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= 029290
(196 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2BL5|A Chain A, Solution Structure Of The Kh-Qua2 Region Of The Xenopus
Star-Gsg Quaking Protein
Length = 140
Score = 69.3 bits (168), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 25/48 (52%), Positives = 42/48 (87%)
Query: 149 IPVEKYPNFNFVGRLLGPRGNSLKRVEASTECRVLIRGRGSIKDPARK 196
+PV++YP+FNFVGR+LGPRG + K++EA T C++++RG+GS++D ++
Sbjct: 8 VPVKEYPDFNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKE 55
>pdb|1K1G|A Chain A, Structural Basis For Recognition Of The Intron Branch Site
Rna By Splicing Factor 1
Length = 131
Score = 61.2 bits (147), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 24/47 (51%), Positives = 36/47 (76%)
Query: 146 RVDIPVEKYPNFNFVGRLLGPRGNSLKRVEASTECRVLIRGRGSIKD 192
+V IP ++YP NFVG L+GPRGN+LK +E +++IRG+GS+K+
Sbjct: 10 KVMIPQDEYPEINFVGLLIGPRGNTLKNIEKECNAKIMIRGKGSVKE 56
>pdb|2DGR|A Chain A, Solution Structure Of The Second Kh Domain In Ring Finger
And Kh Domain Containing Protein 1
Length = 83
Score = 31.2 bits (69), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 29/51 (56%), Gaps = 8/51 (15%)
Query: 144 TIRVDIPVEKYPNFNFVGRLLGPRGNSLKRVEASTECRVLIRGRGSIKDPA 194
TI+V +P + VG ++GP+G ++KR++ T ++ GR K+P
Sbjct: 11 TIQVRVP------YRVVGLVVGPKGATIKRIQQRTHTYIVTPGRD--KEPV 53
>pdb|2YQR|A Chain A, Solution Structure Of The Kh Domain In Kiaa0907 Protein
Length = 119
Score = 30.0 bits (66), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 155 PNFNFVGRLLGPRGNSLKRVEASTECRVLIRGRGS 189
P FN ++ GP + L+ ++ T +V +RG+GS
Sbjct: 25 PTFNVKEKVEGPGCSYLQHIQIETGAKVFLRGKGS 59
>pdb|3K6T|A Chain A, Crystal Structure Of The Gld-1 Homodimerization Domain
From Caenorhabditis Elegans At 2.04 A Resolution
pdb|3K6T|B Chain B, Crystal Structure Of The Gld-1 Homodimerization Domain
From Caenorhabditis Elegans At 2.04 A Resolution
pdb|3K6T|C Chain C, Crystal Structure Of The Gld-1 Homodimerization Domain
From Caenorhabditis Elegans At 2.04 A Resolution
pdb|3K6T|D Chain D, Crystal Structure Of The Gld-1 Homodimerization Domain
From Caenorhabditis Elegans At 2.04 A Resolution
Length = 60
Score = 29.6 bits (65), Expect = 1.1, Method: Composition-based stats.
Identities = 15/38 (39%), Positives = 22/38 (57%)
Query: 39 KYLSELLAERHKLNPFLPVLPNAYRLLNQEIMRVTTLL 76
+YL++L+ E+ L F + N RLL+ EI RV L
Sbjct: 8 EYLADLVKEKKHLTLFPHMFSNVERLLDDEIGRVRVAL 45
>pdb|1E3H|A Chain A, Semet Derivative Of Streptomyces Antibioticus PnpaseGPSI
Enzyme
Length = 757
Score = 28.5 bits (62), Expect = 2.2, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 25/48 (52%), Gaps = 6/48 (12%)
Query: 143 RTIRVDIPVEKYPNFNFVGRLLGPRGNSLKRVEASTECRVLIRGRGSI 190
R I V IPV+K +G ++GP+ + +++ T + I G+I
Sbjct: 598 RIITVKIPVDK------IGEVIGPKRQXINQIQEDTGAEITIEDDGTI 639
>pdb|1E3P|A Chain A, Tungstate Derivative Of Streptomyces Antibioticus Pnpase
Gpsi Enzyme
Length = 757
Score = 28.1 bits (61), Expect = 3.5, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 25/48 (52%), Gaps = 6/48 (12%)
Query: 143 RTIRVDIPVEKYPNFNFVGRLLGPRGNSLKRVEASTECRVLIRGRGSI 190
R I V IPV+K +G ++GP+ + +++ T + I G+I
Sbjct: 598 RIITVKIPVDK------IGEVIGPKRQMINQIQEDTGAEITIEDDGTI 639
>pdb|2XA6|A Chain A, Structural Basis For Homodimerization Of The
Src-Associated During Mitosis, 68 Kd Protein (Sam68)
Qua1 Domain
pdb|2XA6|B Chain B, Structural Basis For Homodimerization Of The
Src-Associated During Mitosis, 68 Kd Protein (Sam68)
Qua1 Domain
Length = 41
Score = 27.7 bits (60), Expect = 4.8, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 37 QEKYLSELLAERHKLNPFLPVLPNAYRLLNQEIMRV 72
+ KYL EL+AE+ L+ P +A +LL EI ++
Sbjct: 6 ENKYLPELMAEKDSLD---PSFTHAMQLLTAEIEKI 38
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
0.316 0.134 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,065,231
Number of Sequences: 62578
Number of extensions: 184760
Number of successful extensions: 374
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 368
Number of HSP's gapped (non-prelim): 9
length of query: 196
length of database: 14,973,337
effective HSP length: 94
effective length of query: 102
effective length of database: 9,091,005
effective search space: 927282510
effective search space used: 927282510
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: 49 (23.5 bits)