RPS-BLAST 2.2.22 [Sep-27-2009] Database: scop70_1_75 13,730 sequences; 2,407,596 total letters Searching..................................................done Query= gi|254780187|ref|YP_003064600.1| 30S ribosomal protein S4 [Candidatus Liberibacter asiaticus str. psy62] (206 letters) >d2gy9d1 d.66.1.2 (D:2-205) Ribosomal protein S4 {Escherichia coli [TaxId: 562]} Length = 204 Score = 187 bits (475), Expect = 7e-49 Identities = 79/204 (38%), Positives = 122/204 (59%), Gaps = 10/204 (4%) Query: 8 KHKIDRRIGENLWGRPK----SPVNTRSYGPGLHGQRRKSKPSYFGLQLRAKQKMKKYYG 63 K K+ RR G +L+ + PG HG R+ + S +G+QLR KQK+++ YG Sbjct: 6 KLKLSRREGTDLFLKSGVRAIDTKCKIEQAPGQHGARKP-RLSDYGVQLREKQKVRRIYG 64 Query: 64 DISEKKFRSIFKEADRSRGDTSHNLISFLESRLDTIVYRAKFVPTIFAARQFVNHRHVLV 123 + E++FR+ +KEA R +G+T NL++ LE RLD +VYR F T ARQ V+H+ ++V Sbjct: 65 -VLERQFRNYYKEAARLKGNTGENLLALLEGRLDNVVYRMGFGATRAEARQLVSHKAIMV 123 Query: 124 NGRSVNIGSYRCKEGDVIEVKQKSKQLASVLEASQLAE-RDVPEYISVNHDNMVATFVRI 182 NGR VNI SY+ DV+ +++K+K+ + V A +LAE R+ P ++ V+ M TF R Sbjct: 124 NGRVVNIASYQVSPNDVVSIREKAKKQSRVKAALELAEQREKPTWLEVDAGKMEGTFKRK 183 Query: 183 PSSLKDVPYPVIMQPNLVVEFYSR 206 P D+ + +L+VE YS+ Sbjct: 184 PER-SDLSADI--NEHLIVELYSK 204 >d2uubd1 d.66.1.2 (D:2-209) Ribosomal protein S4 {Thermus thermophilus [TaxId: 274]} Length = 208 Score = 177 bits (450), Expect = 6e-46 Identities = 81/206 (39%), Positives = 124/206 (60%), Gaps = 11/206 (5%) Query: 8 KHKIDRRIGENLWGR------PKSPVNTRSYGPGLHGQRRKSKPSYFGLQLRAKQKMKKY 61 ++ RR G L+ + PK + R Y PG HGQ+R +PS + ++LR KQK+++ Sbjct: 7 VCRLCRREGVKLYLKGERCYSPKCAMERRPYPPGQHGQKRARRPSDYAVRLREKQKLRRI 66 Query: 62 YGDISEKKFRSIFKEADRSRGDTSHNLISFLESRLDTIVYRAKFVPTIFAARQFVNHRHV 121 YG ISE++FR++F+EA + +G T + LESRLD +VYR F + ARQ V H H+ Sbjct: 67 YG-ISERQFRNLFEEASKKKGVTGSVFLGLLESRLDNVVYRLGFAVSRRQARQLVRHGHI 125 Query: 122 LVNGRSVNIGSYRCKEGDVIEVKQKSKQLASVLEASQLAE-RDVPEYISVNHDNMVATFV 180 VNGR V++ SYR + GD I V +KS+ L + + + + R V ++S++ + M F+ Sbjct: 126 TVNGRRVDLPSYRVRPGDEIAVAEKSRNLELIRQNLEAMKGRKVGPWLSLDVEGMKGKFL 185 Query: 181 RIPSSLKDVPYPVIMQPNLVVEFYSR 206 R+P +D+ PV LV+EFYSR Sbjct: 186 RLPDR-EDLALPV--NEQLVIEFYSR 208 >d1c06a_ d.66.1.2 (A:) Ribosomal protein S4 {Bacillus stearothermophilus [TaxId: 1422]} Length = 159 Score = 158 bits (401), Expect = 3e-40 Identities = 69/163 (42%), Positives = 99/163 (60%), Gaps = 5/163 (3%) Query: 44 KPSYFGLQLRAKQKMKKYYGDISEKKFRSIFKEADRSRGDTSHNLISFLESRLDTIVYRA 103 K S +GLQL+ KQK++ YG ++E++FR F+EA + G N + LESRLD +VYR Sbjct: 2 KLSEYGLQLQEKQKLRHMYG-VNERQFRKTFEEAGKMPGKHGENFMILLESRLDNLVYRL 60 Query: 104 KFVPTIFAARQFVNHRHVLVNGRSVNIGSYRCKEGDVIEVKQKSKQLASVLEASQLAERD 163 T ARQ V H H+LV+G VNI SYR K G I V++KS+ L + EA + A Sbjct: 61 GLARTRRQARQLVTHGHILVDGSRVNIPSYRVKPGQTIAVREKSRNLQVIKEALE-ANNY 119 Query: 164 VPEYISVNHDNMVATFVRIPSSLKDVPYPVIMQPNLVVEFYSR 206 +P+Y+S + + M T+ R+P ++P + L+VEFYSR Sbjct: 120 IPDYLSFDPEKMEGTYTRLP-ERSELPAEI--NEALIVEFYSR 159 >d1dm9a_ d.66.1.3 (A:) Heat shock protein 15 kD {Escherichia coli [TaxId: 562]} Length = 104 Score = 56.9 bits (137), Expect = 1e-09 Identities = 17/75 (22%), Positives = 34/75 (45%), Gaps = 1/75 (1%) Query: 92 LESRLDTIVYRAKFVPTIFAARQFVNHRHVLVNGRSVNIGSYRCKEGDVIEVKQKSKQLA 151 +E RLD ++ A+F T AR+ + V NG+ + S + + ++Q + + Sbjct: 3 VEVRLDKWLWAARFYKTRALAREMIEGGKVHYNGQ-RSKPSKIVELNATLTLRQGNDERT 61 Query: 152 SVLEASQLAERDVPE 166 +++A R E Sbjct: 62 VIVKAITEQRRPASE 76 >d1vioa2 d.66.1.5 (A:0-57) Pseudouridine synthase RsuA N-terminal domain {Haemophilus influenzae [TaxId: 