9|A Chain A, Structure Determinants Of Substrate Specificity Of
Hydroxynitrile Lyase From Manihot Esculenta
pdb|1EB9|B Chain B, Structure Determinants Of Substrate Specificity Of
Hydroxynitrile Lyase From Manihot Esculenta
Length = 262
Score = 28.5 bits (62), Expect = 1.0, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 17 ALARKPDKLTILRMAVAHMKALRVTAVNTFRHHSQPWL 54
AL R K+T L MA + + ++ +N+F +S+P L
Sbjct: 29 ALERAGHKVTALDMAASGIDPRQIEQINSFDEYSEPLL 66
>pdb|1E89|A Chain A, On The Mechanism Of Cyanogenesis Catalyzed By
Hydroxynitrile Lyase From Manihot Esculenta. Crystal
Structure Of Active Site Mutant Ser80ala In Complex
With Acetone Cyanohydrin
pdb|1E89|B Chain B, On The Mechanism Of Cyanogenesis Catalyzed By
Hydroxynitrile Lyase From Manihot Esculenta. Crystal
Structure Of Active Site Mutant Ser80ala In Complex
With Acetone Cyanohydrin
pdb|1E8D|A Chain A, Mechanistic Aspects Of Cyanogenesis From Active Site
Mutant Ser80ala Of Hydroxynitrile Lyase From Manihot
Esculenta In Complex With Acetone Cyanohydrin
pdb|1E8D|B Chain B, Mechanistic Aspects Of Cyanogenesis From Active Site
Mutant Ser80ala Of Hydroxynitrile Lyase From Manihot
Esculenta In Complex With Acetone Cyanohydrin
Length = 262
Score = 28.5 bits (62), Expect = 1.0, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 17 ALARKPDKLTILRMAVAHMKALRVTAVNTFRHHSQPWL 54
AL R K+T L MA + + ++ +N+F +S+P L
Sbjct: 29 ALERAGHKVTALDMAASGIDPRQIEQINSFDEYSEPLL 66
>pdb|3RKS|A Chain A, Crystal Structure Of The Manihot Esculenta
Hydroxynitrile Lyase (Mehnl) K176p Mutant
pdb|3RKS|B Chain B, Crystal Structure Of The Manihot Esculenta
Hydroxynitrile Lyase (Mehnl) K176p Mutant
pdb|3RKS|C Chain C, Crystal Structure Of The Manihot Esculenta
Hydroxynitrile Lyase (Mehnl) K176p Mutant
pdb|3RKS|D Chain D, Crystal Structure Of The Manihot Esculenta
Hydroxynitrile Lyase (Mehnl) K176p Mutant
Length = 258
Score = 28.5 bits (62), Expect = 1.0, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 17 ALARKPDKLTILRMAVAHMKALRVTAVNTFRHHSQPWL 54
AL R K+T L MA + + ++ +N+F +S+P L
Sbjct: 25 ALERAGHKVTALDMAASGIDPRQIEQINSFDEYSEPLL 62
>pdb|1DWQ|A Chain A, Crystal Structure Of Hydroxynitrile Lyase From Manihot
Esculenta In Complex With Substrates Acetone And
Chloroacetone:implications For The Mechanism Of
Cyanogenesis
pdb|1DWQ|B Chain B, Crystal Structure Of Hydroxynitrile Lyase From Manihot
Esculenta In Complex With Substrates Acetone And
Chloroacetone:implications For The Mechanism Of
Cyanogenesis
Length = 262
Score = 28.5 bits (62), Expect = 1.0, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 17 ALARKPDKLTILRMAVAHMKALRVTAVNTFRHHSQPWL 54
AL R K+T L MA + + ++ +N+F +S+P L
Sbjct: 29 ALERAGHKVTALDMAASGIDPRQIEQINSFDEYSEPLL 66
>pdb|3RKT|A Chain A, Crystal Structure Of The Manihot Esculenta
Hydroxynitrile Lyase (Mehnl) 3kp Triple Mutant
pdb|3RKT|B Chain B, Crystal Structure Of The Manihot Esculenta
Hydroxynitrile Lyase (Mehnl) 3kp Triple Mutant
pdb|3RKT|C Chain C, Crystal Structure Of The Manihot Esculenta
Hydroxynitrile Lyase (Mehnl) 3kp Triple Mutant
pdb|3RKT|D Chain D, Crystal Structure Of The Manihot Esculenta
Hydroxynitrile Lyase (Mehnl) 3kp Triple Mutant
pdb|3RKT|E Chain E, Crystal Structure Of The Manihot Esculenta
Hydroxynitrile Lyase (Mehnl) 3kp Triple Mutant
pdb|3RKT|F Chain F, Crystal Structure Of The Manihot Esculenta
Hydroxynitrile Lyase (Mehnl) 3kp Triple Mutant
pdb|3RKT|G Chain G, Crystal Structure Of The Manihot Esculenta
Hydroxynitrile Lyase (Mehnl) 3kp Triple Mutant
pdb|3RKT|H Chain H, Crystal Structure Of The Manihot Esculenta
Hydroxynitrile Lyase (Mehnl) 3kp Triple Mutant
Length = 258
Score = 28.5 bits (62), Expect = 1.1, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 17 ALARKPDKLTILRMAVAHMKALRVTAVNTFRHHSQPWL 54
AL R K+T L MA + + ++ +N+F +S+P L
Sbjct: 25 ALERAGHKVTALDMAASGIDPRQIEQINSFDEYSEPLL 62
>pdb|2QW5|A Chain A, Crystal Structure Of A Putative Sugar Phosphate
IsomeraseEPIMERASE (Ava4194) From Anabaena Variabilis
Atcc 29413 At 1.78 A Resolution
pdb|2QW5|B Chain B, Crystal Structure Of A Putative Sugar Phosphate
IsomeraseEPIMERASE (Ava4194) From Anabaena Variabilis
Atcc 29413 At 1.78 A Resolution
Length = 335
Score = 27.3 bits (59), Expect = 2.1, Method: Composition-based stats.
Identities = 13/44 (29%), Positives = 24/44 (54%)
Query: 21 KPDKLTILRMAVAHMKALRVTAVNTFRHHSQPWLFVHFGQNIDS 64
+PD L R+ VAH+K L+ + F P L ++ Q++++
Sbjct: 23 QPDNLDYRRIVVAHIKKLQRFGYSGFEFPIAPGLPENYAQDLEN 66
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
0.329 0.134 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,778,920
Number of Sequences: 62578
Number of extensions: 44524
Number of successful extensions: 113
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 104
Number of HSP's gapped (non-prelim): 9
length of query: 67
length of database: 14,973,337
effective HSP length: 38
effective length of query: 29
effective length of database: 12,595,373
effective search space: 365265817
effective search space used: 365265817
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 45 (21.9 bits)