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= 0001.3194.p
         (486 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312529|ref|YP_003776621.1| hypothetical protein Hsero_3232...   752   0.0  

>gi|300312529|ref|YP_003776621.1| hypothetical protein Hsero_3232
           [Herbaspirillum seropedicae SmR1]
          Length = 483

 Score =  752 bits (1941), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 396/480 (82%), Positives = 419/480 (87%), Gaps = 3/480 (0%)

Query: 3   EKREGRKPGENAVIRLVLLLLGADFIRRNWHALAVAGLAWGCIGVSLMIDALDGVLNFPL 62
            K +G  PG+  VIRLVLLLLGADFIRRNWH LA+AGL+WG IGVSL IDALDGVLNFPL
Sbjct: 4   RKGKGAGPGKT-VIRLVLLLLGADFIRRNWHVLALAGLSWGAIGVSLAIDALDGVLNFPL 62

Query: 63  TLFGYLLLLESLVTLWVANSGMGAQKTLRYAKGALFLLIAVLVITQHQTSNMVLAMLFGI 122
           TLFGYLLLLESLVTLWVANSG+GAQKTLRY KGALFLLIAVLVITQHQ SNM LAMLFGI
Sbjct: 63  TLFGYLLLLESLVTLWVANSGIGAQKTLRYVKGALFLLIAVLVITQHQASNMALAMLFGI 122

Query: 123 AFTIGGTLQITSALVVRFPRWRTAMLGGMVQIALAIFFFQPYPTHYKGTVPYCLGLGLVF 182
           AF IGG LQITSALVVRFPRWRTA++GG VQI LAIFFFQPYPTHYKGTVP+CL LGL+F
Sbjct: 123 AFAIGGALQITSALVVRFPRWRTALVGGGVQILLAIFFFQPYPTHYKGTVPFCLALGLIF 182

Query: 183 GGWNLIWLALRTRMLPQQASTDVLVQRNSGDDRPFDAGLHDAAAGLSTRLDSSATAAAAS 242
           GGWN+IWLALRTRMLP   S D+L  RNSGDDRPFDAG+H   A L       AT AAA 
Sbjct: 183 GGWNMIWLALRTRMLPADVSVDMLAARNSGDDRPFDAGVHRDDATLEEMRQPPATPAAAV 242

Query: 243 LMESLPPLTVHVWTPTGSAKGPARRQPVIDRYIAAVDVNGVISTGHAALEISPELYISLY 302
                 PLTVHVWTP GSA+GPARRQPVIDRYIAAVD NGVISTGHAALEI P+LYISLY
Sbjct: 243 SAAQ--PLTVHVWTPAGSARGPARRQPVIDRYIAAVDTNGVISTGHAALEIPPDLYISLY 300

Query: 303 PAEEIDRSPDQFARLLRATADNDIKGRYLSDYRSEAAAWCESTEKIIFRDYRRAPLDRFW 362
           PAEEIDRSPDQFARLLRATADND+KGRYLSDY SEAA+WCESTEKI+FRDY RA LDRFW
Sbjct: 301 PAEEIDRSPDQFARLLRATADNDVKGRYLSDYPSEAASWCESTEKIVFRDYCRARLDRFW 360

Query: 363 QHYRQTEIYNLTYRNCSSTVARALEAALEGVIGGRDRHWFNAVRMMFTPEIWVASQIRKR 422
           Q YRQTEIYNLT RNCSSTVA ALE+ALEGVIGGR+RHW NA+RM+FTPEIWVAS IRKR
Sbjct: 361 QRYRQTEIYNLTNRNCSSTVANALESALEGVIGGRNRHWTNALRMIFTPEIWVASHIRKR 420

Query: 423 AVTMAWTPGMVLDYARALRAVVHPRPLSWAASLHQALRQSRRLRQGWRATRRSTRTEAST 482
           AVTMAWTPGMVLDYARALRAVVHPRPLSWAASLH ALRQSRRLR+GWRA RR  +    T
Sbjct: 421 AVTMAWTPGMVLDYARALRAVVHPRPLSWAASLHLALRQSRRLRKGWRARRRYAQQHPPT 480


  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
   0.324    0.136    0.422 

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: 1,415,203
Number of extensions: 55885
Number of successful extensions: 259
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 258
Number of HSP's successfully gapped: 1
Length of query: 486
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 397
Effective length of database: 1,198,455
Effective search space: 475786635
Effective search space used: 475786635
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 132 (55.5 bits)