RPS-BLAST 2.2.22 [Sep-27-2009] Database: scop70_1_75 13,730 sequences; 2,407,596 total letters Searching..................................................done Query= gi|254780901|ref|YP_003065314.1| single-stranded-DNA-specific exonuclease protein [Candidatus Liberibacter asiaticus str. psy62] (600 letters) >d1ir6a_ c.107.1.2 (A:) Exonuclease RecJ {Thermus thermophilus [TaxId: 274]} Length = 385 Score = 237 bits (606), Expect = 1e-63 Identities = 120/410 (29%), Positives = 192/410 (46%), Gaps = 28/410 (6%) Query: 71 DPLILTDCDKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRFLSHCSVNANMYIPDR 130 L L +AA + +A+ ++I + GDYD DG A+++R L+ + + +IP R Sbjct: 3 ALLPLKGLREAAALLEEALRQGKRIRVHGDYDADGLTGTAILVRGLAALGADVHPFIPHR 62 Query: 131 IVDGYGPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEIP 190 + +GYG + + + E + L +TVDCG T++ L+ G++VIV DHH P Sbjct: 63 LEEGYGVLMERVPEHL-EASDLFLTVDCGITNHAELRELLENGVEVIVTDHHTPGKTPPP 121 Query: 191 AYALVNPNRLDDLSGQGHLCAAGVVFLVLVLIYRILRQDNKVPLNFDLLSLLDLVALATV 250 + D + AGV FL+L ++ L L DL A+ T+ Sbjct: 122 GLVVHPALTPDL---KEKPTGAGVAFLLLWALHERLGL-------PPPLEYADLAAVGTI 171 Query: 251 CDVVPLIGLNRAYVVKGLMVARRQGNPGLKALIERVNISSPITAENLGYMIGPSINAGGR 310 DV PL G NRA V +GL GL+ L E V + + + I P INA R Sbjct: 172 ADVAPLWGWNRALVKEGLARIPASSWVGLRLLAEAVGYTGKAV--EVAFRIAPRINAASR 229 Query: 311 IGESNLGSRLLISDDSQELEMLAMKLDVLNQNRRLMESAMLEQAEAKVLTQCDDIQQASV 370 +GE+ RLL++DD+ E + L +L LN R+ +E AML + +A Sbjct: 230 LGEAEKALRLLLTDDAAEAQALVGELHRLNARRQTLEEAMLRK------LLPQADPEAKA 283 Query: 371 IVVEGDRWHPGIVGLLAARLKEKFGRPSFAISFEEDGKGIGSGRSIEGFDIGKMVSFAVE 430 IV+ HPG++G++A+R+ E RP F ++ +G G+ RS+ + + A Sbjct: 284 IVLLDPEGHPGVMGIVASRILEATLRPVFLVA-----QGKGTVRSLAPISAVEALRSA-- 336 Query: 431 EGILVKGGGHAMAAGLTVERVNFGRLCDFFQKFAHNIVPALITTPVFKID 480 E +L++ GGH AAG ++ F + +A + V +D Sbjct: 337 EDLLLRYGGHKEAAGFAMDEALFPAFKARVEAYAARFPDPVR--EVALLD 384 >d2fywa1 c.135.1.1 (A:1-265) Hypothetical protein SP1609 {Streptococcus pneumoniae [TaxId: 1313]} Length = 265 Score = 34.7 bits (79), Expect = 0.021 Identities = 14/69 (20%), Positives = 26/69 (37%), Gaps = 4/69 (5%) Query: 114 RFLSHCSVNANMYIPDRIVDGYGPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQG 173 R + + + I + G G S + + +GA + IT G Y Q + G Sbjct: 162 RMVHYQEDDLQKPISRVAICG-GSGQSFYKDALAKGADVYIT---GDIYYHTAQDMLSDG 217 Query: 174 IDVIVIDHH 182 + + H+ Sbjct: 218 LLALDPGHY 226 >d2gx8a1 c.135.1.1 (A:4-373) Nif3-related protein BC4286 {Bacillus cereus [TaxId: 1396]} Length = 370 Score = 34.3 bits (78), Expect = 0.027 Identities = 10/59 (16%), Positives = 23/59 (38%), Gaps = 6/59 (10%) Query: 136 GPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEIPAYAL 194 G + + +GA + +T G Y A G++++ H+ E++ + Sbjct: 288 GDGNKYINQAKFKGADVYVT---GDMYYHVAHDAMMLGLNIVDPGHN---VEKVMKQGV 340 >d1wpna_ c.107.1.1 (A:) Manganese-dependent inorganic pyrophosphatase (family II) {Bacillus subtilis [TaxId: 1423]} Length = 187 Score = 33.2 bits (75), Expect = 0.054 Identities = 19/112 (16%), Positives = 32/112 (28%), Gaps = 7/112 (6%) Query: 93 EKIMIFG--DYDVDGAASVALMMRFLSHCSVNANMYIPDRIVDGYGPNPSLMEKFINEGA 150 EKI+IFG + D D S + NA ++ ++ Sbjct: 1 EKILIFGHQNPDTDTICSAIAYADLKNKLGFNAEPVRLGQVNGETQYALDYFKQESPRLV 60 Query: 151 QLIITVDCGSTSYDA-----LQYATNQGIDVIVIDHHQVKSEEIPAYALVNP 197 + G D + + VIDHH++ + E Sbjct: 61 ETAANEVNGVILVDHNERQQSIKDIEEVQVLEVIDHHRIANFETAEPLYYRA 112 >d1nmpa_ c.135.1.1 (A:) Hypothetical protein YbgI {Escherichia coli [TaxId: 562]} Length = 247 Score = 30.4 bits (68), Expect = 0.47 Identities = 11/44 (25%), Positives = 15/44 (34%), Gaps = 3/44 (6%) Query: 139 PSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHH 182 S ++ G IT G S + A QG+ HH Sbjct: 176 QSFIDSAARFGVDAFIT---GEVSEQTIHSAREQGLHFYAAGHH 216 >d1woua_ c.47.1.16 (A:) Putative 42-9-9 protein (thioredoxin containing protein Txnl5) {Human (Homo sapiens) [TaxId: 9606]} Length = 119 Score = 28.6 bits (63), Expect = 1.4 Identities = 12/78 (15%), Positives = 27/78 (34%), Gaps = 6/78 (7%) Query: 77 DCDKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRFL-SHCSVNANMYI-----PDR 130 DC +A + + + + + +F V + V A + P + Sbjct: 42 DCVQAEPVVREGLKHISEGCVFIYCQVGEKPYWKDPNNDFRKNLKVTAVPTLLKYGTPQK 101 Query: 131 IVDGYGPNPSLMEKFINE 148 +V+ +L+E +E Sbjct: 102 LVESECLQANLVEMLFSE 119 >d1jeoa_ c.80.1.3 (A:) Probable 3-hexulose-6-phosphate isomerase MJ1247 {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 177 Score = 28.6 bits (63), Expect = 1.7 Identities = 21/179 (11%), Positives = 50/179 (27%), Gaps = 15/179 (8%) Query: 59 DFLNPSIRLLMPDPLILTDCDKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRF-LS 117 D ++ +I +L + ++ I ++KI IFG V + + L Sbjct: 5 DIVSNNILILK-KFYTNDEWKNKLDSLIDRIIKAKKIFIFG---VGRSGYIGRCFAMRLM 60 Query: 118 HCSVNANMYIPDRIVDGYGPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVI 177 H + + ++ ++ + A N ++I Sbjct: 61 HLGFKSYFVGETTTPSYEKDDLLILISGSGRTESVL----------TVAKKAKNINNNII 110 Query: 178 VIDHHQVKSEEIPAYALVNPNRLDDLSGQGHLCAAGVVFLVLVLIYRILRQDNKVPLNF 236 I E + + G + + ++I I+++ N Sbjct: 111 AIVCECGNVVEFADLTIPLEVKKSKYLPMGTTFEETALIFLDLVIAEIMKRLNLDESEI 169 >d1y88a2 c.52.1.30 (A:3-127) Hypothetical protein AF1548, N-terminal domain {Archaeoglobus fulgidus [TaxId: 2234]} Length = 125 Score = 28.1 bits (62), Expect = 2.3 Identities = 13/95 (13%), Positives = 26/95 (27%), Gaps = 5/95 (5%) Query: 90 YNSEKIMIFGDYDVDGAASVALMM---RFLSHCSVNANMYIPDRIVDGYGPNPSLMEKFI 146 + ++ +I V+ V R++ C + Y + Sbjct: 18 FETKTNVIVQGNCVEQEIDVVAERDGERYMIECKFHNIPVYTGLKEAMYTY--ARFLDVE 75 Query: 147 NEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDH 181 G S +A +YA GI + + Sbjct: 76 KHGFTQPWIFTNTKFSEEAKKYAGCVGIKLTGWSY 110 >d1x94a_ c.80.1.3 (A:) Phosphoheptose isomerase GmhA1 {Vibrio cholerae [TaxId: 666]} Length = 191 Score = 27.5 bits (60), Expect = 2.8 Identities = 17/141 (12%), Positives = 42/141 (29%), Gaps = 16/141 (11%) Query: 55 DYAKDFLNPSIRLL---MPDPLILTDCDKAARRIVQAIYNSEKIMIFGD--YDVDGAASV 109 D + L + +L + D + + AA+ I + K++ G+ D Sbjct: 4 