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= 0001.4152.p
         (336 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...   535   e-153
gi|300310183|ref|YP_003774275.1| site specific integrase/recombi...   119   3e-28

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

 Score =  535 bits (1378), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 268/328 (81%), Positives = 291/328 (88%), Gaps = 4/328 (1%)

Query: 1   MDAAASSLIGRYLSFLRSQRKLSPHTLENYGRDLQELRALLAPADDHDGVADSTLPHVSQ 60
           ++ A + LIG+YLSFLR+QRKLS HT+E+YGRDLQELR+LLAPA +    AD  L   +Q
Sbjct: 5   VENATTGLIGQYLSFLRTQRKLSDHTVEHYGRDLQELRSLLAPAGEEH--ADIDLRKTTQ 62

Query: 61  PQIRKCAARLHARGLNARSISRKLSAWRGFFAWLALEEGMALPANPVDGVKPPKKSKPLP 120
            QIRKCAARLHARGLNARSI+RKLSAWRGFF WL+++  M L ANPVDGVK PKKSKPLP
Sbjct: 63  VQIRKCAARLHARGLNARSIARKLSAWRGFFGWLSMQ--MDLAANPVDGVKAPKKSKPLP 120

Query: 121 KALAADDAIRLVSHADPARDPASTLAACNRAMFELLYSSGLRVSELVGIDLADVREGRYE 180
           KALAADDAIRLVS  DP RDP STLAACNRAMFELLYSSGLRVSELVGID+ADVREG YE
Sbjct: 121 KALAADDAIRLVSQPDPVRDPDSTLAACNRAMFELLYSSGLRVSELVGIDVADVREGGYE 180

Query: 181 SAGWIDLAEAEVTVTGKGGKKRKVPVGKAALQAIQDWLPLRAGLVRADGGPDGHALFLNE 240
           SAGW+DL EAEVTVTGKGGKKRKVPVG+AA  A+ DWLPLRA L +ADGGPD HALFLNE
Sbjct: 181 SAGWVDLEEAEVTVTGKGGKKRKVPVGQAARAALADWLPLRARLRKADGGPDSHALFLNE 240

Query: 241 RGARMSPRVTQLRLKAHGKGVEMATDVHPHMLRHSFASHVLQSSGDLRAVQEMLGHASIT 300
           RGAR+SPRV QLRLKAHG+ +EMA+DVHPHMLRHSFASHVLQSSGDLRAVQEMLGHASIT
Sbjct: 241 RGARISPRVAQLRLKAHGRALEMASDVHPHMLRHSFASHVLQSSGDLRAVQEMLGHASIT 300

Query: 301 ATQVYTALDFQRLAQVYDQAHPRAHKGG 328
           ATQVYTALDFQRLAQVYDQAHPRA K G
Sbjct: 301 ATQVYTALDFQRLAQVYDQAHPRARKNG 328


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

 Score =  119 bits (298), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 85/246 (34%), Positives = 133/246 (54%), Gaps = 21/246 (8%)

Query: 79  SISRKLSAWRGFFAWLALEEGMALPANPVDGVKPPKKSKPLPKALAADDAIRLVSHADPA 138
           S +R+L+  + FF  LAL +   + A+P   ++  ++ +  PK L+      L++    A
Sbjct: 81  SSNRRLAVLKRFFQ-LALRQHH-VAADPCLKLRSARQPQRFPKTLSEGQVEALLA----A 134

Query: 139 RDPASTLAACNRAMFELLYSSGLRVSELVGIDLADVREGRYESAGWIDLAEAEVTVTGKG 198
            D ++ L   +RAM EL+Y+SGLRVSELV +   +V            + E  + VTGKG
Sbjct: 135 PDVSTPLGLRDRAMIELMYASGLRVSELVLLKSIEV-----------GMNEGVLRVTGKG 183

Query: 199 GKKRKVPVGKAALQAIQDWL-PLRAGLVRADGGPDGHALFLNERGARMSPRVTQLRLKAH 257
            K R VP G+ A   +  +L   RA +++   G    ALF+  RG  M+ ++    +K +
Sbjct: 184 SKTRLVPFGEEAGSWLMRYLAEARAQILQ---GQVDDALFVTARGGPMTRQMFWTLIKKY 240

Query: 258 GKGVEMATDVHPHMLRHSFASHVLQSSGDLRAVQEMLGHASITATQVYTALDFQRLAQVY 317
                +   + PH LRH+FA+H+L    DLR VQ +LGHA I+ TQ+YT +  +RL Q++
Sbjct: 241 ALQAGVTARLSPHTLRHAFATHLLNHGADLRVVQLLLGHADISTTQIYTHVARERLKQLH 300

Query: 318 DQAHPR 323
              HPR
Sbjct: 301 AAHHPR 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
   0.318    0.133    0.393 

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: 974,385
Number of extensions: 37049
Number of successful extensions: 141
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 137
Number of HSP's successfully gapped: 2
Length of query: 336
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 250
Effective length of database: 1,212,660
Effective search space: 303165000
Effective search space used: 303165000
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: 131 (55.1 bits)