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= 0020.0399.p
         (236 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310477|ref|YP_003774569.1| GntR family transcription regul...   467   e-133
gi|300311999|ref|YP_003776091.1| GntR family transcription regul...    60   1e-10
gi|300310738|ref|YP_003774830.1| transcription regulator protein...    60   2e-10

>gi|300310477|ref|YP_003774569.1| GntR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 236

 Score =  467 bits (1202), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 234/236 (99%), Positives = 234/236 (99%)

Query: 1   MTSTSTAPIVITPPPLDRSRHAAPQVFEHLRELIIGMRLAPATVLQRAELAAQYGLSQTP 60
           MTSTSTAPIVITPPPLDRSRHAAPQVFEHLRELIIGMRLAPATVLQRAELAAQYGLSQTP
Sbjct: 1   MTSTSTAPIVITPPPLDRSRHAAPQVFEHLRELIIGMRLAPATVLQRAELAAQYGLSQTP 60

Query: 61  IRDALIKLGEEGLVDIFPQHATVVSAVNVTLARQAHFLRRSIELEIVHTLAVQVDAALVN 120
           IRDALIKLGEEGLVDIFPQHATVVSAVNVTLARQAHFLRRSIELEIVHTLA Q DAALVN
Sbjct: 61  IRDALIKLGEEGLVDIFPQHATVVSAVNVTLARQAHFLRRSIELEIVHTLAAQADAALVN 120

Query: 121 RLRDSIEVQRVLAGRENYAEFVLADQAFHRQMYEAAQVPELWSMVRRQSGHLDRLRNLHV 180
           RLRDSIEVQRVLAGRENYAEFVLADQAFHRQMYEAAQVPELWSMVRRQSGHLDRLRNLHV
Sbjct: 121 RLRDSIEVQRVLAGRENYAEFVLADQAFHRQMYEAAQVPELWSMVRRQSGHLDRLRNLHV 180

Query: 181 PIPGKTARVLRDHAAIVDAIAAGDPAAAQAALREHLSGTLAQLEEIRQRFPHYVKD 236
           PIPGKTARVLRDHAAIVDAIAAGDPAAAQAALREHLSGTLAQLEEIRQRFPHYVKD
Sbjct: 181 PIPGKTARVLRDHAAIVDAIAAGDPAAAQAALREHLSGTLAQLEEIRQRFPHYVKD 236


>gi|300311999|ref|YP_003776091.1| GntR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 222

 Score = 60.5 bits (145), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 57/211 (27%), Positives = 93/211 (44%), Gaps = 20/211 (9%)

Query: 16  LDRSRHAAPQVFEHLRELIIGMRLAPATVLQRAELAAQYGLSQTPIRDALIKLGEEGLVD 75
           +D  +  A  + E + ELI   +L+P   L    LA ++G+S+TPIR+ALI+L   G+V+
Sbjct: 1   MDTPKTRAEALRESIEELIAVSKLSPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVE 60

Query: 76  IFPQHATVVSAVNVTLARQAHFLRRSIELEIVHTLAVQVDAALVNRLRDSIEVQRVLAGR 135
           + P+   +V+ +           ++ IE+  V      +   L  R     E   +LA  
Sbjct: 61  MRPRRGAIVAEIGP---------QQLIEMFEVMAEFEAMCGRLAARRMTPAEHAELLAAH 111

Query: 136 ENY----------AEFVLADQAFHRQMYEAAQVPELWSMVRRQSGHLDRLRNLHVPIPGK 185
           +            A F L ++AFH  +Y  +    L    R     L   R L + +  +
Sbjct: 112 QACQAARDANDPDAYFYL-NEAFHDHIYAGSHNGFLADQARALHRRLRPYRRLQLRVRDR 170

Query: 186 TARVLRDHAAIVDAIAAGDPAAAQAALREHL 216
                 +H A+VDAI +GD       LREH+
Sbjct: 171 LKSSFDEHQAVVDAIISGDAEKTVDLLREHI 201


>gi|300310738|ref|YP_003774830.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 234

 Score = 59.7 bits (143), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 49/204 (24%), Positives = 92/204 (45%)

Query: 23  APQVFEHLRELIIGMRLAPATVLQRAELAAQYGLSQTPIRDALIKLGEEGLVDIFPQHAT 82
           A QV+  L++ I   RL P       E+A + G+S+TP+RDAL +L  EG +++  +   
Sbjct: 10  AEQVYHRLKDDIFSFRLLPGDNFTETEMAQRQGVSRTPLRDALFRLQREGYLEVGFRRGW 69

Query: 83  VVSAVNVTLARQAHFLRRSIELEIVHTLAVQVDAALVNRLRDSIEVQRVLAGRENYAEFV 142
            V  ++       + LR  +E+  +  L  Q +A+      ++I +    A + +  +  
Sbjct: 70  KVCPIDFDRLDNLYDLRIVLEMAALDKLCSQPEASAELTQLNAIWLAEPDARQTDAVKVA 129

Query: 143 LADQAFHRQMYEAAQVPELWSMVRRQSGHLDRLRNLHVPIPGKTARVLRDHAAIVDAIAA 202
             D+AFH  +  AA   E+  +    +  +  +R L      +      +H  I+  IA 
Sbjct: 130 QLDEAFHTNLVAAAGNEEMTRVHTEVTEKIRIVRRLDFLKKKRIDATYEEHGKILQLIAK 189

Query: 203 GDPAAAQAALREHLSGTLAQLEEI 226
                AQ  LR H++ +  ++ +I
Sbjct: 190 RKATEAQILLRAHITQSKLEVRKI 213


  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
   0.322    0.134    0.380 

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: 663,166
Number of extensions: 24597
Number of successful extensions: 133
Number of sequences better than 1.0e-08: 12
Number of HSP's gapped: 129
Number of HSP's successfully gapped: 12
Length of query: 236
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 154
Effective length of database: 1,231,600
Effective search space: 189666400
Effective search space used: 189666400
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 (22.0 bits)
S2: 129 (54.3 bits)