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= 041863
         (197 letters)

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

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



>pdb|3IX3|A Chain A, Lasr-Oc12 Hsl Complex
 pdb|3IX3|B Chain B, Lasr-Oc12 Hsl Complex
 pdb|3IX4|A Chain A, Lasr-Tp1 Complex
 pdb|3IX4|B Chain B, Lasr-Tp1 Complex
 pdb|3IX4|C Chain C, Lasr-Tp1 Complex
 pdb|3IX4|D Chain D, Lasr-Tp1 Complex
 pdb|3IX4|E Chain E, Lasr-Tp1 Complex
 pdb|3IX4|F Chain F, Lasr-Tp1 Complex
 pdb|3IX4|G Chain G, Lasr-Tp1 Complex
 pdb|3IX4|H Chain H, Lasr-Tp1 Complex
 pdb|3IX8|A Chain A, Lasr-Tp3 Complex
 pdb|3IX8|B Chain B, Lasr-Tp3 Complex
 pdb|3IX8|C Chain C, Lasr-Tp3 Complex
 pdb|3IX8|D Chain D, Lasr-Tp3 Complex
 pdb|3JPU|A Chain A, Lasr-Tp4 Complex
 pdb|3JPU|B Chain B, Lasr-Tp4 Complex
 pdb|3JPU|C Chain C, Lasr-Tp4 Complex
 pdb|3JPU|D Chain D, Lasr-Tp4 Complex
 pdb|3JPU|E Chain E, Lasr-Tp4 Complex
          Length = 173

 Score = 28.9 bits (63), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 22/91 (24%), Positives = 40/91 (43%), Gaps = 6/91 (6%)

Query: 10 VTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRNWEVRKIYEIEALEYHHALDLFSRHA 69
          V  F +LE   G L+W   + ++       ++L       +   ++ +Y +A  + +  A
Sbjct: 4  VDGFLELERSSGKLEWSAILQKMASDLGFSKILFG-----LLPKDSQDYENAFIVGNYPA 58

Query: 70 FKRNHLD-VGYEKLSSNVMKCAQGVLKISYD 99
            R H D  GY ++   V  C Q VL I ++
Sbjct: 59 AWREHYDRAGYARVDPTVSHCTQSVLPIFWE 89


>pdb|3LA6|A Chain A, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
 pdb|3LA6|B Chain B, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
 pdb|3LA6|C Chain C, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
 pdb|3LA6|D Chain D, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
 pdb|3LA6|E Chain E, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
 pdb|3LA6|F Chain F, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
 pdb|3LA6|G Chain G, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
 pdb|3LA6|H Chain H, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
 pdb|3LA6|I Chain I, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
 pdb|3LA6|J Chain J, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
 pdb|3LA6|K Chain K, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
 pdb|3LA6|L Chain L, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
 pdb|3LA6|M Chain M, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
 pdb|3LA6|N Chain N, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
 pdb|3LA6|O Chain O, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
 pdb|3LA6|P Chain P, Octameric Kinase Domain Of The E. Coli Tyrosine Kinase Wzc
           With Bound Adp
          Length = 286

 Score = 28.5 bits (62), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 3/54 (5%)

Query: 126 NFLNASGFYPEIGISFLVDKSLIVISNNNKITM---HDLKQEFGQEIIQEESIN 176
           N L  +G  P IG++F+      VIS  NK  +    D+++ +  E++   ++N
Sbjct: 93  NVLMMTGVSPSIGMTFVCANLAAVISQTNKRVLLIDCDMRKGYTHELLGTNNVN 146


>pdb|2UV0|E Chain E, Structure Of The P. Aeruginosa Lasr Ligand-Binding
          Domain Bound To Its Autoinducer
 pdb|2UV0|F Chain F, Structure Of The P. Aeruginosa Lasr Ligand-Binding
          Domain Bound To Its Autoinducer
 pdb|2UV0|G Chain G, Structure Of The P. Aeruginosa Lasr Ligand-Binding
          Domain Bound To Its Autoinducer
 pdb|2UV0|H Chain H, Structure Of The P. Aeruginosa Lasr Ligand-Binding
          Domain Bound To Its Autoinducer
          Length = 175

 Score = 27.7 bits (60), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 22/91 (24%), Positives = 39/91 (42%), Gaps = 6/91 (6%)

Query: 10 VTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRNWEVRKIYEIEALEYHHALDLFSRHA 69
          V  F +LE   G L+W   + +        ++L       +   ++ +Y +A  + +  A
Sbjct: 6  VDGFLELERSSGKLEWSAILQKXASDLGFSKILFG-----LLPKDSQDYENAFIVGNYPA 60

Query: 70 FKRNHLD-VGYEKLSSNVMKCAQGVLKISYD 99
            R H D  GY ++   V  C Q VL I ++
Sbjct: 61 AWREHYDRAGYARVDPTVSHCTQSVLPIFWE 91


  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
   0.322    0.138    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,958,248
Number of Sequences: 62578
Number of extensions: 231642
Number of successful extensions: 491
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 491
Number of HSP's gapped (non-prelim): 4
length of query: 197
length of database: 14,973,337
effective HSP length: 94
effective length of query: 103
effective length of database: 9,091,005
effective search space: 936373515
effective search space used: 936373515
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)