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= 0013.0014.p
         (333 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311597|ref|YP_003775689.1| transmembrane protein [Herbaspi...   478   e-136

>gi|300311597|ref|YP_003775689.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 396

 Score =  478 bits (1230), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 240/301 (79%), Positives = 265/301 (88%), Gaps = 5/301 (1%)

Query: 1   MTHVPQIKIPATYMRGGTSKGVFFRLQDLPATAQAPGPXRGGPARDALLMRVIGSPDPYG 60
           M+ VPQI+IPATY+RGGTSKGVFF+L DLP  A+ PGP     ARD LL RVIGSPDPYG
Sbjct: 1   MSQVPQIRIPATYLRGGTSKGVFFKLDDLPEAARVPGP-----ARDKLLQRVIGSPDPYG 55

Query: 61  KQIDGMGGATSSTSKTVILSKSTRAGHDVDYLFGQVSIDTAFVDWSGNCGNLSAAVGPFA 120
           KQIDGMGGATSSTSKTVI+S+S R GHDVDYLFGQVSID  FVDWSGNCGNLSAAVGPFA
Sbjct: 56  KQIDGMGGATSSTSKTVIISRSVRPGHDVDYLFGQVSIDQDFVDWSGNCGNLSAAVGPFA 115

Query: 121 ISNGLVNPDRIPVNGVCIVRIWQANIGKTIIAHVPITDGQVQETGDFELDGVTFPAAEVQ 180
           I+ GLV+P R+P +GV ++ IWQANIGKTI+AHVP+  GQVQETGDFELDGVTFPAAEVQ
Sbjct: 116 IAAGLVDPSRLPQDGVAVITIWQANIGKTIVAHVPMRGGQVQETGDFELDGVTFPAAEVQ 175

Query: 181 LEFMDPAAEEEGAGGAMFPTGNLVDDLEVPGIGTFKATMINAGIPAIFLNAEDIGYTGAE 240
           LEFMDPAAEEEGAGGAMFPTGN+VD LEVPG+G+F+ATMINAGIP IFL AE+IGYTG E
Sbjct: 176 LEFMDPAAEEEGAGGAMFPTGNVVDTLEVPGVGSFQATMINAGIPTIFLKAEEIGYTGTE 235

Query: 241 LQDAINGDPKALARFETVRAHGAVRMGLIKHVDEAVKRQHTPKVAFVAKPRDYTASSGKK 300
           LQDAIN DP ALARFET+RAHGA+RMGLI  V+EA  RQHTPKVAFVA PR+Y +SSGK 
Sbjct: 236 LQDAINSDPAALARFETIRAHGAMRMGLISKVEEAATRQHTPKVAFVAAPREYVSSSGKT 295

Query: 301 V 301
           V
Sbjct: 296 V 296


  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
   0.317    0.134    0.399 

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: 896,270
Number of extensions: 34695
Number of successful extensions: 97
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 96
Number of HSP's successfully gapped: 1
Length of query: 333
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 247
Effective length of database: 1,212,660
Effective search space: 299527020
Effective search space used: 299527020
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 (21.6 bits)
S2: 131 (55.1 bits)