RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254781115|ref|YP_003065528.1| poly(A) polymerase protein [Candidatus Liberibacter asiaticus str. psy62] (416 letters) >1ou5_A TRNA CCA-adding enzyme, tRNA-nucleotidyltransferase; polymerase, translation; 3.40A {Homo sapiens} (A:1-202) Length = 202 Score = 132 bits (334), Expect = 6e-32 Identities = 57/157 (36%), Positives = 87/157 (55%), Gaps = 1/157 (0%) Query: 1 MVSIVQHKWFHDSDLINILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVM 60 + + + L ++ L K + I GGAVRD L + QDID ATT P ++ Sbjct: 45 KLQSPEFQSLFTEGLKSLTELFVKENHELRIAGGAVRDLLNGVKPQDIDFATTATPTQMK 104 Query: 61 RIFSKTRYK-VIPTSISYGTIKIICRKKYFDITTLRSDLITDGRYAKVVFTRDWKADSLR 119 +F + + +GTI ++ F+ITTLR D+ TDGR+A+V FT DW+ D+ R Sbjct: 105 EMFQSAGIRMINNRGEKHGTITARLHEENFEITTLRIDVTTDGRHAEVEFTTDWQKDAER 164 Query: 120 RDFTINALYADQQGKVIDYVGGLNDLRNRTIKFIGDA 156 RD TIN+++ G + DY G DL+N+ ++F+G A Sbjct: 165 RDLTINSMFLGFDGTLFDYFNGYEDLKNKKVRFVGHA 201 >3h38_A TRNA nucleotidyl transferase-related protein; transferase/RNA, nucleotide-binding, RNA-binding; 2.37A {Thermotoga maritima} PDB: 3h37_A 3h39_A* 3h3a_A* (A:1-160) Length = 160 Score = 117 bits (293), Expect = 4e-27 Identities = 34/134 (25%), Positives = 49/134 (36%), Gaps = 5/134 (3%) Query: 18 ILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPTSISY 77 + ++ +VGG VRD L+ + DIDI + + + Sbjct: 26 LGKFGDEVNMPVYVVGGFVRDLLLGIKNLDIDIVVEGNALEFAEYAKRFLPGKLVKHDKF 85 Query: 78 GTIKIIC-RKKYFDITTLRSDLITDGRYAKVVFTRDWKADSLRRDFTINALYAD----QQ 132 T + DI T R + V K D RRDFTINA+ Sbjct: 86 MTASLFLKGGLRIDIATARLEYYESPAKLPDVEMSTIKKDLYRRDFTINAMAIKLNPKDF 145 Query: 133 GKVIDYVGGLNDLR 146 G +ID+ GG DL+ Sbjct: 146 GLLIDFFGGYRDLK 159 >1miw_A TRNA CCA-adding enzyme; tRNA nucleotidyltransferase, translation, transferase; HET: ATP; 3.00A {Geobacillus stearothermophilus} (A:1-138) Length = 138 Score = 115 bits (290), Expect = 8e-27 Identities = 47/135 (34%), Positives = 73/135 (54%), Gaps = 6/135 (4%) Query: 14 DLINILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPT 73 + + I+ L + + VGGAVRD L+ + D+DIAT+ LP+ V IF K I Sbjct: 7 EALGIIQQLKQHGYDAYFVGGAVRDLLLGRPIGDVDIATSALPEDVXAIF----PKTIDV 62 Query: 74 SISYGTIKIICRKKYFDITTLRSDLITDG--RYAKVVFTRDWKADSLRRDFTINALYADQ 131 +GT+ ++ + K +++TT ++D + R V F R + D RRDFT NA+ D+ Sbjct: 63 GSKHGTVVVVHKGKAYEVTTFKTDGDYEDYRRPESVTFVRSLEEDLKRRDFTXNAIAXDE 122 Query: 132 QGKVIDYVGGLNDLR 146 G +ID GG +R Sbjct: 123 YGTIIDPFGGREAIR 137 >1vfg_A A-adding enzyme, poly A polymerase; transferase, RNA, riken structural genomics/proteomics initiative, RSGI, structural genomics; HET: APC; 2.80A {Aquifex aeolicus} (A:1-126) Length = 