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= 002329
(936 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YQK|A Chain A, Solution Structure Of The Sant Domain In Arginine-Glutamic
Acid Dipeptide (Re) Repeats
Length = 63
Score = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 27/41 (65%), Gaps = 1/41 (2%)
Query: 166 WKDSEKDIFLLGLYIFGKNFFQI-KRFIETKEMGDILSFYY 205
W + E F+ GL +GKNFF+I K + KE G++++FYY
Sbjct: 12 WTEDEVKRFVKGLRQYGKNFFRIRKELLPNKETGELITFYY 52
>pdb|2XAF|B Chain B, Crystal Structure Of Lsd1-Corest In Complex With
Para-Bromo- (+)-Cis-2-Phenylcyclopropyl-1-Amine
pdb|2XAG|B Chain B, Crystal Structure Of Lsd1-Corest In Complex With
Para-Bromo- (-)-Trans-2-Phenylcyclopropyl-1-Amine
pdb|2XAH|B Chain B, Crystal Structure Of Lsd1-Corest In Complex With (+)-
Trans-2-Phenylcyclopropyl-1-Amine
pdb|2XAJ|B Chain B, Crystal Structure Of Lsd1-Corest In Complex With
(-)-Trans- 2-Phenylcyclopropyl-1-Amine
pdb|2XAQ|B Chain B, Crystal Structure Of Lsd1-Corest In Complex With A
Tranylcypromine Derivative (Mc2584, 13b)
pdb|2XAS|B Chain B, Crystal Structure Of Lsd1-Corest In Complex With A
Tranylcypromine Derivative (Mc2580, 14e)
Length = 482
Score = 33.5 bits (75), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 4/57 (7%)
Query: 149 LSKCTSCSPVPGFLRDPWKDSEKDIFLLGLYIFGKNFFQIKRFIETKEMGDILSFYY 205
L+ + +P P D W +K +F GK F +I++ + K + ++ FYY
Sbjct: 179 LADLPNFTPFP----DEWTVEDKVLFEQAFSFHGKTFHRIQQMLPDKSIASLVKFYY 231
>pdb|2HFD|A Chain A, Nmr Structure Of Protein Hydrogenase-1 Operon Protein Hyae
From Escherichia Coli: Northeast Structural Genomics
Consortium Target Er415
Length = 140
Score = 32.3 bits (72), Expect = 1.2, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 352 NDIFWEAVWPRLLARGWR--SEQPRDEGYVSSKDCLVFLMPGVKK 394
ND ++A+W R+LARGW SE D+ + D +V L K+
Sbjct: 3 NDTPFDALWQRMLARGWTPVSESRLDDWLTQAPDGVVLLSSDPKR 47
>pdb|2QGV|A Chain A, Crystal Structure Of Hydrogenase-1 Operon Protein Hyae
From Shigella Flexneri. Northeast Structural Genomics
Consortium Target Sfr170
pdb|2QGV|B Chain B, Crystal Structure Of Hydrogenase-1 Operon Protein Hyae
From Shigella Flexneri. Northeast Structural Genomics
Consortium Target Sfr170
pdb|2QGV|C Chain C, Crystal Structure Of Hydrogenase-1 Operon Protein Hyae
From Shigella Flexneri. Northeast Structural Genomics
Consortium Target Sfr170
pdb|2QGV|D Chain D, Crystal Structure Of Hydrogenase-1 Operon Protein Hyae
From Shigella Flexneri. Northeast Structural Genomics
Consortium Target Sfr170
pdb|2QGV|E Chain E, Crystal Structure Of Hydrogenase-1 Operon Protein Hyae
From Shigella Flexneri. Northeast Structural Genomics
Consortium Target Sfr170
pdb|2QGV|F Chain F, Crystal Structure Of Hydrogenase-1 Operon Protein Hyae
From Shigella Flexneri. Northeast Structural Genomics
Consortium Target Sfr170
pdb|2QGV|G Chain G, Crystal Structure Of Hydrogenase-1 Operon Protein Hyae
From Shigella Flexneri. Northeast Structural Genomics
Consortium Target Sfr170
pdb|2QGV|H Chain H, Crystal Structure Of Hydrogenase-1 Operon Protein Hyae
From Shigella Flexneri. Northeast Structural Genomics
Consortium Target Sfr170
pdb|2QGV|I Chain I, Crystal Structure Of Hydrogenase-1 Operon Protein Hyae
From Shigella Flexneri. Northeast Structural Genomics
Consortium Target Sfr170
pdb|2QGV|J Chain J, Crystal Structure Of Hydrogenase-1 Operon Protein Hyae
From Shigella Flexneri. Northeast Structural Genomics
Consortium Target Sfr170
Length = 140
Score = 31.2 bits (69), Expect = 3.1, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 352 NDIFWEAVWPRLLARGWR--SEQPRDEGYVSSKDCLVFLMPGVKK 394
ND ++A+W R LARGW SE D+ + D +V L K+
Sbjct: 3 NDTPFDALWQRXLARGWTPVSESRLDDWLTQAPDGVVLLSSDPKR 47
>pdb|3S1S|A Chain A, Characterization And Crystal Structure Of The Type Iig
Restriction Endonuclease Bpusi
Length = 878
Score = 30.0 bits (66), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 24/36 (66%), Gaps = 3/36 (8%)
Query: 895 RGTAGTVFVDLKLEKELKKTSIVSKDIVGRPIDQNE 930
RG G V D++L K L SI+S+ I+GRP+ ++E
Sbjct: 291 RGHEGVVPTDIELGKVL---SIISQHILGRPLTEDE 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
0.314 0.131 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,852,157
Number of Sequences: 62578
Number of extensions: 1110674
Number of successful extensions: 1757
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1755
Number of HSP's gapped (non-prelim): 6
length of query: 936
length of database: 14,973,337
effective HSP length: 108
effective length of query: 828
effective length of database: 8,214,913
effective search space: 6801947964
effective search space used: 6801947964
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (26.2 bits)