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= 0002.0033.p
         (445 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309758|ref|YP_003773850.1| deoxyribodipyrimidine photolyas...   699   0.0  
gi|300311186|ref|YP_003775278.1| deoxyribodipyrimidine photolyas...    67   2e-12

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

 Score =  699 bits (1805), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 354/441 (80%), Positives = 376/441 (85%), Gaps = 2/441 (0%)

Query: 1   MYRKHQFDLVLDTPSLEDAPAAAPATSAVVAAVPTPRPLALLPLLPTLAAARERIAAVRP 60
           MYRKHQFDL+LDT   E+A    PA     A+  +P    LL  LPTLAAARERIAAVRP
Sbjct: 1   MYRKHQFDLLLDTVVAEEA--VEPAALVSSASPASPTSFDLLTPLPTLAAARERIAAVRP 58

Query: 61  GAYARTRNSLDGAVTGLSPYLTHGFVSLREVLAGVCSRQALDVQHKFVYELGWRAFYRYV 120
           GAYARTRNSLDGAVTGLSPYLTHG VSLR+VLAGVC R  L+VQHKFVYELGWRAFYRYV
Sbjct: 59  GAYARTRNSLDGAVTGLSPYLTHGMVSLRDVLAGVCQRYPLEVQHKFVYELGWRAFYRYV 118

Query: 121 WARRGARIFDSLHAGPLPESAYARELPADIREAATGLPVIDQAVRTLYATGTLHNHARMW 180
           W+RRGARIFDSLHAGPLPE+AYARELP DIR  ATG+PVIDQAVRTLYATG LHNHARMW
Sbjct: 119 WSRRGARIFDSLHAGPLPEAAYARELPDDIRAGATGVPVIDQAVRTLYATGNLHNHARMW 178

Query: 181 LASYVVHLRKVHWRAGADWMVGHLLDGDLASNHLSWQWVAGTGSHKPYLFNAENVAKYAP 240
           LASYVVHLRKVHWRAGADWMVGHLLDGDLASNHLSWQWVAGTGSHKPYLFNAENVAKYAP
Sbjct: 179 LASYVVHLRKVHWRAGADWMVGHLLDGDLASNHLSWQWVAGTGSHKPYLFNAENVAKYAP 238

Query: 241 AEWHSPGTVVDTSYEVLGEIALNPDPVAAEPAQRARERCKEPALLPVPPEHLGSLTPEAQ 300
            +WHSPGT +D SYE LGE+AL PDPV AEP  R   RC+EPALL  PP  L    P+AQ
Sbjct: 239 PQWHSPGTALDVSYEALGELALQPDPVPAEPGGRRLVRCQEPALLAEPPSSLDVCAPDAQ 298

Query: 301 AVAGRDVWLVHPWSLGELPADLPADTIVVGLYLSDFHLLWPWDQRRWEFVGARMRELTSL 360
           AVAGRDVWLVHPWSLGELPA L  +T+VVGLYLSDFHLLWPWDQRRW FVG+RMRELTSL
Sbjct: 299 AVAGRDVWLVHPWSLGELPATLGPETVVVGLYLSDFHLLWPWDQRRWRFVGSRMRELTSL 358

Query: 361 CWHGDAATVGRALKTARSVRCVADPHLAPWLPLWAQCVAAPELFPVVDKPSDLFTQWWRR 420
            WHGDAA+VGRALK ARSVRC  DPHLAPWLPLWAQC   P LFP VDKP DLFTQWWRR
Sbjct: 359 RWHGDAASVGRALKAARSVRCQLDPHLAPWLPLWAQCQNPPALFPPVDKPCDLFTQWWRR 418

Query: 421 STQGLQSAAELLARTERKERR 441
           STQGLQ+AA+LLA   R++ R
Sbjct: 419 STQGLQTAAQLLAAEGRRDER 439


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

 Score = 67.4 bits (163), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 59/198 (29%), Positives = 94/198 (47%), Gaps = 38/198 (19%)

Query: 59  RPGAYARTRNSLDGAVTG---LSPYLTHGFVSLREVLAGVCSRQALDVQHK--------- 106
           R G+Y   R+    AV G   LS +L  G +S+R +     +R A+   H          
Sbjct: 233 RIGSYGAARDF--PAVKGPSYLSVHLRFGTISIRTL-----ARAAMQAMHAGQGAAGAAV 285

Query: 107 FVYELGWRAFYRYVWARRGARI--------FDSLH--AGPLPESAYARELPADIREAATG 156
           ++ EL WR FY ++      R+        +D++    GP  E+ +A        E  TG
Sbjct: 286 WLSELTWRDFY-FMILHHHPRVTRHAFKPEYDAIQWEQGPQAEALFAAWC-----EGRTG 339

Query: 157 LPVIDQAVRTLYATGTLHNHARMWLASYVVHLRKVHWRAGADWMVGHLLDGDLASNHLSW 216
            P++D A+  +  +G +HN  RM +AS++     + WR G  +   HL D DLA+N+  W
Sbjct: 340 YPLVDAAMAQINQSGYMHNRLRMVVASFLTKDLGIDWRWGERYFARHLNDFDLAANNGGW 399

Query: 217 QWVAGTGSH-KPY--LFN 231
           QW + +G   +PY  +FN
Sbjct: 400 QWASSSGCDAQPYFRIFN 417


  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
   0.321    0.135    0.440 

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: 1,533,635
Number of extensions: 70101
Number of successful extensions: 207
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: 445
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 357
Effective length of database: 1,203,190
Effective search space: 429538830
Effective search space used: 429538830
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)