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= 0021.0033.p
         (283 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...   410   e-116

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

 Score =  410 bits (1054), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 218/283 (77%), Positives = 235/283 (83%), Gaps = 5/283 (1%)

Query: 1   MKTPAFPEEDLHAYTDGQLPAARASEMAAWLEQDPAHAGDLHRVRAWRAQNRALHAHYDP 60
           MKTPA PEEDLHA+ DGQLPAARASE+AAWLEQDP  A    +VR WR Q RALHAH+DP
Sbjct: 1   MKTPAIPEEDLHAFADGQLPAARASEIAAWLEQDPTQAEAAEQVRDWRWQKRALHAHFDP 60

Query: 61  VLEEPLPPRLAAAVLAGAGEPHRRRDEAGEVAANGPFWWRYAAMLLLTLAGAAGGWLAHD 120
           VLEE LPPRLAAAVLAGA      +++    AAN   WWR AAMLLL++A   GGW  HD
Sbjct: 61  VLEEALPPRLAAAVLAGANH----QEQPRAPAANAARWWRMAAMLLLSMASGVGGWYLHD 116

Query: 121 LTGGGRARTLASAPVMLARQAAVAHTVFSADLRRPVEVGADQEQALVTWLSRRLGVNVRA 180
           +   GR      AP++LARQAAVAH VFS DLRRPVEVGADQEQALVTWLSRRLG ++RA
Sbjct: 117 IGDDGR-HARVQAPLVLARQAAVAHAVFSVDLRRPVEVGADQEQALVTWLSRRLGTSLRA 175

Query: 181 PKLAPLGYDLIGGRLLPGQSGPVAQFMYQDAAGQRLTLYVSHDQVQNSETGFRFAQEGKV 240
           PKLAPLGYDLIGGRLLPGQSGPVAQFMYQDAAGQRLTLYVSH+QVQN ETGFRFAQEGKV
Sbjct: 176 PKLAPLGYDLIGGRLLPGQSGPVAQFMYQDAAGQRLTLYVSHEQVQNRETGFRFAQEGKV 235

Query: 241 NVFYWIDGQFGYALSGGVARAELSRIASSVYEQLVPLPPAPSR 283
           NVFYWIDGQFGYALSGG+ARAELSRIASSVYEQL PL  +P R
Sbjct: 236 NVFYWIDGQFGYALSGGIARAELSRIASSVYEQLSPLTSSPPR 278


  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    0.134    0.415 

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: 883,690
Number of extensions: 34436
Number of successful extensions: 119
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 117
Number of HSP's successfully gapped: 1
Length of query: 283
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 199
Effective length of database: 1,222,130
Effective search space: 243203870
Effective search space used: 243203870
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)