RPS-BLAST 2.2.22 [Sep-27-2009] Database: scop70_1_75 13,730 sequences; 2,407,596 total letters Searching..................................................done Query= gi|254781115|ref|YP_003065528.1| poly(A) polymerase protein [Candidatus Liberibacter asiaticus str. psy62] (416 letters) >d1miwa1 a.173.1.1 (A:140-404) tRNA CCA-adding enzyme, C-terminal domains {Bacillus stearothermophilus [TaxId: 1422]} Length = 265 Score = 111 bits (279), Expect = 8e-26 Identities = 44/262 (16%), Positives = 94/262 (35%), Gaps = 8/262 (3%) Query: 150 IKFIGDAHHRILEDYLRILRFFRFFAHYGEKNIDSDGLVASIKAKKGLKILSSERIWSEI 209 I+ +G+A R ED LR++R RF + G + D A ++ L +S ER+ E+ Sbjct: 2 IRTVGEAEKRFREDALRMMRAVRFVSELGFA-LAPDTEQAIVQNAPLLAHISVERMTMEM 60 Query: 210 NKLLEAKNPLNAIVHMYNGGIFKEIFLDVQEISLDQLSQVIEAEQVFEWKIDSLLRFIVL 269 KLL A+ + G+ + ++ + + A + W R+ +L Sbjct: 61 EKLLGGPFAARALPLLAETGLNAYLP----GLAGKEKQLRLAAAYRWPWLAAREERWALL 116 Query: 270 ISWQDKKSILSMAKKFSLPREIRYFLISFFNCNFNQKTLSIPEIKKLFYLYGDKVMIAKL 329 + + + LP ++ + + + + G + ++ Sbjct: 117 CHALGVQESRPFLRAWKLPNKVVDEAGAILTALADIPR-PEAWTNEQLFSAGLERALSVE 175 Query: 330 KIFLALHYNNLTHQDTCFILQVLSDIIHWKKPLFPLTGDDVVK-YGIPPGKKVGNILVHC 388 + A + + + + K + G DV++ G P G V L Sbjct: 176 TVRAAFTGAPPG-PWHEKLRRRFASLPIKTKGELAVNGKDVIEWVGKPAGPWVKEALDAI 234 Query: 389 KQEWINSSFQLSQEDLHHLLRK 410 + +N + +E ++ L + Sbjct: 235 WRAVVNGEVENEKERIYAWLME 256 >d1ou5a2 d.218.1.4 (A:-1-150) tRNA CCA-adding enzyme, head domain {Human (Homo sapiens), mitochondrial [TaxId: 9606]} Length = 152 Score = 105 bits (263), Expect = 6e-24 Identities = 56/148 (37%), Positives = 80/148 (54%), Gaps = 4/148 (2%) Query: 5 VQHKWFH---DSDLINILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMR 61 +Q F L ++ L K + I GGAVRD L + QDID ATT P ++ Sbjct: 5 LQSPEFQSLFTEGLKSLTELFVKENHELRIAGGAVRDLLNGVKPQDIDFATTATPTQMKE 64 Query: 62 IFSKT-RYKVIPTSISYGTIKIICRKKYFDITTLRSDLITDGRYAKVVFTRDWKADSLRR 120 +F + +GTI ++ F+ITTLR D+ TDGR+A+V FT DW+ D+ RR Sbjct: 65 MFQSAGIRMINNRGEKHGTITARLHEENFEITTLRIDVTTDGRHAEVEFTTDWQKDAERR 124 Query: 121 DFTINALYADQQGKVIDYVGGLNDLRNR 148 D TIN+++ G + DY G DL+N+ Sbjct: 125 DLTINSMFLGFDGTLFDYFNGYEDLKNK 152 >d1miwa2 d.218.1.4 (A:1-139) tRNA CCA-adding enzyme, head domain {Bacillus stearothermophilus [TaxId: 1422]} Length = 139 Score = 103 bits (258), Expect = 2e-23 Identities = 49/137 (35%), Positives = 75/137 (54%), Gaps = 6/137 (4%) Query: 14 DLINILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPT 73 + + I+ L + + VGGAVRD L+ + D+DIAT+ LP+ VM IF K I Sbjct: 7 EALGIIQQLKQHGYDAYFVGGAVRDLLLGRPIGDVDIATSALPEDVMAIF----PKTIDV 62 Query: 74 