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= 0024.0123.p
         (292 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313268|ref|YP_003777360.1| transcription regulator protein...   532   e-152
gi|300310394|ref|YP_003774486.1| AraC family transcription regul...    62   5e-11
gi|300313081|ref|YP_003777173.1| transcription regulator protein...    56   3e-09

>gi|300313268|ref|YP_003777360.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 288

 Score =  532 bits (1370), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 258/292 (88%), Positives = 270/292 (92%), Gaps = 4/292 (1%)

Query: 1   MNDDRKTSSQARYQARFERVLDHIEAHLHTPLEMEQLAAVAHFSRFHFQRQFADFTGVGA 60
           M+D+RK +    YQARFERVLDHIEAHLH PLE+EQLA VAHFSRFHFQRQFADFTGVG 
Sbjct: 1   MSDERKKA----YQARFERVLDHIEAHLHAPLEVEQLANVAHFSRFHFQRQFADFTGVGV 56

Query: 61  ARYILLMRLKHASLQLAFQPQRRIIDIALEAGFENPESFTRAFRSAFGQSPSQFRRTPDW 120
           ARYILLMRLKHASLQLAFQPQRRIIDIALEAGFENPESFTRAFRSAFGQSPSQFRR PDW
Sbjct: 57  ARYILLMRLKHASLQLAFQPQRRIIDIALEAGFENPESFTRAFRSAFGQSPSQFRRAPDW 116

Query: 121 PSWNERFVFRIPERKVDVQVEIVNVESIRIAMLTHRGPVNQLNGTVGQFIDWRKATGLSP 180
           PSW+ERFVFRIPERKVDVQVEI +VE IRIA+L HRGPVN LN TV QFI WRKA+GLSP
Sbjct: 117 PSWHERFVFRIPERKVDVQVEITHVEPIRIALLAHRGPVNGLNATVAQFIAWRKASGLSP 176

Query: 181 VERCRTFGLAWDNPDTTPPEQFRFGICGEVEGELPDNPQGVEAFLIPGGRCARVRHAGAH 240
           VERCRTFGLAWDNPDTTPPEQFRFGICGE+EG+LP N QGV   LIPGGRCARVRH GAH
Sbjct: 177 VERCRTFGLAWDNPDTTPPEQFRFGICGELEGDLPGNAQGVVESLIPGGRCARVRHVGAH 236

Query: 241 DRLGESIYPLYRQWLPESGEELRDFPLYFHYLNLLPDTPPGELLTDIYLPLK 292
           +RLG+SIYPLYRQWLPESGEELRDFPLYFHYLNLLPDTPPGELLTDIYLPLK
Sbjct: 237 ERLGDSIYPLYRQWLPESGEELRDFPLYFHYLNLLPDTPPGELLTDIYLPLK 288


>gi|300310394|ref|YP_003774486.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 294

 Score = 62.4 bits (150), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 36/101 (35%), Positives = 48/101 (47%)

Query: 17  FERVLDHIEAHLHTPLEMEQLAAVAHFSRFHFQRQFADFTGVGAARYILLMRLKHASLQL 76
             R + ++  HL   +  + LA +   +   F R F   TG    RY   +R+  A L L
Sbjct: 183 LNRAIAYLREHLTDDIGEQDLADMVGQNLSSFSRAFKRHTGTTLVRYKNQLRVDLACLAL 242

Query: 77  AFQPQRRIIDIALEAGFENPESFTRAFRSAFGQSPSQFRRT 117
             +PQ RI DI  E GF N  +F R F    G SPS+FR T
Sbjct: 243 LTRPQARITDICYETGFSNLSNFNRHFHKIKGMSPSEFRNT 283


>gi|300313081|ref|YP_003777173.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 330

 Score = 56.2 bits (134), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 40/101 (39%), Positives = 48/101 (47%), Gaps = 1/101 (0%)

Query: 16  RFERVLDHIEAHLHTPLEMEQLAAVAHFSRFHFQRQFADFTGVGAARYILLMRLKHASLQ 75
           R  R L     HLH  L ++ LA VA  SR  F R FA  TG   AR I  MR + A L+
Sbjct: 212 RIRRALGFAREHLHQALTVDLLAEVACLSRRQFDRAFAAETGQTPARAIEQMRAEAARLR 271

Query: 76  LAFQPQRRIIDIALEAGFENPESFTRAFRSAFGQSPSQFRR 116
           +  Q Q  +  IA   GF + +   RA    FGQ P   RR
Sbjct: 272 IE-QSQDTLESIARATGFGDADRMRRACLRLFGQPPQAMRR 311


  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
   0.324    0.140    0.441 

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: 1,029,425
Number of extensions: 46343
Number of successful extensions: 156
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 165
Number of HSP's successfully gapped: 3
Length of query: 292
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 208
Effective length of database: 1,222,130
Effective search space: 254203040
Effective search space used: 254203040
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 130 (54.7 bits)