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= 0002.0052.p
         (431 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309727|ref|YP_003773819.1| transmembrane protein [Herbaspi...   290   1e-79

>gi|300309727|ref|YP_003773819.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 429

 Score =  290 bits (743), Expect = 1e-79,   Method: Compositional matrix adjust.
 Identities = 189/445 (42%), Positives = 252/445 (56%), Gaps = 30/445 (6%)

Query: 1   MALATQCPFCQTTFRVAQDQLKLRGGLVRCGACKEVFNGNDHLVAPEIAQQLVVAPSTPA 60
           MALATQCP C T FRV  DQLKLRGGLVRCG+C++VFNGND+LV   +A         PA
Sbjct: 1   MALATQCPHCLTIFRVVSDQLKLRGGLVRCGSCRQVFNGNDYLVEASVAD----GHYQPA 56

Query: 61  APPRSTESAEPHAPLGWPPLPGSPPVPPVQVATAPTSPAAEPSAPA-APPPWMATANLSA 119
              ++       +    P  P   P P      A   PA +PSAP  A P    TA +SA
Sbjct: 57  PGSKAQAGVMTPSAAAAPATPTPAPSPVPASPMATRGPAPQPSAPVHAIPVSSGTAPVSA 116

Query: 120 AFASIAAETNDAPWGAPPVPKNEAPDAAPATAQETTPEPAPPVSFPLPGSPTTAPASAD- 178
                       P   P +       A P   +     P  P   P  G+P  +PA+ D 
Sbjct: 117 EPPPPVQVPAPVPAAIPVI-------AEPKVFRS----PTSPGYIPDLGAPLKSPAAVDK 165

Query: 179 ------NAASPLAAPDASINTLTQALSYPIPQTSSVVLTDVGASETQAEA--AAVLTPKQ 230
                 +A  P    D  I T     +  + ++SS     V A++  A    A     ++
Sbjct: 166 DKRDEADALPPFPVAD-EIPTAPAGGAALLRRSSSTDDEIVSAADIDAAFGPATSRLDEE 224

Query: 231 QAHEEAGAEEELEE----EEEEAEETEDDEDAPAFVQKAERRERLGRIVRVVMIVGAVIL 286
             H   G E+E ++    +   A+++EDD + P FV++ ERRER GR+++V+M++ A ++
Sbjct: 225 DVHHLRGHEDEPDQLSAADHSAADDSEDDAELPGFVRRVERRERAGRVLKVIMMILAGVM 284

Query: 287 GIALLLQATYVWRNTIAAWLPSTRPLLAAACAPLHCSVGLPTSIDQLVLESSELQLVPPN 346
              LLLQA Y WRN +A  LP  RP+L   C  LHCSVGLP  ID+L LE++ELQ+VPPN
Sbjct: 285 VPVLLLQALYYWRNPLAEALPPVRPMLNGMCVALHCSVGLPAEIDRLSLEANELQVVPPN 344

Query: 347 QNIYALSALLRNRGYGAQAWPYLELTLNDGDEKAIMRRVFTPREYLGSTKLVDSGLAGEG 406
           QN+YAL+ ++RNRG GAQAWP+LELTLN+ DEKA++RRVF PR+YL + + +D G+A + 
Sbjct: 345 QNVYALTVVMRNRGPGAQAWPHLELTLNNDDEKAVVRRVFRPRDYLPNARQIDRGIAADS 404

Query: 407 EQQIKLTFELTQPAASGYRIYLFYP 431
           EQQIKL FEL     SGYR+YLFYP
Sbjct: 405 EQQIKLNFELKDALVSGYRVYLFYP 429


  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
   0.312    0.128    0.381 

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: 829,227
Number of extensions: 25667
Number of successful extensions: 108
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 111
Number of HSP's successfully gapped: 2
Length of query: 431
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 343
Effective length of database: 1,203,190
Effective search space: 412694170
Effective search space used: 412694170
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 132 (55.5 bits)