RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780714|ref|YP_003065127.1| tRNA (guanine-N(1)-)-methyltransferase [Candidatus Liberibacter asiaticus str. psy62] (236 letters) >3ief_A TRNA (guanine-N(1)-)-methyltransferase; niaid, ssgcid, seattle structural genomics center for infectious diseases; 2.50A {Bartonella henselae} Length = 233 Score = 348 bits (896), Expect = 5e-97 Identities = 141/229 (61%), Positives = 178/229 (77%), Gaps = 5/229 (2%) Query: 1 MTFHASILTLYPEMFPGHLEKSVAGKALACNLWSMDAIQIRNFSTDRHHSVDDTPAGGGA 60 M F A +LTLYPEMFPG L S+AG+AL +WS++ +QIR+F+ D+HHSVDDTPAGGGA Sbjct: 2 MKFQARVLTLYPEMFPGFLGCSLAGQALKQGIWSLETVQIRDFALDKHHSVDDTPAGGGA 61 Query: 61 GMVLRVDILGKAIDHAVSQYTHEDIPRILMSPRGKTLTQKRVRQLSQKLGVIIVCGRFEG 120 GMV+R D+L A+D D PR+LMSPRG+ L Q R L++ GV +VCGRFEG Sbjct: 62 GMVMRADVLAAALDSC-----PNDSPRLLMSPRGRLLNQAYARSLARSSGVTLVCGRFEG 116 Query: 121 IDERIIEARDLEEISVGDYILSGGEPAALILLDAVVRLLPGVLGNQQSTIHESFENGLLE 180 +DERIIEAR+LEE+S+GDYILSGGE AAL+LLDA+VRLLPGV+GN+ S ESFENGLLE Sbjct: 117 VDERIIEARELEEVSIGDYILSGGETAALVLLDAIVRLLPGVMGNEISAKCESFENGLLE 176 Query: 181 FPQYTRPQIWEGLAIPPILNSGDHERIKKWRKEQSFALTKKHRPDLLSK 229 PQYTRP ++EG IPP+L SG H+ I WR++Q+ +LT++ RPDL + Sbjct: 177 HPQYTRPAVFEGRGIPPVLTSGHHKAIANWRQQQAESLTRQRRPDLYAL 225 >3ky7_A TRNA (guanine-N(1)-)-methyltransferase; putative tRNA (guanine-7-)-methyltransferase, structural genomics, infectious diseases; 2.35A {Staphylococcus aureus subsp} Length = 269 Score = 305 bits (783), Expect = 5e-84 Identities = 98/231 (42%), Positives = 144/231 (62%), Gaps = 5/231 (2%) Query: 1 MTFHASILTLYPEMFPGHLEKSVAGKALACNLWSMDAIQIRNFSTDRHHSVDDTPAGGGA 60 M LTL+PEMF G L S+ +A N ++ + R+++ ++H+ VDD P GGG Sbjct: 25 MKID--YLTLFPEMFDGVLNHSIMKRAQENNKLQINTVNFRDYAINKHNQVDDYPYGGGQ 82 Query: 61 GMVLRVDILGKAIDHAVSQYTHEDIPRILMSPRGKTLTQKRVRQLSQKLGVIIVCGRFEG 120 GMVL+ + + A++ E ILM P+G+ + ++ +LS+ ++ +CG +EG Sbjct: 83 GMVLKPEPVFNAMED---LDVTEQARVILMCPQGEPFSHQKAVELSKADHIVFICGHYEG 139 Query: 121 IDERIIEARDLEEISVGDYILSGGEPAALILLDAVVRLLPGVLGNQQSTIHESFENGLLE 180 DERI +EIS+GDY+L+GGE A+ + DA+VRL+PGVLGN+QS +SF +GLLE Sbjct: 140 YDERIRTHLVTDEISMGDYVLTGGELPAMTMTDAIVRLIPGVLGNEQSHQDDSFSDGLLE 199 Query: 181 FPQYTRPQIWEGLAIPPILNSGDHERIKKWRKEQSFALTKKHRPDLLSKKG 231 FPQYTRP+ ++GL +P +L SG+H I WR EQ T RPDL+ K Sbjct: 200 FPQYTRPREFKGLTVPDVLLSGNHANIDAWRHEQKLIRTYNKRPDLIEKYP 250 >1oy5_A TRNA (guanine-N(1)-)-methyltransferase; structural genomics, TRMD, tRNA (M1G37) methyltransferase, BSGC structure funded by NIH; 2.60A {Aquifex aeolicus} SCOP: c.116.1.4 Length = 257 Score = 292 