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= 019483
         (340 letters)

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

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



>pdb|3GN9|A Chain A, Crystal Structure Of The Major Pseudopilin From The Type 2
           Secretion System Of Vibrio Vulnificus
 pdb|3GN9|B Chain B, Crystal Structure Of The Major Pseudopilin From The Type 2
           Secretion System Of Vibrio Vulnificus
 pdb|3GN9|C Chain C, Crystal Structure Of The Major Pseudopilin From The Type 2
           Secretion System Of Vibrio Vulnificus
          Length = 115

 Score = 28.9 bits (63), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 1/58 (1%)

Query: 66  RRRGLTDICSSTTNVPTSKLQAYVKPRSDEGLASGTKKPSKT-PKEFTGTGHQAELKK 122
           +++ +TDI +    +   KL   V P +D+GL +   KPS   P+ +   G+   L K
Sbjct: 11  QQKAITDIVALENALDMYKLDNSVYPTTDQGLEALVTKPSSPEPRNYRNGGYIKRLPK 68


>pdb|2NUL|A Chain A, Peptidylprolyl Isomerase From E. Coli
 pdb|2RS4|A Chain A, Nmr Strucure Of Stereo-Array Isotope Labelled (Sail)
           Peptidyl-Prolyl Cis-Trans Isomerase From E. Coli (Eppib)
          Length = 164

 Score = 28.9 bits (63), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 14/44 (31%), Positives = 24/44 (54%), Gaps = 1/44 (2%)

Query: 20  ESLDLDGEVISGLVSYCEFAQPLDAKEYLDNIIGQEVGKSVIEE 63
           + L+  GE + G   YC FA+ +D  + +D I G   G+S + +
Sbjct: 106 DFLNFSGESLQGW-GYCVFAEVVDGMDVVDKIKGVATGRSGMHQ 148


>pdb|1LOP|A Chain A, Cyclophilin A Complexed With
           Succinyl-Ala-Pro-Ala-P-Nitroanilide
          Length = 164

 Score = 28.1 bits (61), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 1/42 (2%)

Query: 22  LDLDGEVISGLVSYCEFAQPLDAKEYLDNIIGQEVGKSVIEE 63
           L+  GE + G   YC FA+ +D  + +D I G   G+S + +
Sbjct: 108 LNFSGESLQGW-GYCVFAEVVDGMDEVDKIKGVATGRSGMHQ 148


  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
   0.314    0.130    0.373 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,126,797
Number of Sequences: 62578
Number of extensions: 350582
Number of successful extensions: 495
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 494
Number of HSP's gapped (non-prelim): 5
length of query: 340
length of database: 14,973,337
effective HSP length: 99
effective length of query: 241
effective length of database: 8,778,115
effective search space: 2115525715
effective search space used: 2115525715
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (24.6 bits)