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= 001167
(1134 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2HWW|A Chain A, Structure Of Pin Domain Of Human Smg6
pdb|2HWW|B Chain B, Structure Of Pin Domain Of Human Smg6
pdb|2HWW|C Chain C, Structure Of Pin Domain Of Human Smg6
Length = 181
Score = 31.2 bits (69), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 44/182 (24%), Positives = 72/182 (39%), Gaps = 30/182 (16%)
Query: 420 GLVDIFLSLCRLEWQAGYQELATALFQAEIEFSLFCPSLLLTEQSKHRLFEHFWNGDGAR 479
G +D SL RL Y + + E++ L +++ HR G AR
Sbjct: 16 GFIDHLASLARLLESRKYILVVPLIVINELD------GLAKGQETDHR------AGGYAR 63
Query: 480 VGEEGALGWSAWLEKEEENRQRIVKEETSHDNEKGGWTGWSEPISKSKGNSTN------- 532
V +E A +LE+ E+R ++ TS NE SE I+ GN+ +
Sbjct: 64 VVQEKARKSIEFLEQRFESRDSCLRALTSRGNELESIAFRSEDITGQLGNNDDLILSCCL 123
Query: 533 --SEELGDDNVSAEEAE---IEKEVMKQEDDTENLLKLLGIDIDVGANAEVKDTSTWTRW 587
++ D + A + E + +EV+ DD +K L N V+D + W
Sbjct: 124 HYCKDKAKDFMPASKEEPIRLLREVVLLTDDRNLRVKAL------TRNVPVRDIPAFLTW 177
Query: 588 AE 589
A+
Sbjct: 178 AQ 179
>pdb|2DOK|A Chain A, Crystal Structure Of The Pin Domain Of Human Est1a
pdb|2DOK|B Chain B, Crystal Structure Of The Pin Domain Of Human Est1a
Length = 186
Score = 31.2 bits (69), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 44/182 (24%), Positives = 72/182 (39%), Gaps = 30/182 (16%)
Query: 420 GLVDIFLSLCRLEWQAGYQELATALFQAEIEFSLFCPSLLLTEQSKHRLFEHFWNGDGAR 479
G +D SL RL Y + + E++ L +++ HR G AR
Sbjct: 21 GFIDHLASLARLLESRKYILVVPLIVINELD------GLAKGQETDHR------AGGYAR 68
Query: 480 VGEEGALGWSAWLEKEEENRQRIVKEETSHDNEKGGWTGWSEPISKSKGNSTN------- 532
V +E A +LE+ E+R ++ TS NE SE I+ GN+ +
Sbjct: 69 VVQEKARKSIEFLEQRFESRDSCLRALTSRGNELESIAFRSEDITGQLGNNDDLILSCCL 128
Query: 533 --SEELGDDNVSAEEAE---IEKEVMKQEDDTENLLKLLGIDIDVGANAEVKDTSTWTRW 587
++ D + A + E + +EV+ DD +K L N V+D + W
Sbjct: 129 HYCKDKAKDFMPASKEEPIRLLREVVLLTDDRNLRVKAL------TRNVPVRDIPAFLTW 182
Query: 588 AE 589
A+
Sbjct: 183 AQ 184
>pdb|3VNQ|A Chain A, Co-crystal Structure Of Nrps Adenylation Protein Cytc1
With Atp From Streptomyces
pdb|3VNR|A Chain A, Co-crystal Structure Of Nrps Adenylation Protein Cytc1
With Aminobutyric Acid And Amp From Streptomyces
pdb|3VNS|A Chain A, Co-crystal Structure Of Nrps Adenylation Protein Cytc1
With D-valine And Amp From Streptomyces
Length = 544
Score = 30.4 bits (67), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 215 HVCLILPKKSAVSEYGEDFIPLLGTEMSIEGHHDNSILEESWEDEVLR 262
H+ +LP + Y +PL G ++ G D + + SWE+EV R
Sbjct: 500 HIKTLLPAYMHPARY----LPLPGLPRTVNGKVDRAAVARSWEEEVAR 543
>pdb|3KD7|A Chain A, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|B Chain B, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|C Chain C, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|D Chain D, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|E Chain E, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
Length = 125
Score = 29.6 bits (65), Expect = 9.6, Method: Composition-based stats.
Identities = 29/99 (29%), Positives = 42/99 (42%), Gaps = 7/99 (7%)
Query: 306 EKKISILEKAVELNPDNEELLLSLMKAYQSRDGTDVLIRRWEKILMQHSGSYKLW--REF 363
+K I +KA+EL+P+N +L AY + I ++K L + K W R
Sbjct: 26 QKAIEYYQKALELDPNNASAWYNLGNAYYKQGDYQKAIEYYQKALELDPNNAKAWYRRGN 85
Query: 364 LRVVQGEFSRF-----KVSELRKMYAHAIQALSAACIKQ 397
QG++ + K EL A A Q L A KQ
Sbjct: 86 AYYKQGDYQKAIEDYQKALELDPNNAKAKQNLGNAKQKQ 124
>pdb|1NA0|A Chain A, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
pdb|1NA0|B Chain B, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
Length = 125
Score = 29.6 bits (65), Expect = 9.9, Method: Composition-based stats.
Identities = 28/99 (28%), Positives = 42/99 (42%), Gaps = 7/99 (7%)
Query: 306 EKKISILEKAVELNPDNEELLLSLMKAYQSRDGTDVLIRRWEKILMQHSGSYKLWREFLR 365
++ I +KA+EL+P+N E +L AY + D I ++K L + + W
Sbjct: 26 DEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGN 85
Query: 366 VV--QGEFSRF-----KVSELRKMYAHAIQALSAACIKQ 397
QG++ K EL A A Q L A KQ
Sbjct: 86 AYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQ 124
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
0.318 0.134 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,743,707
Number of Sequences: 62578
Number of extensions: 1196504
Number of successful extensions: 2933
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 2919
Number of HSP's gapped (non-prelim): 20
length of query: 1134
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1025
effective length of database: 8,152,335
effective search space: 8356143375
effective search space used: 8356143375
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: 57 (26.6 bits)