RPS-BLAST 2.2.22 [Sep-27-2009] Database: scop70_1_75 13,730 sequences; 2,407,596 total letters Searching..................................................done Query= gi|254780345|ref|YP_003064758.1| transcription antitermination protein NusB [Candidatus Liberibacter asiaticus str. psy62] (170 letters) >d1ey1a_ a.79.1.1 (A:) Antitermination factor NusB {Escherichia coli [TaxId: 562]} Length = 139 Score = 90.2 bits (223), Expect = 8e-20 Identities = 42/146 (28%), Positives = 68/146 (46%), Gaps = 14/146 (9%) Query: 11 KLSHRRGIARLAAVQALYQIDIIGCSTTEIISEYETYRFCADTELDVESVYLHVDLEWFR 70 K + RR AR AVQALY + ++ + F A+ ++ VD+ +FR Sbjct: 2 KPAARR-RARECAVQALYSWQLSQNDIADVEYQ-----FLAEQDVK------DVDVLYFR 49 Query: 71 VIIHGVMDRKQHIDLLISSCLTEKWSFSRLDMILCSILRAGVLELIECHSVPVEVIISEY 130 ++ GV ++D L+ L L + ++LR + EL + VP +V I+E Sbjct: 50 ELLAGVATNTAYLDGLMKPYL--SRLLEELGQVEKAVLRIALYELSKRSDVPYKVAINEA 107 Query: 131 VCIAHDFFYGDEPKFINAVLDKVSRK 156 + +A F D KF+N VLDK + Sbjct: 108 IELAKSFGAEDSHKFVNGVLDKAAPV 133 >d1eyva_ a.79.1.1 (A:) Antitermination factor NusB {Mycobacterium tuberculosis [TaxId: 1773]} Length = 131 Score = 84.8 bits (209), Expect = 3e-18 Identities = 39/138 (28%), Positives = 61/138 (44%), Gaps = 9/138 (6%) Query: 16 RGIARLAAVQALYQIDIIGCSTTEIISEYETYRFCADTELDVESVYLHVDLEWFRVIIHG 75 R AR AV L++ ++ G S E++ L + + + G Sbjct: 2 RHQARKRAVALLFEAEVRGISAAEVVDTRA--------ALAEAKPDIARLHPYTAAVARG 53 Query: 76 VMDRKQHIDLLISSCLTEKWSFSRLDMILCSILRAGVLELIECHSVPVEVIISEYVCIAH 135 V + HID LI++ W+ RL + +ILR V EL+ VP V++ E V +A Sbjct: 54 VSEHAAHIDDLITAH-LRGWTLDRLPAVDRAILRVSVWELLHAADVPEPVVVDEAVQLAK 112 Query: 136 DFFYGDEPKFINAVLDKV 153 + D P F+N VL +V Sbjct: 113 ELSTDDSPGFVNGVLGQV 130 >d1tzva_ a.79.1.1 (A:) Antitermination factor NusB {Thermotoga maritima [TaxId: 2336]} Length = 141 Score = 82.5 bits (203), Expect = 2e-17 Identities = 42/141 (29%), Positives = 67/141 (47%), Gaps = 12/141 (8%) Query: 16 RGIARLAAVQALYQIDIIGCSTTEIISEYETYRFCADTELDVESVYLHVDLEWFRVIIHG 75 R RLA +AL+Q + E I E ++ Y E R I G Sbjct: 5 RRRMRLAVFKALFQHEFRRDEDLEQILEEI-----------LDETYDKKAKEDARRYIRG 53 Query: 76 VMDRKQHIDLLISSCLTEKWSFSRLDMILCSILRAGVLELIECHSVPVEVIISEYVCIAH 135 + + ID LIS EKWS +RL ++ ++LR EL+ +P+EV I E + IA Sbjct: 54 IKENLSMIDDLISRY-LEKWSLNRLSVVDRNVLRLATYELLFEKDIPIEVTIDEAIEIAK 112 Query: 136 DFFYGDEPKFINAVLDKVSRK 156 + + KF+N +LD+++++ Sbjct: 113 RYGTENSGKFVNGILDRIAKE 133 >d1sqga1 a.79.1.3 (A:5-144) Ribosomal RNA small subunit methyltransferase B, RsmB (Sun, Fmu/Fmv), N-terminal domain {Escherichia coli [TaxId: 562]} Length = 140 Score = 80.5 bits (198), Expect = 8e-17 Identities = 25/140 (17%), Positives = 50/140 (35%), Gaps = 16/140 (11%) Query: 19 ARLAAVQALYQIDIIGCSTTEIISEYETYRFCADTELDVESVYLHVDLEWFRVIIHGVMD 78 R A QA+ Q+ G S + I+ + ++ D + + GV+ Sbjct: 3 LRSMAAQAVEQVVEQGQSLSNILPPLQQ-------KVS------DKDKALLQELCFGVLR 49 Query: 79 RKQHIDLLISSCLTEKWSFSRLDMILCSILRAGVLELIECHSVPVEVIISEYVCIAHDFF 138 +D LI+ + + ++ G+ + + +P ++E V A Sbjct: 50 TLSQLDWLINKL--MARPMTGKQRTVHYLIMVGLYQ-LLYTRIPPHAALAETVEGAIAIK 