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= 0002.0015.p
         (226 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309453|ref|YP_003773545.1| elongation factor G1 [Herbaspir...   310   7e-86
gi|300313617|ref|YP_003777709.1| translation elongation factor [...   274   4e-75
gi|300309439|ref|YP_003773531.1| muropeptide permease of the maj...    71   8e-14

>gi|300309453|ref|YP_003773545.1| elongation factor G1
           [Herbaspirillum seropedicae SmR1]
          Length = 701

 Score =  310 bits (794), Expect = 7e-86,   Method: Compositional matrix adjust.
 Identities = 156/191 (81%), Positives = 163/191 (85%), Gaps = 4/191 (2%)

Query: 1   VRTDEESGQTIIAGMGELHLDIIVDRMKREFNVEATVGKPQVAYRETIRKTCEEIEGKFV 60
           VRTDEESGQTIIAGMGELHLDIIVDRMKREFNVEATVGKPQVAYRETIRKTCEE EGKFV
Sbjct: 445 VRTDEESGQTIIAGMGELHLDIIVDRMKREFNVEATVGKPQVAYRETIRKTCEESEGKFV 504

Query: 61  KQSGGRGQYGHVVLKIEPQEPGKGFEFVDAIKGGTVPREFIPAVEKGVRETLNTGVLAGY 120
           KQSGGRGQYGHVVLKIEPQE GKGFEFVDAIKGGTVPREFIPAVEKGVRETLNTGVLAGY
Sbjct: 505 KQSGGRGQYGHVVLKIEPQEAGKGFEFVDAIKGGTVPREFIPAVEKGVRETLNTGVLAGY 564

Query: 121 PVVDVKVTLFFGSYHDVDSNENAFRMAGSMAFKXRYTATQFALFTSLAAV----PRTFVN 176
           PVVDVKVTLFFGSYHDVDSNENAFRMAGSMAFK         +   + AV    P  +  
Sbjct: 565 PVVDVKVTLFFGSYHDVDSNENAFRMAGSMAFKEGCRRASPVILEPMMAVEVETPEDYAG 624

Query: 177 SSVGYIVAYMG 187
           + +G + +  G
Sbjct: 625 TVMGDLSSRRG 635


>gi|300313617|ref|YP_003777709.1| translation elongation factor
           [Herbaspirillum seropedicae SmR1]
          Length = 701

 Score =  274 bits (701), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 135/191 (70%), Positives = 154/191 (80%), Gaps = 4/191 (2%)

Query: 1   VRTDEESGQTIIAGMGELHLDIIVDRMKREFNVEATVGKPQVAYRETIRKTCEEIEGKFV 60
           V TDEESGQTI++GMGELHL+I+VDRMKREFNVEATVGKPQVAYRE IRK  E++EGKFV
Sbjct: 445 VHTDEESGQTIMSGMGELHLEILVDRMKREFNVEATVGKPQVAYREAIRKAVEDVEGKFV 504

Query: 61  KQSGGRGQYGHVVLKIEPQEPGKGFEFVDAIKGGTVPREFIPAVEKGVRETLNTGVLAGY 120
           KQSGGRGQYGHVV+K+EPQ  GKG+EFVDAIKGG VPREFIPAV+KG++E+L  GVLAGY
Sbjct: 505 KQSGGRGQYGHVVIKLEPQPAGKGYEFVDAIKGGVVPREFIPAVDKGIQESLKAGVLAGY 564

Query: 121 PVVDVKVTLFFGSYHDVDSNENAFRMAGSMAFKXRYTATQFALFTSLAAV----PRTFVN 176
           PVVDVK TL FGSYHDVDSNENAFRMAGSMAFK         L   +  V    P  F+ 
Sbjct: 565 PVVDVKATLTFGSYHDVDSNENAFRMAGSMAFKEAMKRAGPMLLEPMMQVEVETPEEFMG 624

Query: 177 SSVGYIVAYMG 187
           + +G + +  G
Sbjct: 625 NVMGDLSSRRG 635


>gi|300309439|ref|YP_003773531.1| muropeptide permease of the major
           facilitator superfamily protein [Herbaspirillum
           seropedicae SmR1]
          Length = 388

 Score = 70.9 bits (172), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 34/38 (89%), Positives = 34/38 (89%)

Query: 155 RYTATQFALFTSLAAVPRTFVNSSVGYIVAYMGWFNFF 192
           RYTATQFALFTSL AVPRTFVNSSVGYIVA  GW NFF
Sbjct: 351 RYTATQFALFTSLMAVPRTFVNSSVGYIVADTGWLNFF 388


  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
   0.323    0.140    0.418 

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: 712,732
Number of extensions: 29357
Number of successful extensions: 63
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 63
Number of HSP's successfully gapped: 3
Length of query: 226
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 144
Effective length of database: 1,231,600
Effective search space: 177350400
Effective search space used: 177350400
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 129 (54.3 bits)