126 Score = 114 bits (287), Expect = 2e-26 Identities = 30/127 (23%), Positives = 49/127 (38%), Gaps = 3/127 (2%) Query: 18 ILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPTSISY 77 + + + ++ IVGG VRD L+ V D+D + + ++ + + Sbjct: 2 VGQIAKEMGLRAYIVGGVVRDILLGKEVWDVDFVVEGNAIELAKELARRHGVNVHPFPEF 61 Query: 78 GTIKIICRKKYFDITTLRSDLITDGRYAKVVFTRDWKADSLRRDFTINALYADQQGKVID 137 GT + K + T R + V K D +RRDFTINA+ + Sbjct: 62 GTAHLKIGKLKLEFATARRETYPRPGAYPKVEPASLKEDLIRRDFTINAMAISVNL---E 118 Query: 138 YVGGLND 144 G L D Sbjct: 119 DYGTLID 125 >1vfg_A A-adding enzyme, poly A polymerase; transferase, RNA, riken structural genomics/proteomics initiative, RSGI, structural genomics; HET: APC; 2.80A {Aquifex aeolicus} (A:127-222) Length = 96 Score = 87.9 bits (218), Expect = 2e-18 Identities = 25/97 (25%), Positives = 41/97 (42%), Gaps = 3/97 (3%) Query: 140 GGLNDLRNRTIKFIGDAHHRILEDYLRILRFFRFFAHYGEK-NIDSDGLVASIKAKKGLK 198 GGL DL+++ I+ + +ED +RILR RF K + ++ L+ LK Sbjct: 2 GGLRDLKDKVIRVLHP--VSFIEDPVRILRALRFAGRLNFKLSRSTEKLLKQAVNLGLLK 59 Query: 199 ILSSERIWSEINKLLEAKNPLNAIVHMYNGGIFKEIF 235 R+ +EI L L + + +EI Sbjct: 60 EAPRGRLINEIKLALREDRFLEILELYRKYRVLEEII 96 >3h38_A TRNA nucleotidyl transferase-related protein; transferase/RNA, nucleotide-binding, RNA-binding; 2.37A {Thermotoga maritima} PDB: 3h37_A 3h39_A* 3h3a_A* (A:161-247) Length = 87 Score = 79.0 bits (195), Expect = 1e-15 Identities = 23/87 (26%), Positives = 41/87 (47%), Gaps = 3/87 (3%) Query: 150 IKFIGDAHHRILEDYLRILRFFRFFAHYGEK-NIDSDGLVASIKAKKGLKILSSERIWSE 208 I+ + ++D RILR RF + + ++ L+ + L+ + R+ E Sbjct: 3 IRVLHTL--SFVDDPTRILRAIRFEQRFDFRIEETTERLLKQAVEEGYLERTTGPRLRQE 60 Query: 209 INKLLEAKNPLNAIVHMYNGGIFKEIF 235 + K+LE KNPL +I M + K +F Sbjct: 61 LEKILEEKNPLKSIRRMAQFDVIKHLF 87 >1miw_A TRNA CCA-adding enzyme; tRNA nucleotidyltransferase, translation, transferase; HET: ATP; 3.00A {Geobacillus stearothermophilus} (A:139-242) Length = 104 Score = 77.2 bits (190), Expect = 4e-15 Identities = 25/88 (28%), Positives = 37/88 (42%), Gaps = 1/88 (1%) Query: 148 RTIKFIGDAHHRILEDYLRILRFFRFFAHYGEKNIDSDGLVASIKAKKGLKILSSERIWS 207 R I+ +G+A R ED LR R RF + G + D A ++ L +S ER Sbjct: 1 RIIRTVGEAEKRFREDALRXXRAVRFVSELG-FALAPDTEQAIVQNAPLLAHISVERXTX 59 Query: 208 EINKLLEAKNPLNAIVHMYNGGIFKEIF 235 E KLL A+ + G+ + Sbjct: 60 EXEKLLGGPFAARALPLLAETGLNAYLP 87 >1ou5_A TRNA CCA-adding enzyme, tRNA-nucleotidyltransferase; polymerase, translation; 3.40A {Homo sapiens} (A:203-282) Length = 80 Score = 74.8 bits (184), Expect = 2e-14 Identities = 31/78 (39%), Positives = 45/78 (57%), Gaps = 2/78 (2%) Query: 159 RILEDYLRILRFFRFFAHYGEK--NIDSDGLVASIKAKKGLKILSSERIWSEINKLLEAK 