RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780796|ref|YP_003065209.1| ribonuclease H [Candidatus
Liberibacter asiaticus str. psy62]
         (152 letters)



>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus
           [TaxId: 274]}
          Length = 147

 Score =  123 bits (308), Expect = 9e-30
 Identities = 76/140 (54%), Positives = 98/140 (70%), Gaps = 1/140 (0%)

Query: 7   REVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYP 66
           + V  +TDGAC GNPGPGGW  LLR+   EK++SGGE  TTNNRMEL AAI+ L ALK P
Sbjct: 2   KRVALFTDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIEGLKALKEP 61

Query: 67  CKVLLYTDSSYVHKGFSQWIKKWQQ-NGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWI 125
           C+V LYTDS Y+ K F++   +  +  GW+T++ K VKN DLW   + A A H+V  +++
Sbjct: 62  CEVDLYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFV 121

Query: 126 KGHAGNQENEKVDRIARNAA 145
           KGH G+ ENE+VDR AR  A
Sbjct: 122 KGHTGHPENERVDREARRQA 141


>d1zbfa1 c.55.3.1 (A:62-193) BH0863-like Ribonuclease H {Bacillus
           halodurans [TaxId: 86665]}
          Length = 132

 Score =  121 bits (304), Expect = 3e-29
 Identities = 27/131 (20%), Positives = 44/131 (33%), Gaps = 11/131 (8%)

Query: 12  YTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYP-CKVL 70
             D    GNPG   +  +    G+           TNN  E +A +  L  LK    +  
Sbjct: 8   SVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKP 67

Query: 71  LYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASA---QHKVDLYWIKG 127
           +Y++S    K    W+K       K++  +  +   +W    EA      H  +   +K 
Sbjct: 68  IYSNSQTAIK----WVKDK---KAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKW 120

Query: 128 HAGNQENEKVD 138
                   K D
Sbjct: 121 QTDKWGEIKAD 131


>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId:
           562]}
          Length = 152

 Score =  120 bits (301), Expect = 6e-29
 Identities = 78/139 (56%), Positives = 101/139 (72%)

Query: 7   REVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYP 66
           ++V  +T G+  GNPGPGG+G +LRY+G+EK  S G   TTNNRMELMAAI AL ALK  
Sbjct: 1   KQVEIFTAGSALGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKEH 60

Query: 67  CKVLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWIK 126
            +V+L TDS YV +G +QWI  W++ GWKT+DKK VKN+DLW +   A  QH++   W+K
Sbjct: 61  AEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVK 120

Query: 127 GHAGNQENEKVDRIARNAA 145
           GHAG+ ENE+ D +AR AA
Sbjct: 121 GHAGHPENERADELARAAA 139


>d1s1ta1 c.55.3.1 (A:430-539) HIV RNase H (Domain of reverse
           transcriptase) {Human immunodeficiency virus type 1
           [TaxId: 11676]}
          Length = 110

 Score = 95.4 bits (237), Expect = 2e-21
 Identities = 25/117 (21%), Positives = 38/117 (32%), Gaps = 18/117 (15%)

Query: 12  YTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPCKVLL 71
           Y DGA +     G  G +       +       +TTN + EL A   AL       +V +
Sbjct: 12  YVDGAANRETKLGKAGYVTNR---GRQKVVTLTDTTNQKTELQAIYLALQDS--GLEVNI 66

Query: 72  YTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWIKGH 128
            TDS Y          + +        ++ +K               KV L W+  H
Sbjct: 67  VTDSQYALGIIQAQPDQSESELVNQIIEQLIKK-------------EKVYLAWVPAH 110


>d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse
           transcriptase) {Human immunodeficiency virus type 2
           [TaxId: 11709]}
          Length = 126

 Score = 90.0 bits (222), Expect = 8e-20
 Identities = 27/133 (20%), Positives = 44/133 (33%), Gaps = 18/133 (13%)

Query: 12  YTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPCKVLL 71
           YTDG+C+     G  G       + K      ++TTN + EL A            KV +
Sbjct: 11  YTDGSCNRQSKEGKAGY---VTDRGKDKVKKLEQTTNQQAELEAFAM--ALTDSGPKVNI 65

Query: 72  YTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWIKGHAGN 131
             DS YV    +    + +                      E   +  + + W+  H G 
Sbjct: 66  IVDSQYVMGIVASQPTESESKIV-------------NQIIEEMIKKEAIYVAWVPAHKGI 112

Query: 132 QENEKVDRIARNA 144
             N++VD +    
Sbjct: 113 GGNQEVDHLVSQG 125


>d1d5ta2 d.16.1.6 (A:292-388) Guanine nucleotide dissociation
          inhibitor, GDI {Cow (Bos taurus) [TaxId: 9913]}
          Length = 97

