BLASTP 2.2.21 [Jun-14-2009]

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= 0002.0035.p         (224 letters)

Database: COGmodified 
           192,987 sequences; 59,019,183 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VC1392 [L] COG0415 Deoxyribodipyrimidine photolyase Vch Vibrio c...    86   7e-17
STM0709 [L] COG0415 Deoxyribodipyrimidine photolyase Sty Salmone...    69   8e-12
ECs0733 [L] COG0415 Deoxyribodipyrimidine photolyase Ecs Escheri...    69   9e-12
ZphrB [L] COG0415 Deoxyribodipyrimidine photolyase EcZ Escherich...    69   1e-11
phrB [L] COG0415 Deoxyribodipyrimidine photolyase Eco Escherichi...    69   1e-11

>VC1392 [L] COG0415 Deoxyribodipyrimidine photolyase Vch Vibrio cholerae
          Length = 504

 Score = 85.9 bits (211), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 45/151 (29%), Positives = 74/151 (49%), Gaps = 1/151 (0%)

Query: 2   SVGLVWFKRDLRLRDHAALAEAARCER-AFAVFIIEPAWLQSFECDPRHVDFLLRSLAPL 60
            + LVW KRDLRL DHA L  A    R    +++ EP  L       RH  F+ +SL  +
Sbjct: 3   KINLVWLKRDLRLTDHAPLQAALTSGRPTLLLYLFEPMLLGDAHYSERHWRFVWQSLQAI 62

Query: 61  QIELKQRGLPLLLRIGEAVQVLESLRREWGVTHLFSHEETGPAWSYARDISVNRWSRIQG 120
             +L Q    +L+   +       +   + +  ++SH+E G A ++ RD+++ +W +   
Sbjct: 63  NRDLAQSKGEVLIVTSDWQTCFARIAERYAIEAIYSHQEVGLACTFQRDLALAQWCQQHD 122

Query: 121 VQWQEFPQTGVVRRLRSRDGWAARWVQRMEA 151
           + W EFP   V+R  ++R  W   W Q M +
Sbjct: 123 IVWHEFPYAAVIRGAQTRKNWDEHWQQVMRS 153


>STM0709 [L] COG0415 Deoxyribodipyrimidine photolyase Sty Salmonella
           typhimurium LT2
          Length = 473

 Score = 68.9 bits (167), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 38/105 (36%), Positives = 60/105 (57%), Gaps = 6/105 (5%)

Query: 1   MSVGLVWFKRDLRLRDHAALAEAAR--CERAFAVFIIEPAWLQSFECDPRHVDFLLRSLA 58
           M   LVWF+RDLRL+D+ ALA A R    R  A++I  PA  Q+ +  PR   F+   L 
Sbjct: 1   MPTHLVWFRRDLRLQDNLALAAACRDASARVLALYISTPAQWQAHDMAPRQAAFISAQLN 60

Query: 59  PLQIELKQRGLPLLLR----IGEAVQVLESLRREWGVTHLFSHEE 99
            LQ  L ++G+PLL         +++ ++++ R+  V+HLF + +
Sbjct: 61  ALQTALAEKGIPLLFHEVADFNASIETVKNVCRQHDVSHLFYNYQ 105


>ECs0733 [L] COG0415 Deoxyribodipyrimidine photolyase Ecs Escherichia coli
           O157:H7
          Length = 472

 Score = 68.6 bits (166), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 43/120 (35%), Positives = 64/120 (53%), Gaps = 7/120 (5%)

Query: 1   MSVGLVWFKRDLRLRDHAALAEAARCE--RAFAVFIIEPAWLQSFECDPRHVDFLLRSLA 58
           M+  LVWF++DLRL D+ ALA A R    R  A++I  P    +    PR  + +   L 
Sbjct: 1   MTTHLVWFRQDLRLHDNLALAAACRNSSARLLALYIATPRQWAAHNMSPRQAELINAQLN 60

Query: 59  PLQIELKQRGLPLLLR----IGEAVQVLESLRREWGVTHLFSHEETGPAWSYARDISVNR 114
            LQI L ++G+PLL R       +V++++ +  E  VTHLF + +       ARD+ V R
Sbjct: 61  GLQIALAEKGIPLLFREVDDFAASVEIVKQVCAENSVTHLFYNYQYEVN-ERARDVQVER 119


>ZphrB [L] COG0415 Deoxyribodipyrimidine photolyase EcZ Escherichia coli
           O157:H7 EDL933
          Length = 472

 Score = 68.6 bits (166), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 43/120 (35%), Positives = 64/120 (53%), Gaps = 7/120 (5%)

Query: 1   MSVGLVWFKRDLRLRDHAALAEAARCE--RAFAVFIIEPAWLQSFECDPRHVDFLLRSLA 58
           M+  LVWF++DLRL D+ ALA A R    R  A++I  P    +    PR  + +   L 
Sbjct: 1   MTTHLVWFRQDLRLHDNLALAAACRNSSARLLALYIATPRQWAAHNMSPRQAELINAQLN 60

Query: 59  PLQIELKQRGLPLLLR----IGEAVQVLESLRREWGVTHLFSHEETGPAWSYARDISVNR 114
            LQI L ++G+PLL R       +V++++ +  E  VTHLF + +       ARD+ V R
Sbjct: 61  GLQIALAEKGIPLLFREVDDFAASVEIVKQVCAENSVTHLFYNYQYEVN-ERARDVQVER 119


>phrB [L] COG0415 Deoxyribodipyrimidine photolyase Eco Escherichia coli
           K12
          Length = 472

 Score = 68.6 bits (166), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 43/120 (35%), Positives = 64/120 (53%), Gaps = 7/120 (5%)

Query: 1   MSVGLVWFKRDLRLRDHAALAEAARCE--RAFAVFIIEPAWLQSFECDPRHVDFLLRSLA 58
           M+  LVWF++DLRL D+ ALA A R    R  A++I  P    +    PR  + +   L 
Sbjct: 1   MTTHLVWFRQDLRLHDNLALAAACRNSSARVLALYIATPRQWATHNMSPRQAELINAQLN 60

Query: 59  PLQIELKQRGLPLLLR----IGEAVQVLESLRREWGVTHLFSHEETGPAWSYARDISVNR 114
            LQI L ++G+PLL R       +V++++ +  E  VTHLF + +       ARD+ V R
Sbjct: 61  GLQIALAEKGIPLLFREVDDFVASVEIVKQVCAENSVTHLFYNYQYEVN-ERARDVEVER 119