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= 0021.0025.p
         (110 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311999|ref|YP_003776091.1| GntR family transcription regul...   174   1e-45
gi|300314040|ref|YP_003778132.1| transcription regulator protein...    59   9e-11
gi|300313534|ref|YP_003777626.1| GntR family transcription regul...    57   4e-10
gi|300311599|ref|YP_003775691.1| transcription regulator protein...    53   6e-09

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

 Score =  174 bits (442), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 86/91 (94%), Positives = 88/91 (96%)

Query: 1  MDTPKTRSETLRESIEELIAVGKLAPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVE 60
          MDTPKTR+E LRESIEELIAV KL+PGQHLDETSLAEEFGVSRTPIREALIQLASMGIVE
Sbjct: 1  MDTPKTRAEALRESIEELIAVSKLSPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVE 60

Query: 61 MRPRRGAIVAEIGPQQLIEMFEVMAEFEAMW 91
          MRPRRGAIVAEIGPQQLIEMFEVMAEFEAM 
Sbjct: 61 MRPRRGAIVAEIGPQQLIEMFEVMAEFEAMC 91


>gi|300314040|ref|YP_003778132.1| transcription regulator protein
          [Herbaspirillum seropedicae SmR1]
          Length = 234

 Score = 58.9 bits (141), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 30/90 (33%), Positives = 51/90 (56%)

Query: 1  MDTPKTRSETLRESIEELIAVGKLAPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVE 60
          +D P    E +  +I + I  G LAP + + +  LAE+ GVSR PI +A   L   G +E
Sbjct: 4  IDAPAQLIEQVYHAILDAICTGALAPNEKITQEGLAEQLGVSRQPILQAFQILKREGFIE 63

Query: 61 MRPRRGAIVAEIGPQQLIEMFEVMAEFEAM 90
             R+G +V  + PQ+L+++++V A  + +
Sbjct: 64 DAGRKGVMVTALDPQRLMQLYQVRAVLDGL 93


>gi|300313534|ref|YP_003777626.1| GntR family transcription
          regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 249

 Score = 57.0 bits (136), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 34/68 (50%), Positives = 39/68 (57%)

Query: 15 IEELIAVGKLAPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVEMRPRRGAIVAEIGP 74
          I E I   +LAPG  L E  LA+ F VSRT +REAL  L + GIV +  RRG  V E  P
Sbjct: 17 ITEAILAKQLAPGTRLGEQQLADLFKVSRTQVREALTHLMARGIVTVSARRGWFVIEPTP 76

Query: 75 QQLIEMFE 82
           Q  E FE
Sbjct: 77 AQAREAFE 84


>gi|300311599|ref|YP_003775691.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 243

 Score = 52.8 bits (125), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 29/86 (33%), Positives = 48/86 (55%)

Query: 5   KTRSETLRESIEELIAVGKLAPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVEMRPR 64
           +T SE +   I+  I  G++APG  + E  LA  +G+SR P+REA+ +L    ++   P 
Sbjct: 15  ETLSEHVFRKIQSAIVQGEIAPGSKISEPELARTYGISRGPLREAIHRLEGQNLLVRVPH 74

Query: 65  RGAIVAEIGPQQLIEMFEVMAEFEAM 90
            GA V  +  + L+E+F++    E M
Sbjct: 75  VGARVVSLTLEGLVELFQIRESLEGM 100


  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
   0.317    0.133    0.369 

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: 301,906
Number of extensions: 9802
Number of successful extensions: 55
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 56
Number of HSP's successfully gapped: 4
Length of query: 110
Length of database: 1,619,870
Length adjustment: 73
Effective length of query: 37
Effective length of database: 1,274,215
Effective search space: 47145955
Effective search space used: 47145955
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: 41 (21.6 bits)
S2: 124 (52.4 bits)