DLIRSELTEAADVLQKFLSDDHNIAQIEAAAKLIADSFKQGGKVLSCGNGGSHCDAMHFA 63 Query: 110 A--------LMMRFLSHCSVNANMYIPDRIVDGYGPNPSLMEKFINEGAQLIITVDCGST 161 + + + GY S + + ++ + Sbjct: 64 EELTGRYRENRPGYPGIAISDPSHLSCVSNDFGYDYVFSRYVEAVGAKGDVLFGLSTSGN 123 Query: 162 SYDA---LQYATNQGIDVIVI 179 S + ++ A +G+ I + Sbjct: 124 SGNILKAIEAAKAKGMKTIAL 144 >d1bjta_ e.11.1.1 (A:) DNA topoisomerase II, C-terminal fragment (residues 410-1202) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 760 Score = 27.1 bits (59), Expect = 3.8 Identities = 9/24 (37%), Positives = 13/24 (54%) Query: 93 EKIMIFGDYDVDGAASVALMMRFL 116 +MI D D DG+ L++ FL Sbjct: 101 GHLMIMTDQDHDGSHIKGLIINFL 124 >d3c96a1 c.3.1.2 (A:4-182,A:294-402) Monooxygenase PhzS {Pseudomonas aeruginosa [TaxId: 287]} Length = 288 Score = 27.0 bits (58), Expect = 4.5 Identities = 15/102 (14%), Positives = 25/102 (24%), Gaps = 11/102 (10%) Query: 370 VIVVEGDRWHPGIVGLLAARLKEKFGRPSFAI-----SFEEDGKGIG-SGRSIEGFDIGK 423 +++ GI GL A + G + G GI ++E Sbjct: 4 ILIAGA-----GIGGLSCALALHQAGIGKVTLLESSSEIRPLGVGINIQPAAVEALAELG 58 Query: 424 MVSFAVEEGILVKGGGHAMAAGLTVERVNFGRLCDFFQKFAH 465 + I + +G TV G Sbjct: 59 LGPALAATAIPTHELRYIDQSGATVWSEPRGVEAGNAYPQYS 100 >d1x92a_ c.80.1.3 (A:) Phosphoheptose isomerase GmhA1 {Pseudomonas aeruginosa [TaxId: 287]} Length = 194 Score = 26.7 bits (58), Expect = 5.4 Identities = 10/65 (15%), Positives = 21/65 (32%), Gaps = 3/65 (4%) Query: 73 LILTDCDKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRFLSHCSVNANMYIPDRIV 132 ++ ++A+ +V A+ N KI+ G+ G+A A + Sbjct: 23 VLPPYIEQASLVMVNALLNEGKILSCGN---GGSAGDAQHFSSELLNRFERERPSLPAVA 79 Query: 133 DGYGP 137 Sbjct: 80 LTTDS 84 >d2ftsa2 b.103.1.1 (A:318-498) Gephyrin, domains 3 and 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 181 Score = 25.9 bits (56), Expect = 8.5 Identities = 8/31 (25%), Positives = 15/31 (48%) Query: 358 VLTQCDDIQQASVIVVEGDRWHPGIVGLLAA 388 + DI++ ++ +G P +GLLA Sbjct: 140 IRPIGHDIKRGECVLAKGTHMGPSEIGLLAT 170 >d1v4sa2 c.55.1.3 (A:219-461) Glucokinase {Human (Homo sapiens) [TaxId: 9606]} Length = 243 Score = 26.0 bits (57), Expect = 9.1 Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 2/46 (4%) Query: 370 VIVVEGD--RWHPGIVGLLAARLKEKFGRPSFAISFEEDGKGIGSG 413 + V+G + HP A ++ E+G G G+ Sbjct: 187 TVGVDGSVYKLHPSFKERFHASVRRLTPSCEITFIESEEGSGRGAA 232 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 0.322 0.139 0.406 Gapped Lambda K H 0.267 0.0597 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 13730 Number of Hits to DB: 2,246,568 Number of extensions: 108617 Number of successful extensions: 304 Number of sequences better than 10.0: 1 Number of HSP's gapped: 301 Number of HSP's successfully gapped: 19 Length of query: 600 Length of database: 2,407,596 Length adjustment: 90 Effective length of query: 510 Effective length of database: 1,171,896 Effective search space: 597666960 Effective search space used: 597666960 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 (21.9 bits) S2: 56 (25.6 bits)