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= 0025.0107.p
         (509 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311186|ref|YP_003775278.1| deoxyribodipyrimidine photolyas...   715   0.0  
gi|300309758|ref|YP_003773850.1| deoxyribodipyrimidine photolyas...    66   6e-12

>gi|300311186|ref|YP_003775278.1| deoxyribodipyrimidine photolyase
           [Herbaspirillum seropedicae SmR1]
          Length = 494

 Score =  715 bits (1845), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 353/503 (70%), Positives = 398/503 (79%), Gaps = 11/503 (2%)

Query: 1   MPTFDSSLVWFRRDLRIGDHAALYDALKQSKQVHCVFVYDRDILDALLADGLQADRRIDF 60
           MP FD SLVWFRRDLR+ DHAALY AL QS+QV CVFV+D DIL AL A+G+  DRRIDF
Sbjct: 1   MPQFDRSLVWFRRDLRMTDHAALYYALSQSRQVWCVFVFDTDILAALKAEGVTQDRRIDF 60

Query: 61  IMACIAELDAALRAXMACIAELDAALRGALIVRHAPAQQDIPALAAELGVDAVFTNHDYE 120
           ++A +AELD ALR              G LIV H  A   IPALAAEL V AV+ N DYE
Sbjct: 61  LLASVAELDEALRHA-----------GGGLIVLHGSAVTQIPALAAELDVQAVYANTDYE 109

Query: 121 PQAIKRDAAVKKQLEKDGRQLLTCKDQVIFEKDEVLSLAGRPFSVFTPYKNAWMNKLSGP 180
           P A++RDAAV + L K G QLL+ KDQVIFEKDEVL+ + +PFSVFTPYKNAWM+KL+  
Sbjct: 110 PAAVERDAAVAQTLAKSGAQLLSYKDQVIFEKDEVLTQSAKPFSVFTPYKNAWMSKLAAA 169

Query: 181 GGDFYLKPYPVDAYLAQLAPPSKKHHKALPTLEQLGFTPSNLKDLRIPTGMSGAAQLLED 240
            GDF+LKPYPV+ YL  LA P  K   ALP+  QLGF PSNL++L+IPTGMSGA  LL++
Sbjct: 170 DGDFFLKPYPVEKYLTALASPPGKAGHALPSHRQLGFAPSNLQELKIPTGMSGAQSLLDE 229

Query: 241 FLPRLGKYGDTRDFPAVKGPSYLSVHLRFGTISIRTLARAAVDAMRIGEGRRGAPVWLSE 300
           FL R+G YG  RDFPAVKGPSYLSVHLRFGTISIRTLARAA+ AM  G+G  GA VWLSE
Sbjct: 230 FLDRIGSYGAARDFPAVKGPSYLSVHLRFGTISIRTLARAAMQAMHAGQGAAGAAVWLSE 289

Query: 301 LVWRDFYFMILFHHPRVVERSFKADYDAIQWEGGKHAREMFAKWCEGRTGYPLVDAAMLQ 360
           L WRDFYFMIL HHPRV   +FK +YDAIQWE G  A  +FA WCEGRTGYPLVDAAM Q
Sbjct: 290 LTWRDFYFMILHHHPRVTRHAFKPEYDAIQWEQGPQAEALFAAWCEGRTGYPLVDAAMAQ 349

Query: 361 LNQTGYMHNRLRMVTASFLTKDLGIDWRWGEKYFADLLNDFDLSANNGGWQWASSSGCDA 420
           +NQ+GYMHNRLRMV ASFLTKDLGIDWRWGE+YFA  LNDFDL+ANNGGWQWASSSGCDA
Sbjct: 350 INQSGYMHNRLRMVVASFLTKDLGIDWRWGERYFARHLNDFDLAANNGGWQWASSSGCDA 409

Query: 421 QPYFRIFNPITQSEKFDAEGKFIRRYLPQLAGLPDKHIHAPWLCPADVLKAAGVRIGKDY 480
           QPYFRIFNP+TQSEKFD +GKFIRRYLPQLA L +K IHAPW    D    AGV +G++Y
Sbjct: 410 QPYFRIFNPVTQSEKFDPDGKFIRRYLPQLAKLSNKRIHAPWTATPDERMDAGVVLGQNY 469

Query: 481 PEPMVDHAEARKRTLLRYAVVKK 503
           P P+VDHA+AR+RTL RYAVVKK
Sbjct: 470 PRPIVDHAQARERTLARYAVVKK 492


>gi|300309758|ref|YP_003773850.1| deoxyribodipyrimidine photolyase
           [Herbaspirillum seropedicae SmR1]
          Length = 439

 Score = 66.2 bits (160), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 58/187 (31%), Positives = 87/187 (46%), Gaps = 16/187 (8%)

Query: 244 RLGKYGDTRDF--PAVKGPSYLSVHLRFGTISIRTLARAAVDAMRIGEGRRGAPVWLSEL 301
           R G Y  TR+    AV G   LS +L  G +S+R +         +    +    ++ EL
Sbjct: 57  RPGAYARTRNSLDGAVTG---LSPYLTHGMVSLRDVLAGVCQRYPLEVQHK----FVYEL 109

Query: 302 VWRDFYFMILFHHPRVVERSFKADYDAIQWEGGKHAREMFAKWCEGRTGYPLVDAAMLQL 361
            WR FY  +     R   R F + +     E   +ARE+      G TG P++D A+  L
Sbjct: 110 GWRAFYRYVWS---RRGARIFDSLHAGPLPEAA-YARELPDDIRAGATGVPVIDQAVRTL 165

Query: 362 NQTGYMHNRLRMVTASFLTKDLGIDWRWGEKYFADLLNDFDLSANNGGWQWASSSGCDAQ 421
             TG +HN  RM  AS++     + WR G  +    L D DL++N+  WQW + +G   +
Sbjct: 166 YATGNLHNHARMWLASYVVHLRKVHWRAGADWMVGHLLDGDLASNHLSWQWVAGTGSH-K 224

Query: 422 PYFRIFN 428
           PY  +FN
Sbjct: 225 PY--LFN 229


  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
   0.323    0.139    0.436 

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: 1,655,552
Number of extensions: 72337
Number of successful extensions: 207
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 205
Number of HSP's successfully gapped: 2
Length of query: 509
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 420
Effective length of database: 1,198,455
Effective search space: 503351100
Effective search space used: 503351100
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 133 (55.8 bits)