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= 0001.3076.p
         (255 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312412|ref|YP_003776504.1| outer membrane protein V [Herba...   371   e-104

>gi|300312412|ref|YP_003776504.1| outer membrane protein V
           [Herbaspirillum seropedicae SmR1]
          Length = 253

 Score =  371 bits (953), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 183/255 (71%), Positives = 211/255 (82%), Gaps = 2/255 (0%)

Query: 1   MKNYFAALILACGSLSVQAQQVAPSDSATDPLQLQDRITGDLGAGLYRLDRNDLKRRSET 60
           MK  FA L LAC +L   AQQ AP D  TDPLQLQDRITGD+G G+YR+DRN L R S T
Sbjct: 1   MKTIFATLSLACCALPALAQQAAPQD--TDPLQLQDRITGDIGGGVYRMDRNGLDRSSRT 58

Query: 61  LALPYAYFDYGRFFARVDTFGIKTARMGYGYLELAGRVNVEGFDADHGLHRRSNPIPLGL 120
             LPYAYFDYGRFFARVDTFG+KTARMGYGYLELAGR+N+EGFDA  GL RRS+PIPLGL
Sbjct: 59  TVLPYAYFDYGRFFARVDTFGVKTARMGYGYLELAGRINLEGFDAQGGLQRRSDPIPLGL 118

Query: 121 GTYQETPFGAFFLNVFRDFNTSHGTLAEAIYAAQVDLGRVSIYPEAGVEYRSSSYNDYYF 180
           G++QETP GAFFLNVF DFN SHGTLAEAIYAAQ+D+G VS YP+ GVEYR S YNDY++
Sbjct: 119 GSFQETPIGAFFLNVFHDFNKSHGTLAEAIYAAQLDVGPVSFYPQVGVEYRDSRYNDYFY 178

Query: 181 GVSASESAASGLRQYSVGSSTSPIFGLAADVPLSGDWHLNLHWRRKWLDNTVSDSPLVRR 240
           GVS  E+++SGL  Y  GSSTSP+ GL AD+P+SG+W LNL  RRKWLDN +SDSP++RR
Sbjct: 179 GVSGQEASSSGLPAYRAGSSTSPLLGLVADMPISGNWRLNLTLRRKWLDNAISDSPIIRR 238

Query: 241 RTDDTAIVALSYHFK 255
           +TDD AI+AL+Y FK
Sbjct: 239 KTDDLAILALTYRFK 253


  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
   0.321    0.137    0.412 

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: 842,859
Number of extensions: 37384
Number of successful extensions: 91
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 90
Number of HSP's successfully gapped: 1
Length of query: 255
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 172
Effective length of database: 1,226,865
Effective search space: 211020780
Effective search space used: 211020780
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 (21.8 bits)
S2: 129 (54.3 bits)