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= 0031.0317.p
         (326 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...   658   0.0  
gi|300310183|ref|YP_003774275.1| site specific integrase/recombi...   130   2e-31

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

 Score =  658 bits (1698), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 324/326 (99%), Positives = 324/326 (99%)

Query: 1   VENATTGLIGQYLSFLRTQRKLSDHTVEHYGRDLQELRSLLAPAGEEHADIDLRKTTQVH 60
           VENATTGLIGQYLSFLRTQRKLSDHTVEHYGRDLQELRSLLAPAGEEHADIDLRKTTQV 
Sbjct: 5   VENATTGLIGQYLSFLRTQRKLSDHTVEHYGRDLQELRSLLAPAGEEHADIDLRKTTQVQ 64

Query: 61  IRKCAARLHARGLNARSIARKLSAWRGFFGWLSMQMDLAANPVDGVKAPKKSKPLPKALA 120
           IRKCAARLHARGLNARSIARKLSAWRGFFGWLSMQMDLAANPVDGVKAPKKSKPLPKALA
Sbjct: 65  IRKCAARLHARGLNARSIARKLSAWRGFFGWLSMQMDLAANPVDGVKAPKKSKPLPKALA 124

Query: 121 ADDAIRLVSQPDPVRDPDSTLAACNRAMFELLYSSGLRVSELVGIDVADVREGGYESAGW 180
           ADDAIRLVSQPDPVRDPDSTLAACNRAMFELLYSSGLRVSELVGIDVADVREGGYESAGW
Sbjct: 125 ADDAIRLVSQPDPVRDPDSTLAACNRAMFELLYSSGLRVSELVGIDVADVREGGYESAGW 184

Query: 181 VDLEEAEVTVTGKGGKKRKVPVGQAARAALADWLPLRARLRKADGGPDSHALFLNERGAR 240
           VDLEEAEVTVTGKGGKKRKVPVGQAARAALADWLPLRARLRKADGGPDSHALFLNERGAR
Sbjct: 185 VDLEEAEVTVTGKGGKKRKVPVGQAARAALADWLPLRARLRKADGGPDSHALFLNERGAR 244

Query: 241 ISPRVAQLRLKTHGRALEMASDVHPHMLRHSFASHVLQSSGDLRAVQEMLGHASITATQV 300
           ISPRVAQLRLK HGRALEMASDVHPHMLRHSFASHVLQSSGDLRAVQEMLGHASITATQV
Sbjct: 245 ISPRVAQLRLKAHGRALEMASDVHPHMLRHSFASHVLQSSGDLRAVQEMLGHASITATQV 304

Query: 301 YTALDFQRLAQVYDQAHPRARKNGGK 326
           YTALDFQRLAQVYDQAHPRARKNGGK
Sbjct: 305 YTALDFQRLAQVYDQAHPRARKNGGK 330


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

 Score =  130 bits (326), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 103/311 (33%), Positives = 158/311 (50%), Gaps = 22/311 (7%)

Query: 9   IGQYLSFLRTQRKLSDHTVEHYGRDLQELRSLLAPAGEEHADIDLRKTTQVHIRKCAARL 68
           I ++   L  +  LS +T+E Y RD+      L    +E A   L +T    +    A  
Sbjct: 18  IDEFCDSLWLEDGLSKNTLEAYRRDMTRYAHWLY---QERAKA-LYETQAEDLNAYFAAR 73

Query: 69  HARGLNARSIARKLSAWRGFFGWLSMQMDLAANPVDGVKAPKKSKPLPKALAADDAIRLV 128
           H +     S  R+L+  + FF     Q  +AA+P   +++ ++ +  PK L+      L+
Sbjct: 74  HDQT-KPSSSNRRLAVLKRFFQLALRQHHVAADPCLKLRSARQPQRFPKTLSEGQVEALL 132

Query: 129 SQPDPVRDPDSTLAACNRAMFELLYSSGLRVSELVGIDVADVREGGYESAGWVDLEEAEV 188
           + PD V  P   L   +RAM EL+Y+SGLRVSELV +   +V            + E  +
Sbjct: 133 AAPD-VSTP---LGLRDRAMIELMYASGLRVSELVLLKSIEV-----------GMNEGVL 177

Query: 189 TVTGKGGKKRKVPVGQAARAALADWLPLRARLRKADGGPDSHALFLNERGARISPRVAQL 248
            VTGKG K R VP G+ A + L  +L   AR +   G  D  ALF+  RG  ++ ++   
Sbjct: 178 RVTGKGSKTRLVPFGEEAGSWLMRYLA-EARAQILQGQVDD-ALFVTARGGPMTRQMFWT 235

Query: 249 RLKTHGRALEMASDVHPHMLRHSFASHVLQSSGDLRAVQEMLGHASITATQVYTALDFQR 308
            +K +     + + + PH LRH+FA+H+L    DLR VQ +LGHA I+ TQ+YT +  +R
Sbjct: 236 LIKKYALQAGVTARLSPHTLRHAFATHLLNHGADLRVVQLLLGHADISTTQIYTHVARER 295

Query: 309 LAQVYDQAHPR 319
           L Q++   HPR
Sbjct: 296 LKQLHAAHHPR 306


  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    0.388 

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: 949,351
Number of extensions: 34738
Number of successful extensions: 142
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 140
Number of HSP's successfully gapped: 2
Length of query: 326
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 241
Effective length of database: 1,217,395
Effective search space: 293392195
Effective search space used: 293392195
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: 131 (55.1 bits)