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= 0001.0079.p
         (197 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311529|ref|YP_003775621.1| transmembrane protein [Herbaspi...   239   9e-65

>gi|300311529|ref|YP_003775621.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 195

 Score =  239 bits (611), Expect = 9e-65,   Method: Compositional matrix adjust.
 Identities = 118/186 (63%), Positives = 140/186 (75%), Gaps = 3/186 (1%)

Query: 13  RTLASAALVACGALAAAGASQAA---YNIWTSEYTFPKKDLQSAIATQFPRKLRYMDMFD 69
           R L   AL   G        QAA   YNIWT+EYT  ++ LQSAIA QFPRKLRYMD+FD
Sbjct: 8   RALFPVALCLSGVALIPALGQAADSGYNIWTNEYTVSRQQLQSAIAPQFPRKLRYMDIFD 67

Query: 70  INLSNPRLALNPESNRLSTVVDAQIDNKLLMNKPVNGTLSMSSALKYDAASRSVRLDSPS 129
           + LSNPRL + P  NR++TVVDAQI N LL+ +PVN  L++SSA KYD A+RS+RLD+P 
Sbjct: 68  VTLSNPRLGMLPADNRMNTVVDAQIANPLLLQRPVNAVLTLSSAFKYDPATRSLRLDAPK 127

Query: 130 VEKVDIAGVPAQYAPQLNAIGNAAAEQVLKDYPLYTFKPEQLEMNGKRFEPGAITVLSDG 189
           V+KVD + +P QYA QL A+GNAAA+Q L+DY LYTFKPEQL+MNGKRFEPG ITV  D 
Sbjct: 128 VDKVDSSDLPPQYAQQLTALGNAAADQFLRDYALYTFKPEQLQMNGKRFEPGKITVEQDA 187

Query: 190 VKVEIK 195
           VKVEIK
Sbjct: 188 VKVEIK 193


  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
   0.315    0.128    0.362 

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: 503,112
Number of extensions: 17441
Number of successful extensions: 56
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 56
Number of HSP's successfully gapped: 1
Length of query: 197
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 117
Effective length of database: 1,241,070
Effective search space: 145205190
Effective search space used: 145205190
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: 128 (53.9 bits)