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= 0007.0017.p
         (439 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...   795   0.0  

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

 Score =  795 bits (2052), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 381/411 (92%), Positives = 397/411 (96%), Gaps = 1/411 (0%)

Query: 29  DRVDGKRRTLLQGGALAAGSGMLGMLPGGAWAAGSDKPEKEEVKIGFIPLTDCASVVMAS 88
           ++VDGKRRTL+QG  LAA +G LG+   GAWAAGSDKPEKEEVKIGFIPLTDCASVVMAS
Sbjct: 5   EQVDGKRRTLIQGAGLAA-TGALGLAGRGAWAAGSDKPEKEEVKIGFIPLTDCASVVMAS 63

Query: 89  VLGFDKKYGIKIVPSKEASWAGVRDKLTNGELDAAHVLYGLIYGVQLGIGGQKKDMAVLM 148
           VLG DKKYGIKI+PSKEASWAGVRDKLTNGELDAAHVLYGLIYGVQLGIGGQKKDMAVLM
Sbjct: 64  VLGLDKKYGIKIIPSKEASWAGVRDKLTNGELDAAHVLYGLIYGVQLGIGGQKKDMAVLM 123

Query: 149 GLNHNGQAITLSKKLADKGAVDGASLYKLMQTDKREYTFAQTFPTGTHAMWLYYWLAANG 208
           GLNHNGQAITLS+KLADKGAVDGASLYKLMQTDKREYTFAQTFPTGTHAMWLYYWLAANG
Sbjct: 124 GLNHNGQAITLSRKLADKGAVDGASLYKLMQTDKREYTFAQTFPTGTHAMWLYYWLAANG 183

Query: 209 INPMKDAKVITVPPPQMVANMRVGNMDGFCVGEPWGHRAIVDGVGITAITTQDIWKDHPE 268
           INPMKDAKVITVPPPQMVANMRVGNMDGFCVGEPWGHRAIVDGVGITA TTQDIWKDHPE
Sbjct: 184 INPMKDAKVITVPPPQMVANMRVGNMDGFCVGEPWGHRAIVDGVGITATTTQDIWKDHPE 243

Query: 269 KVLGTSLEFVQKYPNTCRAMMAAILEASKWIDASLANKNKMAEVIADKSYVNTSKDVIDQ 328
           KVLG+SLEFV+KYPNTCRAMMAAILEASKWIDASL NKN+MAEVIADKSYVNTSKDVIDQ
Sbjct: 244 KVLGSSLEFVKKYPNTCRAMMAAILEASKWIDASLTNKNRMAEVIADKSYVNTSKDVIDQ 303

Query: 329 RILGRYQNGLGKTWDDPNYMKFYDEGQVNFPFLSDGMWFMTQHRRWGLLKSDPDYLAVAK 388
           RILGRYQNGLGKTWDDPNYMKFY++GQVNFPFLSDGMWFMTQHRRWGLLKSDPDYLAVAK
Sbjct: 304 RILGRYQNGLGKTWDDPNYMKFYEDGQVNFPFLSDGMWFMTQHRRWGLLKSDPDYLAVAK 363

Query: 389 SVNQIDLYKDAAAMTKTPLPKEVMRSSKLMDGTVWDGKNPAAYAQAFKIKV 439
           +VNQIDLYK AAAMT TPLPK+ MRSS+LMDG VWDGKNPAAYAQ+FKIKV
Sbjct: 364 AVNQIDLYKQAAAMTGTPLPKDSMRSSRLMDGVVWDGKNPAAYAQSFKIKV 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    0.404 

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: 1,354,880
Number of extensions: 54598
Number of successful extensions: 176
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 175
Number of HSP's successfully gapped: 1
Length of query: 439
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 351
Effective length of database: 1,203,190
Effective search space: 422319690
Effective search space used: 422319690
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)