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= 0018.0003.p
         (312 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313251|ref|YP_003777343.1| excinuclease ATPase subunit [He...   613   e-177

>gi|300313251|ref|YP_003777343.1| excinuclease ATPase subunit
           [Herbaspirillum seropedicae SmR1]
          Length = 952

 Score =  613 bits (1582), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 292/312 (93%), Positives = 303/312 (97%)

Query: 1   MEEIRIRGARTHNLKNISLDLPRNKLIVITGLSGSGKSSLAFDTLYAEGQRRYVESLSSY 60
           MEEIRIRGARTHNLKNI+LDLPRNKLIVITGLSGSGKSSLAFDTLYAEGQRRYVESLS+Y
Sbjct: 1   MEEIRIRGARTHNLKNINLDLPRNKLIVITGLSGSGKSSLAFDTLYAEGQRRYVESLSAY 60

Query: 61  ARQFLQLMEKPDVDMIEGLSPAISIEQKATSHNPRSTVGTVTEIHDYLRLLYARVGTPYC 120
           ARQFLQLMEKPDVDMIEGLSPAISIEQKATSHNPRSTVGTVTEIHDYLRLLYARVGTPYC
Sbjct: 61  ARQFLQLMEKPDVDMIEGLSPAISIEQKATSHNPRSTVGTVTEIHDYLRLLYARVGTPYC 120

Query: 121 PDHPENPLAAQSVSQMVDAVLAMPEDTKLMILAPVVANRKGEHVDLFEQMQAHGFVRFRI 180
           PDHPE+PL AQSVSQMVDAVLA+PEDTKLMI+APVVANRKGEH DLFE+MQA GFVRFRI
Sbjct: 121 PDHPEHPLEAQSVSQMVDAVLALPEDTKLMIMAPVVANRKGEHADLFEEMQAQGFVRFRI 180

Query: 181 QSGTGTAKVYEIDDLPKLKKTEKHTIDVVIDRVKVKADIKQRLAESFETALRIAEGRAIA 240
           QSGTGTAKVYE+DDLPKLKKTEKHTIDVVIDRVKVKADIKQRLAESFETALR+A+GRAIA
Sbjct: 181 QSGTGTAKVYEVDDLPKLKKTEKHTIDVVIDRVKVKADIKQRLAESFETALRLADGRAIA 240

Query: 241 LEMDTAKEHLYSNKFACPTCGYSLQELEPRLFSFNNPMGACPECDGLGHIEFFDPKRIVA 300
           LEMD+ KEHLYSNKFACP CGYSLQELEPRLFSFNNPMGACPECDGLGHIEFFDPKRIVA
Sbjct: 241 LEMDSGKEHLYSNKFACPICGYSLQELEPRLFSFNNPMGACPECDGLGHIEFFDPKRIVA 300

Query: 301 FPNLSGGSKPIR 312
           FPNLS  S  I+
Sbjct: 301 FPNLSLASGAIK 312



 Score = 61.2 bits (147), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 39/112 (34%), Positives = 55/112 (49%), Gaps = 7/112 (6%)

Query: 4   IRIRGARTHNLKNISLDLPRNKLIVITGLSGSGKSSLAFDTLYAEGQRRYVESLSSYARQ 63
           + I GA  +NLKN+ L+LP   L  +TG+SGSGKS+L  DTLY    R    S +  A  
Sbjct: 621 LTISGATGNNLKNVDLELPVGLLTCVTGVSGSGKSTLVNDTLYLSAARHLYGSQTEPAAH 680

Query: 64  FLQLMEKPDVDMIEGLSPAISIEQKATSHNPRSTVGTVTEIHDYLRLLYARV 115
                    +  +E     I+++Q      PRS   T T +   +R L+A V
Sbjct: 681 -------EAIGGLEHFDKVIAVDQAPIGRTPRSNPATYTGLFTPIRDLFATV 725


  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    0.135    0.389 

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: 926,010
Number of extensions: 36922
Number of successful extensions: 226
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 225
Number of HSP's successfully gapped: 2
Length of query: 312
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 227
Effective length of database: 1,217,395
Effective search space: 276348665
Effective search space used: 276348665
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 (21.7 bits)
S2: 130 (54.7 bits)