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= 0001.1025.p
         (430 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310549|ref|YP_003774641.1| periplasmic component of the To...   816   0.0  

>gi|300310549|ref|YP_003774641.1| periplasmic component of the Tol
           biopolymer transport system protein [Herbaspirillum
           seropedicae SmR1]
          Length = 428

 Score =  816 bits (2107), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 409/430 (95%), Positives = 419/430 (97%), Gaps = 2/430 (0%)

Query: 1   MIKARYLTLTRLAAATVAVAGLSFAPASQAQIRFEITGVGASQIPVAITAFPGEESAPQQ 60
           MIKARYLT   LAA   AVAGLSFAPASQAQIRFEITGVGASQIP+AITAFPGEESAPQQ
Sbjct: 1   MIKARYLT--SLAATAAAVAGLSFAPASQAQIRFEITGVGASQIPIAITAFPGEESAPQQ 58

Query: 61  ISPVVKADLARSGIFKLIDNGDALSDSSAINYADWQKRGANALAVGSVTRLADGRFDVRY 120
           I+ VVKADLARSG+FKLIDNGDALSDSSA+NYADWQKRGANALAVGSVTRLADGRFDVRY
Sbjct: 59  ITSVVKADLARSGVFKLIDNGDALSDSSAVNYADWQKRGANALAVGSVTRLADGRFDVRY 118

Query: 121 RLFDTVQSTQLSALSISAQPQLLRLTAHKIADDIYQKLTGIPGIFSTRISYVTKSGNEYR 180
           RLFDTVQS+QLSALSI AQPQLLRLTAHKIADDIYQKLTGIPGIFSTRISYVTKSG EYR
Sbjct: 119 RLFDTVQSSQLSALSIGAQPQLLRLTAHKIADDIYQKLTGIPGIFSTRISYVTKSGGEYR 178

Query: 181 LEVADADGEGTQVALRSNEPIISPAWSPDGTKVAYVSFEMKKPVVYIQNLVTRQRSIVAN 240
           LEVADADGEGTQVALRSNEPIISP+WSPDGTKVAYVSFEMKKPVVYIQNLVTRQRSIVAN
Sbjct: 179 LEVADADGEGTQVALRSNEPIISPSWSPDGTKVAYVSFEMKKPVVYIQNLVTRQRSIVAN 238

Query: 241 FKGSNSAPAWSPDGSRLAVALTRDGLTQVYLINADGSGLRRLTNSAGIDTEPQFSPDGGS 300
           FKGSNSAPAWSPDGSRLAVALTRDGLTQVY+INADGSGLRRLTNSAGIDTEPQFSPDGGS
Sbjct: 239 FKGSNSAPAWSPDGSRLAVALTRDGLTQVYVINADGSGLRRLTNSAGIDTEPQFSPDGGS 298

Query: 301 IYFTSDRSGGPQIYKVGLDGGTPQRVTFNGSYNISPRISPDGKTLAFISRRDGLFQLYAL 360
           IYFTSDRSGGPQ+YKVGLDGG+PQRVTFNGSYNISPRISPDGKTLAFISRRDG FQLYAL
Sbjct: 299 IYFTSDRSGGPQVYKVGLDGGSPQRVTFNGSYNISPRISPDGKTLAFISRRDGQFQLYAL 358

Query: 361 DLTNGQEIRLSDGSRDQSPSFAPNGKYIMYATESGRRGSLAVVSTDGRIKQRLTTQAGDI 420
           DLTNGQEIRLSDGSRDQSPSFAPNGKYIMYATE+GRRGSLAVVS DGRIKQRLTTQAGDI
Sbjct: 359 DLTNGQEIRLSDGSRDQSPSFAPNGKYIMYATEAGRRGSLAVVSVDGRIKQRLTTQAGDI 418

Query: 421 REPTWGPFMK 430
           REPTWGPFMK
Sbjct: 419 REPTWGPFMK 428


  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
   0.316    0.133    0.378 

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: 1,359,396
Number of extensions: 60867
Number of successful extensions: 181
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 165
Number of HSP's successfully gapped: 1
Length of query: 430
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 342
Effective length of database: 1,203,190
Effective search space: 411490980
Effective search space used: 411490980
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 132 (55.5 bits)