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= 008318
         (570 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



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

 Score = 72.4 bits (176), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 43/106 (40%), Positives = 64/106 (60%), Gaps = 5/106 (4%)

Query: 213 VFLGFD-ADASLNIAARIRGPNDQYINHIMNETGATVLLRGRGSGNSEGLQG-EVHQPLH 270
           +F+G + A  + N+  ++ GP   Y+ HI  ETGA V LRG+GSG  E   G E  +P++
Sbjct: 16  LFVGLEHAVPTFNVKEKVEGPGCSYLQHIQIETGAKVFLRGKGSGCIEPASGREAFEPMY 75

Query: 271 LFLSSNNPKSLEEAKRLAENLLDTISAECGASRVSSCKVYNAVPPP 316
           +++S   P+ L  AK+L ENLL T+ AE   SR  + ++  AVP P
Sbjct: 76  IYISHPKPEGLAAAKKLCENLLQTVHAE--YSRFVN-QINTAVPLP 118


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

 Score = 36.2 bits (82), Expect = 0.057,   Method: Compositional matrix adjust.
 Identities = 25/92 (27%), Positives = 46/92 (50%), Gaps = 9/92 (9%)

Query: 209 MSTSVFLGFDADASLNIAARIRGPNDQYINHIMNETGATVLLRGRGS------GNSEG-- 260
           +S  V +  D    +N    + GP    + +I  E  A +++RG+GS      G  +G  
Sbjct: 7   VSDKVMIPQDEYPEINFVGLLIGPRGNTLKNIEKECNAKIMIRGKGSVKEGKVGRKDGQM 66

Query: 261 LQGEVHQPLHLFLSSNNPKSLEEAKRLAENLL 292
           L GE  +PLH  +++N  +++++A     N+L
Sbjct: 67  LPGE-DEPLHALVTANTMENVKKAVEQIRNIL 97


  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
   0.311    0.129    0.361 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,878,421
Number of Sequences: 62578
Number of extensions: 495100
Number of successful extensions: 963
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 959
Number of HSP's gapped (non-prelim): 6
length of query: 570
length of database: 14,973,337
effective HSP length: 104
effective length of query: 466
effective length of database: 8,465,225
effective search space: 3944794850
effective search space used: 3944794850
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 54 (25.4 bits)