216 RI EDYLRILR+FRF+ +K + D + L A + KGL +S ERIW E+ K+L Sbjct: 2 RIQEDYLRILRYFRFYGRIVDKPGDHDPETLEAIAENAKGLAGISGERIWVELKKILVGN 61 Query: 217 NPLNAIVHMYNGGIFKEI 234 + + I +Y+ + I Sbjct: 62 HVNHLIHLIYDLDVAPYI 79 >1ou5_A TRNA CCA-adding enzyme, tRNA-nucleotidyltransferase; polymerase, translation; 3.40A {Homo sapiens} (A:283-448) Length = 166 Score = 68.5 bits (167), Expect = 2e-12 Identities = 27/169 (15%), Positives = 62/169 (36%), Gaps = 11/169 (6%) Query: 243 LDQLSQVIEAEQVFEWKIDSLLRFIVLISWQDKKSILSMAKKFSLPR-EIRYFLISFFNC 301 L++ +V + + + L + + + + + + E L N Sbjct: 7 LEEFDKVSKNVD--GFSPKPVTLLASLFK--VQDDVTKLDLRLKIAKEEKNLGLFIVKNR 62 Query: 302 NFNQKTLSIPEIKKLFYLYGDKVMIAKLKIFLALHYNNLTHQDTCFILQVLSDIIHWKKP 361 K + K + + + +L ++ W P Sbjct: 63 KDLIKATDSSDPLKPYQDFIIDSREPDATTRVC------ELLKYQGEHCLLKEMQQWSIP 116 Query: 362 LFPLTGDDVVKYGIPPGKKVGNILVHCKQEWINSSFQLSQEDLHHLLRK 410 FP++G D+ K GI GK++G +L +++W S +Q+ +++L ++K Sbjct: 117 PFPVSGHDIRKVGISSGKEIGALLQQLREQWKKSGYQMEKDELLSYIKK 165 >1cmb_A Met APO-repressor; DNA-binding regulatory protein; 1.80A {Escherichia coli} (A:1-75) Length = 75 Score = 30.1 bits (67), Expect = 0.57 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 >1miw_A TRNA CCA-adding enzyme; tRNA nucleotidyltransferase, translation, transferase; HET: ATP; 3.00A {Geobacillus stearothermophilus} (A:345-404) Length = 60 Score = 29.2 bits (66), Expect = 0.94 Identities = 11/51 (21%), Positives = 23/51 (45%), Gaps = 1/51 (1%) Query: 365 LTGDDVVKY-GIPPGKKVGNILVHCKQEWINSSFQLSQEDLHHLLRKLIAS 414 + G DV+++ G P G V L + +N + +E ++ L + + Sbjct: 5 VNGKDVIEWVGKPAGPWVKEALDAIWRAVVNGEVENEKERIYAWLXERNRT 55 >1o5h_A Formiminotetrahydrofolate cyclodeaminase; TM1560, structural genomics, JCSG, PSI, protein structure initiative; 2.80A {Thermotoga maritima} (A:33-214) Length = 182 Score = 29.0 bits (65), Expect = 1.3 Identities = 15/118 (12%), Positives = 31/118 (26%), Gaps = 20/118 (16%) Query: 85 RKKYFDITTLRSDLITDGRYAKVVFTRDWKADSLRRDFTINALYADQQGKVIDYVGGLND 144 +K Y D+ ++ + R A + + + V Sbjct: 29 KKGYEDVEPEXERIVE-------------AXEEARLKLF---DLAKKDXEAFEKVXKAYK 72 Query: 145 LRNRTI----KFIGDAHHRILEDYLRILRFFRFFAHYGEKNIDSDGLVASIKAKKGLK 198 + K ++ + A +G KN+ SD L A+ + Sbjct: 73 SSEGELQNALKEAASVPXDVIRVXKDLAHELEKLAEFGNKNLASDTLNAADLCHAVFQ 130 >1d2s_A SHBG, sex hormone-binding globulin; steroid transport, laminin G-like domain, jellyroll, androgen binding protein (ABP); HET: DHT; 1.55A {Homo sapiens} (A:) Length = 170 Score = 28.4 bits (62), Expect = 1.8 Identities = 15/100 (15%), Positives = 30/100 (30%), Gaps = 2/100 (2%) Query: 50 IATTILPDRVMRIFSKTRYKVIPTSISYGTIKIICRKKYFDITTLRSDLITDGRYAKVVF 