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= 0001.0261.p
         (210 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309619|ref|YP_003773711.1| transcription regulator protein...   321   3e-89
gi|300312014|ref|YP_003776106.1| transcription regulator protein...    71   6e-14

>gi|300309619|ref|YP_003773711.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 210

 Score =  321 bits (822), Expect = 3e-89,   Method: Compositional matrix adjust.
 Identities = 158/207 (76%), Positives = 177/207 (85%)

Query: 1   MNKPRRPQISLRKTPQQARSTELVAAILQAAIQVLLREGAARFTTARVAERAGVSVGSVY 60
           M KPRRP ISLRK PQQARST+LV AIL+AA+QVLLREGAARFTTARVAERAGVSVGS+Y
Sbjct: 1   MKKPRRPDISLRKAPQQARSTDLVKAILEAAVQVLLREGAARFTTARVAERAGVSVGSIY 60

Query: 61  QYFPNKAAILFRLQADEWQQTTEMVRQLLQDPCKPPATRLRELVHAFIRSEFEEAQVRQA 120
           QYFPNKAAILFRLQ+DEW+QTTEMVR LL+D  KPP  RLR LVHAF+RSEFEEA VR A
Sbjct: 61  QYFPNKAAILFRLQSDEWEQTTEMVRVLLEDSRKPPLLRLRALVHAFLRSEFEEAAVRLA 120

Query: 121 LADAAPLYRAAPEALDLSRAWDGIIGAFMREALPGVSPQRRKRAGELVMTTLSTVGEHLS 180
           L DAAPLYR   +A  L+ AWDGII  FMREALP VSP+RRK AGE+VM+TL+T+GEHLS
Sbjct: 121 LNDAAPLYRDGEQAQALAHAWDGIIARFMREALPTVSPRRRKLAGEMVMSTLTTMGEHLS 180

Query: 181 RSPHPAKAIRAYGEAMADMFCAYLDSL 207
           R+P P   I+ + +AMADMF AYLDSL
Sbjct: 181 RTPRPDSEIKRHADAMADMFSAYLDSL 207


>gi|300312014|ref|YP_003776106.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 217

 Score = 71.2 bits (173), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 41/120 (34%), Positives = 65/120 (54%), Gaps = 2/120 (1%)

Query: 12  RKTPQQARSTELVAAILQAAIQVLLREGAARFTTARVAERAGVSVGSVYQYFPNKAAILF 71
           RK P+QARS  +V  IL A  +VL+  G A+  T  VAE AG+SVGS+YQYFPNK A++F
Sbjct: 6   RKEPRQARSRAMVDTILDAMSRVLVERGYAKTNTNLVAESAGISVGSLYQYFPNKDALIF 65

Query: 72  RLQADEWQQTTEMVRQLLQ--DPCKPPATRLRELVHAFIRSEFEEAQVRQALADAAPLYR 129
            L+     +   +    +   D     ++   +++ A + +   E ++ + L +  P Y 
Sbjct: 66  ALRERHATRMLALFEDAVAHIDDAGTLSSDFDQVISAVVAAHLLEPELNRILEEEFPAYN 125


  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    0.132    0.379 

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: 523,796
Number of extensions: 16557
Number of successful extensions: 85
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 86
Number of HSP's successfully gapped: 2
Length of query: 210
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 129
Effective length of database: 1,236,335
Effective search space: 159487215
Effective search space used: 159487215
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: 128 (53.9 bits)