SISYGTIKIICRKKYFDITTLRSD--LITDGRYAKVVFTRDWKADSLRRDFTINALYADQ 131 +GT+ ++ + K +++TT ++D R V F R + D RRDFT+NA+ D+ Sbjct: 63 GSKHGTVVVVHKGKAYEVTTFKTDGDYEDYRRPESVTFVRSLEEDLKRRDFTMNAIAMDE 122 Query: 132 QGKVIDYVGGLNDLRNR 148 G +ID GG +R R Sbjct: 123 YGTIIDPFGGREAIRRR 139 >d1ou5a1 a.173.1.1 (A:151-354) tRNA CCA-adding enzyme, C-terminal domains {Human (Homo sapiens), mitochondrial [TaxId: 9606]} Length = 204 Score = 94.0 bits (233), Expect = 2e-20 Identities = 48/196 (24%), Positives = 84/196 (42%), Gaps = 12/196 (6%) Query: 150 IKFIGDAHHRILEDYLRILRFFRFFAHYGEKN--IDSDGLVASIKAKKGLKILSSERIWS 207 ++F+G A RI EDYLRILR+FRF+ +K D + L A + KGL +S ERIW Sbjct: 2 VRFVGHAKQRIQEDYLRILRYFRFYGRIVDKPGDHDPETLEAIAENAKGLAGISGERIWV 61 Query: 208 EINKLLEAKNPLNAIVHMYNGGIFKEIFLDVQEISLDQLSQVIEAEQVFEWKIDSLLRFI 267 E+ K+L + + I +Y+ + I L SL++ +V ++ V + + Sbjct: 62 ELKKILVGNHVNHLIHLIYDLDVAPYIGLP-ANASLEEFDKV--SKNVDGFSPKPVTLLA 118 Query: 268 VLISWQDKKSILSMAKKFSLPREIRYFLISFFNCNFNQKTLSIPEIKKLF----YLYGDK 323 L + + + + + +E + L F N + L ++ + Sbjct: 119 SLFK--VQDDVTKLDLRLKIAKEEKN-LGLFIVKNRKDLIKATDSSDPLKPYQDFIIDSR 175 Query: 324 VMIAKLKIFLALHYNN 339 A ++ L Y Sbjct: 176 EPDATTRVCELLKYQG 191 >d1vfga2 d.218.1.4 (A:1-136) Poly A polymerase PcnB {Aquifex aeolicus [TaxId: 63363]} Length = 136 Score = 88.0 bits (217), Expect = 1e-18 Identities = 36/125 (28%), Positives = 55/125 (44%), Gaps = 4/125 (3%) Query: 28 KSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPTSISYGTIKIICRKK 87 ++ IVGG VRD L+ V D+D + + ++ + +GT + K Sbjct: 12 RAYIVGGVVRDILLGKEVWDVDFVVEGNAIELAKELARRHGVNVHPFPEFGTAHLKIGKL 71 Query: 88 YFDITTLRSDLITDGRYAKVVFTRDWKADSLRRDFTINALYAD----QQGKVIDYVGGLN 143 + T R + V K D +RRDFTINA+ G +IDY GGL Sbjct: 72 KLEFATARRETYPRPGAYPKVEPASLKEDLIRRDFTINAMAISVNLEDYGTLIDYFGGLR 131 Query: 144 DLRNR 148 DL+++ Sbjct: 132 DLKDK 136 >d1vfga1 a.173.1.1 (A:137-351) Poly A polymerase PcnB {Aquifex aeolicus [TaxId: 63363]} Length = 215 Score = 62.5 bits (151), Expect = 6e-11 Identities = 35/189 (18%), Positives = 60/189 (31%), Gaps = 18/189 (9%) Query: 157 HHRILEDYLRILRFFRFFAHYGEKNIDSD--GLVASIKAKKGLKILSSERIWSEINKLLE 214 +ED +RILR RF K + L+ LK R+ +EI L Sbjct: 7 PVSFIEDPVRILRALRFAGRLNFK-LSRSTEKLLKQAVNLGLLKEAPRGRLINEIKLALR 65 Query: 215 AKNPLNAIVHMYNGGIFKEIFLDVQEISLDQLSQVIEAEQVFEW---------KIDSLLR 265 L + + +EI Q L ++ +V +W L Sbjct: 66 EDRFLEILELYRKYRVLEEIIEGFQWNE-KVLQKLYALRKVVDWHALEFSEERIDYGWLY 124 Query: 266 FIVLISWQDKKSILSMAKKFSLPREIRYFLISFFN-----CNFNQKTLSIPEIKKLFYLY 320 ++LIS D + ++ S P +R +K E+ +L Sbjct: 125 LLILISNLDYERGKHFLEEMSAPSWVRETYKFMKFKLGSLKEELKKAKENYEVYRLLKPL 184 Query: 321 GDKVMIAKL 329 V++ + Sbjct: 