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= psy13232
(111 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2IGI|A Chain A, Crystal Structure Of E. Coli Oligoribonuclease
pdb|2IGI|B Chain B, Crystal Structure Of E. Coli Oligoribonuclease
Length = 180
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 37/61 (60%)
Query: 31 CGLYYNEEVLQNMNEWCVEHHNASGLTDRVRASSVSIEEADKRLHQFVAKYVKPKTAPMV 90
++ ++E L M++W V H ASGL +RV+AS++ EA+ +F+ ++V +P+
Sbjct: 45 IAVHQSDEQLALMDDWNVRTHTASGLVERVKASTMGDREAELATLEFLKQWVPAGKSPIC 104
Query: 91 G 91
G
Sbjct: 105 G 105
>pdb|3TR8|A Chain A, Structure Of An Oligoribonuclease (Orn) From Coxiella
Burnetii
pdb|3TR8|B Chain B, Structure Of An Oligoribonuclease (Orn) From Coxiella
Burnetii
Length = 186
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 33/60 (55%)
Query: 32 GLYYNEEVLQNMNEWCVEHHNASGLTDRVRASSVSIEEADKRLHQFVAKYVKPKTAPMVG 91
++ +++L + W HH ASGL +RV+ SSV EA+ F+ KYV +P+ G
Sbjct: 50 AIHQPDKLLTAXDNWNTSHHTASGLLERVKNSSVDEVEAETLTLAFLEKYVSAGKSPLCG 109
>pdb|1J9A|A Chain A, Oligoribonuclease
Length = 184
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 37/61 (60%)
Query: 31 CGLYYNEEVLQNMNEWCVEHHNASGLTDRVRASSVSIEEADKRLHQFVAKYVKPKTAPMV 90
++ ++E+L N+WC + H+ +GL +R++AS ++ A+ + F+ K+V +P+
Sbjct: 48 LAVHQSDELLNKXNDWCQKTHSENGLIERIKASKLTERAAELQTLDFLKKWVPKGASPIC 107
Query: 91 G 91
G
Sbjct: 108 G 108
>pdb|1YTA|A Chain A, Crystal Structure Of Oligoribonuclease, The Lone Essential
Exoribonuclease In Escherichia Coli
pdb|1YTA|B Chain B, Crystal Structure Of Oligoribonuclease, The Lone Essential
Exoribonuclease In Escherichia Coli
pdb|1YTA|C Chain C, Crystal Structure Of Oligoribonuclease, The Lone Essential
Exoribonuclease In Escherichia Coli
pdb|1YTA|D Chain D, Crystal Structure Of Oligoribonuclease, The Lone Essential
Exoribonuclease In Escherichia Coli
Length = 180
Score = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 35/61 (57%)
Query: 31 CGLYYNEEVLQNMNEWCVEHHNASGLTDRVRASSVSIEEADKRLHQFVAKYVKPKTAPMV 90
++ ++E L ++W V H ASGL +RV+AS+ EA+ +F+ ++V +P+
Sbjct: 45 IAVHQSDEQLALXDDWNVRTHTASGLVERVKASTXGDREAELATLEFLKQWVPAGKSPIC 104
Query: 91 G 91
G
Sbjct: 105 G 105
>pdb|2GBZ|A Chain A, The Crystal Structure Of Xc847 From Xanthomonas
Campestris: A 3-5 Oligoribonuclease Of Dnaq Fold Family
With A Novel Opposingly-Shifted Helix
Length = 194
Score = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 34/62 (54%)
Query: 30 KCGLYYNEEVLQNMNEWCVEHHNASGLTDRVRASSVSIEEADKRLHQFVAKYVKPKTAPM 89
+ + ++ E L+ M+EW H SGL RV S V+ +A+ + F+ ++++ +PM
Sbjct: 48 ELAIAHSLETLEAMDEWNRNQHRRSGLWQRVLDSQVTHAQAEAQTVAFLGEWIRAGASPM 107
Query: 90 VG 91
G
Sbjct: 108 CG 109
>pdb|3S6B|A Chain A, Crystal Structure Of Methionine Aminopeptidase 1b From
Plasmodium Falciparum, Pf10_0150
Length = 368
Score = 29.3 bits (64), Expect = 0.58, Method: Composition-based stats.
Identities = 12/45 (26%), Positives = 24/45 (53%)
Query: 36 NEEVLQNMNEWCVEHHNASGLTDRVRASSVSIEEADKRLHQFVAK 80
NEE +Q + E C+ + + V+ +E D+++H+F+ K
Sbjct: 105 NEEEIQRIREACILGRKTLDYAHTLVSPGVTTDEIDRKVHEFIIK 149
>pdb|2XVG|A Chain A, Crystal Structure Of Alpha-Xylosidase (Gh31) From
Cellvibrio Japonicus
pdb|2XVK|A Chain A, Crystal Structure Of Alpha-Xylosidase (Gh31) From
Cellvibrio Japonicus In Complex With
5-Fluoro-Alpha-D-Xylopyranosyl Fluoride
pdb|2XVL|A Chain A, Crystal Structure Of Alpha-Xylosidase (Gh31) From
Cellvibrio Japonicus In Complex With Pentaerythritol
Propoxylate (5 4 Po Oh)
Length = 1020
Score = 26.2 bits (56), Expect = 5.6, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 5 GNRPSNTALSSMEQVKAYLQTQGTCK 30
GN S++A S+ EQVKA Q + T +
Sbjct: 29 GNESSSSAKSATEQVKALAQVERTAE 54
>pdb|1E5E|A Chain A, Methionine Gamma-Lyase (Mgl) From Trichomonas Vaginalis In
Complex With Propargylglycine
pdb|1E5E|B Chain B, Methionine Gamma-Lyase (Mgl) From Trichomonas Vaginalis In
Complex With Propargylglycine
pdb|1E5F|A Chain A, Methionine Gamma-Lyase (Mgl) From Trichomonas Vaginalis
pdb|1E5F|B Chain B, Methionine Gamma-Lyase (Mgl) From Trichomonas Vaginalis
Length = 404
Score = 25.4 bits (54), Expect = 7.5, Method: Composition-based stats.
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 49 EHHNASGLTDRVRASSVSIEEADKRLHQF 77
E A+G+TD + SV IE+AD+ + F
Sbjct: 360 EEREAAGITDGMIRLSVGIEDADELIADF 388
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
0.315 0.128 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,272,855
Number of Sequences: 62578
Number of extensions: 111677
Number of successful extensions: 340
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 330
Number of HSP's gapped (non-prelim): 12
length of query: 111
length of database: 14,973,337
effective HSP length: 75
effective length of query: 36
effective length of database: 10,279,987
effective search space: 370079532
effective search space used: 370079532
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)