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= 0016.0009.p
         (124 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309932|ref|YP_003774024.1| transcription regulator protein...   146   4e-37
gi|300311924|ref|YP_003776016.1| transcription repressor for pur...    59   1e-10
gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin...    58   2e-10

>gi|300309932|ref|YP_003774024.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 358

 Score =  146 bits (369), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 82/133 (61%), Positives = 96/133 (72%), Gaps = 14/133 (10%)

Query: 1   MAPIEVPRHTGLTSA--HLQAFADPQQRPSALFCSNDLLALAAMRDLRALGLRVPEDISV 58
           MA IEV RHT LT+A  + Q  ADP+QRP+ALFCSNDLLA++AMRDLRALG++VP DISV
Sbjct: 218 MAVIEVERHT-LTAAADYQQMMADPRQRPTALFCSNDLLAMSAMRDLRALGMKVPNDISV 276

Query: 59  MGFDGIPLGEMMSPVLASAVQPSEQIGEVALRTLVAAIGQ-----------AEGSAGPVS 107
           MGFDGIP+G +M PVLAS VQPSEQIGEVALR LV AI +              SA  + 
Sbjct: 277 MGFDGIPVGALMEPVLASVVQPSEQIGEVALRVLVEAIERNASAAAAAAPDLALSASWLR 336

Query: 108 QTLAHTIRHGGTV 120
             L H +R GG+V
Sbjct: 337 HILPHAVRSGGSV 349


>gi|300311924|ref|YP_003776016.1| transcription repressor for pur
           regulon regulator protein [Herbaspirillum seropedicae
           SmR1]
          Length = 369

 Score = 58.9 bits (141), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 29/76 (38%), Positives = 46/76 (60%)

Query: 25  QRPSALFCSNDLLALAAMRDLRALGLRVPEDISVMGFDGIPLGEMMSPVLASAVQPSEQI 84
           +RP A+F  ND +AL A++ L  LG++VP +ISV+GFD +   +   P L S   P  ++
Sbjct: 259 ERPDAIFLGNDRMALGALKALYDLGVKVPHEISVVGFDNMRYDDFSIPSLTSVDAPMLEM 318

Query: 85  GEVALRTLVAAIGQAE 100
            E A++ L+  I Q +
Sbjct: 319 CEFAVKLLLERIEQRQ 334


>gi|300311611|ref|YP_003775703.1| transcription regulator
           DNA-binding repressor protein [Herbaspirillum
           seropedicae SmR1]
          Length = 337

 Score = 58.2 bits (139), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 26/73 (35%), Positives = 44/73 (60%)

Query: 24  QQRPSALFCSNDLLALAAMRDLRALGLRVPEDISVMGFDGIPLGEMMSPVLASAVQPSEQ 83
            QRP A+FC ND++A+  +R    L + VP ++SV+GFD I L + + P L +  Q + +
Sbjct: 236 DQRPDAIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQNTRK 295

Query: 84  IGEVALRTLVAAI 96
           +G +  + L+  I
Sbjct: 296 LGNLTAQFLLERI 308


  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
   0.320    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: 358,436
Number of extensions: 11522
Number of successful extensions: 56
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 56
Number of HSP's successfully gapped: 3
Length of query: 124
Length of database: 1,619,870
Length adjustment: 74
Effective length of query: 50
Effective length of database: 1,269,480
Effective search space: 63474000
Effective search space used: 63474000
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 (21.8 bits)
S2: 125 (52.8 bits)