106 Query: 139 YGDEPKFINAVLDKVSRKEE 158 IN VL + R++E Sbjct: 107 RPQLKGLINGVLRQFQRQQE 126 >d1e88a1 g.14.1.2 (A:42-101) Fibronectin {Human (Homo sapiens) [TaxId: 9606]} Length = 60 Score = 25.9 bits (57), Expect = 2.1 Identities = 8/19 (42%), Positives = 10/19 (52%) Query: 35 CSTTEIISEYETYRFCADT 53 CSTT + + Y FC D Sbjct: 41 CSTTSNYEQDQKYSFCTDH 59 >d1eaka4 g.14.1.2 (A:278-335) Gelatinase A (MMP-2) type II modules {Human (Homo sapiens) [TaxId: 9606]} Length = 58 Score = 25.8 bits (57), Expect = 2.2 Identities = 8/19 (42%), Positives = 10/19 (52%) Query: 35 CSTTEIISEYETYRFCADT 53 C TTE + Y FC +T Sbjct: 40 CGTTEDYDRDKKYGFCPET 58 >d1kuta_ d.143.1.1 (A:) SAICAR synthase {Thermotoga maritima [TaxId: 2336]} Length = 224 Score = 25.8 bits (56), Expect = 2.2 Identities = 14/74 (18%), Positives = 27/74 (36%) Query: 69 FRVIIHGVMDRKQHIDLLISSCLTEKWSFSRLDMILCSILRAGVLELIECHSVPVEVIIS 128 + H V+ K I ++ L + S + L + L++I P+EV++ Sbjct: 22 GDGLKHDVLTGKGSICAETTAILMKYLSEKGIKTHLVEYIPPRTLKVIPLKMFPLEVVVR 81 Query: 129 EYVCIAHDFFYGDE 142 + YG Sbjct: 82 LKKAGSFVRRYGGA 95 >d1v8da_ c.140.1.1 (A:) Hypothetical protein TT1679 {Thermus thermophilus [TaxId: 274]} Length = 193 Score = 24.7 bits (54), Expect = 4.9 Identities = 5/15 (33%), Positives = 11/15 (73%) Query: 29 QIDIIGCSTTEIISE 43 + ++G ST+E++ E Sbjct: 25 SLFVLGGSTSEVLGE 39 >d1eaza_ b.55.1.1 (A:) Tapp1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103 Score = 24.4 bits (52), Expect = 6.3 Identities = 6/46 (13%), Positives = 19/46 (41%), Gaps = 8/46 (17%) Query: 35 CSTTEIISEYETYRFCADTELDVESVYLHVDLEWFRVIIHGVMDRK 80 + EI++ T+ AD+ ++ W + + ++ ++ Sbjct: 66 DNLFEIVTTSRTFYVQADSPEEMH--------SWIKAVSGAIVAQR 103 >d1l6ja5 g.14.1.2 (A:332-390) Gelatinase B (MMP-9) type II modules {Human (Homo sapiens) [TaxId: 9606]} Length = 59 Score = 23.9 bits (52), Expect = 7.7 Identities = 6/18 (33%), Positives = 9/18 (50%) Query: 35 CSTTEIISEYETYRFCAD 52 C+TT + + FC D Sbjct: 42 CATTSNFDSDKKWGFCPD 59 >d1xria_ c.45.1.1 (A:) Putative phosphatase At1g05000 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 151 Score = 23.6 bits (50), Expect = 8.8 Identities = 7/42 (16%), Positives = 12/42 (28%), Gaps = 1/42 (2%) Query: 17 GIARLAAVQALYQIDIIGCSTTEIISEYETYRFCADTELDVE 58 G R + + + T I EY+ + D Sbjct: 102 GKHRTGCLVGCLRK-LQKWCLTSIFDEYQRFAAAKARVSDQR 142 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 0.325 0.139 0.416 Gapped Lambda K H 0.267 0.0443 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 13730 Number of Hits to DB: 655,405 Number of extensions: 29504 Number of successful extensions: 78 Number of sequences better than 10.0: 1 Number of HSP's gapped: 72 Number of HSP's successfully gapped: 17 Length of query: 170 Length of database: 2,407,596 Length adjustment: 79 Effective length of query: 91 Effective length of database: 1,322,926 Effective search space: 120386266 Effective search space used: 120386266 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 50 (23.8 bits)