185 HTSVLLLLM 193 >d1cmca_ a.43.1.5 (A:) Met repressor, MetJ (MetR) {Escherichia coli [TaxId: 562]} Length = 104 Score = 29.6 bits (66), Expect = 0.54 Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 4/58 (6%) Query: 174 FAHYGEKNIDSDGLVASIKAKKGLKILSSERIWSEINKLLEAKNP---LNAIVHMYNG 228 +A +G+K+ + SI K LKIL+ ER ++N L A N A +H + G Sbjct: 11 YAEHGKKSEQVKKITVSIPLKV-LKILTDERTRRQVNNLRHATNSELLCEAFLHAFTG 67 >d1joga_ a.24.16.2 (A:) Hypothetical protein HI0074 {Haemophilus influenzae [TaxId: 727]} Length = 135 Score = 27.2 bits (60), Expect = 2.6 Identities = 8/74 (10%), Positives = 22/74 (29%), Gaps = 7/74 (9%) Query: 167 ILRFFRFFAHYGEKNIDSDGLVASIKAKKGLKILSSERIWSEINKLLEAKNPLNAIVHMY 226 + R + A +I + G ++ ++ W + N H Y Sbjct: 55 MKRQLQQDA-INTDDIGAYGFKDILREALRFGLIGDMSKWVAYRDMR------NITSHTY 107 Query: 227 NGGIFKEIFLDVQE 240 + ++ + + Sbjct: 108 DQEKAMAVYAQIDD 121 >d1dxha2 c.78.1.1 (A:151-335) Ornithine transcarbamoylase {Pseudomonas aeruginosa [TaxId: 287]} Length = 185 Score = 26.3 bits (57), Expect = 4.9 Identities = 6/30 (20%), Positives = 12/30 (40%) Query: 144 DLRNRTIKFIGDAHHRILEDYLRILRFFRF 173 L + + ++GDA + + L I Sbjct: 2 PLHDISYAYLGDARNNMGNSLLLIGAKLGM 31 >d1wtya_ a.24.16.2 (A:) Probable nucleotidyltransferase subunit TTHA0048 {Thermus thermophilus [TaxId: 274]} Length = 116 Score = 25.6 bits (56), Expect = 8.3 Identities = 10/65 (15%), Positives = 28/65 (43%), Gaps = 6/65 (9%) Query: 176 HYGEKNIDSDGLVASIKAKKGLKILSSERIWSEINKLLEAKNPLNAIVHMYNGGIFKEIF 235 + +++ A+I+ + +L + W E+ +L N H Y+ + + I+ Sbjct: 44 FLELQGLEARSPRAAIRGAFQVGLLPEDPFWLEMLELR------NLTNHTYDEALAERIY 97 Query: 236 LDVQE 240 ++ + Sbjct: 98 AELPK 102 >d1vlva2 c.78.1.1 (A:153-313) Ornithine transcarbamoylase {Thermotoga maritima [TaxId: 2336]} Length = 161 Score = 25.2 bits (54), Expect = 8.9 Identities = 4/29 (13%), Positives = 10/29 (34%) Query: 145 LRNRTIKFIGDAHHRILEDYLRILRFFRF 173 L+ + F+GD + + + Sbjct: 1 LKGVKVVFMGDTRNNVATSLMIACAKMGM 29 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 0.141 0.420 Gapped Lambda K H 0.267 0.0499 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 13730 Number of Hits to DB: 1,634,878 Number of extensions: 79584 Number of successful extensions: 257 Number of sequences better than 10.0: 1 Number of HSP's gapped: 250 Number of HSP's successfully gapped: 20 Length of query: 416 Length of database: 2,407,596 Length adjustment: 88 Effective length of query: 328 Effective length of database: 1,199,356 Effective search space: 393388768 Effective search space used: 393388768 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: 54 (25.1 bits)