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= 0001.2287.p
         (1324 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313314|ref|YP_003777406.1| transmembrane protein [Herbaspi...   107   5e-24
gi|300310093|ref|YP_003774185.1| transmembrane protein [Herbaspi...   106   1e-23

>gi|300313314|ref|YP_003777406.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 1266

 Score =  107 bits (268), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 73/262 (27%), Positives = 121/262 (46%), Gaps = 16/262 (6%)

Query: 62  YRSTWILVIGQQGAGKSSLLASLDPTQWQTPSEQQQALIIDG------SDWLFLPRGVLI 115
           Y   W +VIG   AGKS+ +A+   +  Q P   +   I+ G       DW F   G+L+
Sbjct: 122 YELPWYMVIGNPAAGKSTAIAN---SGLQFPFADKGGKIVHGVGGTRNCDWFFTTDGILL 178

Query: 116 DPPGRWSAAEANSQPGRVWKGFLGKLDLLRPERPIDAVLLVVSARSLQADSGAQRLTLAE 175
           D  GR+S  E +    R W  FLG L   R + PI+ +++ VS   L  +     + LA+
Sbjct: 179 DTAGRYSVYEEDR---REWFSFLGLLKRYRKQAPINGIIIAVSIAELTGNRPEFAINLAK 235

Query: 176 SLRAQLALLERQVEFSLPVYVVISEMDTVSGFAAFWQTQCAVQRREMVGWSMPLTTGSEA 235
           +LR ++  L  ++E   PVYVV ++ D ++GF  F+      +R  + G ++        
Sbjct: 236 NLRQRVQELTEKLEVFAPVYVVFTKTDLITGFNEFFLDSERGERDRVWGATLAYDRKHSG 295

Query: 236 TE--QWVDHAFDYLSGQLRDLQIQVAAKHHHADPAQIDQFMLFPRHLQQLREPVRACMAQ 293
            E   + D  FD L   L+++ +   A     + A     + FP      +  +R+ +  
Sbjct: 296 QEVSNFFDERFDELYAGLKEMSLANMAVKRGENLA--PGVLTFPLEFSAFKGVLRSFVTT 353

Query: 294 VFQASSWQTGCFCRGLYFTGAL 315
           +F+ + +Q     RG YFT AL
Sbjct: 354 LFEENPFQFKPVFRGFYFTSAL 375


>gi|300310093|ref|YP_003774185.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 1291

 Score =  106 bits (264), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 71/262 (27%), Positives = 122/262 (46%), Gaps = 16/262 (6%)

Query: 62  YRSTWILVIGQQGAGKSSLLASLDPTQWQTPSEQQQALIIDG------SDWLFLPRGVLI 115
           Y   W +VIG   AGKS+ +A+   +  Q P   +   I+ G       DW F   G+L+
Sbjct: 122 YELPWYMVIGNPAAGKSTAIAN---SGLQFPFADKGGKIVHGVGGTRNCDWFFTTDGILL 178

Query: 116 DPPGRWSAAEANSQPGRVWKGFLGKLDLLRPERPIDAVLLVVSARSLQADSGAQRLTLAE 175
           D  GR+S  E +      W  FLG L   R + PI+ +++ VS   L  +     + LA+
Sbjct: 179 DTAGRYSVYEEDRNE---WFSFLGLLKRYRKQAPINGIIIAVSIAELTGNRPEFAINLAK 235

Query: 176 SLRAQLALLERQVEFSLPVYVVISEMDTVSGFAAFWQTQCAVQRREMVGWSMPLTTGSEA 235
           +LR ++  L  ++E   PVYVV ++ D ++GF  F+      +R  + G ++        
Sbjct: 236 NLRQRVQELTEKLEVFAPVYVVFTKADLITGFNEFFLDTERSERDRVWGATLAYDRKRSG 295

Query: 236 TE--QWVDHAFDYLSGQLRDLQIQVAAKHHHADPAQIDQFMLFPRHLQQLREPVRACMAQ 293
            E   + D  FD L   L+++ +   +     + A     + FP     ++  +R+ +A 
Sbjct: 296 QEVVSFFDERFDELYAGLKEMSLASMSVKRGENMA--PGVLTFPLEFSSIKGVLRSFVAT 353

Query: 294 VFQASSWQTGCFCRGLYFTGAL 315
           +F+ + +Q     RG YFT A+
Sbjct: 354 LFEENPFQFKPVFRGFYFTSAV 375


  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    0.130    0.385 

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: 3,877,481
Number of extensions: 160811
Number of successful extensions: 640
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 634
Number of HSP's successfully gapped: 2
Length of query: 1324
Length of database: 1,619,870
Length adjustment: 97
Effective length of query: 1227
Effective length of database: 1,160,575
Effective search space: 1424025525
Effective search space used: 1424025525
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 136 (57.0 bits)