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= 0011.0300.p
         (555 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311593|ref|YP_003775685.1| ATP-dependent DNA ligase [Herba...  1103   0.0  
gi|300311586|ref|YP_003775678.1| ATP-dependent DNA ligase [Herba...    64   3e-11

>gi|300311593|ref|YP_003775685.1| ATP-dependent DNA ligase
           [Herbaspirillum seropedicae SmR1]
          Length = 555

 Score = 1103 bits (2853), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 550/555 (99%), Positives = 552/555 (99%)

Query: 1   MREFSRLYGELDATTSTTRKLAALEDYFGRADPADAAWAVYFLAGGKPRQAVPTSLLKQC 60
           MREFSRLYGELDATTSTTRKLAALEDYFGRADPADAAWAVYFLAGGKPRQAVPTSLLKQC
Sbjct: 1   MREFSRLYGELDATTSTTRKLAALEDYFGRADPADAAWAVYFLAGGKPRQAVPTSLLKQC 60

Query: 61  AMEYAQIDEWLFEECYQSVGDLAETIAHILPPASGSNPLGLARWMEERIAPLRGAAPETI 120
           AMEYAQIDEWLFEECYQSVGDLAETIAHILPPASGSNPLGLARW+EERIAPLRGAAPETI
Sbjct: 61  AMEYAQIDEWLFEECYQSVGDLAETIAHILPPASGSNPLGLARWVEERIAPLRGAAPETI 120

Query: 121 RAALFQAWDELDWQGRFLLSKLIGGGFRVGVSRLLVTRALAAVAQLDAKLVAQRMVGWTD 180
           RAALFQAWDELDWQGRFLLSKLIGGGFRVGVSRLLVTRALAAVAQLDAKLVAQRMVGWTD
Sbjct: 121 RAALFQAWDELDWQGRFLLSKLIGGGFRVGVSRLLVTRALAAVAQLDAKLVAQRMVGWTD 180

Query: 181 GRARPDAERFARLIAPADSADQPLQGGQPYPFFLAHPLLDAPATLGPIQQWQVEWKYDGI 240
           GRARPDAERFARLIAPADSADQPLQGGQPYPFFLAHPL+DAPATLGPIQQWQVEWKYDGI
Sbjct: 181 GRARPDAERFARLIAPADSADQPLQGGQPYPFFLAHPLMDAPATLGPIQQWQVEWKYDGI 240

Query: 241 RAQLVRRHGQNWLWSRGEELITERFPELAALPLPDGTVIDGEIVIRHPDAGLAAERVAPF 300
           RAQLVRRHGQNWLWSRGEELITERFPELAALPLPDGTVIDGEIVIRHPDAGLAAERVAPF
Sbjct: 241 RAQLVRRHGQNWLWSRGEELITERFPELAALPLPDGTVIDGEIVIRHPDAGLAAERVAPF 300

Query: 301 SELQKRIGRKNLSARLLAELPAGLIAYDLLEQDGCDLRGLPQCERRRRLEALVGSHPAAA 360
           SELQKRIGRKNLSARLLAELPAGLIAYDLLEQDGCDLRGLPQ ERRRRLEALVGSHPAAA
Sbjct: 301 SELQKRIGRKNLSARLLAELPAGLIAYDLLEQDGCDLRGLPQSERRRRLEALVGSHPAAA 360

Query: 361 LMLAPTLNAKDWDALAQLRASARERGVEGMMLKDIDARYGIGRTRNDGTWWKWKIDPYSI 420
           LMLAPTL AKDWDALAQLRASARERGVEGMMLKDIDARYGIGRTRNDGTWWKWKIDPYSI
Sbjct: 361 LMLAPTLTAKDWDALAQLRASARERGVEGMMLKDIDARYGIGRTRNDGTWWKWKIDPYSI 420

Query: 421 DAVLIYAQAGHGRRASLYTDYTFALWDGPPEAGSQRKLVPFAKAYSGLTDAEIAVVDQVI 480
           DAVLIYAQAGHGRRASLYTDYTFALWDGPPEAGSQRKLVPFAKAYSGLTDAEIAVVDQVI
Sbjct: 421 DAVLIYAQAGHGRRASLYTDYTFALWDGPPEAGSQRKLVPFAKAYSGLTDAEIAVVDQVI 480

Query: 481 RKSTIEKFGPVRSVQPSMVFEIGFEGIALSSRHKAGMAVRFPRILRQRLDKTVEQADTLA 540
           RKSTIEKFGPVRSVQPSMVFEIGFEGIALSSRHKAGMAVRFPRILRQRLDKTVEQADTLA
Sbjct: 481 RKSTIEKFGPVRSVQPSMVFEIGFEGIALSSRHKAGMAVRFPRILRQRLDKTVEQADTLA 540

Query: 541 TLRALLPPSPHPEQR 555
           TLRALLPPSP PEQR
Sbjct: 541 TLRALLPPSPQPEQR 555


>gi|300311586|ref|YP_003775678.1| ATP-dependent DNA ligase
           [Herbaspirillum seropedicae SmR1]
          Length = 856

 Score = 63.9 bits (154), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 76/277 (27%), Positives = 121/277 (43%), Gaps = 42/277 (15%)

Query: 229 QQWQVEWKYDGIRAQLVRRHGQNWLWSRGEELITERFP----ELAALPLPDGTVIDGEIV 284
           +QW  E K+DG R      HGQ  +++R     + R+P     LA LP+ D   IDGE+V
Sbjct: 230 EQWLCELKFDGYRGLCRIDHGQAAIYTREGLDWSHRWPILVQALARLPV-DEAWIDGEVV 288

Query: 285 IRHPDAGLAAERVAPFSELQK--RIGRKNLSARLLAELPAGLIAYDLLEQDGCDLRGLPQ 342
                  L A+    F  LQ   R  R+      LA     L A+DLL  +G DLR +P 
Sbjct: 289 ------ALDAQGQISFEALQNLARGDRQQADGIRLA-----LYAFDLLYLNGHDLRDIPL 337

Query: 343 CERRRRLEALV-GSHPAAALMLAPTLNAKDWDALAQLRASARERGVEGMMLKDIDARYGI 401
            +R+  L  L+ GS P   L+ +  +        A++   A + G+EG++LK  DA Y  
Sbjct: 338 RQRKALLRELIPGSDPEGLLLYSEHIEGH----AAEVFRHACQHGMEGIVLKRADAPY-- 391

Query: 402 GRTRNDGTWWKWKIDPYSIDAVLIYAQAGHGRRASLYTDYTFALWDGPPEAGSQRKLVPF 461
              R D  W K K +      +  Y +   G+R+  +      ++D         +L   
Sbjct: 392 -TGRRDRYWLKLKCEHRQEFVIAGYTEPA-GQRSG-FGAILVGVYD------EHEQLRYA 442

Query: 462 AKAYSGLTDAEIAVVDQVIRKSTIEKFGPVRSVQPSM 498
            +  +G  D         + ++ +++FGP+   QP+ 
Sbjct: 443 GRVGTGFDDK--------LLETLLKQFGPLEQDQPAF 471


  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
   0.321    0.137    0.421 

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: 1,961,457
Number of extensions: 91944
Number of successful extensions: 271
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 271
Number of HSP's successfully gapped: 2
Length of query: 555
Length of database: 1,619,870
Length adjustment: 90
Effective length of query: 465
Effective length of database: 1,193,720
Effective search space: 555079800
Effective search space used: 555079800
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 (21.9 bits)
S2: 133 (55.8 bits)