bits (749), Expect = 4e-80 Identities = 89/230 (38%), Positives = 135/230 (58%), Gaps = 7/230 (3%) Query: 1 MTFHASILTLYPEMFPGHLEKSVAGKALACNLWSMDAIQIRNFSTDRHHSVDDTPAGGGA 60 + F +LT++P + + E + +A+ + I +R F+ VDD P GG Sbjct: 6 LRFF--VLTIFPHIISCYSEYGIVKQAIKKGKVEVYPIDLREFAPKGQ--VDDVPYGGLP 61 Query: 61 GMVLRVDILGKAIDHAVSQYTHEDIPRILMSPRGKTLTQKRVRQLSQKLGVIIVCGRFEG 120 GMVL+ + + +A D+ V + ++ P G+ L QK V +LS+K ++I+CGR+EG Sbjct: 62 GMVLKPEPIYEAYDYVVEN--YGKPFVLITEPWGEKLNQKLVNELSKKERIMIICGRYEG 119 Query: 121 IDERIIEARDLEEISVGDYILSGGEPAALILLDAVVRLLPGVLGNQQSTIHESFENGLLE 180 +DER+ + D EIS+GD+ILSGGE AL ++DAV R+LPGVL QS +SF+N L Sbjct: 120 VDERVKKIVD-MEISLGDFILSGGEIVALAVIDAVSRVLPGVLSEPQSIQEDSFQNRWLG 178 Query: 181 FPQYTRPQIWEGLAIPPILNSGDHERIKKWRKEQSFALTKKHRPDLLSKK 230 +P YTRP+ + G+ +P L SG H+ I+ W+ T K RPDL+ K Sbjct: 179 YPVYTRPREYRGMKVPEELLSGHHKLIELWKLWHRIENTVKKRPDLIPKD 228 >3knu_A TRNA (guanine-N(1)-)-methyltransferase; niaid, ssgcid, seattle structural genomics center for infectious disease; 2.25A {Anaplasma phagocytophilum HZ} Length = 253 Score = 261 bits (669), Expect = 8e-71 Identities = 105/234 (44%), Positives = 156/234 (66%), Gaps = 5/234 (2%) Query: 1 MTFHASILTLYPEMFPGHLEKSVAGKALACNLWSMDAIQIRNFSTDRHHSVDDTPAGGGA 60 M F+ +LT++P+MFPG L S G AL LW+++ IR F+ ++H++VDDTP GGG Sbjct: 22 MIFN--VLTIFPQMFPGPLGVSNLGSALKKGLWTLNVFDIRAFANNKHNTVDDTPYGGGP 79 Query: 61 GMVLRVDILGKAIDHAVSQYTHEDIPRILMSPRGKTLTQKRVRQLSQKLGVIIVCGRFEG 120 GM+LR D+LG+ ID H + + SPRG + TQ RQ + ++CGRFEG Sbjct: 80 GMLLRADVLGRCIDEV--LSLHPNTKLMFTSPRGVSFTQDIARQTMNFDNITLLCGRFEG 137 Query: 121 IDERIIEARDLEEISVGDYILSGGEPAALILLDAVVRLLPGVLGNQQSTIHESFENGLLE 180 IDER+++ L+E+S+GDY+LSGGE AA++++D VR++PGV+GN +S + + G LE Sbjct: 138 IDERVVDFYKLQEVSIGDYVLSGGELAAMVIIDTCVRMVPGVIGNAES-LKQESMEGSLE 196 Query: 181 FPQYTRPQIWEGLAIPPILNSGDHERIKKWRKEQSFALTKKHRPDLLSKKGTLN 234 +PQYTRP W+G+ +P +L +G+H I+KWR+ S ++T RPDLL + N Sbjct: 197 YPQYTRPASWKGMEVPEVLLTGNHGEIEKWRRNASLSITAARRPDLLKDRYGEN 250 >1ual_A TRNA (guanine-N(1)-)-methyltransferase; spout class, TRMD, tRNA(M1G37) methyltransferase, tRNA modification; HET: SAH; 1.80A {Haemophilus influenzae} SCOP: c.116.1.4 PDB: 1uak_A* 1uaj_A* 1uam_A* 1p9p_A* Length = 274 Score = 261 bits (668), Expect = 1e-70 Identities = 105/226 (46%), Positives = 146/226 (64%), Gaps = 1/226 (0%) Query: 6 SILTLYPEMFPGHLEKSVAGKALACNLWSMDAIQIRNFSTDRHHSVDDTPAGGGAGMVLR 65 +++L+PEMF E V G+A+ NL ++ R+F+ D+H +VDD P GGG GM++ Sbjct: 24 GVISLFPEMFKAITEFGVTGRAVKHNLLKVECWNPRDFTFDKHKTVDDRPYGGGPGMLMM 83 Query: 66 VDILGKAIDHAVSQYTHEDIPRILMSPRGKTLTQKRVRQLSQKLGVIIVCGRFEGIDERI 