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= 034235
         (100 letters)

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

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



>pdb|1N91|A Chain A, Solution Nmr Structure Of Protein Yggu From Escherichia
          Coli. Northeast Structural Genomics Consortium Target
          Er14.
 pdb|1YH5|A Chain A, Solution Nmr Structure Of Protein Yggu From Escherichia
          Coli. Northeast Structural Genomics Consortium Target
          Er14
          Length = 108

 Score = 30.8 bits (68), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 15/55 (27%), Positives = 30/55 (54%)

Query: 42 ITIHAKPGSKSCSITDVSDEAVGVQIDAPAKDGEANAALLEYMSSLIHVSVGEFV 96
          + ++ +P +   SI  +  + V V I AP  DG+AN+ L++++     V+  + V
Sbjct: 17 LRLYIQPKASRDSIVGLHGDEVKVAITAPPVDGQANSHLVKFLGKQFRVAKSQVV 71


>pdb|1FTS|A Chain A, Signal Recognition Particle Receptor From E. Coli
          Length = 295

 Score = 29.3 bits (64), Expect = 0.52,   Method: Compositional matrix adjust.
 Identities = 22/86 (25%), Positives = 39/86 (45%), Gaps = 12/86 (13%)

Query: 26  ENLPSCIRLVP------PSSVSITIHAKPGSKSCSITDVSDEAVGV------QIDAPAKD 73
           E L   +R++       P  V +TI A  G  + S   +  EAVG+      ++D  AK 
Sbjct: 195 EELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKG 254

Query: 74  GEANAALLEYMSSLIHVSVGEFVESV 99
           G   +   ++   + ++ VGE +E +
Sbjct: 255 GVIFSVADQFGIPIRYIGVGERIEDL 280


>pdb|2XXA|B Chain B, The Crystal Structure Of The Signal Recognition Particle
           (Srp) In Complex With Its Receptor(Sr)
 pdb|2XXA|D Chain D, The Crystal Structure Of The Signal Recognition Particle
           (Srp) In Complex With Its Receptor(Sr)
          Length = 302

 Score = 28.1 bits (61), Expect = 1.3,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 6/69 (8%)

Query: 37  PSSVSITIHAKPGSKSCSITDVSDEAVGV------QIDAPAKDGEANAALLEYMSSLIHV 90
           P  V +TI A  G  + S   +  EAVG+      ++D  AK G   +   ++   + ++
Sbjct: 217 PHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKGGVIFSVADQFGIPIRYI 276

Query: 91  SVGEFVESV 99
            VGE +E +
Sbjct: 277 GVGERIEDL 285


>pdb|2QY9|A Chain A, Structure Of The Ng+1 Construct Of The E. Coli Srp
           Receptor Ftsy
          Length = 309

 Score = 28.1 bits (61), Expect = 1.3,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 6/69 (8%)

Query: 37  PSSVSITIHAKPGSKSCSITDVSDEAVGV------QIDAPAKDGEANAALLEYMSSLIHV 90
           P  V +TI A  G  + S   +  EAVG+      ++D  AK G   +   ++   + ++
Sbjct: 218 PHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKGGVIFSVADQFGIPIRYI 277

Query: 91  SVGEFVESV 99
            VGE +E +
Sbjct: 278 GVGERIEDL 286


>pdb|2YHS|A Chain A, Structure Of The E. Coli Srp Receptor Ftsy
          Length = 503

 Score = 26.2 bits (56), Expect = 4.9,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 6/69 (8%)

Query: 37  PSSVSITIHAKPGSKSCSITDVSDEAVGV------QIDAPAKDGEANAALLEYMSSLIHV 90
           P  V +TI A  G  + S   +  EAVG+      ++D  AK G   +   ++   + ++
Sbjct: 412 PHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKGGVIFSVADQFGIPIRYI 471

Query: 91  SVGEFVESV 99
            VGE +E +
Sbjct: 472 GVGERIEDL 480


>pdb|4FDY|A Chain A, Crystal Structure Of A Similar To Lipoprotein, NlpP60
           FAMILY (Sav0400) From Staphylococcus Aureus Subsp.
           Aureus Mu50 At 2.23 A Resolution
 pdb|4FDY|B Chain B, Crystal Structure Of A Similar To Lipoprotein, NlpP60
           FAMILY (Sav0400) From Staphylococcus Aureus Subsp.
           Aureus Mu50 At 2.23 A Resolution
          Length = 313

 Score = 25.8 bits (55), Expect = 6.8,   Method: Composition-based stats.
 Identities = 17/52 (32%), Positives = 23/52 (44%)

Query: 35  VPPSSVSITIHAKPGSKSCSITDVSDEAVGVQIDAPAKDGEANAALLEYMSS 86
           +PP+S+S     K G K  S    S E  GV ID+  +        L Y+ S
Sbjct: 73  LPPNSLSTEESIKQGVKYFSELLTSAEQQGVDIDSVIQSYNYGGGFLNYVRS 124


  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
   0.311    0.126    0.348 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,305,086
Number of Sequences: 62578
Number of extensions: 72587
Number of successful extensions: 145
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 143
Number of HSP's gapped (non-prelim): 7
length of query: 100
length of database: 14,973,337
effective HSP length: 66
effective length of query: 34
effective length of database: 10,843,189
effective search space: 368668426
effective search space used: 368668426
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 45 (21.9 bits)