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= 0004.0106.p
         (343 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313786|ref|YP_003777878.1| outer membrane protein [Herbasp...   291   6e-80

>gi|300313786|ref|YP_003777878.1| outer membrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 373

 Score =  291 bits (745), Expect = 6e-80,   Method: Compositional matrix adjust.
 Identities = 204/351 (58%), Positives = 245/351 (69%), Gaps = 32/351 (9%)

Query: 15  DSVASGVSWGAILAGAFAAAALSFILVILGFGLGFSSVSPWSGNGLSAQTIGWSTVAWIT 74
           ++  SGVSWGAILAGAFAAAALSFILV+LGFGLGFSS+SPWSG G+SA+TIG+ST  W+ 
Sbjct: 18  NNNGSGVSWGAILAGAFAAAALSFILVMLGFGLGFSSISPWSGEGVSAKTIGYSTAGWLL 77

Query: 75  FTQIAASAIGGYMAGRLRVKWASVHTDEVYFRDTAHGFLAWAVASLATAALLSTAIGNVI 134
           FTQIAASAIGG++AGRLRVKWA +HT EVYFRDTAHG LAWAVASLATAALL +A+G+VI
Sbjct: 78  FTQIAASAIGGFLAGRLRVKWAGLHTREVYFRDTAHGLLAWAVASLATAALLGSAVGSVI 137

Query: 135 SSGAKVAGSAGAHPGGAAGTTAAAGSVAAAD--GNTADAVSGYFIDTLFRAPATGAPATA 192
           S GAK  G+AG   G  A  TAAA     A   GN AD  SGYFID +FR P  G   + 
Sbjct: 138 SGGAKTVGAAGGALGTGAAATAAAVGSEGAQQAGNLADRASGYFIDAMFRTPTAGGSNST 197

Query: 193 DAA-------------------------PVAPLANGAPDSPPLAPAQRNEVTRIFANALR 227
           +++                              A+   D   L+ AQR EV R+FA +L 
Sbjct: 198 NSSAAPAAPVTPAAGSDAATGAAAASAPAAPLAASTPADGRELSSAQRMEVARVFAYSLA 257

Query: 228 TGALPAGDKTYVAQVIAKRSGISQADAEKRVDDTYAAYKKAIDDATTKAKEAADTARKAA 287
              L  GDK Y+ Q++A+ +G+SQADAEKRV DT+AAY++ ++ A TKAKEAAD ARKAA
Sbjct: 258 NQQLADGDKRYLGQLVARHTGMSQADAEKRVGDTFAAYQRNLEQAATKAKEAADAARKAA 317

Query: 288 AYGSLWMFVALLCGAFIASLAATFGGRLRDRKDRVVYTAVEPAVGDRDTHE 338
           AY SLWMF+ALLCGAFIASL AT+GGRLRDR +  +Y   EP +   + HE
Sbjct: 318 AYASLWMFLALLCGAFIASLLATYGGRLRDRNE--LY--AEPVL-RHEVHE 363


  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    0.129    0.378 

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: 711,475
Number of extensions: 21258
Number of successful extensions: 143
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 141
Number of HSP's successfully gapped: 1
Length of query: 343
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 257
Effective length of database: 1,212,660
Effective search space: 311653620
Effective search space used: 311653620
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: 131 (55.1 bits)