109 + T + + + + G +I + +T + DGR+ +V Sbjct: 34 VRTWDPEGVIFYGDTNPKDDWFMLGLRDGRPEIQLHNHWAQLTVGAGPRLDDGRWHQVEV 93 Query: 110 TRDWKADSLRRDFTINALYADQQGKVID--YVGGLNDLRN 147 + + L D G I +GGL + Sbjct: 94 KMEGDSVLLEVDGEEVLRLRQVSGHPIMRIALGGLLFPAS 133 >2im5_A Nicotinate phosphoribosyltransferase; structural genomics, NYSGXRC, PSI, protein structure initiative; 2.20A {Porphyromonas gingivalis} (A:26-138,A:339-372) Length = 147 Score = 27.7 bits (62), Expect = 2.6 Identities = 14/68 (20%), Positives = 24/68 (35%), Gaps = 1/68 (1%) Query: 119 RRDFTINALYADQQGKVIDYVGGLNDLRNRTIKFIGDAHHRILEDYLRILRFFRFFAHYG 178 R +A+ I + L+ L +F+ + Y+ L FRF Sbjct: 12 RNRQGFTEEFAELVRGEIRAMAALS-LTRDEKEFLQRELPYLPPIYIDFLDGFRFDPEEV 70 Query: 179 EKNIDSDG 186 +ID+ G Sbjct: 71 TVSIDAQG 78 >2dj1_A Protein disulfide-isomerase A4; protein ERP-72, ERP72, CAI, structural genomics, NPPSFA; NMR {Mus musculus} (A:) Length = 140 Score = 27.1 bits (59), Expect = 4.2 Identities = 12/85 (14%), Positives = 28/85 (32%), Gaps = 5/85 (5%) Query: 84 CRKKYFDITTLRSDLITDGRYAKVVFTRDWKADSLRRDFTINA---LYADQQGKVIDYVG 140 C++ + + S L + V A L F ++ + ++G+ +DY G Sbjct: 49 CKQFAPEYEKIASTLKDNDPPIAVAKIDATSASMLASKFDVSGYPTIKILKKGQAVDYDG 108 Query: 141 GLN--DLRNRTIKFIGDAHHRILED 163 ++ + + E Sbjct: 109 SRTQEEIVAKVREVSQPDWTPPPEV 133 >2w37_A Ornithine carbamoyltransferase, catabolic; transcarbamylase, metal binding-site, hexamer, cytoplasm, arginine metabolism; 2.10A {Lactobacillus hilgardii} (A:174-332) Length = 159 Score = 27.0 bits (59), Expect = 4.6 Identities = 6/29 (20%), Positives = 11/29 (37%) Query: 145 LRNRTIKFIGDAHHRILEDYLRILRFFRF 173 L+ T+ F+GD + + L Sbjct: 1 LQGLTLTFMGDGRNNVANSLLVTGAILGV 29 >3grf_A Ornithine carbamoyltransferase; ornithine transcarbamoylase, arginine degradation pathway, giardia lamblia, drug target; 2.00A {Giardia intestinalis} (A:158-292) Length = 135 Score = 26.9 bits (59), Expect = 5.4 Identities = 4/29 (13%), Positives = 10/29 (34%) Query: 145 LRNRTIKFIGDAHHRILEDYLRILRFFRF 173 + + GD+ + + D +R Sbjct: 2 FKGIKFAYCGDSMNNVTYDLMRGCALLGM 30 >2dj2_A Protein disulfide-isomerase A4; protein ERP-72, ERP72, CAI, structural genomics, NPPSFA; NMR {Mus musculus} (A:) Length = 120 Score = 26.7 bits (58), Expect = 5.7 Identities = 12/78 (15%), Positives = 26/78 (33%), Gaps = 5/78 (6%) Query: 84 CRKKYFDITTLRSDLITDGRYAKVVFTRDWKADSLRRDFTIN---ALYADQQGKVIDYVG 140 C+K + +L + + L + F ++ L ++G+ DY G Sbjct: 39 CKKLAPEYEKAAKELSKRSPPIPLAKVDATEQTDLAKRFDVSGYPTLKIFRKGRPFDYNG 98 Query: 141 GLN--DLRNRTIKFIGDA 156 + + I+ G Sbjct: 99 PREKYGIVDYMIEQSGSG 116 >2jyl_A Capsid protein P24 (Ca); HIV-1, carboxy-terminal, dimerization domain, CTD, 