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= 0003.0056.p
         (300 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313084|ref|YP_003777176.1| hypothetical protein Hsero_3790...   572   e-164
gi|300313643|ref|YP_003777735.1| hypothetical protein Hsero_4359...   129   3e-31

>gi|300313084|ref|YP_003777176.1| hypothetical protein Hsero_3790
           [Herbaspirillum seropedicae SmR1]
          Length = 304

 Score =  572 bits (1474), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 291/303 (96%), Positives = 294/303 (97%), Gaps = 3/303 (0%)

Query: 1   MDKEELVKRVHRELADSYDEEMELELEDRTVDPVTGEFSSAHGSEEKEYRRLYFRELFRL 60
           MDKEELVKRVHRELADSYDEEMELELEDRT+DPVTGEFSSAHG EEKEYRRLYFRELFRL
Sbjct: 2   MDKEELVKRVHRELADSYDEEMELELEDRTIDPVTGEFSSAHGEEEKEYRRLYFRELFRL 61

Query: 61  QGELVKLQDWVVQTGHKVVIVFEGRDAAGKGGVIKRITQRLNPRVARVAALPAPNDRERT 120
           QGELVKLQDWVVQTGHKVVIVFEGRDAAGKGGVIKRITQRLNPRVARVAALPAPNDRERT
Sbjct: 62  QGELVKLQDWVVQTGHKVVIVFEGRDAAGKGGVIKRITQRLNPRVARVAALPAPNDRERT 121

Query: 121 QWYFQRYVSHLPAAGEIVLFDRSWYNRAGVERVMGFCTDEQYEEFFRSVPEFERMLTRAG 180
           QWYFQRYVSHLPAAGEIVLFDRSWYNRAGVERVMGFC+DEQYEEFFRSVPEFERMLTRAG
Sbjct: 122 QWYFQRYVSHLPAAGEIVLFDRSWYNRAGVERVMGFCSDEQYEEFFRSVPEFERMLTRAG 181

Query: 181 IQVIKYWFSITDEEQHLRFLSRIHDPLKQWKLSPMDLESRRRWEEYTKAKEVMLERTHIP 240
           IQVIKYWFSITDEEQHLRFLSRIHDPLKQWKLSPMDLESRRRWEEYTKAKEVMLERTHIP
Sbjct: 182 IQVIKYWFSITDEEQHLRFLSRIHDPLKQWKLSPMDLESRRRWEEYTKAKEVMLERTHIP 241

Query: 241 EAPWWIVQAVDKKKARLNCIS---XQMPYAEVPHPTVQLPERERHEDYERHPVPDSMIVP 297
           EAPWW+VQAVDKKKARLNCI     QMPYAEVPHP V LPERERHEDYERHPVPDSMIVP
Sbjct: 242 EAPWWVVQAVDKKKARLNCIHHLLQQMPYAEVPHPPVLLPERERHEDYERHPVPDSMIVP 301

Query: 298 EIY 300
           E Y
Sbjct: 302 EFY 304


>gi|300313643|ref|YP_003777735.1| hypothetical protein Hsero_4359
           [Herbaspirillum seropedicae SmR1]
          Length = 270

 Score =  129 bits (323), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 70/201 (34%), Positives = 106/201 (52%), Gaps = 3/201 (1%)

Query: 59  RLQGELVKLQDWVVQTGHK--VVIVFEGRDAAGKGGVIKRITQRLNPRVARVAALPAPND 116
           RL G L+ +Q  ++  GHK  V++V +G D +GK G +  +   +NP+  R++    P  
Sbjct: 41  RLSG-LIGVQQQMLYAGHKHKVLVVLQGMDTSGKDGTVNDVFAAVNPQGIRISNFKGPTA 99

Query: 117 RERTQWYFQRYVSHLPAAGEIVLFDRSWYNRAGVERVMGFCTDEQYEEFFRSVPEFERML 176
            E    Y  R  + +P AGEI +F+RS Y    + RV  +  D++ +  +R + +FERML
Sbjct: 100 IELAHDYLWRVHAQVPVAGEIAVFNRSHYEDVLITRVHDWIDDKECQRRYRQINDFERML 159

Query: 177 TRAGIQVIKYWFSITDEEQHLRFLSRIHDPLKQWKLSPMDLESRRRWEEYTKAKEVMLER 236
              G  V+K++  I+  EQ  R  SRI DP K WK  P DL  R+ W+ Y    + +L  
Sbjct: 160 WETGTVVLKFFLHISKAEQKSRLQSRIDDPNKHWKFDPQDLAERKFWDAYQTRYQEVLRA 219

Query: 237 THIPEAPWWIVQAVDKKKARL 257
           T    APW++V A  K    L
Sbjct: 220 TSTLHAPWYVVPADSKTHRNL 240


  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
   0.320    0.136    0.419 

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: 864,717
Number of extensions: 31141
Number of successful extensions: 96
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 95
Number of HSP's successfully gapped: 2
Length of query: 300
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 215
Effective length of database: 1,217,395
Effective search space: 261739925
Effective search space used: 261739925
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: 130 (54.7 bits)