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= 046601
(233 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WP1|A Chain A, Crystal Structure Of The Drug-Discharge Outer Membrane
Protein, Oprm
pdb|1WP1|B Chain B, Crystal Structure Of The Drug-Discharge Outer Membrane
Protein, Oprm
Length = 474
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 42/98 (42%), Gaps = 15/98 (15%)
Query: 6 RSLTVSVGSTLGSLSCCRSLQKTRLNLIQFWLFISSSFLLQTDESGKFLVGSN-PV---- 60
RS V V S L +++ R L Q+ ++ Q + L+GS P
Sbjct: 194 RSYDVGVASALDLRQAQTAVEGARATLAQYTRLVA-----QDQNALVLLLGSGIPANLPQ 248
Query: 61 ---LSKDLLSHERNSLPS--LNGRSDLLKLEHALIAEN 93
L + LL+ LPS L R D+L+ EH L+A N
Sbjct: 249 GLGLDQTLLTEVPAGLPSDLLQRRPDILEAEHQLMAAN 286
>pdb|3D5K|A Chain A, Crystal Structure Of The Oprm Channel In A Non-Symmetrical
Space Group
pdb|3D5K|B Chain B, Crystal Structure Of The Oprm Channel In A Non-Symmetrical
Space Group
pdb|3D5K|C Chain C, Crystal Structure Of The Oprm Channel In A Non-Symmetrical
Space Group
Length = 474
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 42/98 (42%), Gaps = 15/98 (15%)
Query: 6 RSLTVSVGSTLGSLSCCRSLQKTRLNLIQFWLFISSSFLLQTDESGKFLVGSN-PV---- 60
RS V V S L +++ R L Q+ ++ Q + L+GS P
Sbjct: 194 RSYDVGVASALDLRQAQTAVEGARATLAQYTRLVA-----QDQNALVLLLGSGIPANLPQ 248
Query: 61 ---LSKDLLSHERNSLPS--LNGRSDLLKLEHALIAEN 93
L + LL+ LPS L R D+L+ EH L+A N
Sbjct: 249 GLGLDQTLLTEVPAGLPSDLLQRRPDILEAEHQLMAAN 286
>pdb|3PSI|A Chain A, Crystal Structure Of The Spt6 Core Domain From
Saccharomyces Cerevisiae, Form Spt6(239-1451)
Length = 1219
Score = 28.1 bits (61), Expect = 3.8, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 79 RSDLLKLEHALIAENLWSFLEKLGACYSVIPCHIYRIWHDEVSC 122
R+D L+ I ++L EK S+IP + R WH+++ C
Sbjct: 877 RNDFHPLQGDEIFQSLTGESEKTFFKGSIIPVRVERFWHNDIIC 920
>pdb|3PSF|A Chain A, Crystal Structure Of The Spt6 Core Domain From
Saccharomyces Cerevisiae, Form Spt6(236-1259)
Length = 1030
Score = 28.1 bits (61), Expect = 3.8, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 79 RSDLLKLEHALIAENLWSFLEKLGACYSVIPCHIYRIWHDEVSC 122
R+D L+ I ++L EK S+IP + R WH+++ C
Sbjct: 880 RNDFHPLQGDEIFQSLTGESEKTFFKGSIIPVRVERFWHNDIIC 923
>pdb|3S81|A Chain A, Crystal Structure Of Putative Aspartate Racemase From
Salmonella Typhimurium
pdb|3S81|B Chain B, Crystal Structure Of Putative Aspartate Racemase From
Salmonella Typhimurium
pdb|3S81|C Chain C, Crystal Structure Of Putative Aspartate Racemase From
Salmonella Typhimurium
pdb|3S81|D Chain D, Crystal Structure Of Putative Aspartate Racemase From
Salmonella Typhimurium
Length = 268
Score = 27.3 bits (59), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 39/96 (40%), Gaps = 20/96 (20%)
Query: 92 ENLWSFLEKLGACYSVIPCHIYRIWHDEVSCFVPFLHVTKSKPLEVRS-------PLGIH 144
E LE GA VIPC+ W D++ +V K++ + + P H
Sbjct: 89 ERYLHMLEDAGAECIVIPCNTAHYWFDDLQ------NVAKARMISILDATLGDIPPSARH 142
Query: 145 V--LMTNGILTAGVLKLCYQIKATMEH-TLIPAVDA 177
V L TN L G+ YQ KA TLI DA
Sbjct: 143 VGLLATNATLATGL----YQKKALARGLTLIQPEDA 174
>pdb|3S7Z|A Chain A, Crystal Structure Of Putative Aspartate Racemase From
Salmonella Typhimurium Complexed With Succinate
pdb|3S7Z|B Chain B, Crystal Structure Of Putative Aspartate Racemase From
Salmonella Typhimurium Complexed With Succinate
Length = 268
Score = 26.9 bits (58), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 39/96 (40%), Gaps = 20/96 (20%)
Query: 92 ENLWSFLEKLGACYSVIPCHIYRIWHDEVSCFVPFLHVTKSKPLEVRS-------PLGIH 144
E LE GA VIPC+ W D++ +V K++ + + P H
Sbjct: 89 ERYLHXLEDAGAECIVIPCNTAHYWFDDLQ------NVAKARXISILDATLGDIPPSARH 142
Query: 145 V--LMTNGILTAGVLKLCYQIKATMEH-TLIPAVDA 177
V L TN L G+ YQ KA TLI DA
Sbjct: 143 VGLLATNATLATGL----YQKKALARGLTLIQPEDA 174
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 0.138 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,749,881
Number of Sequences: 62578
Number of extensions: 212519
Number of successful extensions: 368
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 366
Number of HSP's gapped (non-prelim): 8
length of query: 233
length of database: 14,973,337
effective HSP length: 96
effective length of query: 137
effective length of database: 8,965,849
effective search space: 1228321313
effective search space used: 1228321313
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: 50 (23.9 bits)