RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780180|ref|YP_003064593.1| S-adenosylmethionine:tRNA ribosyltransferase-isomerase [Candidatus Liberibacter asiaticus str. psy62] (360 letters) >1wdi_A Hypothetical protein TT0907; structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; HET: CIT; 2.10A {Thermus thermophilus} (A:) Length = 345 Score = 396 bits (1019), Expect = e-111 Identities = 151/361 (41%), Positives = 202/361 (55%), Gaps = 20/361 (5%) Query: 1 MM-VKEFDFDLPPSRIALRPVFPRDSARLMVVHPNLSCPLVISDHLVSDLPAFLNSNDAI 59 M ++ +D+ LPP +IA V PRD ARLMVV+ P ++ V DLP FL D + Sbjct: 1 MEGLEAYDYHLPPEQIAQEGVEPRDMARLMVVYRE--GPFRVAHKRVRDLPEFLRPGDVL 58 Query: 60 VFNNTKVITAQLNGVRFCHINRREKEISCTLHMRVSPNSWSVYARPSKVIKKGDILHFFS 119 VFN +KVI A+L + ++ L SP W P++ G L S Sbjct: 59 VFNESKVIPARLLARK-----PTGGKVEILLVRERSPGLWEALLGPARKAPPGTRLLLLS 113 Query: 120 QDGQS---RLEATVIDKWNTGEILLVFSISGIELERQISLVGTIPLPPYIARKRPIDARD 176 + L+A V+ G LL F + ++ G +PLPPYI K P++ Sbjct: 114 PKDLAPVPGLQAEVVAVEEDGVRLLRFQGDLVAHLEEV---GEVPLPPYIKAKIPME--- 167 Query: 177 YVDYQTTYAKIQGSVAAPTAGLHFTSNLLSRLISIGIKVYFVTLHVGAGTFMPVKVEDTD 236 YQT YA+ GSVAAPTAGLHFT LL RL +G+++ F+TLHVG GTF PVK D + Sbjct: 168 --RYQTVYARRPGSVAAPTAGLHFTPELLERLREMGVELRFLTLHVGPGTFRPVK-GDPE 224 Query: 237 DHIMHSEIGFIDAPTAQALNSVKSRGGRIVSVGTTSLRLLETATTEDGIINPWSGFTNIF 296 H MH+E I A+A+N K+ G R+V+VGTT +R LE+A E + G T +F Sbjct: 225 KHEMHAEPYAIPEEVAEAVNRAKAEGRRVVAVGTTVVRALESAYREGVGVVAGEGETRLF 284 Query: 297 ITPGYRFRAVDILMSNFHLPKSTLLMLVSAFCGIEETKKMYQHAISHAYRFYSYGDTSLL 356 I P Y F+ VD L +NFHLP+STLLMLV+AF G E T + Y+ A++ YRFYS GD L+ Sbjct: 285 IRPPYTFKVVDALFTNFHLPRSTLLMLVAAFLGRERTLEAYRLAVAEGYRFYSLGDAMLI 344 Query: 357 F 357 Sbjct: 345 L 345 >1yy3_A S-adenosylmethionine:tRNA ribosyltransferase- isomerase; beta-barrel, QUEA, quein queuosine, tRNA- modification; 2.88A {Bacillus subtilis} (A:1-67,A:171-346) Length = 243 Score = 252 bits (646), Expect = 4e-68 Identities = 92/174 (52%), Positives = 121/174 (69%), Gaps = 1/174 (0%) Query: 184 YAKIQGSVAAPTAGLHFTSNLLSRLISIGIKVYFVTLHVGAGTFMPVKVEDTDDHIMHSE 243 Y+K GS AAPTAGLHFT +L +L G+++ F+TLHVG GTF PV ++ ++H MH+E Sbjct: 69 YSKEIGSAAAPTAGLHFTEEILQQLKDKGVQIEFITLHVGLGTFRPVSADEVEEHNMHAE 128 Query: 244 IGFIDAPTAQALNSVKSRGGRIVSVGTTSLRLLET-ATTEDGIINPWSGFTNIFITPGYR 302 + TA ALN V+ GGRI+SVGTTS R LET A DG SG+T+IFI PGY Sbjct: 129 FYQMSEETAAALNKVRENGGRIISVGTTSTRTLETIAGEHDGQFKASSGWTSIFIYPGYE 188 Query: 303 FRAVDILMSNFHLPKSTLLMLVSAFCGIEETKKMYQHAISHAYRFYSYGDTSLL 356 F+A+D +++NFHLPKS+L+MLVSA G E + Y HA+ YRF+S+GD L+ Sbjct: 189 FKAIDGMITNFHLPKSSLIMLVSALAGRENILRAYNHAVEEEYRFFSFGDAMLI 242 Score = 88.6 bits (220), Expect = 1e-18 Identities = 25/73 (34%), Positives = 40/73 (54%), Gaps = 3/73 (4%) Query: 1 