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= 0001.3635.p
         (514 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313020|ref|YP_003777112.1| deoxyribodipyrimidine photolyas...   841   0.0  

>gi|300313020|ref|YP_003777112.1| deoxyribodipyrimidine photolyase
           [Herbaspirillum seropedicae SmR1]
          Length = 519

 Score =  841 bits (2173), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 404/512 (78%), Positives = 438/512 (85%)

Query: 3   PIPATTLRLILGDQLNPQHSWFERVDTDVVYVLMEVRCETDYVLHHAQKILAIFAAMRAF 62
           P  A TLRLILGDQLNP+HSWF++ D  VVY+LMEVR ETDYVLHHAQK+LA+FAAMR F
Sbjct: 8   PPRAATLRLILGDQLNPRHSWFDQCDDQVVYLLMEVRSETDYVLHHAQKVLALFAAMRDF 67

Query: 63  GEHLRAAGHRVSYIRLDDPSNRQRLEDNLSALASHYQARCVQWQAPDEWRLDQALQQWGD 122
              L+A GHRV YIRLDDPSNRQ L DNLSALA HYQA  VQWQAPDEWR+D+AL+QW  
Sbjct: 68  AARLKAGGHRVRYIRLDDPSNRQSLVDNLSALARHYQASQVQWQAPDEWRVDEALRQWAQ 127

Query: 123 QQDLQTVVVDSEHFLTIRDELPRLFAGRKQWLMEQFYRQIRRRFALLLDAQGQPEGGQWN 182
            Q LQT + DSEHFLT R ELPRLF+GRKQWLME FYRQ+RRRF LLL+A G P GGQWN
Sbjct: 128 AQPLQTSMADSEHFLTDRHELPRLFSGRKQWLMEHFYRQMRRRFELLLEADGSPTGGQWN 187

Query: 183 FDHDNRKRWPGTPPQPQDWRTPHDHGALWAMLQTQGVASFGDPLATQLRWPLTRAEALHH 242
           FDHDNRKRWPGTP +P DWR PHDH ALW MLQ   V +FGDP A+QLRWPL R EAL H
Sbjct: 188 FDHDNRKRWPGTPAEPADWRQPHDHSALWEMLQACAVPTFGDPQASQLRWPLNREEALAH 247

Query: 243 LEHFIQAVLPYFGDYEEAMSSQAQRLFHSLLSFALNVKMLHPLEVVRRAEAAYRAGHAPL 302
           LEHFI   LP FGD+E+AMSS+AQRLFHSLLSFALNVKMLHPLEVVRRAE AYR G APL
Sbjct: 248 LEHFITHALPCFGDFEDAMSSRAQRLFHSLLSFALNVKMLHPLEVVRRAEEAYREGQAPL 307

Query: 303 AAVEGFIRQIIGWREYVRGIYWSQMPGYEQRNALDHRLPLPAWFWTGQTGMNCLRHAIGQ 362
           AAVEGF+RQIIGWREYVRGIYWSQMPGYE RN LDH LPLPAWFWTGQT M CL+ AIGQ
Sbjct: 308 AAVEGFVRQIIGWREYVRGIYWSQMPGYEDRNVLDHGLPLPAWFWTGQTRMRCLQQAIGQ 367

Query: 363 SLQTAHAHHIQRLMVIGNFALLARLDPKALHQWYLGIYIDAFEWVELPNTLGMSQWADGG 422
           SLQ+AHAHHIQRLMVIGNFALLA LDPKALHQWYLG+YIDAFEWVELPNTLGMSQWADGG
Sbjct: 368 SLQSAHAHHIQRLMVIGNFALLAGLDPKALHQWYLGVYIDAFEWVELPNTLGMSQWADGG 427

Query: 423 LIATKPYVSSAAYIGRMSDYCRGCAYDPKQKTSEQACPFNALYWDFFLRHQARFGHNPRL 482
           +IATKPYVSSAAYIGRMSDYC+GCAYDP+Q+ SE ACP+NALYWDFFLRHQ RFG N R+
Sbjct: 428 IIATKPYVSSAAYIGRMSDYCQGCAYDPRQRHSEDACPYNALYWDFFLRHQERFGKNARM 487

Query: 483 GMVYQQIRKMAPADLEALQARAQTLRSQLDTL 514
           GM YQQ+RKM   +L  L+ RA  LR +LD L
Sbjct: 488 GMAYQQLRKMDTQELARLRERAAHLRERLDQL 519


  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
   0.325    0.137    0.448 

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: 1,758,236
Number of extensions: 77376
Number of successful extensions: 255
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 255
Number of HSP's successfully gapped: 1
Length of query: 514
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 425
Effective length of database: 1,198,455
Effective search space: 509343375
Effective search space used: 509343375
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 133 (55.8 bits)