3D- NMR, capsid protein (Ca), double mutant; NMR {Human immunodeficiency virus 1} PDB: 2k1c_A* (A:) Length = 105 Score = 26.8 bits (59), Expect = 5.7 Identities = 7/55 (12%), Positives = 18/55 (32%), Gaps = 7/55 (12%) Query: 217 NPLNAIVHMYNGGIFKEIFL---DVQEISLDQLSQVIEAEQVF----EWKIDSLL 264 + + + +I + +D+ + + AEQ ++LL Sbjct: 10 HSSGLVPRGSHMTSILDIRQGPKEPFRDYVDRFYKTLRAEQASQEVKNAATETLL 64 >1duv_G Octase-1, ornithine transcarbamoylase; enzyme-inhibitor complex; HET: PSQ; 1.70A {Escherichia coli} (G:153-278) Length = 126 Score = 26.4 bits (58), Expect = 6.3 Identities = 5/29 (17%), Positives = 9/29 (31%) Query: 145 LRNRTIKFIGDAHHRILEDYLRILRFFRF 173 T+ + GDA + + L Sbjct: 1 FNEMTLVYAGDARNNMGNSMLEAAALTGL 29 >1jog_A Hypothetical protein HI0074; structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} (A:) Length = 146 Score = 26.4 bits (58), Expect = 7.7 Identities = 6/65 (9%), Positives = 24/65 (36%) Query: 176 HYGEKNIDSDGLVASIKAKKGLKILSSERIWSEINKLLEAKNPLNAIVHMYNGGIFKEIF 235 +++ + + + K L+ + + +K + ++ N H Y+ ++ Sbjct: 63 RQLQQDAINTDDIGAYGFKDILREALRFGLIGDXSKWVAYRDXRNITSHTYDQEKAXAVY 122 Query: 236 LDVQE 240 + + Sbjct: 123 AQIDD 127 >2i6u_A Otcase, ornithine carbamoyltransferase; X-RAY crystallography, ornithine carbamyoltransferase, carbamoyl phosphate, L- norvaline; 2.20A {Mycobacterium tuberculosis} PDB: 2p2g_A (A:146-274) Length = 129 Score = 26.1 bits (57), Expect = 8.8 Identities = 5/29 (17%), Positives = 9/29 (31%) Query: 145 LRNRTIKFIGDAHHRILEDYLRILRFFRF 173 LR + + GD + + L Sbjct: 1 LRGLRLSYFGDGANNMAHSLLLGGVTAGI 29 >1vlv_A Otcase, ornithine carbamoyltransferase; TM1097, structural genomics, JCSG, protein structure initiative, PSI; 2.25A {Thermotoga maritima} (A:165-294) Length = 130 Score = 26.1 bits (57), Expect = 9.0 Identities = 4/29 (13%), Positives = 10/29 (34%) Query: 145 LRNRTIKFIGDAHHRILEDYLRILRFFRF 173 L+ + F+GD + + + Sbjct: 1 LKGVKVVFMGDTRNNVATSLMIACAKMGM 29 Database: mmdb70 Posted date: Jun 20, 2010 3:12 AM Number of letters in database: 4,956,049 Number of sequences in database: 33,805 Lambda K H 0.325 0.141 0.420 Gapped Lambda K H 0.267 0.0654 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 3,261,147 Number of extensions: 151380 Number of successful extensions: 561 Number of sequences better than 10.0: 1 Number of HSP's gapped: 550 Number of HSP's successfully gapped: 37 Length of query: 416 Length of database: 4,956,049 Length adjustment: 91 Effective length of query: 325 Effective length of database: 1,879,794 Effective search space: 610933050 Effective search space used: 610933050 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: 56 (25.5 bits)