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= 0092.0013.p
         (412 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312843|ref|YP_003776935.1| response regulator containing a...    75   8e-15
gi|300313023|ref|YP_003777115.1| hypothetical protein Hsero_3729...    66   6e-12
gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi...    65   7e-12

>gi|300312843|ref|YP_003776935.1| response regulator containing a
           CheY-like receiver and a GGDEF domains protein
           [Herbaspirillum seropedicae SmR1]
          Length = 525

 Score = 75.5 bits (184), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 63/210 (30%), Positives = 103/210 (49%), Gaps = 11/210 (5%)

Query: 72  LRRMIAGLPQVIAVAVVDKNGDVLAHSRDYPAPPISIADRDYFIALKEGKQESVSPIV-- 129
           LRR+ + +PQ+  + V D++G  L  S   P  P + +DRDYFI  ++   + V P V  
Sbjct: 100 LRRLSSEMPQLDGLYVFDEHGKRLLTSSAPPLAPANNSDRDYFIWHRD--HDDVGPHVGK 157

Query: 130 --VGRRTMQPMFTDGVARRSEDGEFQGIILVSLDPNYFLSFYEEMLPGEMHQSLSLVRQD 187
             + R T + +          DG F G++L +LD N+F   Y  +  G+   S++L+ +D
Sbjct: 158 ALLSRSTGRWIIPMSRRLNHPDGSFAGVLLATLDINHFNQLYRTVEIGK-GGSIALLLRD 216

Query: 188 GAILVRYPKMPKVMAVVPPSAPFFL-GIGADPISGALTGVSPLDGTKKIIAYRRVANHDL 246
           G +L R P  P  +         FL G+   P  G L  VSPLD  ++ ++Y+ V  + L
Sbjct: 217 GTLLTRMPFDPGYINRDFSQGRLFLEGLPHSPF-GYLEVVSPLDARQRFLSYQAVDKYPL 275

Query: 247 YVVSAGSLSHVWNSW--LSYMALAAGLLLV 274
            +V   +       W   +++  AA LLL+
Sbjct: 276 VLVVTLAREEALADWKQQTFVYGAAVLLLL 305


>gi|300313023|ref|YP_003777115.1| hypothetical protein Hsero_3729
           [Herbaspirillum seropedicae SmR1]
          Length = 765

 Score = 65.9 bits (159), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 43/132 (32%), Positives = 68/132 (51%), Gaps = 7/132 (5%)

Query: 72  LRRMIAGLPQVIAVAVVDKNGDVLAHSRDYPAPPISIADRDYFIALK--EGKQESVSPIV 129
           +R  I GLP +  + V +  G +LA SR YPAPPI + DRDY++  +  +   + V   V
Sbjct: 106 MREKIRGLPFISGIGVANAEGRILALSRVYPAPPIDLTDRDYYLHHRSSDSTADFVGETV 165

Query: 130 VGRRTMQPMFTDGVARRSED--GEFQGIILVSLDPNYFLSFYEEMLPGEMHQSLSLVRQD 187
           + R    P F   V+RR  D  G    II++ L   +F +F++ +   +   S+ L R+D
Sbjct: 166 LSRAGGVPTFY--VSRRVNDRQGRLLAIIVIGLPCAFFETFFDNVTRDKPF-SIVLARKD 222

Query: 188 GAILVRYPKMPK 199
           G  L     +P+
Sbjct: 223 GKTLTSTDLLPE 234


>gi|300313329|ref|YP_003777421.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 501

 Score = 65.5 bits (158), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 52/223 (23%), Positives = 101/223 (45%), Gaps = 9/223 (4%)

Query: 81  QVIAVAVVDKNGDVLAHSRDYPAPPISI--ADRDYFIALKEGKQESV---SPIVVGRRTM 135
            + A+A++D +G V   SR   +P + +  ++R YF   ++     +    PI       
Sbjct: 98  HITALAILDADGYVRVTSRRSASPSVVVNYSERTYFTVHRDSADAGLFISRPIKANLGNE 157

Query: 136 QPMFTDGVARRSEDGEFQGIILVSLDPNYFLSFYEEMLPGEMHQSLSLVRQDGAILVRYP 195
            P+         +DG F G++L++LD +YF   +  +  GE    +SL   DG   +R P
Sbjct: 158 LPVVVLSKRLSRKDGSFDGVVLMALDMSYFRDLFTGLTLGE-DGIMSLYSDDGVTYMRVP 216

Query: 196 KMPKVMAVVPPSAPFFLGIGADPI--SGALTGVSPLDGTKKIIAYRRVANHDLYVVSAGS 253
             P  +     + P F  + A  +   G     +  DG +++  +RR+ +  L V+   S
Sbjct: 217 YHPSSIGREITNNPNFQRLRAMLVDNDGNFFARAHTDGVERLYTFRRIPDAPLIVLLGRS 276

Query: 254 LSHVWNSWLSYMALAAGLLLVPSGLLCGIIIFSIRKVKDQRIA 296
              ++ +W   +  +  LLL+    L G+++  +R+   +R+A
Sbjct: 277 ERFIFKTWYDTL-YSVLLLLIIFTALAGVLLMLVRRELLKRVA 318


  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
   0.321    0.134    0.395 

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: 1,184,920
Number of extensions: 46133
Number of successful extensions: 151
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 153
Number of HSP's successfully gapped: 4
Length of query: 412
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 324
Effective length of database: 1,203,190
Effective search space: 389833560
Effective search space used: 389833560
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 (21.9 bits)
S2: 132 (55.5 bits)