BLASTP 2.2.18 [Mar-02-2008]


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= 0003.0026.p
         (636 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310569|ref|YP_003774661.1| export membrane protein SecD tr...  1087   0.0  
gi|300310570|ref|YP_003774662.1| preprotein translocase subunit ...    61   3e-10

>gi|300310569|ref|YP_003774661.1| export membrane protein SecD
           transmembrane [Herbaspirillum seropedicae SmR1]
          Length = 634

 Score = 1087 bits (2810), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 549/635 (86%), Positives = 595/635 (93%), Gaps = 5/635 (0%)

Query: 1   MNRYPLWKYVLIVIALLFGTLYTLPNFFGESPAVQISSAKSTIKVDSAVAERVQQILQQG 60
           MNRY LWKY LIV+ALLFG +YT+PNFFGESPAVQISSAKST+KV+ AVA RV QIL+QG
Sbjct: 1   MNRYSLWKYALIVLALLFGVIYTVPNFFGESPAVQISSAKSTLKVEPAVAGRVDQILKQG 60

Query: 61  SLAPESVAFDNS-SAPSVRARFANTDTQFKAKALLEKDLNTDPADPTYIVAFNLLPNTPQ 119
           +L  ESVAFDNS S PSVRARFA TD QFKAKALLEK+LNTDP+DPTYIVAFNLLPNTPQ
Sbjct: 61  NLGAESVAFDNSGSQPSVRARFATTDIQFKAKALLEKELNTDPSDPTYIVAFNLLPNTPQ 120

Query: 120 WLQSLHAFPMYLGLDLRGGVHFLMQVDVKAVLNKRLQGLQSSVRSVLRDKNIRHNGINRN 179
           WLQSLHAFPMYLGLDLRGGVHFLMQVD+KAVLNKRLQG+Q+SVRS+LRDKNIRH+GI+R+
Sbjct: 121 WLQSLHAFPMYLGLDLRGGVHFLMQVDIKAVLNKRLQGMQASVRSLLRDKNIRHSGISRS 180

Query: 180 GDRIEILFRDADTRDKAKSALAADVSELALADSGSGDDLKVIATLRPEALKQTQEDGVKQ 239
           GD IEI FRDADTR+KA++AL  ++ E+ L D+GSGDDLK+IATLRPEALKQTQEDGVKQ
Sbjct: 181 GDSIEISFRDADTRNKARAALG-ELQEMLLTDAGSGDDLKLIATLRPEALKQTQEDGVKQ 239

Query: 240 NISTLSKRVNELGVAEPIIQRQGADRIVVQLPGVQDVSRAKDIIGRTATLEVRMVDDSVA 299
           NISTLSKRVNELGVAEP+IQRQGADRIVV+LPGVQDVSRAKDIIGRTATLEVRMVD+SV 
Sbjct: 240 NISTLSKRVNELGVAEPLIQRQGADRIVVELPGVQDVSRAKDIIGRTATLEVRMVDESVV 299

Query: 300 RGTEETAAVPFGSELFKIGKGAPVVLYKEPVLTGDYISNASASFDENHQPSVSIDLNGDG 359
           RGTEET A+PFGSELFKIGKGAPVVL KEPVLTGDYISNASASFDENHQP+VSIDLNGDG
Sbjct: 300 RGTEETTAIPFGSELFKIGKGAPVVLNKEPVLTGDYISNASASFDENHQPAVSIDLNGDG 359

Query: 360 GRKMRDATREKVGKAMAIVLFEKGKGEVLTVATIRSELGSRFQITGMGSAESSSDLALLL 419
           GRKMR+ATR+KVGKAMAIVLFEKGKGEVLTVATIRSELGSRFQITGMGS E++SDLALLL
Sbjct: 360 GRKMREATRDKVGKAMAIVLFEKGKGEVLTVATIRSELGSRFQITGMGSPEAASDLALLL 419

Query: 420 RAGSLAAPMDIIEERTIGPQLGAENIRKGFDATLYGFAAMAVFMIVYYQLFGLFSALALS 479
           RAGSLAAPMDIIEERTIGPQLGA+NI+KGFD+ LYGF AMA+FM++YYQLFG FSALALS
Sbjct: 420 RAGSLAAPMDIIEERTIGPQLGADNIKKGFDSVLYGFLAMAIFMVIYYQLFGFFSALALS 479

Query: 480 VNVLLLVAVLSTLQATLTLPGIAAIALALGMAIDSNVLINERIREELRNGNSPQAAISIG 539
           VNVLLLVA+LSTLQ TLTLPGIAAIALALGMAIDSNVLINERIREELR GNSPQAAI+ G
Sbjct: 480 VNVLLLVALLSTLQVTLTLPGIAAIALALGMAIDSNVLINERIREELRAGNSPQAAIAAG 539

Query: 540 FDRAWATILDSNVTTLIAGLALLIFGSGAIRGFAVVHCLGILTSMFSAVFFSRGLANLWY 599
           FDRAWATILDSNVTTLIAGLALLIFGSGAIRGFAVVHCLGILTSMFSAVFFSRG+ NLWY
Sbjct: 540 FDRAWATILDSNVTTLIAGLALLIFGSGAIRGFAVVHCLGILTSMFSAVFFSRGVVNLWY 599

Query: 600 GRKKKLTSLAIGQIWKPQGD---AGSKPGAKTDSK 631
           GRKK+L+SLAIGQIWKP+G+      K  AK D K
Sbjct: 600 GRKKRLSSLAIGQIWKPEGEVLTTSGKASAKRDGK 634


>gi|300310570|ref|YP_003774662.1| preprotein translocase subunit
           SecF protein [Herbaspirillum seropedicae SmR1]
          Length = 314

 Score = 60.8 bits (146), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 48/179 (26%), Positives = 88/179 (49%), Gaps = 16/179 (8%)

Query: 436 IGPQLGAENIRKGFDATLYGFAAMAVFMIVYYQLFGL---FSALALSVN---VLLLVAVL 489
           +GPQ+G E    G  A       M V  IV Y  F     F+  A+  N   +++++   
Sbjct: 125 VGPQVGDELAHDGLLAL-----GMVVLGIVIYLAFRFEWKFAVAAVIANLHDIIIILGFF 179

Query: 490 STLQATLTLPGIAAIALALGMAIDSNVLINERIREELRNGN----SPQAAISIGFDRAWA 545
           +  Q   +L  +AAI   LG +++ +V++ +R+RE  R+      SP   ++       +
Sbjct: 180 AFFQWEFSLTVLAAILAVLGYSVNESVVVFDRVREAFRDRRFGKLSPPEVLNHAITSTMS 239

Query: 546 TILDSNVTTLIAGLALLIFGSGAIRGFAVVHCLGILTSMFSAVFFSRGLANLWYGRKKK 604
             + ++ +T +  LA+  FG   +  FA+   +GIL  ++S+VF +  LA +W G K++
Sbjct: 240 RTVITHGSTEMMVLAMFFFGGPTLHYFALALTIGILFGIYSSVFVAAALA-MWLGVKRE 297


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.318    0.134    0.374 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 1,715,766
Number of extensions: 67536
Number of successful extensions: 253
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 251
Number of HSP's successfully gapped: 2
Length of query: 636
Length of database: 1,619,870
Length adjustment: 91
Effective length of query: 545
Effective length of database: 1,188,985
Effective search space: 647996825
Effective search space used: 647996825
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 134 (56.2 bits)