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= 019383
         (342 letters)

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

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



>pdb|3MT0|A Chain A, The Crystal Structure Of A Functionally Unknown Protein
           Pa17 Pseudomonas Aeruginosa Pao1
          Length = 290

 Score = 31.2 bits (69), Expect = 0.76,   Method: Compositional matrix adjust.
 Identities = 36/115 (31%), Positives = 46/115 (40%), Gaps = 22/115 (19%)

Query: 32  LIVKKSGPPTPAQKSVPMSDDPGSGEELDRQIPDQELGVRIARMKDTYSKVRHCLPDKGK 91
           LI+K+  P  P +K++   DD     +L R  P   L  + AR            P  G 
Sbjct: 92  LIIKQHFPDNPLKKAILTPDD----WKLLRFAPCPVLXTKTAR------------PWTGG 135

Query: 92  KILATVTRLEKECERRRL-AGAVPVCLDIDGCDKLTQSPSSDCFTQRTPSPQIQS 145
           KILA V     + E R L AG +    DI G  K T    S       PSP + S
Sbjct: 136 KILAAVDVGNNDGEHRSLHAGIISHAYDIAGLAKATLHVIS-----AHPSPXLSS 185


>pdb|2IZP|A Chain A, Bipd - An Invasion Prtein Associated With The Type-Iii
          Secretion System Of Burkholderia Pseudomallei.
 pdb|2IZP|B Chain B, Bipd - An Invasion Prtein Associated With The Type-Iii
          Secretion System Of Burkholderia Pseudomallei.
 pdb|2IXR|A Chain A, Bipd Of Burkholderia Pseudomallei
 pdb|2J9T|A Chain A, Bipd Of Burkholderia Pseudomallei
 pdb|2J9T|B Chain B, Bipd Of Burkholderia Pseudomallei
 pdb|3NFT|A Chain A, Near-Atomic Resolution Analysis Of Bipd- A Component Of
          The Type-Iii Secretion System Of Burkholderia
          Pseudomallei
          Length = 303

 Score = 28.5 bits (62), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 8/63 (12%)

Query: 27 DVPAELIVKKSGPPTPAQKSVPMSDDPGSGEELDRQIPDQELGVRIARMKDTYSKVRHCL 86
          D PA   + K+ P     ++  M+DD      +DR++P+Q+LG  I    D ++ +R  L
Sbjct: 8  DWPALEALAKTMPADAGARA--MTDDDLRAAGVDRRVPEQKLGAAI----DEFASLR--L 59

Query: 87 PDK 89
          PD+
Sbjct: 60 PDR 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
   0.312    0.129    0.376 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,432,766
Number of Sequences: 62578
Number of extensions: 441873
Number of successful extensions: 656
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 656
Number of HSP's gapped (non-prelim): 5
length of query: 342
length of database: 14,973,337
effective HSP length: 100
effective length of query: 242
effective length of database: 8,715,537
effective search space: 2109159954
effective search space used: 2109159954
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)