125 V L AI A + E I +SP+G+ L Q V +L+Q +I+VCGR+EGIDER+ Sbjct: 84 VQPLRDAIHTAKAAA-GEGAKVIYLSPQGRKLDQGGVTELAQNQKLILVCGRYEGIDERL 142 Query: 126 IEARDLEEISVGDYILSGGEPAALILLDAVVRLLPGVLGNQQSTIHESFENGLLEFPQYT 185 I+ EE S+GDY+L+GGE A+ L+DAV R +PGVLG Q S +SF +GLL+ P YT Sbjct: 143 IQTEIDEEWSIGDYVLTGGELPAMTLIDAVARFIPGVLGKQASAEEDSFADGLLDCPHYT 202 Query: 186 RPQIWEGLAIPPILNSGDHERIKKWRKEQSFALTKKHRPDLLSKKG 231 RP++ EGL +PP+L SG HE I+KWR +QS T RP+LL Sbjct: 203 RPEVLEGLTVPPVLMSGHHEEIRKWRLKQSLQRTWLRRPELLEGLA 248 >2v3j_A Essential for mitotic growth 1; EMG1, rRNA processing, nuclear protein, ribonucleoprotein, ribosome biogenesis; 2.00A {Saccharomyces cerevisiae} SCOP: c.116.1.6 PDB: 2v3k_A* Length = 258 Score = 69.9 bits (171), Expect = 5e-13 Identities = 11/78 (14%), Positives = 30/78 (38%), Gaps = 1/78 (1%) Query: 67 DILGKAIDHAVSQYTHEDIPRILMSPRGKTLT-QKRVRQLSQKLGVIIVCGRFEGIDERI 125 + L K I + ++ + ++ +S + Q + +L + + G + Sbjct: 157 EKLLKVIKNPITDHLPTKCRKVTLSFDAPVIRVQDYIEKLDDDESICVFVGAMARGKDNF 216 Query: 126 IEARDLEEISVGDYILSG 143 + E++ + +Y LS Sbjct: 217 ADEYVDEKVGLSNYPLSA 234 >3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190 Score = 30.3 bits (67), Expect = 0.45 Identities = 7/10 (70%), Positives = 9/10 (90%) Query: 205 ERIKKWRKEQ 214 E I+KWR+EQ Sbjct: 85 ESIRKWREEQ 94 >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 28.8 bits (64), Expect = 1.0 Identities = 32/145 (22%), Positives = 53/145 (36%), Gaps = 52/145 (35%) Query: 59 GAGMVL------RVDILGKAIDHAVSQYTHEDIPRILMSPRGKTL-----TQKRVRQ-LS 106 G GM L D+ +A +H Y + ++ +P T+ KR+R+ S Sbjct: 1630 GMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYS 1689 Query: 107 QKLGVIIVCGRFEGIDERIIEARDLEEISVGDYILSGGEPAALILLDAVVRLLPGVLGNQ 166 + IV G+ + E+I +EI N+ Sbjct: 1690 AMIFETIVDGKLK--TEKI-----FKEI------------------------------NE 1712 Query: 167 QSTIHESF--ENGLLEFPQYTRPQI 189 ST + +F E GLL Q+T+P + Sbjct: 1713 HSTSY-TFRSEKGLLSATQFTQPAL 1736 Score = 27.2 bits (60), Expect = 3.1 Identities = 41/253 (16%), Positives = 73/253 (28%), Gaps = 103/253 (40%) Query: 10 LYPEMFPGHLEK--SVAGKALACNLWS--MDAIQIRNFSTDRH---HSVDDTPAGGGAGM 62 LY + + + + + L+ L +DA ++ + + +TP Sbjct: 176 LY-QTYHVLVGDLIKFSAETLS-ELIRTTLDAEKVFTQGLNILEWLENPSNTPD------ 227 Query: 63 VLRVDILGKAIDHAVS-------QYTHEDIP-RIL-MSPRGKTLTQKRVRQL-------S 106 D L +S Q H + ++L +P +R S Sbjct: 228 ---KDYLLSI---PISCPLIGVIQLAHYVVTAKLLGFTP-------GELRSYLKGATGHS 274 Query: 107 QKLGVIIVCGRFEGIDERIIEARDLEEISVGDYILSGGEPAALILLDAVVRLL--PGVLG 164 Q G++ I E E ++ A+ +L GV Sbjct: 275 