 Score = 26.2 bits (58), Expect = 1.3
 Identities = 9/28 (32%), Positives = 14/28 (50%)

Query: 33 KGKEKIISGGEKETTNNRMELMAAIKAL 60
          +GK   I+    ETT+   E+  A+  L
Sbjct: 55 QGKYIAIASTTVETTDPEKEVEPALGLL 82


>d1rf6a_ d.68.2.2 (A:) 5-enol-pyruvyl shikimate-3-phosphate (EPSP)
           synthase {Streptococcus pneumoniae [TaxId: 1313]}
          Length = 427

 Score = 26.0 bits (56), Expect = 1.4
 Identities = 11/63 (17%), Positives = 24/63 (38%), Gaps = 5/63 (7%)

Query: 30  LRYKGKEKIISGGEKETTNN-RMELMAAIKALTALKYPCKVLLYTDSSYVHKGFSQWIKK 88
           +  KGK  +  G    T  + R+ +M AI AL       ++     +  ++  +  +   
Sbjct: 365 MIIKGKSAL-HGARVNTFGDHRIGMMTAIAALLVADGEVEL---DRAEAINTSYPSFFDD 420

Query: 89  WQQ 91
            + 
Sbjct: 421 LES 423


>d2bcgg3 d.16.1.6 (G:302-399) Guanine nucleotide dissociation
          inhibitor, GDI {Baker's yeast (Saccharomyces
          cerevisiae) [TaxId: 4932]}
          Length = 98

 Score = 25.4 bits (56), Expect = 2.0
 Identities = 10/28 (35%), Positives = 11/28 (39%)

Query: 33 KGKEKIISGGEKETTNNRMELMAAIKAL 60
          KG    I     ET    +EL  A K L
Sbjct: 56 KGHYLAIISTIIETDKPHIELEPAFKLL 83


>d1q7ha2 d.17.6.2 (A:3-68) Hypothetical protein Ta1423, N-terminal
           domain {Archaeon Thermoplasma acidophilum [TaxId: 2303]}
          Length = 66

 Score = 23.9 bits (51), Expect = 6.2
 Identities = 8/23 (34%), Positives = 13/23 (56%)

Query: 105 IDLWMKFVEASAQHKVDLYWIKG 127
           ID+  + +E +AQ     Y+I G
Sbjct: 22  IDITGESLEVAAQKSASAYYIGG 44


>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach
           (Spinacia oleracea) [TaxId: 3562]}
          Length = 218

 Score = 23.9 bits (51), Expect = 7.1
 Identities = 7/40 (17%), Positives = 11/40 (27%)

Query: 18  SGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAI 57
                 G +  L      E       KE  N R+ + +  
Sbjct: 140 DPLYPGGSFDPLGLADDPEAFAELKVKEIKNGRLAMFSMF 179


>d1ypzf1 b.1.1.1 (F:1-120) T-cell antigen receptor {Human (Homo
           sapiens), gamma-chain [TaxId: 9606]}
          Length = 120

 Score = 23.2 bits (49), Expect = 9.4
 Identities = 13/77 (16%), Positives = 27/77 (35%)

Query: 67  CKVLLYTDSSYVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWIK 126
           CKV + +  S     + Q   +  +         T   +D   K +EAS         + 
Sbjct: 23  CKVFIESFRSVTIHWYRQKPNQGLEFLLYVLATPTHIFLDKEYKKMEASKNPSASTSILT 82

Query: 127 GHAGNQENEKVDRIARN 143
            ++  +E+E +   +  
Sbjct: 83  IYSLEEEDEAIYYCSYG 99


>d2b5dx2 c.6.2.4 (X:1-404) Alpha-amylase AmyC {Thermotoga maritima
           [TaxId: 2336]}
          Length = 404

 Score = 23.5 bits (50), Expect = 9.4
 Identities = 7/47 (14%), Positives = 19/47 (40%), Gaps = 1/47 (2%)

Query: 77  YVHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLY 123
            + + + + ++K  +   K   ++T K   L  K  +   +H   + 
Sbjct: 69  DLQEKYERHMEKLIELANK-EVERTKKEHPLKHKMAKFYREHFEKIL 114


  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
   0.315    0.131    0.408 

Gapped
Lambda     K      H
   0.267   0.0603    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 583,301
Number of extensions: 25332
Number of successful extensions: 93
Number of sequences better than 10.0: 1
Number of HSP's gapped: 84
Number of HSP's successfully gapped: 19
Length of query: 152
Length of database: 2,407,596
Length adjustment: 78
Effective length of query: 74
Effective length of database: 1,336,656
Effective search space: 98912544
Effective search space used: 98912544
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 (21.6 bits)
S2: 49 (22.9 bits)