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= 0241.0049.p
         (287 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313582|ref|YP_003777674.1| site-specific integrase/recombi...   258   3e-70
gi|300310183|ref|YP_003774275.1| site specific integrase/recombi...    73   3e-14

>gi|300313582|ref|YP_003777674.1| site-specific
           integrase/recombinase [Herbaspirillum seropedicae SmR1]
          Length = 330

 Score =  258 bits (660), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 135/215 (62%), Positives = 157/215 (73%), Gaps = 5/215 (2%)

Query: 52  DANQAEIDRYLDSLQSQRMLSPHTVSNYGRDLAELSELAQAAGAE-----LDAVSHFQIR 106
           +A    I +YL  L++QR LS HTV +YGRDL EL  L   AG E     L   +  QIR
Sbjct: 7   NATTGLIGQYLSFLRTQRKLSDHTVEHYGRDLQELRSLLAPAGEEHADIDLRKTTQVQIR 66

Query: 107 KFAAQLHARGLNARSIARKLSAWRGFYNWLSEQGRLKSNPVDGVKAPKKARPLPKALAAD 166
           K AA+LHARGLNARSIARKLSAWRGF+ WLS Q  L +NPVDGVKAPKK++PLPKALAAD
Sbjct: 67  KCAARLHARGLNARSIARKLSAWRGFFGWLSMQMDLAANPVDGVKAPKKSKPLPKALAAD 126

Query: 167 DAVHLVSQANPLKDAAAPAQLCNRAMFELLYSSGLRVSELVGLDVQYRQEAGYVSAGWID 226
           DA+ LVSQ +P++D  +    CNRAMFELLYSSGLRVSELVG+DV   +E GY SAGW+D
Sbjct: 127 DAIRLVSQPDPVRDPDSTLAACNRAMFELLYSSGLRVSELVGIDVADVREGGYESAGWVD 186

Query: 227 MDSNEVTVTGKGNKMRSVPVGKPAMEALRTWLTAR 261
           ++  EVTVTGKG K R VPVG+ A  AL  WL  R
Sbjct: 187 LEEAEVTVTGKGGKKRKVPVGQAARAALADWLPLR 221


>gi|300310183|ref|YP_003774275.1| site specific
           integrase/recombinase [Herbaspirillum seropedicae SmR1]
          Length = 307

 Score = 73.2 bits (178), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 65/213 (30%), Positives = 102/213 (47%), Gaps = 20/213 (9%)

Query: 58  IDRYLDSLQSQRMLSPHTVSNYGRDLAELSELAQAAGAELDAVSHFQIRKFAAQLHARGL 117
           ID + DSL  +  LS +T+  Y RD+   +       A+  A+   Q     A   AR  
Sbjct: 18  IDEFCDSLWLEDGLSKNTLEAYRRDMTRYAHWLYQERAK--ALYETQAEDLNAYFAARHD 75

Query: 118 NAR--SIARKLSAWRGFYNWLSEQGRLKSNPVDGVKAPKKARPLPKALAADDAVHLVSQA 175
             +  S  R+L+  + F+     Q  + ++P   +++ ++ +  PK L+      L+  A
Sbjct: 76  QTKPSSSNRRLAVLKRFFQLALRQHHVAADPCLKLRSARQPQRFPKTLSEGQVEALL--A 133

Query: 176 NPLKDAAAPAQLCNRAMFELLYSSGLRVSELVGLDVQYRQEAGYVSAGWIDMDSNEVTVT 235
            P  D + P  L +RAM EL+Y+SGLRVSELV L            +  + M+   + VT
Sbjct: 134 AP--DVSTPLGLRDRAMIELMYASGLRVSELVLL-----------KSIEVGMNEGVLRVT 180

Query: 236 GKGNKMRSVPVGKPAMEALRTWLT-ARETVVAG 267
           GKG+K R VP G+ A   L  +L  AR  ++ G
Sbjct: 181 GKGSKTRLVPFGEEAGSWLMRYLAEARAQILQG 213


  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
   0.318    0.130    0.399 

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: 703,299
Number of extensions: 25256
Number of successful extensions: 124
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 121
Number of HSP's successfully gapped: 2
Length of query: 287
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 203
Effective length of database: 1,222,130
Effective search space: 248092390
Effective search space used: 248092390
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 (21.7 bits)
S2: 130 (54.7 bits)