Q--GLVTAVA--------IAETDSWESF----FVSV---------RKAI-TVLFFIGVRC 310 Query: 165 NQ--------QSTIHESFENGLLEFPQYTRPQIWEGLAIP-PILNSGDHERIKKWRKE-- 213 + S + +S EN EG +P P+L+ I +E Sbjct: 311 YEAYPNTSLPPSILEDSLENN-------------EG--VPSPMLS------ISNLTQEQV 349 Query: 214 QSF-ALTKKHRPD 225 Q + T H P Sbjct: 350 QDYVNKTNSHLPA 362 >3daw_B Twinfilin-1, protein A6; actin depolymerisation, actin binding proteins, cytoskeleton, structural protein/contractIle protein complex; HET: ATP; 2.55A {Mus musculus} PDB: 2hd7_A Length = 164 Score = 27.2 bits (60), Expect = 3.5 Identities = 13/63 (20%), Positives = 27/63 (42%), Gaps = 6/63 (9%) Query: 79 QYTHEDIPR-----ILMSPRGKTLTQKRVRQLSQKLGVIIVCGRFEGID-ERIIEARDLE 132 +++HE I P ++R+ S K ++ + R +D R IE + + Sbjct: 84 KHSHEGDYLESVVFIYSMPGYTCSIRERMLYSSCKSPLLEIVERQLQMDVIRKIEIDNGD 143 Query: 133 EIS 135 E++ Sbjct: 144 ELT 146 >2w0i_A Twinfilin-2; cytoskeleton, actin-binding, actin binding, cytoplasm, acetylation, polymorphism, cofilin-like, phosphoprotein, phosphorylation; 1.8A {Homo sapiens} Length = 135 Score = 27.2 bits (60), Expect = 3.7 Identities = 14/63 (22%), Positives = 27/63 (42%), Gaps = 6/63 (9%) Query: 79 QYTHEDIPR-----ILMSPRGKTLTQKRVRQLSQKLGVIIVCGRFEGID-ERIIEARDLE 132 ++THE P I P K ++R+ S K ++ + ++ + IE D Sbjct: 64 KHTHEGDPLESVVFIYSMPGYKCSIKERMLYSSCKSRLLDSVEQDFHLEIAKKIEIGDGA 123 Query: 133 EIS 135 E++ Sbjct: 124 ELT 126 >2g4r_A MOGA, molybdopterin biosynthesis MOG protein; anomalous substructure of MOGA, biosynthetic protein; 1.92A {Mycobacterium tuberculosis} Length = 160 Score = 26.8 bits (58), Expect = 4.2 Identities = 16/78 (20%), Positives = 25/78 (32%), Gaps = 4/78 (5%) Query: 14 MFPGHLEKSVAGKALACNLWSMDAIQIRNFSTDRHHSVDDTP----AGGGAGMVLRVDIL 69 L+ + G A A + + S T G G+ + +L Sbjct: 83 HTVAVLDYVIPGLADAIRRSGLPKVPTSVLSRGVCGVAGRTLIINLPGSPGGVRDGLGVL 142 Query: 70 GKAIDHAVSQYTHEDIPR 87 +DHA+ Q D PR Sbjct: 143 ADVLDHALEQIAGGDHPR 160 >3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 9.00A {Bos taurus} Length = 205 Score = 26.7 bits (58), Expect = 4.3 Identities = 8/26 (30%), Positives = 13/26 (50%) Query: 196 PPILNSGDHERIKKWRKEQSFALTKK 221 + + E I+KWR+EQ L + Sbjct: 91 QADRLTQEPESIRKWREEQRKRLQEL 116 >3nk6_A 23S rRNA methyltransferase; nosiheptide, nosiheptide-resistance methyltransferase, 23S R methyltransferase; 2.00A {Streptomyces actuosus} PDB: 3nk7_A* 3gyq_A* Length = 277 Score = 26.1 bits (57), Expect = 6.9 Identities = 6/33 (18%), Positives = 13/33 (39%), Gaps = 5/33 (15%) Query: 191 EGLAIPPILNSGDHERIKKWRKEQSFALTKKHR 223 E + P I+ + +++ +TK R Sbjct: 2 