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= 0001.1008.p
         (433 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310540|ref|YP_003774632.1| nitrate transporter periplasmic...   793   0.0  

>gi|300310540|ref|YP_003774632.1| nitrate transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 414

 Score =  793 bits (2049), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 384/421 (91%), Positives = 399/421 (94%), Gaps = 7/421 (1%)

Query: 13  LAQGEQINAAATVDGKRRQLLQGAALATGAGMMGLATGGAWAAGSDKPEKEEVKIGFIPL 72
           +A+GEQ      VDGKRR L+QGA LA   G +GLA  GAWAAGSDKPEKEEVKIGFIPL
Sbjct: 1   MARGEQ------VDGKRRTLIQGAGLAA-TGALGLAGRGAWAAGSDKPEKEEVKIGFIPL 53

Query: 73  TDCASVVMASVLGFDKKYGIKIVPSKEASWAGVRDKLTNGELDAAHVLYGLIYGVQLGIG 132
           TDCASVVMASVLG DKKYGIKI+PSKEASWAGVRDKLTNGELDAAHVLYGLIYGVQLGIG
Sbjct: 54  TDCASVVMASVLGLDKKYGIKIIPSKEASWAGVRDKLTNGELDAAHVLYGLIYGVQLGIG 113

Query: 133 GQKKDMAVLMGLNHNGQAITLSKKLADKGAVDGASLYKLMQSDKREYTFAQTFPTGTHAM 192
           GQKKDMAVLMGLNHNGQAITLS+KLADKGAVDGASLYKLMQ+DKREYTFAQTFPTGTHAM
Sbjct: 114 GQKKDMAVLMGLNHNGQAITLSRKLADKGAVDGASLYKLMQTDKREYTFAQTFPTGTHAM 173

Query: 193 WLYYWLAANGIHPMKDAKVITVPPPQMVANMRVGNMDGFCVGEPWGHRAIVDGVGITAIT 252
           WLYYWLAANGI+PMKDAKVITVPPPQMVANMRVGNMDGFCVGEPWGHRAIVDGVGITA T
Sbjct: 174 WLYYWLAANGINPMKDAKVITVPPPQMVANMRVGNMDGFCVGEPWGHRAIVDGVGITATT 233

Query: 253 TQDIWKDHPEKVLGTSREFVQKYPNTCRAMMAAILDASKWIDASLVNKNKMAEVIADKSY 312
           TQDIWKDHPEKVLG+S EFV+KYPNTCRAMMAAIL+ASKWIDASL NKN+MAEVIADKSY
Sbjct: 234 TQDIWKDHPEKVLGSSLEFVKKYPNTCRAMMAAILEASKWIDASLTNKNRMAEVIADKSY 293

Query: 313 VNTSKDVIDQRILGRYQNGLGKTWDDPNYMKFYEEGQVNFPFLSDGMWFMTQHRRWGLLK 372
           VNTSKDVIDQRILGRYQNGLGKTWDDPNYMKFYE+GQVNFPFLSDGMWFMTQHRRWGLLK
Sbjct: 294 VNTSKDVIDQRILGRYQNGLGKTWDDPNYMKFYEDGQVNFPFLSDGMWFMTQHRRWGLLK 353

Query: 373 SDPDYLAVAKSVNQIDLYKDAAAMTKTPLPKDVMRSSKLMDGTVWDGKNPAAYAQSFKIK 432
           SDPDYLAVAK+VNQIDLYK AAAMT TPLPKD MRSS+LMDG VWDGKNPAAYAQSFKIK
Sbjct: 354 SDPDYLAVAKAVNQIDLYKQAAAMTGTPLPKDSMRSSRLMDGVVWDGKNPAAYAQSFKIK 413

Query: 433 V 433
           V
Sbjct: 414 V 414


  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
   0.317    0.133    0.405 

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: 1,334,980
Number of extensions: 53798
Number of successful extensions: 154
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 153
Number of HSP's successfully gapped: 1
Length of query: 433
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 345
Effective length of database: 1,203,190
Effective search space: 415100550
Effective search space used: 415100550
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 (21.7 bits)
S2: 132 (55.5 bits)