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= 0028.0030.p
         (447 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311554|ref|YP_003775646.1| hypothetical protein Hsero_2239...   431   e-122

>gi|300311554|ref|YP_003775646.1| hypothetical protein Hsero_2239
           [Herbaspirillum seropedicae SmR1]
          Length = 522

 Score =  431 bits (1107), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 269/513 (52%), Positives = 319/513 (62%), Gaps = 69/513 (13%)

Query: 1   MSALYSIAEIRRIEHAAKAELPSYTLMQRAGEACARRALSLVAGD--DDVHVLILAGPGN 58
           MSAL+++AEIRRIE  A A LP YTLMQRAG A A  A  ++         VL+LAGPGN
Sbjct: 1   MSALHTVAEIRRIEQEALAALPPYTLMQRAGAAIAELAQQMLCSSTASSPSVLVLAGPGN 60

Query: 59  NGGDALEAAHYLSQFELHVAVALHADESKQPDDARKALQRARESEVEFLDIADAEHLTQT 118
           NGGDALEAA  L +  + V V LHADES+QP DAR+AL RARE+E++F++      L Q 
Sbjct: 61  NGGDALEAACLLEEAGIEVTVQLHADESRQPPDARRALARAREAEIQFIEDHGDALLRQQ 120

Query: 119 RWTLVIDGLFGIGQTRPIAGKLRACVDYVNSLRCPILSIDIASGLSADTGAIVGGAGCVA 178
            W LVIDGLFGIG  RP   +LR  +DY+NSLRCP+LSID+ SGL ADTG+IVGG    A
Sbjct: 121 AWALVIDGLFGIGLARPPGPRLRLIIDYINSLRCPVLSIDVPSGLDADTGSIVGGRDGAA 180

Query: 179 VRATHTLSFIGDKPGMHTCDGQDFSGEVAVDNLDIDDKHLPAPRAQLNELALFASALKPR 238
           V+ATHTL+FIGDKPG+HTCDG D SG++ VD L+I  +     RA LN    FA+ALKPR
Sbjct: 181 VQATHTLTFIGDKPGLHTCDGSDHSGQIVVDTLEIAAERFLPTRAFLNGPQSFATALKPR 240

Query: 239 AGNTHKGSYGDVIVVGGAHGMGXGTSRHAHDVLTRALDAQGRIVIDA--DALNMIAAEPG 296
           A N+HKGSYGDVIVVGGA GM       A    T A    GR+ +    D L      P 
Sbjct: 241 ANNSHKGSYGDVIVVGGARGMAGAPVLAAR---TAAFGGAGRVYVAFVDDGLAYDDKHPE 297

Query: 297 LQHRLQNRAHHAS----IITP--------HPL-------EAARLLDATTAEIQNDRPA-- 335
           L  RL +R   A+    ++ P        H +       EA  ++DA    + +  PA  
Sbjct: 298 LMFRLADRVEFAASAALVVGPGMGTSRHAHDILARALDSEAEIVVDADALNLISAEPALQ 357

Query: 336 -----------------------AARL------------------LARHFKSIAILKGAG 354
                                  AARL                  LAR F +I +LKGAG
Sbjct: 358 HKLHRRSQAGAAAKTIITPHPLEAARLLDSTTQQVQQDRPHAARQLARQFNAITVLKGAG 417

Query: 355 TVIAFPDGDIVINTTGNPALSTAGTGDVLSGLCGALLAQGWPATQAALAAVWLHGKAADQ 414
           TVIAFPDG+I IN +GNPALSTAGTGDVLSGLCGALLAQGWPA  AALAA W+HG AADQ
Sbjct: 418 TVIAFPDGEIAINPSGNPALSTAGTGDVLSGLCGALLAQGWPARAAALAATWIHGAAADQ 477

Query: 415 LVDLGIGPVGLTASEVIPAVRTLLNQIIRDHAR 447
           LV  G+GPVGLTASE IPA+R + NQIIRDH +
Sbjct: 478 LVASGLGPVGLTASEFIPAIRAVFNQIIRDHVQ 510


  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
   0.319    0.135    0.395 

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: 1,466,547
Number of extensions: 65211
Number of successful extensions: 244
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 242
Number of HSP's successfully gapped: 2
Length of query: 447
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 359
Effective length of database: 1,203,190
Effective search space: 431945210
Effective search space used: 431945210
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: 132 (55.5 bits)