RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781148|ref|YP_003065561.1| hypothetical protein
CLIBASIA_05275 [Candidatus Liberibacter asiaticus str. psy62]
         (69 letters)



>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A
          {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A
          2r6e_A 2vyf_A 2vye_A
          Length = 454

 Score = 40.6 bits (94), Expect = 9e-05
 Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 1/44 (2%)

Query: 21 IGLEQEILGSLLL-KGNLQPIISFLDAQHFIDPIHSEVFRAITR 63
          I  EQ +LG++ L    L P    L  + F    H ++F A+ R
Sbjct: 14 IEAEQAVLGAVFLDPAALVPASEILIPEDFYRAAHQKIFHAMLR 57


>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A
          {Bacillus phage SPP1}
          Length = 444

 Score = 36.1 bits (82), Expect = 0.002
 Identities = 11/40 (27%), Positives = 18/40 (45%), Gaps = 1/40 (2%)

Query: 24 EQEILGSLLLKGNLQPIISFLDAQHFIDPIHSEVFRAITR 63
          EQ +LGS+L +  L      L  +HF    H  ++  +  
Sbjct: 18 EQAVLGSILTEPELIKECP-LTPEHFSPGKHFNIYFTMQD 56


>3gxv_A Replicative DNA helicase; hexameric helicase, primase,
          replication, ATP-binding, autocatalytic cleavage, DNA
          replication; 2.20A {Helicobacter pylori} PDB: 3gxv_D
          3gxv_C
          Length = 123

 Score = 34.5 bits (79), Expect = 0.006
 Identities = 8/44 (18%), Positives = 20/44 (45%), Gaps = 1/44 (2%)

Query: 21 IGLEQEILGSLLLKGN-LQPIISFLDAQHFIDPIHSEVFRAITR 63
            +E+ +L  ++L  + ++ + S L+   F  P +   F    +
Sbjct: 11 QNIERIVLSGIVLANHKIEEVHSVLEPSDFYYPPNGLFFEIALK 54


>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus
          aquaticus}
          Length = 444

 Score = 33.4 bits (75), Expect = 0.012
 Identities = 11/45 (24%), Positives = 23/45 (51%), Gaps = 2/45 (4%)

Query: 21 IGLEQEILGSLLLKGN-LQPIISFLDA-QHFIDPIHSEVFRAITR 63
          +  EQ +LGS+LL  + +  +   L + + F    H +++ A+  
Sbjct: 10 LEAEQSVLGSILLDSDVMDEVEGLLPSPEAFYAEAHRKIYAAMQA 54


>2r5u_A Replicative DNA helicase; DNAB, primase, replication,
          ATP-binding, autocatalytic cleavage, DNA replication,
          DNA-binding, endonuclease; 1.90A {Mycobacterium
          tuberculosis}
          Length = 200

 Score = 32.0 bits (72), Expect = 0.033
 Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 1/42 (2%)

Query: 21 IGLEQEILGSLLLKGN-LQPIISFLDAQHFIDPIHSEVFRAI 61
          +  EQ +LG +LL  + +  ++  L    F  P H  V+ AI
Sbjct: 31 LAAEQSVLGGMLLSKDAIADVLERLRPGDFYRPAHQNVYDAI 72


>1b79_A DNAB helicase; hexamer, DNA replication; 2.30A {Escherichia coli}
          SCOP: a.81.1.1 PDB: 1jwe_A
          Length = 119

 Score = 31.5 bits (71), Expect = 0.051
 Identities = 12/44 (27%), Positives = 18/44 (40%), Gaps = 1/44 (2%)

Query: 21 IGLEQEILGSLLLKGN-LQPIISFLDAQHFIDPIHSEVFRAITR 63
          I  EQ +LG L+L       +   + A  F    H  +F  + R
Sbjct: 21 IEAEQSVLGGLMLDNERWDDVAERVVADDFYTRPHRHIFTEMAR 64


>3kv5_D JMJC domain-containing histone demethylation protein 1D;
           epigenetics, histone CODE, jumonji lysine demethylase,
           metal-binding, zinc, zinc-finger; HET: OGA; 2.39A {Homo
           sapiens} PDB: 3kv6_A*
          Length = 488

 Score = 28.0 bits (62), Expect = 0.51
 Identities = 6/23 (26%), Positives = 11/23 (47%)

Query: 2   LSDFSKKYYSRNNNSIYYFIGLE 24
           L ++ K + + N   +   I LE
Sbjct: 207 LHNYVKYFMNPNRPKVLNVISLE 229


>2r6a_C DNAG primase, helicase binding domain, replicative helicase;
          replication, DNAB; 2.90A {Geobacillus
          stearothermophilus} PDB: 2r6c_G 1z8s_A*
          Length = 143

 Score = 27.4 bits (60), Expect = 0.79
 Identities = 5/38 (13%), Positives = 14/38 (36%)

Query: 24 EQEILGSLLLKGNLQPIISFLDAQHFIDPIHSEVFRAI 61
          E+ +L  ++   ++  ++       F    H  +   I
Sbjct: 10 ERLLLAHMMRSRDVALVVQERIGGRFNIEEHRALAAYI 47


>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 = 26.8 bits (59), Expect = 1.3
 Identities = 7/17 (41%), Positives = 13/17 (76%)

Query: 40 IISFLDAQHFIDPIHSE 56
            +F+DA+H +DPI++ 
Sbjct: 64 TCAFIDAEHALDPIYAR 80


>3kv9_A JMJC domain-containing histone demethylation protein 1D; jumonji
           domain lysine demethylase, metal-binding, zinc,
           zinc-finger; 2.29A {Homo sapiens} PDB: 3kva_A* 3kvb_A*
          Length = 397

 Score = 24.9 bits (54), Expect = 4.4
 Identities = 6/23 (26%), Positives = 11/23 (47%)

Query: 2   LSDFSKKYYSRNNNSIYYFIGLE 24
           L ++ K + + N   +   I LE
Sbjct: 116 LHNYVKYFMNPNRPKVLNVISLE 138


>1y7e_A Probable M18-family aminopeptidase 1; aminopeptidase I, borrelia
          burgdorferi B31, YSCI, structural genomics, PSI; 3.20A
          {Borrelia burgdorferi} SCOP: b.49.3.1 c.56.5.4
          Length = 458

 Score = 23.8 bits (51), Expect = 9.7
 Identities = 5/21 (23%), Positives = 10/21 (47%)

Query: 7  KKYYSRNNNSIYYFIGLEQEI 27
          K +Y+    S+ + I  +  I
Sbjct: 65 KIFYTCREKSVAFAIIGKNPI 85


  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
   0.323    0.140    0.403 

Gapped
Lambda     K      H
   0.267   0.0568    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 566,891
Number of extensions: 19790
Number of successful extensions: 66
Number of sequences better than 10.0: 1
Number of HSP's gapped: 62
Number of HSP's successfully gapped: 14
Length of query: 69
Length of database: 5,693,230
Length adjustment: 39
Effective length of query: 30
Effective length of database: 4,747,714
Effective search space: 142431420
Effective search space used: 142431420
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.4 bits)