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= 0005.0008.p
         (616 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312542|ref|YP_003776634.1| TonB-dependent receptor protein...  1175   0.0  

>gi|300312542|ref|YP_003776634.1| TonB-dependent receptor protein
           [Herbaspirillum seropedicae SmR1]
          Length = 755

 Score = 1175 bits (3039), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 585/592 (98%), Positives = 588/592 (99%)

Query: 1   MLSVLSAWSGAALAQQSAVEASDAAALPTIEVRGTVAAPQRTQLPQTSASVTADTAADTI 60
           +LSVLSAWSGAALAQQSAVEASDAAALPTIEVRGTVAAPQRTQLPQTSASVTADTAADTI
Sbjct: 12  ILSVLSAWSGAALAQQSAVEASDAAALPTIEVRGTVAAPQRTQLPQTSASVTADTAADTI 71

Query: 61  NVTDSADALKYLPSLSVRKRYIGDTQSPLATRTTGINASARSLVYADGILLSALVNNNNG 120
           NVTDSADALKYLPSLSVRKRYIGDTQSPLATRTTG+NASARSLVYADGILLSALVNNNNG
Sbjct: 72  NVTDSADALKYLPSLSVRKRYIGDTQSPLATRTTGVNASARSLVYADGILLSALVNNNNG 131

Query: 121 NGSPRWFMVAPEEIARIDVMYGPFAAEYPGNSYGAVTEITTRMPERFEASIKTQYAQQDF 180
           NGSPRWFMVAPEEIARIDVMYGPFAAEYPGNSYGAVTEITTRMPERFEASIKTQYAQQDF
Sbjct: 132 NGSPRWFMVAPEEIARIDVMYGPFAAEYPGNSYGAVTEITTRMPERFEASIKTQYAQQDF 191

Query: 181 SQYGVSGTYRAQEVNVGLGNRSGALAWRFSVNHLDSYSPPVTYVTAATAPAGSTGAVATQ 240
           SQYGVSGTYRAQEVNVGLGNRSGALAWRFSVNHLDSYSPPVTYVTAATAPAGSTGAVATQ
Sbjct: 192 SQYGVSGTYRAQEVNVGLGNRSGALAWRFSVNHLDSYSPPVTYVTAATAPAGSTGAVATQ 251

Query: 241 DRLGRNIQVLGAGNLTHTVQDTARLKLSYDFTPTLTATYTLGFWQNQANATPQTFLRNAV 300
           DRLGRNIQVLGAGNLTHTVQDTARLKLSYDFTPTLTATYTLGFWQNQANATP TFLRNAV
Sbjct: 252 DRLGRNIQVLGAGNLTHTVQDTARLKLSYDFTPTLTATYTLGFWQNQANATPHTFLRNAV 311

Query: 301 GAPVYTSGFNSNTVEQQQWMQGLEVRSHTDGVWDWQVAASAISSSRDLTRTSTTTLPAGL 360
           GAPVYTSGFNSNTVEQQQWMQGLEVRSHTDGVWDWQVAASAISSSRDLTRTSTTTLPAGL
Sbjct: 312 GAPVYTSGFNSNTVEQQQWMQGLEVRSHTDGVWDWQVAASAISSSRDLTRTSTTTLPAGL 371

Query: 361 AGAGTIADASGTGWRTLDAKGIWRPQGSTQVISVGAHYDRYTLATPTWNTSNWSSGSAGA 420
           AGAG+IADASGTGW TLDAKGIWRPQGS QVISVGAHYDRYTLATPTWNTSNWSSGSAGA
Sbjct: 372 AGAGSIADASGTGWSTLDAKGIWRPQGSAQVISVGAHYDRYTLATPTWNTSNWSSGSAGA 431

Query: 421 LNADSRGKTTTSALWAQDAWRFSPGWKATLGARYEWWRAFGGFNYSTNGSGVGFPVTQPE 480
           LNADSRGKTTTSALWAQDAWRFSPGWKATLGARYEWWRAFGGFNYSTNGSGVGFPVTQPE
Sbjct: 432 LNADSRGKTTTSALWAQDAWRFSPGWKATLGARYEWWRAFGGFNYSTNGSGVGFPVTQPE 491

Query: 481 VSHSGLSPKATLAWALAEDWLATLSTGRALRFPTVGELYQNVSVGSVFLQANPNLKPEKV 540
           VSHSGLSPKATLAWALAEDWL TLSTGRALRFPTVGELYQNVSVGSVFLQANPNLKPEKV
Sbjct: 492 VSHSGLSPKATLAWALAEDWLVTLSTGRALRFPTVGELYQNVSVGSVFLQANPNLKPEKV 551

Query: 541 WSTELAIERQLKEGQGKWRVSLFEERVSDALISQSSTIGSSVASFTQNVDRT 592
           WSTELAIERQLKEGQGKWRVSLFEERVSDALISQSSTIGSSVASFTQNVDRT
Sbjct: 552 WSTELAIERQLKEGQGKWRVSLFEERVSDALISQSSTIGSSVASFTQNVDRT 603


  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
   0.313    0.126    0.379 

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: 1,873,674
Number of extensions: 77573
Number of successful extensions: 211
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 215
Number of HSP's successfully gapped: 1
Length of query: 616
Length of database: 1,619,870
Length adjustment: 91
Effective length of query: 525
Effective length of database: 1,188,985
Effective search space: 624217125
Effective search space used: 624217125
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 133 (55.8 bits)