727]} Length = 58 Score = 47.4 bits (113), Expect = 1e-06 Identities = 13/52 (25%), Positives = 22/52 (42%), Gaps = 1/52 (1%) Query: 95 RLDTIVYRAKFVPTIFAARQFVNHRHVLVNGRSVNIGSYRCKEGDVIEVKQK 146 RLD + + T A + + V +NG V GS + + D I + + Sbjct: 3 RLDKFIAENVGL-TRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDE 53 >d1p9ka_ d.66.1.6 (A:) Hypothetical protein YbcJ {Escherichia coli [TaxId: 562]} Length = 79 Score = 40.6 bits (95), Expect = 1e-04 Identities = 8/58 (13%), Positives = 19/58 (32%) Query: 95 RLDTIVYRAKFVPTIFAARQFVNHRHVLVNGRSVNIGSYRCKEGDVIEVKQKSKQLAS 152 L ++ + + A+ + V V+G + G + S Q+ + Sbjct: 22 ELCDLLKLEGWSESGAQAKIAIAEGQVKVDGAVETRKRCKIVAGQTVSFAGHSVQVVA 79 >d1kska3 d.66.1.5 (A:1-59) Pseudouridine synthase RsuA N-terminal domain {Escherichia coli [TaxId: 562]} Length = 59 Score = 40.5 bits (95), Expect = 1e-04 Identities = 9/52 (17%), Positives = 19/52 (36%), Gaps = 1/52 (1%) Query: 95 RLDTIVYRAKFVPTIFAARQFVNHRHVLVNGRSVNIGSYRCKEGDVIEVKQK 146 RLD + + V + A + + V V+G V +++ + Sbjct: 2 RLDKFIAQQLGV-SRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGN 52 >d1kbla2 c.8.1.1 (A:377-509) Pyruvate phosphate dikinase, central domain {Clostridium symbiosum [TaxId: 1512]} Length = 133 Score = 27.3 bits (60), Expect = 0.90 Identities = 7/45 (15%), Positives = 16/45 (35%), Gaps = 4/45 (8%) Query: 99 IVYRAKFVPTIFAARQFVNHRHVLVNGRSVNIGSYRCKEGDVIEV 143 +V R + + + ++ +G + EGD I + Sbjct: 82 VVARGMGTCCVSGCGEIKINEE----AKTFELGGHTFAEGDYISL 122 >d1ux5a_ a.207.1.1 (A:) Bni1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 411 Score = 25.8 bits (56), Expect = 2.6 Identities = 10/67 (14%), Positives = 21/67 (31%), Gaps = 6/67 (8%) Query: 51 QLRAKQKMKKYYGDISEKKFRSIFKEADRSRGDTSHNLISFLESRLDTIVYRAKFVPTIF 110 +R + K D ++ + AD+ NL S+ SR+ + + Sbjct: 141 GVRNLEDAKPPEKDPND------LQRADQIYLQLMVNLESYWGSRMRALTVVTSYEREYN 194 Query: 111 AARQFVN 117 + Sbjct: 195 ELLAKLR 201 >d1n82a_ c.1.8.3 (A:) Xylanase {Bacillus stearothermophilus, Ixt6 [TaxId: 1422]} Length = 330 Score = 25.2 bits (54), Expect = 3.9 Identities = 10/42 (23%), Positives = 16/42 (38%), Gaps = 7/42 (16%) Query: 16 GENLWG-------RPKSPVNTRSYGPGLHGQRRKSKPSYFGL 50 WG PV+ R P L ++ K KP+++ Sbjct: 286 SVTFWGIADDHTWLDNFPVHGRKNWPLLFDEQHKPKPAFWRA 327 >d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]} Length = 256 Score = 24.4 bits (53), Expect = 6.6 Identities = 4/24 (16%), Positives = 13/24 (54%), Gaps = 1/24 (4%) Query: 58 MKKYYGDISEKKFRSIFKEADRSR 81 ++ + G + R +F++A ++ Sbjct: 82 VEMFVGV-GASRVRDMFEQAKKAA 104 >d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]} Length = 247 Score = 24.4 bits (53), Expect = 7.0 Identities = 5/31 (16%), Positives = 12/31 (38%), Gaps = 1/31 (3%) Query: 50 LQLRAKQKMKKYYGDISEKKFRSIFKEADRS 80 + ++ + G + R +F+ A R Sbjct: 71 ITASGSDFVEMFVGV-GAARVRDLFETAKRH 100 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 0.319 0.134 0.384 Gapped Lambda K H 0.267 0.0575 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 13730 Number of Hits to DB: 726,165 Number of extensions: 31425 Number of successful extensions: 81 Number of sequences better than 10.0: 1 Number of HSP's gapped: 68 Number of HSP's successfully gapped: 14 Length of query: 206 Length of database: 2,407,596 Length adjustment: 81 Effective length of query: 125 Effective length of database: 1,295,466 Effective search space: 161933250 Effective search space used: 161933250 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 (21.7 bits) S2: 51 (23.8 bits)