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= 0204.0013.p
         (369 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein...   152   3e-38

>gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein
           [Herbaspirillum seropedicae SmR1]
          Length = 585

 Score =  152 bits (385), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 92/202 (45%), Positives = 126/202 (62%)

Query: 1   MGGDPEALPALRKRLDAARRDSDEALFHLLDSLRQEVDPRYAPAIRKIEAVRQALGPARE 60
           MG       A+  +L  AR ++D AL  L  +L+     R + ++ K++ V+QAL PAR 
Sbjct: 67  MGASASQREAVADKLKNARAETDAALAALRQALQSHPRLRQSWSLDKVKTVQQALEPARA 126

Query: 61  RIDQQVGLVRWQRSSREITEAVDGMVDLIPMLVSSVADLSSIAIRSDPEVLDGLTGMRVA 120
            ID+       +R++  +  AV GMVD+IP+++   ++LSS    +DPE+ +GL  +R A
Sbjct: 127 AIDRIGRQPEAERNNVYVLSAVGGMVDMIPLMIRVASELSSEVDHADPELREGLAAIRAA 186

Query: 121 ASLREYAGQVGSKFTAPVIMQRPLTKSEVIEIGKLYGRIEQLRTLLDIQMRAYKDNAAFR 180
           ASLREYAGQVGS+FT  +I  R LT+ EVIEIG+LYGRIE LR LL+ QM +Y     F 
Sbjct: 187 ASLREYAGQVGSRFTPALIAHRKLTQDEVIEIGRLYGRIELLRGLLNTQMASYVQRPEFA 246

Query: 181 TALSDLDTQYFGQGFPFLDGLL 202
            AL  +D QYF  GF FLD LL
Sbjct: 247 RALELVDKQYFDNGFQFLDFLL 268


  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
   0.325    0.138    0.401 

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: 1,087,074
Number of extensions: 44025
Number of successful extensions: 173
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 172
Number of HSP's successfully gapped: 1
Length of query: 369
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 282
Effective length of database: 1,207,925
Effective search space: 340634850
Effective search space used: 340634850
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: 131 (55.1 bits)