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= 027518
         (222 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 = 25/47 (53%), Positives = 41/47 (87%)

Query: 149 IPVEKYPNFNFVGRLLGPRGNSLKRVEASTECRVLIRGRGSIKDPAR 195
           +PV++YP+FNFVGR+LGPRG + K++EA T C++++RG+GS++D  +
Sbjct: 8   VPVKEYPDFNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKK 54


>pdb|1K1G|A Chain A, Structural Basis For Recognition Of The Intron Branch Site
           Rna By Splicing Factor 1
          Length = 131

 Score = 60.8 bits (146), Expect = 6e-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 = 30.8 bits (68), Expect = 0.64,   Method: Compositional matrix adjust.
 Identities = 16/50 (32%), Positives = 29/50 (58%), Gaps = 8/50 (16%)

Query: 144 TIRVDIPVEKYPNFNFVGRLLGPRGNSLKRVEASTECRVLIRGRGSIKDP 193
           TI+V +P      +  VG ++GP+G ++KR++  T   ++  GR   K+P
Sbjct: 11  TIQVRVP------YRVVGLVVGPKGATIKRIQQRTHTYIVTPGRD--KEP 52


>pdb|2YQR|A Chain A, Solution Structure Of The Kh Domain In Kiaa0907 Protein
          Length = 119

 Score = 30.4 bits (67), Expect = 0.89,   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 = 1.3,   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 = 29.3 bits (64), Expect = 1.9,   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 = 28.5 bits (62), Expect = 3.1,   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


  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
   0.320    0.137    0.386 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,568,940
Number of Sequences: 62578
Number of extensions: 202514
Number of successful extensions: 393
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 387
Number of HSP's gapped (non-prelim): 8
length of query: 222
length of database: 14,973,337
effective HSP length: 95
effective length of query: 127
effective length of database: 9,028,427
effective search space: 1146610229
effective search space used: 1146610229
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)