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= 0001.3228.p
         (897 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312567|ref|YP_003776659.1| DNA mismatch repair protein [He...  1723   0.0  

>gi|300312567|ref|YP_003776659.1| DNA mismatch repair protein
           [Herbaspirillum seropedicae SmR1]
          Length = 894

 Score = 1723 bits (4462), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 845/897 (94%), Positives = 865/897 (96%), Gaps = 3/897 (0%)

Query: 1   MTKDLAAHTPMMQQYLRIKADHPNTLVFYRMGDFYELFFEDAEKASRLMGVTLTQRGSSN 60
           MTKDLAAHTPMMQQYLRIKADHPNTLVFYRMGDFYELFFEDAEKASRLMGVTLTQRGSSN
Sbjct: 1   MTKDLAAHTPMMQQYLRIKADHPNTLVFYRMGDFYELFFEDAEKASRLMGVTLTQRGSSN 60

Query: 61  GNPIKMAGVPFHSVEQYLARLIKLGESVAICEQIGDPATSKGPVERKVVRVVTPGTLTDS 120
           G PIKMAGVPFHSVEQYLARLIKLGESVAICEQIGDPATSKGPVERKVVRVVTPGTLTDS
Sbjct: 61  GTPIKMAGVPFHSVEQYLARLIKLGESVAICEQIGDPATSKGPVERKVVRVVTPGTLTDS 120

Query: 121 DLLPEKAERCLLAMQLLPSKSRKQMQVGLAWLSMASGALKMMEFTVEAHLLDGRVKQELE 180
           DLLPEKAERCLLAMQL+PSKSRKQMQVGL+WLSMASGALKMMEFTVEA LLDGRVKQELE
Sbjct: 121 DLLPEKAERCLLAMQLVPSKSRKQMQVGLSWLSMASGALKMMEFTVEAALLDGRVKQELE 180

Query: 181 RISAAEVLVAEGQLEQCEPLLPNRAVTVPDWHFDQPSSEKALLDQLGVATLHGFGADGLG 240
           RISAAEVLVA+GQLE CEPLLPNRAVTVPDWHFDQPSSEKALLDQLGVATLHGFGADGLG
Sbjct: 181 RISAAEVLVADGQLEWCEPLLPNRAVTVPDWHFDQPSSEKALLDQLGVATLHGFGADGLG 240

Query: 241 PAICAAGALLRYAQSTQGRGLQHVRTLTVESENEFIGLDAATRRNLELTETIRAQDANTL 300
           PAICAAGALLRYAQSTQGRGLQHVRTLTVESENEFIGLDAATRRNLELTETIR+QDAN L
Sbjct: 241 PAICAAGALLRYAQSTQGRGLQHVRTLTVESENEFIGLDAATRRNLELTETIRSQDANAL 300

Query: 301 APTLFSTLDHCRTAMGSRLLRHWLHHALRDQQVARARHAAINALMRTDACSGLSATLAAV 360
           APTLFSTLDHCRTAMGSRLLRHWLHHALRDQQVARARHAAINALMRTDACSGLSATLAAV
Sbjct: 301 APTLFSTLDHCRTAMGSRLLRHWLHHALRDQQVARARHAAINALMRTDACSGLSATLAAV 360

Query: 361 PDIERITTRIALLSARPRDLAGLRAGLQQLGSLRAYVEMCARDAEAPLLEQLHDDLATPV 420
           PDIERITTRIALLSARPRDLAGLRAGLQQLGSLRAYVEMC RDA+A LL QLH+DLATPV
Sbjct: 361 PDIERITTRIALLSARPRDLAGLRAGLQQLGSLRAYVEMCGRDADASLLTQLHEDLATPV 420

