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= 019376
         (342 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|P53513|CSSD2_ECOLX Outer membrane usher protein CssD OS=Escherichia coli GN=cssD PE=3
           SV=1
          Length = 802

 Score = 33.1 bits (74), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 23/81 (28%), Positives = 39/81 (48%), Gaps = 7/81 (8%)

Query: 65  FSLTISL-------HPSTFSSFFRSRPGSGSKSIYLTQQHYQRIKLHWDFTRAQFTQNSA 117
           FS+ ISL       H S+  SF  +  G+ + S+ L    +   +L+W+  + + T+N+ 
Sbjct: 528 FSINISLPLTKDYGHISSNYSFSNANTGTATSSVGLNGSFFNDARLNWNIQQNRTTRNNG 587

Query: 118 EPDSGFYIAISCNARLEFFLG 138
             D+  YIA S  +    F G
Sbjct: 588 YTDNTSYIATSYASPYGVFTG 608


>sp|Q8N1W1|ARG28_HUMAN Rho guanine nucleotide exchange factor 28 OS=Homo sapiens
           GN=ARHGEF28 PE=1 SV=3
          Length = 1705

 Score = 32.7 bits (73), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 38/165 (23%), Positives = 69/165 (41%), Gaps = 11/165 (6%)

Query: 142 EEFVKRSGLIMSRQVAEHALLSRREHVFGRKSYMSRAHFLGSKHEIGIECSDGGVLKVKV 201
           EE +K S  + SR  AE      +E +   KS + + +    +H + ++ S   +LK   
Sbjct: 302 EEEIKNS--VSSRSAAE------KEDIKRVKSLVVQHNEHEDQHSLDLDRS-FDILKKSK 352

Query: 202 DGETSLVIKRLAWKFRGHERIYVDGIEVEFFWDV-FNWINNNGSAAAAGTGNGHGVFIFQ 260
              T L   RL+    G + +Y + + ++   D+  ++IN  G   A  +    G  ++ 
Sbjct: 353 PPSTLLAAGRLSDMLNGGDEVYANCMVIDQVGDLDISYINIEG-ITATTSPESRGCTLWP 411

Query: 261 FGEGGVWPEMVGPEKRLMKKNLSSLGSASAPSTSLSPSPSCSSVL 305
                  P    P    + +N+       A  + +SPS SC+S L
Sbjct: 412 QSSKHTLPTETSPSVYPLSENVEGTAHTEAQQSFMSPSSSCASNL 456


>sp|Q60UZ5|MED23_CAEBR Mediator of RNA polymerase II transcription subunit 23
           OS=Caenorhabditis briggsae GN=sur-2 PE=3 SV=3
          Length = 1589

 Score = 32.7 bits (73), Expect = 4.5,   Method: Composition-based stats.
 Identities = 15/48 (31%), Positives = 24/48 (50%)

Query: 28  LITCIYQTQICKSPTYLTLTWSKNLFSHSLTIYAADSFSLTISLHPST 75
           +I  +   Q C   T+ T+  +  L      I+ AD F L++ +HPST
Sbjct: 890 IIADVKNNQDCNEQTFKTIAKTAALMCFHFNIHRADRFLLSLIMHPST 937


>sp|P53512|CSSD1_ECOLX Outer membrane usher protein CssD OS=Escherichia coli GN=cssD PE=3
           SV=1
          Length = 819

 Score = 32.0 bits (71), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 22/81 (27%), Positives = 39/81 (48%), Gaps = 7/81 (8%)

Query: 65  FSLTISL-------HPSTFSSFFRSRPGSGSKSIYLTQQHYQRIKLHWDFTRAQFTQNSA 117
           FS+ ISL       H S+  SF  +  G+ + S+ +    +   +L+W+  + + T+N+ 
Sbjct: 537 FSINISLPLTKDYGHISSNYSFSNANTGTATSSVGVNGSFFNDARLNWNIQQNRTTRNNG 596

Query: 118 EPDSGFYIAISCNARLEFFLG 138
             D+  YIA S  +    F G
Sbjct: 597 YTDNTSYIATSYASPYGVFTG 617


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.319    0.132    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 129,487,415
Number of Sequences: 539616
Number of extensions: 5464893
Number of successful extensions: 15716
Number of sequences better than 100.0: 39
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 15572
Number of HSP's gapped (non-prelim): 157
length of query: 342
length of database: 191,569,459
effective HSP length: 118
effective length of query: 224
effective length of database: 127,894,771
effective search space: 28648428704
effective search space used: 28648428704
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: 61 (28.1 bits)