BLASTP 2.2.17 [Aug-26-2007]

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 composition-based statistics:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= 0001.0945.p         (105 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|ZP_02375873.1| helix-turn-helix domain protein [Burkholderia...   166   1e-39
ref|YP_004749434.1| helix-turn-helix domain-containing protein [...   149   2e-34
ref|YP_999421.1| helix-turn-helix domain-containing protein [Ver...   147   6e-34
ref|YP_001973927.1| putative DNA-binding protein [Stenotrophomon...   140   5e-32
ref|ZP_01290924.1| conserved hypothetical protein [delta proteob...   136   1e-30

>ref|ZP_02375873.1| helix-turn-helix domain protein [Burkholderia thailandensis TXDOH]
          Length = 107

 Score =  166 bits (420), Expect = 1e-39,   Method: Composition-based stats.
 Identities = 88/101 (87%), Positives = 92/101 (91%)

Query: 5   AKSPILDAVHETASDLRRLGFIDKRKMQKYQALCLEPVPEYDAGAIRALRARFQLSQAVF 64
           AKS IL AVHETA+DL RLGFIDKRKMQKY+ALCLEPVPEYDA  IRALRARF LSQAV 
Sbjct: 7   AKSAILGAVHETAADLHRLGFIDKRKMQKYEALCLEPVPEYDAAKIRALRARFHLSQAVL 66

Query: 65  AAALNTSTSTVRKWEVGDKRPSGPSLKLLNLIDRKGLEVVL 105
           AAALNTS+STVRKWE+GDKRPSGPS KLLNLIDRKGLE VL
Sbjct: 67  AAALNTSSSTVRKWEIGDKRPSGPSQKLLNLIDRKGLEAVL 107


>ref|YP_004749434.1| helix-turn-helix domain-containing protein [Acidithiobacillus
           caldus SM-1]
 gb|AEK58732.1| helix-turn-helix domain-containing protein [Acidithiobacillus
           caldus SM-1]
          Length = 107

 Score =  149 bits (375), Expect = 2e-34,   Method: Composition-based stats.
 Identities = 81/107 (75%), Positives = 90/107 (84%), Gaps = 2/107 (1%)

Query: 1   MTTTAKSP--ILDAVHETASDLRRLGFIDKRKMQKYQALCLEPVPEYDAGAIRALRARFQ 58
           MTT AKS   +L+AVHETASDL RLGFIDKRKM+KY ALCLEPV EYDA  +RALRA   
Sbjct: 1   MTTKAKSKSRLLEAVHETASDLHRLGFIDKRKMRKYDALCLEPVHEYDADRVRALRAHLH 60

Query: 59  LSQAVFAAALNTSTSTVRKWEVGDKRPSGPSLKLLNLIDRKGLEVVL 105
           LSQAV A+ LNTS STVRKWEVGDK+PSGPS KLL+LI+RKGL+ VL
Sbjct: 61  LSQAVLASVLNTSVSTVRKWEVGDKKPSGPSQKLLDLIERKGLDAVL 107


>ref|YP_999421.1| helix-turn-helix domain-containing protein [Verminephrobacter
           eiseniae EF01-2]
 gb|ABM60403.1| helix-turn-helix domain protein [Verminephrobacter eiseniae EF01-2]
          Length = 107

 Score =  147 bits (370), Expect = 6e-34,   Method: Composition-based stats.
 Identities = 77/103 (74%), Positives = 86/103 (83%)

Query: 3   TTAKSPILDAVHETASDLRRLGFIDKRKMQKYQALCLEPVPEYDAGAIRALRARFQLSQA 62
           T AKS IL+AVHETA+DL RLGFIDKRKMQKY  LCLEPV +YDA  ++ALR R  LSQA
Sbjct: 5   TKAKSRILEAVHETANDLHRLGFIDKRKMQKYDVLCLEPVQDYDAVKVKALRERLHLSQA 64

Query: 63  VFAAALNTSTSTVRKWEVGDKRPSGPSLKLLNLIDRKGLEVVL 105
           V A+ LNTS STVRKWE GDKRPSGPS KLL++I+RKGLE VL
Sbjct: 65  VLASVLNTSASTVRKWEGGDKRPSGPSQKLLDIIERKGLEAVL 107


>ref|YP_001973927.1| putative DNA-binding protein [Stenotrophomonas maltophilia K279a]
 emb|CAQ47644.1| putative DNA-binding protein [Stenotrophomonas maltophilia K279a]
          Length = 110

 Score =  140 bits (354), Expect = 5e-32,   Method: Composition-based stats.
 Identities = 73/101 (72%), Positives = 80/101 (79%)

Query: 5   AKSPILDAVHETASDLRRLGFIDKRKMQKYQALCLEPVPEYDAGAIRALRARFQLSQAVF 64
           AKS ILDAVHE A+ L   GFIDKR+M  Y+ALCLEPVPEY +  IRALR   +LSQ VF
Sbjct: 10  AKSAILDAVHEGAAGLYASGFIDKRRMSMYEALCLEPVPEYSSAQIRALRTSLELSQPVF 69

Query: 65  AAALNTSTSTVRKWEVGDKRPSGPSLKLLNLIDRKGLEVVL 105
           A  LNTS STVR WE G+K+PSGPSLKLLNLIDRKGLE VL
Sbjct: 70  AGVLNTSVSTVRSWEQGEKKPSGPSLKLLNLIDRKGLEAVL 110


>ref|ZP_01290924.1| conserved hypothetical protein [delta proteobacterium MLMS-1]
 gb|EAT02668.1| conserved hypothetical protein [delta proteobacterium MLMS-1]
          Length = 107

 Score =  136 bits (343), Expect = 1e-30,   Method: Composition-based stats.
 Identities = 68/101 (67%), Positives = 80/101 (79%)

Query: 5   AKSPILDAVHETASDLRRLGFIDKRKMQKYQALCLEPVPEYDAGAIRALRARFQLSQAVF 64
           AKSPIL+AVHETA DL RLGFID RKM+K+  LCL PVPEYD   IR+LR RFQLSQA  
Sbjct: 7   AKSPILEAVHETAGDLHRLGFIDMRKMRKFDLLCLNPVPEYDGEKIRSLRKRFQLSQAAL 66

Query: 65  AAALNTSTSTVRKWEVGDKRPSGPSLKLLNLIDRKGLEVVL 105
           A+ LNTS ST+R+WE   K PSGPS KLL+L++R GLE ++
Sbjct: 67  ASVLNTSLSTIRQWETDGKHPSGPSRKLLSLLERNGLESLI 107