Query: 421 ECLDLLERAIMLDPAAMVRDGGVIARGFDAELDELRGLSENAGQYLLELEARERERTGIA 480
           ECLDLLERAIML+PAAMVRDGGVIARGFDAELDELRGLSENAGQYLL+LEARERERTGIA
Sbjct: 421 ECLDLLERAIMLEPAAMVRDGGVIARGFDAELDELRGLSENAGQYLLDLEARERERTGIA 480

Query: 481 NLRVEYNKVHGFYIEVTHGQTDKVPEDYRRRQTLKNAERYIIPELKAFEDKALSAQERSL 540
           NLRVEYNKVHGFYIEVTHGQTDKVPEDYRRRQTLKNAERYIIPELKAFEDKALSAQERSL
Sbjct: 481 NLRVEYNKVHGFYIEVTHGQTDKVPEDYRRRQTLKNAERYIIPELKAFEDKALSAQERSL 540

Query: 541 SREKFLYEQLLNDMGVHIVRLQAIAHALAQLDTLVALADHAVRNNWCAPQLVAEPCIQIE 600
           SREKFLYEQLL DMG HIVRLQAIAHALAQLDTLVALADHAVRNNWCAPQLV EPCIQIE
Sbjct: 541 SREKFLYEQLLGDMGAHIVRLQAIAHALAQLDTLVALADHAVRNNWCAPQLVDEPCIQIE 600

Query: 601 QGRHPVVENQIERFIANDCQLAAERKLLLITGPNMGGKSTFMRQVALITLLAYVGSFVPA 660
           QGRHPVVENQIERFIANDCQLAAER+LLLITGPNMGGKS FMRQVALITLLAYVGSFVPA
Sbjct: 601 QGRHPVVENQIERFIANDCQLAAERRLLLITGPNMGGKSIFMRQVALITLLAYVGSFVPA 660

Query: 661 TSAVIGPIDRIFTRIGAADDLAGGRSTFMVEMTESASILNNATEHSLVLMDEVGRGTSTF 720
           TSAVIGP+DRIFTRIGAADDLAGGRSTFMVEMTESA+ILNNATEHSLVLMDEVGRGTSTF
Sbjct: 661 TSAVIGPVDRIFTRIGAADDLAGGRSTFMVEMTESAAILNNATEHSLVLMDEVGRGTSTF 720

Query: 721 DGLALAWAIAKHLIDVTRSFTLFATHYFELTQLPDIHPSAANVHLSAVEHKDSIVFLHAV 780
           DGLALAWAIAKHLIDVTRSFTLFATHYFELTQLP+IHP+AANVHLSAVEHKDSIVFLHAV
Sbjct: 721 DGLALAWAIAKHLIDVTRSFTLFATHYFELTQLPEIHPTAANVHLSAVEHKDSIVFLHAV 780

Query: 781 QSGPASQSYGLQVAQLAGVPAPVIRAARKHLSALESQSMQPTSQFDLFSTPAFTEPASED 840
           QSGPASQSYGLQVAQLAGVPA VIRAARKHLSALESQSMQ T QFDLFS PAF  P ++D
Sbjct: 781 QSGPASQSYGLQVAQLAGVPAQVIRAARKHLSALESQSMQATPQFDLFSAPAFATPGTQD 840

Query: 841 EAEAEALDDERAAPEAVQADALAQALLQSLAGIDPDALTPRQALEALYQLKALSRGQ 897
           E +     DER+  +AV+ D LAQALLQ+LA IDPDALTPRQALEALYQLKAL   Q
Sbjct: 841 EPDPA---DERSESDAVEPDPLAQALLQTLAQIDPDALTPRQALEALYQLKALQAPQ 894


  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
   0.319    0.133    0.378 

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: 2,472,613
Number of extensions: 96791
Number of successful extensions: 429
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 428
Number of HSP's successfully gapped: 1
Length of query: 897
Length of database: 1,619,870
Length adjustment: 94
Effective length of query: 803
Effective length of database: 1,174,780
Effective search space: 943348340
Effective search space used: 943348340
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 135 (56.6 bits)