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= 0035.0226.p
         (115 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312341|ref|YP_003776433.1| XRE family transcription regula...   232   7e-63
gi|300312342|ref|YP_003776434.1| XRE family transcription regula...    86   8e-19
gi|300310419|ref|YP_003774511.1| Cro/CI family transcription reg...    84   4e-18

>gi|300312341|ref|YP_003776433.1| XRE family transcription regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 115

 Score =  232 bits (591), Expect = 7e-63,   Method: Compositional matrix adjust.
 Identities = 115/115 (100%), Positives = 115/115 (100%)

Query: 1   MFSEEIGGRIKEVRLANGLSQRELGQRLDTSTGHISWLEAGKAMPGGELLLQLHREFSVD 60
           MFSEEIGGRIKEVRLANGLSQRELGQRLDTSTGHISWLEAGKAMPGGELLLQLHREFSVD
Sbjct: 1   MFSEEIGGRIKEVRLANGLSQRELGQRLDTSTGHISWLEAGKAMPGGELLLQLHREFSVD 60

Query: 61  LNWLLTGEEGEPGVMETDEEVRQLVDHYCRVDLQGREILRSLASYVGREKKPSTG 115
           LNWLLTGEEGEPGVMETDEEVRQLVDHYCRVDLQGREILRSLASYVGREKKPSTG
Sbjct: 61  LNWLLTGEEGEPGVMETDEEVRQLVDHYCRVDLQGREILRSLASYVGREKKPSTG 115


>gi|300312342|ref|YP_003776434.1| XRE family transcription regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 124

 Score = 85.9 bits (211), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 46/104 (44%), Positives = 63/104 (60%), Gaps = 3/104 (2%)

Query: 4   EEIGGRIKEVRLANGLSQRELGQRLDTSTGHISWLEAGKAMPGGELLLQLHREFSVDLNW 63
           + IG R+K VRL  G++QR+   RL TS  +IS +E G +MPGG  L  LH EF V++NW
Sbjct: 18  DAIGERLKSVRLLAGMNQRDFAARLKTSGAYISCVELGHSMPGGRFLRSLHHEFDVNVNW 77

Query: 64  LLTGEEGEPGV-METDEEVRQLVDHYCRVDLQGREILRSLASYV 106
           LLTG+  EP +       VR LV  Y      GR ++ ++ASY+
Sbjct: 78  LLTGQ--EPSLPPRYGLHVRSLVSDYGGASQAGRSLIMAVASYL 119


>gi|300310419|ref|YP_003774511.1| Cro/CI family transcription
           regulator [Herbaspirillum seropedicae SmR1]
          Length = 152

 Score = 83.6 bits (205), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 43/105 (40%), Positives = 62/105 (59%), Gaps = 2/105 (1%)

Query: 4   EEIGGRIKEVRLANGLSQRELGQRLDTSTGHISWLEAGKAMPGGELLLQLHREFSVDLNW 63
           + +G RIK  RLA G SQR+    L T   HI  +E G+ MPG  LL  +H +F++D+NW
Sbjct: 22  KAVGQRIKRARLAIGFSQRKFATVLGTLPNHICQIEQGRCMPGSRLLHGMHVQFNIDINW 81

Query: 64  LLTGEEGEPGVMETDEE-VRQLVDHYCRVDLQGREILRSLASYVG 107
           LLTG+  +P  + + E  +R L+ HY R D  G+ +L S A  + 
Sbjct: 82  LLTGQH-QPFRLNSQEMGLRMLLHHYTRADETGKHLLCSAACLLA 125


  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
   0.315    0.136    0.396 

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: 399,588
Number of extensions: 16101
Number of successful extensions: 45
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 44
Number of HSP's successfully gapped: 3
Length of query: 115
Length of database: 1,619,870
Length adjustment: 73
Effective length of query: 42
Effective length of database: 1,274,215
Effective search space: 53517030
Effective search space used: 53517030
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 124 (52.4 bits)