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= 0001.3216.p
         (444 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309913|ref|YP_003774005.1| hypothetical protein Hsero_0578...   328   6e-91

>gi|300309913|ref|YP_003774005.1| hypothetical protein Hsero_0578
           [Herbaspirillum seropedicae SmR1]
          Length = 406

 Score =  328 bits (841), Expect = 6e-91,   Method: Compositional matrix adjust.
 Identities = 182/437 (41%), Positives = 258/437 (59%), Gaps = 41/437 (9%)

Query: 1   MAKVRKLPYYQMSLARLPFTNSKWKCYKGFEGCVAINTLQSISYDRPAPGVASPSPKPPL 60
           MA V+K PYY +         SK K +    GC+ +NT + I+ DR APGV  P P P  
Sbjct: 1   MADVKKAPYYHLQKGLF---GSKLKEFSAIRGCIPLNTPRGIAIDRAAPGVKPPPPIPTA 57

Query: 61  AKPIVEPQKGRQAEVVQQKLPGQAKKPQPEQASKQQSKELDAEDREKLPEFDLQDIPGAM 120
                + +     ++   K   Q KK QPEQ        L+ E  +  P FDLQD+P AM
Sbjct: 58  TAEKTQERSAPPQDIQNPKASQQKKKAQPEQ--------LEVEVCDNPPIFDLQDVPVAM 109

Query: 121 DHIGWPMSAKIARRWFNGPAHVWDDDLNSVQPLDDKLITLDWALRYSGVKRRLNELLGII 180
           D++GW +SAK+ARRWF+GPAH++D++  S+QP++D  +TL+W L++  VK++  ELL   
Sbjct: 110 DNLGWTVSAKLARRWFSGPAHIYDNNPKSIQPINDTDVTLEWVLKFGIVKKKYEELLS-K 168

Query: 181 GSVNAQAV--LKKKILQYAANTFNNTTSFSPNLDLDTAAFITDLRKFHVDWHFQKTEVSI 238
              NA AV   K+KIL      F+     + +L  +T+  +TDL +FH+DW FQ + +S 
Sbjct: 169 DIYNAAAVDSAKQKILTRIRKRFSEER--TNDLSFNTSQSLTDLLQFHIDWQFQLSSLSD 226

Query: 239 LDTTEGILVLTDLSGALGNFVLYAAIGRVRVTGARYFKYDTSPQQFCQDASASVTHIYIY 298
            DT +G   LTDL+GAL NF +Y A+G V ++G +YF+Y+ S   +C DA  ++TH+Y Y
Sbjct: 227 GDTFDG-FTLTDLTGALANFNIYVAVGSVDISGEKYFRYEKSKSLYCLDAVGTITHVYAY 285

Query: 299 IKDNYSFNDKDPSKSQYLGHWNKRNMIMSYYLAGNDIAGQFEPALRRQNENNNELMKQSH 358
           +KDNYSFN +     QYLGHWN+  +I++    G  + G  +P              +  
Sbjct: 286 VKDNYSFNGE-----QYLGHWNRHGIIIA---PGTWLIGSNKP--------------KRD 323

Query: 359 LKLDYFSGQDVVDKPVDARRGLFRKFIETDVYWPVYNRSYNEWREKHNRGEDFMIYSKPQ 418
           L +D +     ++KPVD RR  F  F E+DVY+PV+N  YN WREKH+RG+DFMIYSKP 
Sbjct: 324 LDIDIWV--KAINKPVDTRRSFFANFRESDVYFPVFNADYNRWREKHDRGQDFMIYSKPV 381

Query: 419 LYKLKNPIIIDLGTLCR 435
             KLK PI+  LG +CR
Sbjct: 382 YLKLKKPIVFKLGEICR 398


  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
   0.318    0.135    0.411 

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: 1,278,656
Number of extensions: 50275
Number of successful extensions: 142
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 136
Number of HSP's successfully gapped: 1
Length of query: 444
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 356
Effective length of database: 1,203,190
Effective search space: 428335640
Effective search space used: 428335640
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: 132 (55.5 bits)