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= 0001.0270.p
         (810 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309633|ref|YP_003773725.1| TonB-dependent receptor protein...  1478   0.0  

>gi|300309633|ref|YP_003773725.1| TonB-dependent receptor protein
           [Herbaspirillum seropedicae SmR1]
          Length = 807

 Score = 1478 bits (3826), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 724/811 (89%), Positives = 772/811 (95%), Gaps = 5/811 (0%)

Query: 1   MQCKLTRLSLLISGLFMAGAPAFAQTTTDVGTVTVQGGSASAGTAAATG-LIQAEDSPKA 59
           MQCKLTRLSLLISGLF+AGAPA AQTTT+VGTVTVQGG +++   AA   LIQAEDSPKA
Sbjct: 1   MQCKLTRLSLLISGLFIAGAPALAQTTTNVGTVTVQGGGSASAGTAAATGLIQAEDSPKA 60

Query: 60  RSSVNRDYIEKQSPTGTPYQMINLLPGVNTYDNDGTGLFGGNIRVRGFNSDQLGFTINGA 119
           RSSVNR+Y+EKQSPT  PYQMINLLPGVNTYDNDG+GLFGGNIRVRGFNSDQLGFTINGA
Sbjct: 61  RSSVNREYMEKQSPTSNPYQMINLLPGVNTYDNDGSGLFGGNIRVRGFNSDQLGFTINGA 120

Query: 120 PVNDSGNFAVYPQEYTEPDNLCNVFVTQGSTDTEAPHVGATGGNIGMTFCSPEDKQRIRV 179
           PVNDSG+FAVYPQ+YT+P+NLC+VFVTQGSTDTEAPHVGA+GGNIGM FC+PED+QRIRV
Sbjct: 121 PVNDSGSFAVYPQQYTDPENLCDVFVTQGSTDTEAPHVGASGGNIGMAFCAPEDQQRIRV 180

Query: 180 TNAFGSNSLWKRYVRFDSGKLFDDKFKFFISYSKTTADKFKGPGGAIKDHVDFGSNFDLG 239
           TNAFGSNSLWKRYVRFDSGKL D++FKFFISYSKTTADKFKGPGGAIKDHVD G+NFDLG
Sbjct: 181 TNAFGSNSLWKRYVRFDSGKLLDNRFKFFISYSKTTADKFKGPGGAIKDHVDIGTNFDLG 240

Query: 240 QGSFINANVLYNRQLNNNYRSLTKAQIAQLGPNADFGNIVPQHQPAVAGLAQNDTTYGPN 299
           QGSFINAN+LYNRQLNNNYRSLTK QIAQLG NADFG+I PQHQPAV G AQNDTTY PN
Sbjct: 241 QGSFINANLLYNRQLNNNYRSLTKTQIAQLGRNADFGSIAPQHQPAVGGTAQNDTTYAPN 300

Query: 300 VANNIANNAYYAYNLNPFENWLGTINAHFQLSPTSSIDVDPYFWYGFGTGGNQLQTVREG 359
           VA NIA N YYAYNLNPFENWLGTINAHFQLSPT+S+D+DPYFWYGFGTG NQLQTVREG
Sbjct: 301 VAANIAANGYYAYNLNPFENWLGTINAHFQLSPTASLDIDPYFWYGFGTGANQLQTVREG 360

Query: 360 GVAGASQLGGGAADVNGDGDRLDTVYAYEGSRTRTYRPGITFKFNQQLDNHRILAGYWVE 419
           GVAGASQ+GGGAAD+NGDGDRLDTVYAY+GSRTRTYRPG+TFKFNQQ+DNHR+LAGYWVE
Sbjct: 361 GVAGASQVGGGAADINGDGDRLDTVYAYQGSRTRTYRPGVTFKFNQQMDNHRLLAGYWVE 420

Query: 420 RARHQQTGPFSRVDNNGNIANLWQDNSDLWLRNADGSFLQYRDTMTVSTAQSIFLQDSIS 479
           RARHQQTGPFSRVDNNGNIANLWQDNSDLWLRNADGS LQYRDT+TVSTAQSIFLQDSIS
Sbjct: 421 RARHQQTGPFSRVDNNGNIANLWQDNSDLWLRNADGSILQYRDTLTVSTAQSIFLQDSIS 480

Query: 480 MMNDKLNVQVGGRYSSIDRDFTNYPSTGSTSGTNSYSSAAFYKVKKNYADFLPSVGVRFQ 539
           MMNDKLNVQVGGRYSSIDRDFTNYPS+G+ +     +SA FYKVKKNYADFLPS+GVRFQ
Sbjct: 481 MMNDKLNVQVGGRYSSIDRDFTNYPSSGAANN----ASAGFYKVKKNYADFLPSLGVRFQ 536

Query: 540 LDEKQSVFFNAAKNFKAPGNFSYFGLLSGGTIVNGQLVGATQRDVPVDKETSWNYDLGYR 599
           LD+ QSVFFNAAKNFKAPGNFSYFGLLSGGTIVNGQLVGATQR+VPVDKETSWNYDLGYR
Sbjct: 537 LDDAQSVFFNAAKNFKAPGNFSYFGLLSGGTIVNGQLVGATQREVPVDKETSWNYDLGYR 596

Query: 600 YNTDKWMASGSLFYIDYHNRIASAYNPDTNNKTDYNVGDSTSHGMELETGYAFTRNLSMY 659
           YNT+KWMAS SLFYIDYHNRIASAYNPDT NKTDYNVGD+TSHGMELE+GYAFTRNLSMY
Sbjct: 597 YNTEKWMASASLFYIDYHNRIASAYNPDTGNKTDYNVGDATSHGMELESGYAFTRNLSMY 656

Query: 660 GSLSYIKSKMKQDLRNGASQFLPTSGKEFPDTPNWLSGLSLQYQQDGWYVFGQGKYTGRR 719
           GSLSYIKSKMKQDLRN ++QFLPTSGKEFPDTPNWLSGLSLQYQQDGWYVFGQ KYTGRR
Sbjct: 657 GSLSYIKSKMKQDLRNSSTQFLPTSGKEFPDTPNWLSGLSLQYQQDGWYVFGQAKYTGRR 716

Query: 720 YTTLVNDDALGGYTVFNAGAGMTFASSTWLKKPTVRLNVYNLFDKQYLNLNGGSGSQFTT 779
           YTTLVNDDALGGYT+FNAGAGMTFAS+TWLKKPTVRLNVYNLFDKQYLNLNGGSGSQFTT
Sbjct: 717 YTTLVNDDALGGYTLFNAGAGMTFASTTWLKKPTVRLNVYNLFDKQYLNLNGGSGSQFTT 776

Query: 780 NAVAVNGVAGSAPSLYVSAPRTFTVTLTADF 810
           NAVAVNG+ G+ PSLY+ APRTFTVTLTADF
Sbjct: 777 NAVAVNGIPGTDPSLYIGAPRTFTVTLTADF 807


  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    0.400 

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: 2,371,349
Number of extensions: 96339
Number of successful extensions: 271
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 270
Number of HSP's successfully gapped: 2
Length of query: 810
Length of database: 1,619,870
Length adjustment: 93
Effective length of query: 717
Effective length of database: 1,179,515
Effective search space: 845712255
Effective search space used: 845712255
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: 135 (56.6 bits)