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= 0004.0129.p
         (251 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312403|ref|YP_003776495.1| sulfate adenylyltransferase sub...   351   3e-98
gi|300309454|ref|YP_003773546.1| GTPase translation elongation f...    65   6e-12
gi|300309440|ref|YP_003773532.1| EF-Tu elongation factor protein...    65   6e-12

>gi|300312403|ref|YP_003776495.1| sulfate adenylyltransferase
           subunit 1 protein [Herbaspirillum seropedicae SmR1]
          Length = 443

 Score =  351 bits (901), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 192/232 (82%), Positives = 202/232 (87%), Gaps = 10/232 (4%)

Query: 1   MNAAATQAQLAQASAQPHERGLLRFITAGSVDDGKSTLIGRLLFDSKGIFADQLDAISRA 60
           MNAAATQAQLAQ +A  HERGLLRFITAGSVDDGKSTLIGRLLFDSKGIFADQLDAISRA
Sbjct: 1   MNAAATQAQLAQTAAPSHERGLLRFITAGSVDDGKSTLIGRLLFDSKGIFADQLDAISRA 60

Query: 61  KHKRTVGDTVDLSLLTDGLEAEREQGITIDVAYRYFATPKRKFIIADTPGHEQYTRNMVT 120
           KHKRTVGDTVDLSLLTDGLEAEREQGITIDVAYRYFATPKRKFIIADTPGHEQYTRNMVT
Sbjct: 61  KHKRTVGDTVDLSLLTDGLEAEREQGITIDVAYRYFATPKRKFIIADTPGHEQYTRNMVT 120

Query: 121 GASTADAVIILVDVSKVKLGDDGSVELLTQTKRHSTIAHLLQIQHVIVAVNKMDLVDYDQ 180
           GASTADAVIILVDVSKVKLG+DGSVELLTQTKRHSTIAHLLQIQHVIVAVNKMDLVDYDQ
Sbjct: 121 GASTADAVIILVDVSKVKLGEDGSVELLTQTKRHSTIAHLLQIQHVIVAVNKMDLVDYDQ 180

Query: 181 TVYDRIVGAXGFWAATTAMK-----PMTSVA-TWAASRPARSPRVTSWWCCP 226
           TVYDRIVGA   +A    ++     P++++A        AR P    W+  P
Sbjct: 181 TVYDRIVGAYQQFAQQLGLQDVHAIPLSALAGDNVVEASARMP----WYQGP 228


>gi|300309454|ref|YP_003773546.1| GTPase translation elongation
           factor TU [Herbaspirillum seropedicae SmR1]
          Length = 396

 Score = 65.1 bits (157), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 47/157 (29%), Positives = 73/157 (46%), Gaps = 37/157 (23%)

Query: 27  TAGSVDDGKSTL---IGRLL---FDSKGIFADQLDAISRAKHKRTVGDTVDLSLLTDGLE 80
           T G VD GK+TL   I  +L   F  +    DQ+DA                        
Sbjct: 17  TIGHVDHGKTTLTAAIATVLSKKFGGEAKAYDQIDAAPE--------------------- 55

Query: 81  AEREQGITIDVAYRYFATPKRKFIIADTPGHEQYTRNMVTGASTADAVIILVDVSKVKLG 140
            E+ +GITI+ A+  + T  R +   D PGH  Y +NM+TGA+  D  I++   +     
Sbjct: 56  -EKARGITINTAHVEYETANRHYAHVDCPGHADYVKNMITGAAQMDGAILVCSAA----- 109

Query: 141 DDGSVELLTQTKRHSTIAHLLQIQHVIVAVNKMDLVD 177
            DG    + QT+ H  ++  + + ++IV +NK D+VD
Sbjct: 110 -DGP---MPQTREHILLSRQVGVPYIIVFLNKADMVD 142


>gi|300309440|ref|YP_003773532.1| EF-Tu elongation factor protein
           [Herbaspirillum seropedicae SmR1]
          Length = 396

 Score = 65.1 bits (157), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 47/157 (29%), Positives = 73/157 (46%), Gaps = 37/157 (23%)

Query: 27  TAGSVDDGKSTL---IGRLL---FDSKGIFADQLDAISRAKHKRTVGDTVDLSLLTDGLE 80
           T G VD GK+TL   I  +L   F  +    DQ+DA                        
Sbjct: 17  TIGHVDHGKTTLTAAIATVLSKKFGGEAKAYDQIDAAPE--------------------- 55

Query: 81  AEREQGITIDVAYRYFATPKRKFIIADTPGHEQYTRNMVTGASTADAVIILVDVSKVKLG 140
            E+ +GITI+ A+  + T  R +   D PGH  Y +NM+TGA+  D  I++   +     
Sbjct: 56  -EKARGITINTAHVEYETANRHYAHVDCPGHADYVKNMITGAAQMDGAILVCSAA----- 109

Query: 141 DDGSVELLTQTKRHSTIAHLLQIQHVIVAVNKMDLVD 177
            DG    + QT+ H  ++  + + ++IV +NK D+VD
Sbjct: 110 -DGP---MPQTREHILLSRQVGVPYIIVFLNKADMVD 142


  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    0.130    0.389 

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: 709,658
Number of extensions: 27343
Number of successful extensions: 97
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 95
Number of HSP's successfully gapped: 3
Length of query: 251
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 168
Effective length of database: 1,226,865
Effective search space: 206113320
Effective search space used: 206113320
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: 129 (54.3 bits)