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= 0231.0008.p
         (315 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311238|ref|YP_003775330.1| LacI family transcription regul...   197   7e-52
gi|300310548|ref|YP_003774640.1| Tol-Pal cell envelope complex s...   134   8e-33
gi|300310488|ref|YP_003774580.1| LacI family transcription regul...   123   2e-29
gi|300310423|ref|YP_003774515.1| GntR family transcription regul...    74   2e-14

>gi|300311238|ref|YP_003775330.1| LacI family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 340

 Score =  197 bits (502), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 93/121 (76%), Positives = 106/121 (87%)

Query: 30  AETVRGMSEYLMAHGYQLLLGQSDYSEDIETRLVEAFIGRRVDGLVLTGVQHTPATRQRL 89
           AET+RG+SE L   GYQLLLGQ++YSE+ ET LVE FIGRRVDGLVLTGVQH+P TRQRL
Sbjct: 88  AETLRGLSEQLCMQGYQLLLGQTNYSEEAETGLVEVFIGRRVDGLVLTGVQHSPMTRQRL 147

Query: 90  RTAGIPVVETWDLTPEPIDMLAGFSNYDAGAAMGDYLVEQGYRRIAFVGGDDPRGVARLA 149
           + AGIPVVETWDLT  PIDMLAGF N+ AG AMGDYL ++GYRR+AFVGGDDPRG+AR+A
Sbjct: 148 KAAGIPVVETWDLTDTPIDMLAGFDNHAAGRAMGDYLYQKGYRRMAFVGGDDPRGMARVA 207

Query: 150 G 150
           G
Sbjct: 208 G 208


>gi|300310548|ref|YP_003774640.1| Tol-Pal cell envelope complex
           subunit YbgF protein [Herbaspirillum seropedicae SmR1]
          Length = 251

 Score =  134 bits (338), Expect = 8e-33,   Method: Compositional matrix adjust.
 Identities = 65/84 (77%), Positives = 75/84 (89%)

Query: 159 VPATAHAGLFDDEEARKAILDIRSKIDALQKDVANKADKNSALSLSDQNDRLLQEIARLR 218
           +P TA AGLFDD+EARKAILDIRSKI+ALQ+DVANKADKNS L+LSD+ND L  +IA LR
Sbjct: 22  LPLTARAGLFDDDEARKAILDIRSKIEALQRDVANKADKNSVLTLSDRNDNLQSQIAALR 81

Query: 219 GQVEVLSNELANTQQRQKDFYVDL 242
           GQ+EVL+NE+ N QQRQKDFYVDL
Sbjct: 82  GQIEVLTNEITNAQQRQKDFYVDL 105


>gi|300310488|ref|YP_003774580.1| LacI family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 365

 Score =  123 bits (308), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 61/118 (51%), Positives = 79/118 (66%)

Query: 31  ETVRGMSEYLMAHGYQLLLGQSDYSEDIETRLVEAFIGRRVDGLVLTGVQHTPATRQRLR 90
           E V  ++E L A GYQ++LGQS Y    E  L+EA IGRR DG+VLTG+  +   R+RL 
Sbjct: 110 EIVHTLTETLAAAGYQVMLGQSGYENSREDALLEAIIGRRPDGVVLTGIMRSAEARKRLL 169

Query: 91  TAGIPVVETWDLTPEPIDMLAGFSNYDAGAAMGDYLVEQGYRRIAFVGGDDPRGVARL 148
            +GIPVVETWDLTP PIDML GFS+   G  +  YL ++G +++A VGG D R   R+
Sbjct: 170 ASGIPVVETWDLTPTPIDMLVGFSHEAIGREVARYLHQRGRKKVAVVGGRDERSQRRM 227


>gi|300310423|ref|YP_003774515.1| GntR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 352

 Score = 73.6 bits (179), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 42/121 (34%), Positives = 62/121 (51%), Gaps = 1/121 (0%)

Query: 31  ETVRGMSEYLMAHGYQLLLGQSDYSEDIETRLVEAFIGRRVDGLVLTGVQHTPATRQRLR 90
           ET+ G+ +YL + GYQ L+G++ Y    E  L+  ++     G +L+  Q     + R  
Sbjct: 100 ETLSGIRDYLASVGYQFLIGETGYDRHKEEELIATYLAHAPAGFLLSSSQQHDILQSRPA 159

Query: 91  TAGIPVVETWDLTPEPIDMLAGFSNYDAGAAMGDYLVEQGYRRIAFVGGD-DPRGVARLA 149
           +  IP V  +DL     D   GFS   AG A+  +L E+GYRR AF+    DPR + R  
Sbjct: 160 SRAIPAVRMFDLGRSQQDYSVGFSQTRAGHAVARHLAERGYRRPAFLAAQLDPRMMKRRE 219

Query: 150 G 150
           G
Sbjct: 220 G 220


  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    0.385 

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: 1,009,934
Number of extensions: 45183
Number of successful extensions: 147
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 148
Number of HSP's successfully gapped: 4
Length of query: 315
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 230
Effective length of database: 1,217,395
Effective search space: 280000850
Effective search space used: 280000850
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 (21.7 bits)
S2: 130 (54.7 bits)