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= 010918
         (497 letters)

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

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



>pdb|2YNS|A Chain A, Rimp_alpha_b54nls
 pdb|2YNS|B Chain B, Rimp_alpha_b54nls
 pdb|4B8O|A Chain A, Rimp_alpha_sv40tagnls
 pdb|4B8P|A Chain A, Rimp_alpha_a89nls
 pdb|4B8P|B Chain B, Rimp_alpha_a89nls
          Length = 490

 Score = 29.3 bits (64), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 15/44 (34%), Positives = 23/44 (52%)

Query: 417 RDGILLLLQQCVTDEDNPFSREWGIWCVRNLLEGNAENQKVVAD 460
           + G++    Q +T ED P  +    W + N+  G +EN KVV D
Sbjct: 77  QSGVVPRFVQFLTREDFPQLQFEAAWALTNIASGTSENTKVVID 120


>pdb|4B8J|A Chain A, Rimp_alpha1a
          Length = 528

 Score = 29.3 bits (64), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 15/44 (34%), Positives = 23/44 (52%)

Query: 417 RDGILLLLQQCVTDEDNPFSREWGIWCVRNLLEGNAENQKVVAD 460
           + G++    Q +T ED P  +    W + N+  G +EN KVV D
Sbjct: 115 QSGVVPRFVQFLTREDFPQLQFEAAWALTNIASGTSENTKVVID 158


>pdb|1ZMA|A Chain A, Crystal Structure Of The Bacterocin Transport Accessory
           Protein From Streptococcus Pneumoniae
          Length = 118

 Score = 28.5 bits (62), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 2/60 (3%)

Query: 351 EMFLSLLRDLEPPAIIRKAMRQGENQEGTSAKSAKTCPYIGFRRDLVAVIGNCAYRRKHI 410
           E FL  ++DLE   ++R      + +  T     KTCPY   R+    + G  A  + HI
Sbjct: 5   EQFLDNIKDLEVTTVVRAQEALDKKETATFFIGRKTCPYC--RKFAGTLSGVVAETKAHI 62


  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
   0.319    0.135    0.396 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,798,052
Number of Sequences: 62578
Number of extensions: 481105
Number of successful extensions: 993
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 988
Number of HSP's gapped (non-prelim): 5
length of query: 497
length of database: 14,973,337
effective HSP length: 103
effective length of query: 394
effective length of database: 8,527,803
effective search space: 3359954382
effective search space used: 3359954382
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: 53 (25.0 bits)