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= 0001.1720.p
         (499 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...   872   0.0  
gi|300309758|ref|YP_003773850.1| deoxyribodipyrimidine photolyas...    69   1e-12

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

 Score =  872 bits (2254), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 425/494 (86%), Positives = 450/494 (91%)

Query: 1   MPQFDKSLVWFRRDLRTNDHAALYHALRQSRQVWCVFVFDTDILDALKAEGVQQDRRIDF 60
           MPQFD+SLVWFRRDLR  DHAALY+AL QSRQVWCVFVFDTDIL ALKAEGV QDRRIDF
Sbjct: 1   MPQFDRSLVWFRRDLRMTDHAALYYALSQSRQVWCVFVFDTDILAALKAEGVTQDRRIDF 60

Query: 61  LLASVAELDGTLRQAGGGLIVLHGSALRQIPELAAKLQAQAVFINTDYEPLAIERDAAVA 120
           LLASVAELD  LR AGGGLIVLHGSA+ QIP LAA+L  QAV+ NTDYEP A+ERDAAVA
Sbjct: 61  LLASVAELDEALRHAGGGLIVLHGSAVTQIPALAAELDVQAVYANTDYEPAAVERDAAVA 120

Query: 121 RSLQRQGAQMLSYKDQVIFEKDEVLTQSAKPFSVFTPYKNAWMAKLTAADGAFYLKPYPV 180
           ++L + GAQ+LSYKDQVIFEKDEVLTQSAKPFSVFTPYKNAWM+KL AADG F+LKPYPV
Sbjct: 121 QTLAKSGAQLLSYKDQVIFEKDEVLTQSAKPFSVFTPYKNAWMSKLAAADGDFFLKPYPV 180

Query: 181 ENYLKALAAPPGEVDHALPSHAQLGFAPSNLHELKISTGMSGAQALLSDFLGRIGAYGTA 240
           E YL ALA+PPG+  HALPSH QLGFAPSNL ELKI TGMSGAQ+LL +FL RIG+YG A
Sbjct: 181 EKYLTALASPPGKAGHALPSHRQLGFAPSNLQELKIPTGMSGAQSLLDEFLDRIGSYGAA 240

Query: 241 RDFPAVKGPSYLSVHLRFGTVSIRALAGAALYLMQNNQGAAGAAVWLSELIWRDFYFMIL 300
           RDFPAVKGPSYLSVHLRFGT+SIR LA AA+  M   QGAAGAAVWLSEL WRDFYFMIL
Sbjct: 241 RDFPAVKGPSYLSVHLRFGTISIRTLARAAMQAMHAGQGAAGAAVWLSELTWRDFYFMIL 300

Query: 301 HHHPRVTEQAFKPEYGAIQWEQGPQAEALFAAWCEGRTGYPLVDAAMAQINQSGYMHNRL 360
           HHHPRVT  AFKPEY AIQWEQGPQAEALFAAWCEGRTGYPLVDAAMAQINQSGYMHNRL
Sbjct: 301 HHHPRVTRHAFKPEYDAIQWEQGPQAEALFAAWCEGRTGYPLVDAAMAQINQSGYMHNRL 360

Query: 361 RMVVASFLTKDLGIDWRWGEQYFARHLNDFDLAANNGGWQWASSSGCDAQPYFRIFNPVT 420
           RMVVASFLTKDLGIDWRWGE+YFARHLNDFDLAANNGGWQWASSSGCDAQPYFRIFNPVT
Sbjct: 361 RMVVASFLTKDLGIDWRWGERYFARHLNDFDLAANNGGWQWASSSGCDAQPYFRIFNPVT 420

Query: 421 QSEKFDPQGKFIRRYLPQLAKLSDKRIHAPWSATPEERLAAGVVLGQNYPRPIVDHALAR 480
           QSEKFDP GKFIRRYLPQLAKLS+KRIHAPW+ATP+ER+ AGVVLGQNYPRPIVDHA AR
Sbjct: 421 QSEKFDPDGKFIRRYLPQLAKLSNKRIHAPWTATPDERMDAGVVLGQNYPRPIVDHAQAR 480

Query: 481 ERTLQRYAVVKKND 494
           ERTL RYAVVKK +
Sbjct: 481 ERTLARYAVVKKAE 494


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

 Score = 68.6 bits (166), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 65/204 (31%), Positives = 93/204 (45%), Gaps = 28/204 (13%)

Query: 233 RIGAYGTARDF--PAVKGPSYLSVHLRFGTVSIR-ALAGAALYLMQNNQGAAGAAVWLSE 289
           R GAY   R+    AV G   LS +L  G VS+R  LAG         Q       ++ E
Sbjct: 57  RPGAYARTRNSLDGAVTG---LSPYLTHGMVSLRDVLAGVCQRYPLEVQHK-----FVYE 108

Query: 290 LIWRDFYFMILHHHPRVTEQAFKPEYGAIQWEQGPQAEALFAAWCE-----GRTGYPLVD 344
           L WR FY  +     R   + F   +       GP  EA +A         G TG P++D
Sbjct: 109 LGWRAFYRYVWS---RRGARIFDSLHA------GPLPEAAYARELPDDIRAGATGVPVID 159

Query: 345 AAMAQINQSGYMHNRLRMVVASFLTKDLGIDWRWGEQYFARHLNDFDLAANNGGWQWASS 404
            A+  +  +G +HN  RM +AS++     + WR G  +   HL D DLA+N+  WQW + 
Sbjct: 160 QAVRTLYATGNLHNHARMWLASYVVHLRKVHWRAGADWMVGHLLDGDLASNHLSWQWVAG 219

Query: 405 SGCDAQPYFRIFNPVTQSEKFDPQ 428
           +G   +PY  +FN    ++   PQ
Sbjct: 220 TGSH-KPY--LFNAENVAKYAPPQ 240


  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
   0.322    0.135    0.417 

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: 1,674,238
Number of extensions: 73063
Number of successful extensions: 206
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 206
Number of HSP's successfully gapped: 2
Length of query: 499
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 410
Effective length of database: 1,198,455
Effective search space: 491366550
Effective search space used: 491366550
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: 132 (55.5 bits)