RPS-BLAST 2.2.26 [Sep-21-2011]

Database: scop70_1_75 
           13,730 sequences; 2,407,596 total letters

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

Query= psy11328
         (410 letters)



>d1j23a_ c.52.1.20 (A:) Putative ATP-dependent RNA helicase Hef,
           nuclease domain {Archaeon Pyrococcus furiosus [TaxId:
           2261]}
          Length = 131

 Score =  115 bits (290), Expect = 7e-32
 Identities = 48/169 (28%), Positives = 80/169 (47%), Gaps = 40/169 (23%)

Query: 99  RVIVDMREFRSELPVLLHKRGLYIEPVTISVGDYILSPDICVERKSISDLIGSLQSGRLY 158
           +V+VD RE RSE+   L   G+ +E  T+ VGDYI+S D+ +ERKS +DLI S+  G L+
Sbjct: 2   KVVVDSRELRSEVVKRLKLLGVKLEVKTLDVGDYIISEDVAIERKSANDLIQSIIDGGLF 61

Query: 159 TQVQQMCRHYAKPLLLIEFDHNKPFELQGNYYLSRDIAAKFLIEFDHNKPFELQGNYYLS 218
            QV+++   Y++P++++E        +  N                              
Sbjct: 62  DQVKRLKEAYSRPIMIVEGSLYGIRNVHPN------------------------------ 91

Query: 219 RDIAAKSSDITAKLQLLTLHFPKLRLIWSSGPYNTAQLFFEL-KQGRDE 266
                    I   +  +T+ F  + +I+SS P  TAQ  F + K+ ++E
Sbjct: 92  --------AIRGAIAAVTVDF-GVPIIFSSTPEETAQYIFLIAKREQEE 131


>d2bgwa2 c.52.1.20 (A:16-148) XPF endonuclease {Aeropyrum pernix
           [TaxId: 56636]}
          Length = 133

 Score =  115 bits (288), Expect = 1e-31
 Identities = 41/164 (25%), Positives = 65/164 (39%), Gaps = 38/164 (23%)

Query: 99  RVIVDMREFRSELPVLLHKRGLYIEPVTISVGDYILSPDICVERKSISDLIGSLQSGRLY 158
           RV VD+RE RS +P +L   G+ + P  + +GDY++S  I VERK+ SD   SL  GRL+
Sbjct: 5   RVYVDVREERSPVPSILESLGVQVIPKQLPMGDYLVSDSIIVERKTSSDFAKSLFDGRLF 64

Query: 159 TQVQQMCRHYAKPLLLIEFDHNKPFELQGNYYLSRDIAAKFLIEFDHNKPFELQGNYYLS 218
            Q  ++  HY    +++E                                          
Sbjct: 65  EQASRLAEHYETVFIIVEGPPVPRRYRGRER----------------------------- 95

Query: 219 RDIAAKSSDITAKLQLLTLHFPKLRLIWSSGPYNTAQLFFELKQ 262
                    + A +  L L +  +RL+ +  P  TA +   L +
Sbjct: 96  --------SLYAAMAALQLDY-GIRLMNTMDPKGTALVIESLAR 130


>d2a1ja1 a.60.2.5 (A:837-898) DNA repair endonuclease XPF {Human
           (Homo sapiens) [TaxId: 9606]}
          Length = 62

 Score = 36.3 bits (84), Expect = 3e-04
 Identities = 15/48 (31%), Positives = 26/48 (54%)

Query: 354 PRVTSKNKAAVLNRGSSLPALCKLSEQELCSLVENTTLGNALYKALHT 401
           P V +KN  ++++   ++  L  LS+ EL S++ N      LY  +HT
Sbjct: 9   PGVNAKNCRSLMHHVKNIAELAALSQDELTSILGNAANAKQLYDFIHT 56


>d1riia_ c.60.1.1 (A:) Phosphoglycerate mutase {Mycobacterium
           tuberculosis [TaxId: 1773]}
          Length = 243

 Score = 26.9 bits (58), Expect = 4.7
 Identities = 7/26 (26%), Positives = 11/26 (42%)

Query: 173 LLIEFDHNKPFELQGNYYLSRDIAAK 198
           L  + D      ++G  YL  + AA 
Sbjct: 212 LRYDLDSAMRPLVRGGTYLDPEAAAA 237


>d1fiua_ c.52.1.10 (A:) Restriction endonuclease NgoIV {Neisseria
           gonorrhoeae [TaxId: 485]}
          Length = 286

 Score = 26.5 bits (58), Expect = 6.0
 Identities = 9/18 (50%), Positives = 12/18 (66%)

Query: 130 GDYILSPDICVERKSISD 147
            DY ++PDI V R  I+D
Sbjct: 133 SDYTITPDIIVTRNLIAD 150


  Database: scop70_1_75
    Posted date:  Mar 27, 2010  6:21 PM
  Number of letters in database: 2,407,596
  Number of sequences in database:  13,730
  
Lambda     K      H
   0.318    0.134    0.384 

Gapped
Lambda     K      H
   0.267   0.0593    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,447,287
Number of extensions: 66819
Number of successful extensions: 142
Number of sequences better than 10.0: 1
Number of HSP's gapped: 142
Number of HSP's successfully gapped: 5
Length of query: 410
Length of database: 2,407,596
Length adjustment: 87
Effective length of query: 323
Effective length of database: 1,213,086
Effective search space: 391826778
Effective search space used: 391826778
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (24.9 bits)