RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

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

Query= gi|254780303|ref|YP_003064716.1| DNA protecting protein DprA
[Candidatus Liberibacter asiaticus str. psy62]
         (77 letters)



>3maj_A DNA processing chain A; MCSG, PSI-2, structural genomics, protein
          structure initiati midwest center for structural
          genomics; HET: DNA; 2.05A {Rhodopseudomonas palustris}
          Length = 382

 Score = 69.6 bits (170), Expect = 2e-13
 Identities = 30/67 (44%), Positives = 44/67 (65%)

Query: 1  MKKMNPLKGGVSLTDDQKISWLRLIRSDNISPATCRDMINYFGSAEQALEMIPELAQRGA 60
          + + +  +G   LT+ Q+I W+RLIR++N+ P T R +IN+FGSA  ALE +PELA+RG 
Sbjct: 5  VGERSSDQGTTVLTEAQRIDWMRLIRAENVGPRTFRSLINHFGSARAALERLPELARRGG 64

Query: 61 VYAGKRA 67
               R 
Sbjct: 65 AARAGRI 71


>3cmw_A Protein RECA, recombinase A; homologous recombination,
           recombination/DNA complex; HET: DNA ADP; 2.80A
           {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*
          Length = 1706

 Score = 24.9 bits (54), Expect = 4.4
 Identities = 10/18 (55%), Positives = 13/18 (72%)

Query: 44  SAEQALEMIPELAQRGAV 61
           + EQALE+   LA+ GAV
Sbjct: 794 TGEQALEICDALARSGAV 811


>1ywf_A Phosphotyrosine protein phosphatase PTPB; four stranded parallel
          beta sheet with flanking helices, structural genomics,
          PSI; 1.71A {Mycobacterium tuberculosis} SCOP: c.45.1.5
          PDB: 2oz5_A*
          Length = 296

 Score = 24.8 bits (53), Expect = 5.0
 Identities = 8/36 (22%), Positives = 11/36 (30%), Gaps = 4/36 (11%)

Query: 6  PLKGGVSLTD----DQKISWLRLIRSDNISPATCRD 37
           L G  +  D       +   RL RS  +S      
Sbjct: 25 ELPGAWNFRDVADTATALRPGRLFRSSELSRLDDAG 60


>3ih1_A Methylisocitrate lyase; alpha-beta structure, TIM-barrel, center
           for structural genomics of infectious diseases, csgid;
           2.00A {Bacillus anthracis str} PDB: 3kz2_A
          Length = 305

 Score = 24.5 bits (53), Expect = 5.3
 Identities = 4/35 (11%), Positives = 7/35 (20%)

Query: 27  SDNISPATCRDMINYFGSAEQALEMIPELAQRGAV 61
                     D+   FG          E+ +    
Sbjct: 85  VRATDLPVLVDIDTGFGGVLNVARTAVEMVEAKVA 119


>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
          photosynthetic reaction center, peripheral antenna;
          HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
          Length = 154

 Score = 24.2 bits (51), Expect = 8.2
 Identities = 8/33 (24%), Positives = 15/33 (45%), Gaps = 15/33 (45%)

Query: 1  MKKMNPLKGGVSLTDDQKISWLRLIRSDNISPA 33
          +KK+             + S L+L  +D+ +PA
Sbjct: 22 LKKL-------------QAS-LKLY-ADDSAPA 39


>1qxp_A MU-like calpain; M-calpain, MU-calpain, catalytic triad, Ca(2+)
           requirement, hydrolase chimera; 2.80A {Rattus
           norvegicus} SCOP: a.39.1.8 a.39.1.8 b.14.1.1 d.3.1.3
          Length = 900

 Score = 23.9 bits (51), Expect = 8.3
 Identities = 11/43 (25%), Positives = 17/43 (39%), Gaps = 13/43 (30%)

Query: 15  DDQKISWLRL-------------IRSDNISPATCRDMINYFGS 44
           DD +IS   L             +R++  S  +CR M+N    
Sbjct: 546 DDMEISVKELQTILNRIISKHKDLRTNGFSLESCRSMVNLMDR 588


>2ia0_A Putative HTH-type transcriptional regulator PF0864; ASNC, PSI,
          structural genomics, southeast collaboratory for
          structural genomics; 2.37A {Pyrococcus furiosus}
          Length = 171

 Score = 24.0 bits (51), Expect = 8.5
 Identities = 5/30 (16%), Positives = 9/30 (30%)

Query: 13 LTDDQKISWLRLIRSDNISPATCRDMINYF 42
          L  D +++   L        +T    I   
Sbjct: 26 LKKDARLTISELSEQLKKPESTIHFRIKKL 55


>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH
          domain, DNA-binding domain, DNA binding protein; NMR
          {Escherichia coli} SCOP: a.60.2.3
          Length = 78

 Score = 24.0 bits (52), Expect = 9.2
 Identities = 5/30 (16%), Positives = 13/30 (43%), Gaps = 1/30 (3%)

Query: 29 NISPATCRDMINYFGSAEQALE-MIPELAQ 57
           + P   + ++ Y G  +      + E+A+
Sbjct: 31 GVGPKRRQMLLKYMGGLQGLRNASVEEIAK 60


>1i1g_A Transcriptional regulator LRPA; helix-turn-helix, LRP/ASNC
          family; 2.90A {Pyrococcus furiosus} SCOP: a.4.5.32
          d.58.4.2
          Length = 141

 Score = 23.9 bits (51), Expect = 9.2
 Identities = 5/43 (11%), Positives = 12/43 (27%)

Query: 13 LTDDQKISWLRLIRSDNISPATCRDMINYFGSAEQALEMIPEL 55
          L  D +  +  + +   IS    R  +              ++
Sbjct: 13 LEKDARTPFTEIAKKLGISETAVRKRVKALEEKGIIEGYTIKI 55


>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
           transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
          Length = 325

 Score = 23.8 bits (51), Expect = 9.5
 Identities = 8/49 (16%), Positives = 18/49 (36%), Gaps = 2/49 (4%)

Query: 7   LKGGVSLTDDQKISWLR-LIRSDNISPATCRDMINYFGSAEQALEMIPE 54
           +K   S +DD+   ++   ++   I          Y   A+  L  + +
Sbjct: 259 VKHLTSTSDDEVYQYIVSQVKQYGIE-PAELLSRKYGDKAKYHLSQLQD 306


  Database: pdb70
    Posted date:  Jan 26, 2011 11:21 AM
  Number of letters in database: 5,693,230
  Number of sequences in database:  24,244
  
Lambda     K      H
   0.317    0.130    0.371 

Gapped
Lambda     K      H
   0.267   0.0576    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 633,432
Number of extensions: 23880
Number of successful extensions: 109
Number of sequences better than 10.0: 1
Number of HSP's gapped: 109
Number of HSP's successfully gapped: 20
Length of query: 77
Length of database: 5,693,230
Length adjustment: 46
Effective length of query: 31
Effective length of database: 4,578,006
Effective search space: 141918186
Effective search space used: 141918186
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: 50 (23.4 bits)