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= 039634
         (127 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 = 54.7 bits (130), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 31/68 (45%), Positives = 40/68 (58%)

Query: 32  KDKPGYEHLNEPLHMLVEAEFPEVIINSCLDHAVAILENLLKPVDESLDHYKKQQLRELA 91
           + KP +EHLNE LH+L+  E  +      L  AV  ++ LL P  E  D  KK +L ELA
Sbjct: 59  RGKPNWEHLNEDLHVLITVEDAQNRAELKLKRAVEEVKKLLVPAAEGEDSLKKMKLMELA 118

Query: 92  ILNGTLRE 99
           ILNGT R+
Sbjct: 119 ILNGTYRD 126


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

 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 32/76 (42%), Positives = 39/76 (51%), Gaps = 8/76 (10%)

Query: 28  KVEIKDKPGYEHLNEPLHMLVEAEFPEVIINSCLDHAVAILENLLKP---VDESLDHYKK 84
           KV  KD       +EPLH LV A   E +       AV  + N+LK      E  +  +K
Sbjct: 58  KVGRKDGQMLPGEDEPLHALVTANTMENV-----KKAVEQIRNILKQGIETPEDQNDLRK 112

Query: 85  QQLRELAILNGTLREE 100
            QLRELA LNGTLRE+
Sbjct: 113 MQLRELARLNGTLRED 128


  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
   0.317    0.136    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,431,623
Number of Sequences: 62578
Number of extensions: 117745
Number of successful extensions: 198
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 195
Number of HSP's gapped (non-prelim): 6
length of query: 127
length of database: 14,973,337
effective HSP length: 87
effective length of query: 40
effective length of database: 9,529,051
effective search space: 381162040
effective search space used: 381162040
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)