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= 0001.0070.p
         (338 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309403|ref|YP_003773495.1| nitrate/sulfonate/bicarbonate A...   376   e-105
gi|300311839|ref|YP_003775931.1| nitrate/sulfonate/bicarbonate A...   244   6e-66

>gi|300309403|ref|YP_003773495.1| nitrate/sulfonate/bicarbonate ABC
           transporter periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 342

 Score =  376 bits (965), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 175/339 (51%), Positives = 246/339 (72%), Gaps = 1/339 (0%)

Query: 1   MPSLRKSYKSFAALLASLITLGSAANAHAEGSIRIAQQFGIGYLILDVVQDQKLIEKYGK 60
            PS ++  +       +L  LG+   A AEG +RIA+QFGI YL+L+V QDQ+LIEK+GK
Sbjct: 4   FPSFKERLRRLLTATLALSLLGAPLMARAEGQLRIAEQFGIVYLLLNVAQDQQLIEKHGK 63

Query: 61  QEGLDIKVEWTSLSGATGMNEALLAGALDVVSAGAPPALVLWDRTRGRQNVKAIASLGSM 120
             G+DIKVEW  LSG + +N+ALL+G++D+  AG  P L +WDRT GRQNV+  ASLG+ 
Sbjct: 64  AAGVDIKVEWLKLSGGSAINDALLSGSVDIAGAGVGPLLTIWDRTYGRQNVRGAASLGNF 123

Query: 121 PNYLLSNNPQVKSIKDFSDKDRIAVPAAGVGFQSRTLQIETAKVYGKADFKRFDRITVSL 180
           P YL+SNNP+VK+I DFSDKDRIA+PA GV  QSR LQ+ +AK++G A + R D+I++++
Sbjct: 124 PYYLVSNNPKVKTIADFSDKDRIALPAVGVSVQSRVLQLASAKLWGDAQYNRLDKISIAV 183

Query: 181 SHPDATAALIAGGSEINAHFSSPPFQYQALE-HKNVHKVISSYDILGGPATFNVLYTTQK 239
            HPDATAA+I+GG+EI  HF +PPFQ Q L  + N H V+ SYD+LGGP++  VLY T+K
Sbjct: 184 PHPDATAAIISGGTEITGHFGNPPFQEQELAGNPNAHIVLKSYDVLGGPSSATVLYATEK 243

Query: 240 FHDDNPKTYRAFYQALVEAAEFVRNNKDKAADTFIRVQKSKLSPQFVRRIVEDPEINFTV 299
           F  DNPKTYRAF  AL E A F+R N DKAAD +++V K     + + +I+++PE+ F +
Sbjct: 244 FRKDNPKTYRAFLDALEETASFIRANPDKAADIYLKVNKGNTDRKLLLQIIKNPEVQFKI 303

Query: 300 SPERSFVYAEKLYELGILKNRASSWKDYFFEEAYAQPGS 338
           +P+ ++  AE ++ +G +KN+ +S KDYFF++ + Q GS
Sbjct: 304 APQNTYGLAEFMHRVGAIKNKPASVKDYFFDDPHVQGGS 342


>gi|300311839|ref|YP_003775931.1| nitrate/sulfonate/bicarbonate ABC
           transporter periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 341

 Score =  244 bits (623), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 129/340 (37%), Positives = 203/340 (59%), Gaps = 7/340 (2%)

Query: 5   RKSYKSFAALL-ASLITL-GSAANAHAEG-SIRIAQQFGIGYLILDVVQDQKLIEKYGKQ 61
           R + ++F +L+ AS + L G +  AHAE   +RI+  +G+ YL L V++DQ L+EK+ K 
Sbjct: 3   RYTRRTFTSLMIASALALSGVSGTAHAEAQEVRISHGYGLLYLPLMVIRDQNLVEKHAKA 62

Query: 62  EGL-DIKVEWTSLSGATGMNEALLAGALDVVSAGAPPALVLWDRTRG--RQNVKAIASLG 118
            GL ++K +W  L G   +N+A+LAG LD+   GAP  + LW +  G  R  V  + +L 
Sbjct: 63  MGLGEVKTKWVLLDGGNVINDAMLAGNLDIAGTGAPGFVTLWSKAHGIPRSEVVGLGALS 122

Query: 119 SMPNYLLSNNPQVKSIKDFSDKDRIAVPAAGVGFQSRTLQIETAKVYGKADFKRFDRITV 178
           + P +L +NNP VKS+KDF+ KD+IA+P       +  LQ+  AK +G  ++ + D +TV
Sbjct: 123 TSPLWLNTNNPNVKSLKDFTPKDKIAIPGIKTSLSAVLLQMAAAKTFGIENYAKLDPLTV 182

Query: 179 SLSHPDATAALIAGGSEINAHFSSPPFQYQALEHKNVHKVISSYDILGGPATFNVLYTTQ 238
           SLSHP+A A+L++G +EI AHF+SPPF YQ  +   + +V++S D+LG   T +V++  +
Sbjct: 183 SLSHPEAMASLVSGKTEITAHFTSPPFSYQEAKAPGITRVLNSTDVLGH-ITIDVVFALK 241

Query: 239 KFHDDNPKTYRAFYQALVEAAEFVRNNKDKAADTFIRVQKSKLSPQFVRRIVEDPEINFT 298
            F D NPK  +AF  A  EA  ++  N+  AA+ F+RV K KL  + V +++ DP   FT
Sbjct: 242 SFTDKNPKLTQAFMAAQEEANAYIAKNRKGAAEIFLRVSKLKLPQEEVEQMLADPGTEFT 301

Query: 299 VSPERSFVYAEKLYELGILKNRASSWKDYFFEEAYAQPGS 338
            +P     Y   + + G +K + + W + F      + GS
Sbjct: 302 STPVDIMQYVVFMSKAGTIKTKPAVWHEMFVPAFKERKGS 341


  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    0.132    0.376 

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: 1,032,159
Number of extensions: 41154
Number of successful extensions: 116
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 112
Number of HSP's successfully gapped: 2
Length of query: 338
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 252
Effective length of database: 1,212,660
Effective search space: 305590320
Effective search space used: 305590320
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: 131 (55.1 bits)