RPS-BLAST 2.2.22 [Sep-27-2009] Database: scop70_1_75 13,730 sequences; 2,407,596 total letters Searching..................................................done Query= gi|254780554|ref|YP_003064967.1| Holliday junction resolvase [Candidatus Liberibacter asiaticus str. psy62] (169 letters) >d1hjra_ c.55.3.6 (A:) RuvC resolvase {Escherichia coli [TaxId: 562]} Length = 158 Score = 143 bits (361), Expect = 1e-35 Identities = 62/154 (40%), Positives = 97/154 (62%), Gaps = 1/154 (0%) Query: 7 IIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPE 66 I+GIDPG R TG+G++ G L ++ SG I + L RL +Y G+T++I ++P+ Sbjct: 3 ILGIDPGSRVTGYGVIRQVGRQLSYLGSGCIRTK-VDDLPSRLKLIYAGVTEIITQFQPD 61 Query: 67 EAAVEQVFVNKDAVATLKLGQARAIAILSPALARIPVSEYAPNTIKKAVIGVGHGDKKQI 126 A+EQVF+ K+A + LKLGQAR +AI++ +PV EYA +K+ V+G+G +K Q+ Sbjct: 62 YFAIEQVFMAKNADSALKLGQARGVAIVAAVNQELPVFEYAARQVKQTVVGIGSAEKSQV 121 Query: 127 HMMLKMLMPESFFKGKDAADALAIAVCHAYHANS 160 M++ L+ DAADALAIA+ H + + + Sbjct: 122 QHMVRTLLKLPANPQADAADALAIAITHCHVSQN 155 >d1vhxa_ c.55.3.8 (A:) Hypothetical protein YrrK (RuvX) {Bacillus subtilis [TaxId: 1423]} Length = 140 Score = 31.2 bits (70), Expect = 0.048 Identities = 14/68 (20%), Positives = 31/68 (45%), Gaps = 9/68 (13%) Query: 4 SIRIIGIDPGLRRTGWGIVDVA-GDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKN 62 S+RI+G+D G + G VA D + + + G + + L+++IK+ Sbjct: 1 SLRILGLDLGTKTLG-----VALSDEMGWTAQGIETIKINE---AEGDYGLSRLSELIKD 52 Query: 63 WRPEEAAV 70 + ++ + Sbjct: 53 YTIDKIVL 60 >d1ldda_ a.4.5.34 (A:) Anaphase promoting complex (APC) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 74 Score = 30.1 bits (68), Expect = 0.098 Identities = 5/14 (35%), Positives = 10/14 (71%) Query: 125 QIHMMLKMLMPESF 138 +IH LK+ +P+ + Sbjct: 27 KIHSFLKITVPKDW 40 >d1nu0a_ c.55.3.8 (A:) Hypothetical protein YqgF (RuvX) {Escherichia coli [TaxId: 562]} Length = 138 Score = 30.0 bits (67), Expect = 0.11 Identities = 9/66 (13%), Positives = 20/66 (30%), Gaps = 9/66 (13%) Query: 6 RIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRP 65 ++ D G + G + + A + + ++K W+P Sbjct: 4 TLMAFDFGTKSIGVAVGQ---------RITGTARPLPAIKAQDGTPDWNIIERLLKEWQP 54 Query: 66 EEAAVE 71 +E V Sbjct: 55 DEIIVG 60 >d1iv0a_ c.55.3.8 (A:) Hypothetical protein, YqgF homologue {Thermus thermophilus [TaxId: 274]} Length = 98 Score = 26.8 bits (59), Expect = 0.95 Identities = 5/13 (38%), Positives = 7/13 (53%) Query: 6 RIIGIDPGLRRTG 18 R+ +D G R G Sbjct: 2 RVGALDVGEARIG 14 >d1xy7a_ d.32.1.9 (A:) Hypothetical protein At5g48480 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 135 Score = 26.8 bits (58), Expect = 1.1 Identities = 3/23 (13%), Positives = 8/23 (34%) Query: 127 HMMLKMLMPESFFKGKDAADALA 149 H++ + + DA+ Sbjct: 1 HLVFTEFKQMLLVEAQKVGDAVT 23 >d2b0ja2 c.2.1.6 (A:1-242) 5,10-methenyltetrahydromethanopterin hydrogenase, HMD {Archaeon Methanocaldococcus jannaschii [TaxId: 2190]} Length = 242 Score = 26.5 bits (58), Expect = 1.2 Identities = 7/41 (17%), Positives = 12/41 (29%), Gaps = 2/41 (4%) Query: 1 MRKSIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCV 41 + S G L + +V + CF +V Sbjct: 39 LTHSSITYGA--ELLHLVPDVKEVIVSDPCFAEEPGLVVID 77 >d1uqwa_ c.94.1.1 (A:) Hypothetical protein YliB {Escherichia coli [TaxId: 562]} Length = 487 Score = 24.7 bits (52), Expect = 3.9 Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 1/36 (2%) Query: 51 QLYEGLTDVIKNWRPEEAAVEQVFVNKDA-VATLKL 85 Y+GL + K + + E V+ D T+KL Sbjct: 32 SFYQGLFGLDKEMKLKNVLAESYTVSDDGITYTVKL 67 >d1kcfa2 c.55.3.7 (A:39-256) Mitochondrial resolvase ydc2 catalytic domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 218 Score = 25.0 bits (54), Expect = 3.9 Identities = 6/39 (15%), Positives = 19/39 (48%) Query: 6 RIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQS 44 R++GID G++ + D+ + + ++ + ++ Sbjct: 3 RVLGIDLGIKNFSYCFASQNEDSKVIIHNWSVENLTEKN 41 >d3bzka5 c.55.3.13 (A:325-473) Transcriptional accessory factor Tex {Pseudomonas aeruginosa [TaxId: 287]} Length = 149 Score = 24.4 bits (53), Expect = 5.2 Identities = 11/24 (45%), Positives = 14/24 (58%), Gaps = 3/24 (12%) Query: 6 RIIGIDPGLRRTG--WGIVDVAGD 27 +G+DPGL RTG +VD G Sbjct: 6 ATLGLDPGL-RTGVKVAVVDATGK 28 >d1y7ta2 d.162.1.1 (A:154-332) Malate dehydrogenase {Thermus thermophilus [TaxId: 274]} Length = 173 Score = 24.3 bits (52), Expect = 5.3 Identities = 7/45 (15%), Positives = 13/45 (28%), Gaps = 6/45 (13%) Query: 85 LGQARAIAILSPALARIPVSEYAPNTIKKAVIGVGHGDKKQIHMM 129 L RA A L+ + I++ + H + Sbjct: 4 LDHNRAKAQLAKKT------GTGVDRIRRMTVWGNHSSTMFPDLF 42 >d2i7ta1 d.157.1.10 (A:9-459) Cleavage and polyadenylation specificity factor subunit 3 {Human (Homo sapiens) [TaxId: 9606]} Length = 451 Score = 24.4 bits (51), Expect = 6.2 Identities = 5/21 (23%), Positives = 8/21 (38%) Query: 119 GHGDKKQIHMMLKMLMPESFF 139 H D +Q ++ L P Sbjct: 387 AHTDYQQTSEFIRALKPPHVI 407 >d2p0la1 d.104.1.3 (A:4-272) Lipoate-protein ligase A {Streptococcus agalactiae [TaxId: 1311]} Length = 269 Score = 24.2 bits (52), Expect = 6.4 Identities = 11/55 (20%), Positives = 19/55 (34%), Gaps = 4/55 (7%) Query: 9 GIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNW 63 G +P +R G V L F ++V + Y + D I++ Sbjct: 78 GYEPVVRNFGGLAVVADEGILNF----SLVIPDVFERKLSISDGYLIMVDFIRSI 128 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 0.323 0.136 0.406 Gapped Lambda K H 0.267 0.0635 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 13730 Number of Hits to DB: 644,793 Number of extensions: 27720 Number of successful extensions: 68 Number of sequences better than 10.0: 1 Number of HSP's gapped: 66 Number of HSP's successfully gapped: 14 Length of query: 169 Length of database: 2,407,596 Length adjustment: 79 Effective length of query: 90 Effective length of database: 1,322,926 Effective search space: 119063340 Effective search space used: 119063340 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 50 (23.2 bits)