BLASTP 2.2.21 [Jun-14-2009]

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: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF excluding environmental samples
from WGS projects 
           15,459,386 sequences; 5,307,515,862 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|YP_003776433.1| XRE family transcription regulator protein [...   232   2e-59
ref|YP_003776434.1| XRE family transcription regulator protein [...    86   2e-15
ref|YP_003774511.1| Cro/CI family transcription regulator [Herba...    84   1e-14
ref|ZP_07154650.1| helix-turn-helix protein [Escherichia coli MS...    83   1e-14

>ref|YP_003776433.1| XRE family transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
 gb|ADJ64525.1| XRE family transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 115

 Score =  232 bits (591), Expect = 2e-59,   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


>ref|YP_003776434.1| XRE family transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
 gb|ADJ64526.1| XRE family transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 124

 Score = 85.9 bits (211), Expect = 2e-15,   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


>ref|YP_003774511.1| Cro/CI family transcription regulator [Herbaspirillum seropedicae
           SmR1]
 gb|ADJ62603.1| Cro/CI family transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 152

 Score = 83.6 bits (205), Expect = 1e-14,   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


>ref|ZP_07154650.1| helix-turn-helix protein [Escherichia coli MS 21-1]
 gb|EFK18619.1| helix-turn-helix protein [Escherichia coli MS 21-1]
          Length = 118

 Score = 83.2 bits (204), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 39/65 (60%), Positives = 49/65 (75%)

Query: 3  SEEIGGRIKEVRLANGLSQRELGQRLDTSTGHISWLEAGKAMPGGELLLQLHREFSVDLN 62
          S++IG R+  VR   GL+QRE   RL  S G IS +E GKAMPGGE LL++H+EF+VD+N
Sbjct: 2  SKDIGERVISVRKKAGLNQREFAARLGISNGGISQIENGKAMPGGEFLLKMHQEFNVDVN 61

Query: 63 WLLTG 67
          WLLTG
Sbjct: 62 WLLTG 66