MMVKEFDFDLPPSRIALRPVFPRDSARLMVVHPNLSCPLVISDHLVSDLPAFLNSNDAIV 60 V FDF+LP IA P+ RD++RLMV+ + ++D + +F N D +V Sbjct: 5 SKVDLFDFELPERLIAQVPLEQRDASRLMVLDKHTGE---LTDSSFKHIISFFNEGDCLV 61 Query: 61 FNNTKVITAQLNG 73 NNT+V+ ++ G Sbjct: 62 LNNTRVVYSKEIG 74 >1vky_A S-adenosylmethionine:tRNA ribosyltransferase- isomerase; TM0574, structural genomics, JCSG, protein structure initiative, PSI; 2.00A {Thermotoga maritima} (A:1-76,A:174-347) Length = 250 Score = 249 bits (638), Expect = 3e-67 Identities = 84/174 (48%), Positives = 113/174 (64%), Gaps = 1/174 (0%) Query: 184 YAKIQGSVAAPTAGLHFTSNLLSRLISIGIKVYFVTLHVGAGTFMPVKVEDTDDHIMHSE 243 YAK +GSVAAPTAGLHFT L+ +L G++ V LHVG GTF PVKVE+ + H MH E Sbjct: 78 YAKEEGSVAAPTAGLHFTPELIEKLKKKGVQFAEVVLHVGIGTFRPVKVEEVEKHKMHEE 137 Query: 244 IGFIDAPTAQALNSVKSRGGRIVSVGTTSLRLLETATTEDGIINPWSGFTNIFITPGYRF 303 + T + L + RG RIV+VGTT++R LET + G T++FI P + F Sbjct: 138 FYQVPKETVRKLRETRERGNRIVAVGTTTVRTLETIAR-LPEQEEYVGKTDLFIYPPFEF 196 Query: 304 RAVDILMSNFHLPKSTLLMLVSAFCGIEETKKMYQHAISHAYRFYSYGDTSLLF 357 + VD L++NFHLP+STLLMLV+AF G + + Y+ A+ YRF+S+GD L+ Sbjct: 197 KLVDALVTNFHLPRSTLLMLVAAFAGKDFVMEAYREAVKRRYRFFSFGDAMLIL 250 Score = 87.9 bits (218), Expect = 2e-18 Identities = 28/67 (41%), Positives = 39/67 (58%), Gaps = 3/67 (4%) Query: 1 MMVKEFDFDLPPSRIALRPVFPRDSARLMVVHPNLSCPLVISDHLVSDLPAFLNSNDAIV 60 M V EFD++LPP IA PV PRD++RLMV+H I + ++ +L D +V Sbjct: 13 MKVSEFDYELPPELIAQEPVEPRDASRLMVLHRKTQR---IEHRIFREIIEYLEPGDLLV 69 Query: 61 FNNTKVI 67 N +KVI Sbjct: 70 LNVSKVI 76 >1yy3_A S-adenosylmethionine:tRNA ribosyltransferase- isomerase; beta-barrel, QUEA, quein queuosine, tRNA- modification; 2.88A {Bacillus subtilis} (A:68-170) Length = 103 Score = 76.8 bits (189), Expect = 4e-15 Identities = 32/116 (27%), Positives = 52/116 (44%), Gaps = 13/116 (11%) Query: 67 ITAQLNGVRFCHINRREKEISCTLHMRVSPNSWSVYARPSKVIKKGDILHFFSQDGQSRL 126 + A+L G + ++ L + + + W A+P+K +KKG ++ F G RL Sbjct: 1 LPARLFGTK----EDTGAKVELLLLKQETGDKWETLAKPAKRVKKGTVVTF----GDGRL 52 Query: 127 EATVIDKWNTGEILLVFSISGIELERQISLVGTIPLPPYIARKRPIDARDYVDYQT 182 +A ++ G + F GI E + +G +PLPPYI D YQT Sbjct: 53 KAICTEELEHGGRKMEFQYDGIFYEV-LESLGEMPLPPYIKE----QLDDKERYQT 103 >1vky_A S-adenosylmethionine:tRNA ribosyltransferase- isomerase; TM0574, structural genomics, JCSG, protein structure initiative, PSI; 2.00A {Thermotoga maritima} (A:77-173) Length = 97 Score = 73.3 bits (180), Expect = 4e-14 Identities = 29/114 (25%), Positives = 42/114 (36%), Gaps = 18/114 (15%) Query: 69 AQLNGVRFCHINRREKEISCTLHMRVSPNSWSVYARPSKVIKKGDILHFFSQDGQSRLEA 128 A+L + + I L R+ W RP + +KKG L L A Sbjct: 2 ARLYARK-----KTGASIEILLIERLEEGIWKCLVRPGQKVKKGTELVIDED-----LSA 51 Query: 129 TVIDKWNTGEILLVFSISGIELERQISLVGTIPLPPYIARKRPIDARDYVDYQT 182 + + G +L F L + G PLPPYI + P++ YQT Sbjct: 52 VCLGRGEDGTRILKFQPQDDRLIFEK---GRTPLPPYIKNEVPLE-----RYQT 97 >3icj_A Uncharacterized metal-dependent hydrolase; structural genomics, amidohydrolase, PSI-2, protein structure initiative; HET: KCX; 1.95A {Pyrococcus furiosus} PDB: 3etk_A* 3igh_X* (A:1-96,A:487-534) Length = 144 Score = 28.4 bits (63), Expect = 1.3 Identities = 21/94 (22%), Positives = 33/94 (35%), Gaps = 15/94 (15%) Query: 223 GAGTFMPVKVEDTDDHIMHSEIGF---IDAPTAQALNSVKSRGGRIVSVGTTS--LRLLE 277 FM VK + + + + R++ G +S LR+ E Sbjct: 23 KVKNFMGVKHIGDCMKALINGTIYTSFSPVKKVSG---LVISNERVLYAGDSSTALRIAE 79 Query: 278 TATTEDGIINPWSGFTNIFITPGYR-FRAVDILM 310 A E II+ F+ P R FRA I++ Sbjct: 80 LAGGE--IID----LKGKFVMPAERGFRAEYIIL 107 >1lm5_A Subdomain of desmoplakin carboxy-terminal domain (DPCT); plakin repeat,, structural protein; 1.80A {Homo sapiens} (A:35-161) Length = 127 Score = 27.2 bits (60), Expect = 3.4 Identities = 9/51 (17%), Positives = 15/51 (29%), Gaps = 1/51 (1%) Query: 241 HSEIGFIDAPTAQALNSVKSRGGRIVSVGTTSLRLLETATTEDGIINPWSG 291 + IGF + + S R LE G+++P Sbjct: 51 KAFIGFEGVKGKKKM-SAAEAVKEKWLPYEAGQRFLEFQYLTGGLVDPEVH 100 >2ia9_A Putative septation protein spovg; APC85465, bacillus subtilis subsp. subtilis STR. 168, structural genomics, PSI-2; 3.00A {Bacillus subtilis} (A:) Length = 100 Score = 27.0 bits (60), Expect = 4.0 Identities = 9/36 (25%), Positives = 19/36 (52%), Gaps = 3/36 (8%) Query: 103 ARPSKVIKKG---DILHFFSQDGQSRLEATVIDKWN 135 A PSK G DI H + + +++ V+++++ Sbjct: 49 AXPSKRTPDGEFRDITHPINSSTRGKIQDAVLNEYH 84 >2i9u_A Cytosine/guanine deaminase related protein; protein structure initiative II (PSI-II), amidohydrolase; HET: GUN; 2.05A {Clostridium acetobutylicum atcc 824} (A:1-69,A:374-439) Length = 135 Score = 25.8 bits (57), Expect = 9.1 Identities = 18/71 (25%), Positives = 24/71 (33%), Gaps = 6/71 (8%) Query: 261 RGGRIVSVGTTSLRLLETATTEDG---IINPWSGFTNIFITPGYRFRAVDILMSNFHLPK 317 G+I SV + + D II P G GY F A+ I SN + Sbjct: 37 IDGKIASVSSNLPDKYKGNPIIDFRNNIIIP--GMVGS-FEEGYDFDALVINDSNLYPED 93 Query: 318 STLLMLVSAFC 328 L + F Sbjct: 94 YDLTERLERFI 104 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 0.323 0.138 0.409 Gapped Lambda K H 0.267 0.0551 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 2,759,617 Number of extensions: 122491 Number of successful extensions: 311 Number of sequences better than 10.0: 1 Number of HSP's gapped: 301 Number of HSP's successfully gapped: 12 Length of query: 360 Length of database: 4,956,049 Length adjustment: 90 Effective length of query: 270 Effective length of database: 1,913,599 Effective search space: 516671730 Effective search space used: 516671730 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 55 (25.4 bits)