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= 0001.2738.p
         (280 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312007|ref|YP_003776099.1| transmembrane transcription reg...   406   e-114

>gi|300312007|ref|YP_003776099.1| transmembrane transcription
           regulator [Herbaspirillum seropedicae SmR1]
          Length = 278

 Score =  406 bits (1043), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 210/276 (76%), Positives = 233/276 (84%), Gaps = 3/276 (1%)

Query: 1   MKTPAVSEEELHAYADGQLPAARASKIAAWLEQDPAHADDLQRVRAWRAQNRVLHAHYDP 60
           MKTPA+ EE+LHA+ADGQLPAARAS+IAAWLEQDP  A+  ++VR WR Q R LHAH+DP
Sbjct: 1   MKTPAIPEEDLHAFADGQLPAARASEIAAWLEQDPTQAEAAEQVRDWRWQKRALHAHFDP 60

Query: 61  VLEEALPPRLAAAVLAGSGDPAQHRRQAPANHSSWWRYAAMLLLTLAGGLGGWVAHDLAG 120
           VLEEALPPRLAAAVLAG+    Q R  A      W R AAMLLL++A G+GGW  HD+  
Sbjct: 61  VLEEALPPRLAAAVLAGANHQEQPRAPAANAARWW-RMAAMLLLSMASGVGGWYLHDIGD 119

Query: 121 SAKVRGAQASAPVLLAHQAAVAHTVFSADIRRPVEVGADQEQALVTWLSRRLGANVRAPK 180
               R A+  AP++LA QAAVAH VFS D+RRPVEVGADQEQALVTWLSRRLG ++RAPK
Sbjct: 120 DG--RHARVQAPLVLARQAAVAHAVFSVDLRRPVEVGADQEQALVTWLSRRLGTSLRAPK 177

Query: 181 LAPLGYDLIGGRLLPGQSGPVAQFMYQDAAGQRLTLYVSHEQVQNRDTGFRFAQEGKVNV 240
           LAPLGYDLIGGRLLPGQSGPVAQFMYQDAAGQRLTLYVSHEQVQNR+TGFRFAQEGKVNV
Sbjct: 178 LAPLGYDLIGGRLLPGQSGPVAQFMYQDAAGQRLTLYVSHEQVQNRETGFRFAQEGKVNV 237

Query: 241 FYWIDGQFGYALSAGIPRTELSRIASSVYEQLAPVS 276
           FYWIDGQFGYALS GI R ELSRIASSVYEQL+P++
Sbjct: 238 FYWIDGQFGYALSGGIARAELSRIASSVYEQLSPLT 273


  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
   0.319    0.132    0.401 

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: 923,092
Number of extensions: 37119
Number of successful extensions: 131
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 129
Number of HSP's successfully gapped: 1
Length of query: 280
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 196
Effective length of database: 1,222,130
Effective search space: 239537480
Effective search space used: 239537480
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: 130 (54.7 bits)