EFMTEPAIITNASDPAVQRIID-----VTKHSR 29 >3e57_A Uncharacterized protein TM1382; structural genomics, nudix hydrolase, PSI-2, protein structure initiative; 1.89A {Thermotoga maritima} Length = 211 Score = 26.1 bits (57), Expect = 7.9 Identities = 14/65 (21%), Positives = 27/65 (41%), Gaps = 11/65 (16%) Query: 80 YTHEDIPRILMSPRGKTLTQKRVRQLSQK----LGVIIVCGRFEGID-----ERIIEA-- 128 T + IP +++ + L KR + S+K L + + G D E ++ Sbjct: 65 TTKQVIPYVVIMDGDRVLITKRTTKQSEKRLHNLYSLGIGGHVREGDGATPREAFLKGLE 124 Query: 129 RDLEE 133 R++ E Sbjct: 125 REVNE 129 >1ywl_A Hypothetical UPF0213 protein EF2693; alpha and beta, structural genomics, northeast structural genomics consortium (NESG); NMR {Enterococcus faecalis} Length = 96 Score = 26.0 bits (57), Expect = 8.2 Identities = 4/20 (20%), Positives = 7/20 (35%) Query: 206 RIKKWRKEQSFALTKKHRPD 225 KK ++Q K + Sbjct: 71 AFKKLTRKQKEQYLKTFHLE 90 >1icp_A OPR1, 12-oxophytodienoate reductase 1; beta-alpha-barrel, protein-FMN-PEG complex, oxidoreductase; HET: FMN 2PE; 1.90A {Solanum lycopersicum} SCOP: c.1.4.1 PDB: 1icq_A* 1ics_A* 3hgr_A* 1vji_A* 2q3r_A* Length = 376 Score = 25.9 bits (56), Expect = 8.3 Identities = 16/98 (16%), Positives = 31/98 (31%), Gaps = 1/98 (1%) Query: 46 DRHHSVDDTPAGGGAGMVLRVDILGKAIDHAVSQYTHEDIPRILMSPRGKTLTQKRVRQL 105 R G + ++++ Y H PR+ + T+ V Sbjct: 238 IRISPFAHYNEAGDTNPTALGLYMVESLNKYDLAYCHVVEPRMKTAWEKIECTESLVPMR 297 Query: 106 SQKLGVIIVCGRFEGID-ERIIEARDLEEISVGDYILS 142 G IV G ++ D R + + ++ G +S Sbjct: 298 KAYKGTFIVAGGYDREDGNRALIEDRADLVAYGRLFIS 335 >2o3i_A Hypothetical protein; NESG, CVR68, Q7NTB2, structural genomics, PSI-2, protein structure initiative; 2.30A {Chromobacterium violaceum} SCOP: e.73.1.1 Length = 405 Score = 25.7 bits (56), Expect = 9.8 Identities = 6/26 (23%), Positives = 8/26 (30%), Gaps = 3/26 (11%) Query: 124 RIIEARDLEEISVGDYILS---GGEP 146 + DLE + G GG Sbjct: 3 FELSPSDLEPLLQGACFFGSGGGGTM 28 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.320 0.138 0.408 Gapped Lambda K H 0.267 0.0564 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 2,088,477 Number of extensions: 97834 Number of successful extensions: 301 Number of sequences better than 10.0: 1 Number of HSP's gapped: 293 Number of HSP's successfully gapped: 24 Length of query: 236 Length of database: 5,693,230 Length adjustment: 89 Effective length of query: 147 Effective length of database: 3,535,514 Effective search space: 519720558 Effective search space used: 519720558 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 (21.8 bits) S2: 55 (25.3 bits)