RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254781000|ref|YP_003065413.1| tRNA (uracil-5-)-methyltransferase [Candidatus Liberibacter asiaticus str. psy62] (371 letters) >gnl|CDD|32446 COG2265, TrmA, SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]. Length = 432 Score = 269 bits (689), Expect = 9e-73 Identities = 112/363 (30%), Positives = 167/363 (46%), Gaps = 27/363 (7%) Query: 9 QYEQQLAEKVDRLRQMM----LAFQVPNLQIFRSEPIHYRMRAEFHIWHDGDD-LYHIMF 63 YE QL K ++L++++ + + + S P YR RA F + G L F Sbjct: 84 SYEAQLEFKREQLKELLKRIGGSEVEIDPTVGMSPPWGYRNRARFSVRGSGKGQLLAGFF 143 Query: 64 DQQTKERMRID---YFMPGSLLINALMIEMMATIRLEPLLRAKLFQIDYLTSQSDQAIVT 120 Q + E + ID F P S I L+ E++A + L P K I L + V Sbjct: 144 RQGSHEIVDIDECPVFPPRSNEILPLLRELLAKLGLPPYNEKKKKGILRLIVLREGQEVM 203 Query: 121 LIYHRLLDDAWRECAIRLRDALHARKYQIQLIGRANKTKICLDRDYVDERLTVAGRTLIY 180 + + L +A K +Q I RA I D + L + R + Sbjct: 204 VRLVTKHLPELEQALRELLEAFPEIKGIVQNINRAKTNVIEGDEEITLYGLE-SIREGVS 262 Query: 181 RQIEN-SFTQPNAGINVHMLEWVLAATKGIQGD-LLELYCGNGNFSLVLARHFDRVLAVE 238 QI SF Q N + + E L + G+ +L+LYCG G F L LA+ +V VE Sbjct: 263 FQISPRSFFQVNPAVAEKLYETALEWLELAGGERVLDLYCGVGTFGLPLAKRVKKVHGVE 322 Query: 239 IAKPSVEAARYNIAANHVNNVKIVRMSSKEFTQAMRREREFNRLKDIDIHSYRFKTIFVD 298 I+ +VEAA+ N AAN ++NV+ + ++EFT A Y+ + VD Sbjct: 323 ISPEAVEAAQENAAANGIDNVEFIAGDAEEFTPAW-------------WEGYKPDVVVVD 369 Query: 299 PPRSGLDDATVGMVQAY--PHILYISCNPDSLCRDLSILSTTH-TIERLALFDQFPYTRH 355 PPR+G D + + I+Y+SCNP +L RDL+IL++T IER+ FD FP+T H Sbjct: 370 PPRAGADREVLKQLAKLKPKRIVYVSCNPATLARDLAILASTGYEIERVQPFDMFPHTHH 429 Query: 356 MEC 358 +E Sbjct: 430 VEA 432 >gnl|CDD|37398 KOG2187, KOG2187, KOG2187, tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]. Length = 534 Score = 80.8 bits (199), Expect = 6e-16 Identities = 59/208 (28%), Positives = 86/208 (41%), Gaps = 33/208 (15%) Query: 173 VAGRTLIYRQIEN-SFT-QPNA--GINVHMLEWVLAATKGIQGDL------LELYCGNGN 222 V G I + +F P A N E VL +T G L L++ CG G Sbjct: 338 VGGDPYITESLLGLTFRISPGAFFQTNTSAAE-VLYSTIGEWAGLPADKTLLDVCCGTGT 396 Query: 223 FSLVLARHFDRVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEFTQAMRREREFNRL 282 L LAR RV+ VEI+ +VE A N N ++N F + E F L Sbjct: 397 IGLALARGVKRVIGVEISPDAVEDAEKNAQINGISNA--------TFIVG-QAEDLFPSL 447 Query: 283 KDIDIHSYRFKTIFVDPPRSGLDDATVGMVQAYPH---ILYISCNPDSLCRDLSILSTT- 338 S I +DPPR GL + ++AY + ++Y+SCNP + R++ L ++ Sbjct: 448 LTPCCDSETLVAI-IDPPRKGLHMKVIKALRAYKNPRRLVYVSCNPHTAARNVIDLCSSP 506 Query: 339 --------HTIERLALFDQFPYTRHMEC 358 + + D FP+T H E Sbjct: 507 KYRLKKGFFRLVKAVGVDLFPHTPHCEM 534 >gnl|CDD|32642 COG2813, RsmC, 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]. Length = 300 Score = 46.4 bits (110), Expect = 1e-05 Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 2/55 (3%) Query: 211 GDLLELYCGNGNFSLVLARHFD--RVLAVEIAKPSVEAARYNIAANHVNNVKIVR 263 G +L+L CG G LVLA+ ++ V++ +VE+AR N+AAN V N ++ Sbjct: 160 GKVLDLGCGYGVLGLVLAKKSPQAKLTLVDVNARAVESARKNLAANGVENTEVWA 214 >gnl|CDD|100107 cd02440, AdoMet_MTases, S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). There are at least five structurally distinct families of AdoMet-MTases, class I being the largest and most diverse. Within this class enzymes can be classified by different substrate specificities (small molecules, lipids, nucleic acids, etc.) and different target atoms for methylation (nitrogen, oxygen, carbon, sulfur, etc.).. Length = 107 Score = 43.6 bits (103), Expect = 8e-05 Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 1/52 (1%) Query: 212 DLLELYCGNGNFSLVLARH-FDRVLAVEIAKPSVEAARYNIAANHVNNVKIV 262 +L+L CG G +L LA RV V+I+ ++E AR AA +NV+++ Sbjct: 1 RVLDLGCGTGALALALASGPGARVTGVDISPVALELARKAAAALLADNVEVL 52 >gnl|CDD|147386 pfam05175, MTS, Methyltransferase small domain. This domain is found in ribosomal RNA small subunit methyltransferase C as well as other methyltransferases . Length = 170 Score = 43.3 bits (103), Expect = 1e-04 Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 2/54 (3%) Query: 211 GDLLELYCGNGNFSLVLARHFDR--VLAVEIAKPSVEAARYNIAANHVNNVKIV 262 G +L+L CG G LA+ V V+I ++E+AR N+AAN + N ++ Sbjct: 33 GKVLDLGCGYGVLGAALAKRSPDLEVTMVDINARALESARANLAANGLENGEVF 86 >gnl|CDD|31085 COG0742, COG0742, N6-adenine-specific methylase [DNA replication, recombination, and repair]. Length = 187 Score = 41.8 bits (98), Expect = 3e-04 Identities = 20/89 (22%), Positives = 39/89 (43%), Gaps = 15/89 (16%) Query: 214 LELYCGNGNFSL-VLARHFDRVLAVEIAKPSVEAARYNIAA-NHVNNVKIVRMSSKEFTQ 271 L+L+ G+G L L+R RV+ VE + +V+ + N+ A +++R + + Sbjct: 48 LDLFAGSGALGLEALSRGAARVVFVEKDRKAVKILKENLKALGLEGEARVLRNDALRALK 107 Query: 272 AMRREREFNRLKDIDIHSYRFKTIFVDPP 300 + F+ +F+DPP Sbjct: 108 QLGTREPFDL-------------VFLDPP 123 >gnl|CDD|31289 COG1092, COG1092, Predicted SAM-dependent methyltransferases [General function prediction only]. Length = 393 Score = 41.8 bits (98), Expect = 3e-04 Identities = 24/114 (21%), Positives = 45/114 (39%), Gaps = 16/114 (14%) Query: 191 NAGINVHMLEWVLAATKGIQGD-LLELYCGNGNFSLVLAR-HFDRVLAVEIAKPSVEAAR 248 G + + A + G +L L+ G FS+ A V +V+++K ++E AR Sbjct: 198 KTGFFLDQRDNRRALGELAAGKRVLNLFSYTGGFSVHAALGGASEVTSVDLSKRALEWAR 257 Query: 249 YNIAANHV--NNVKIVRMSSKEFTQAMRREREFNRLKDIDIHSYRFKTIFVDPP 300 N N + + + + ++ + R E +F I +DPP Sbjct: 258 ENAELNGLDGDRHRFIVGDVFKWLRKAERRGE------------KFDLIILDPP 299 >gnl|CDD|33880 COG4123, COG4123, Predicted O-methyltransferase [General function prediction only]. Length = 248 Score = 40.6 bits (95), Expect = 8e-04 Identities = 25/93 (26%), Positives = 45/93 (48%), Gaps = 17/93 (18%) Query: 211 GDLLELYCGNGNFSLVLARHFD--RVLAVEIAKPSVEAARYNIAANHV-NNVKIVRMSSK 267 G +L+L GNG L+LA+ + +++ VEI + + E A+ N+A N + ++++ K Sbjct: 46 GRILDLGAGNGALGLLLAQRTEKAKIVGVEIQEEAAEMAQRNVALNPLEERIQVIEADIK 105 Query: 268 EFTQAMRREREFNRLKDIDIHSYRFKTIFVDPP 300 EF +A+ F I +PP Sbjct: 106 EFLKALVFA--------------SFDLIICNPP 124 >gnl|CDD|30569 COG0220, COG0220, Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]. Length = 227 Score = 39.1 bits (91), Expect = 0.002 Identities = 15/71 (21%), Positives = 31/71 (43%), Gaps = 2/71 (2%) Query: 214 LELYCGNGNFSLVLARHF--DRVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEFTQ 271 LE+ G G F + +A+ L +EI P V A I + N++++ + E Sbjct: 53 LEIGFGMGEFLVEMAKKNPEKNFLGIEIRVPGVAKALKKIKELGLKNLRLLCGDAVEVLD 112 Query: 272 AMRREREFNRL 282 + + +++ Sbjct: 113 YLIPDGSLDKI 123 >gnl|CDD|32590 COG2520, COG2520, Predicted methyltransferase [General function prediction only]. Length = 341 Score = 38.7 bits (90), Expect = 0.003 Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 5/71 (7%) Query: 213 LLELYCGNGNFSLVLARHFDR-VLAVEIAKPSVEAARYNIAANHVNN-VKIVRMSSKEFT 270 +L+++ G G FS+ +A+ V A++I +VE + NI N V V+ + ++E Sbjct: 192 VLDMFAGVGPFSIPIAKKGRPKVYAIDINPDAVEYLKENIRLNKVEGRVEPILGDAREVA 251 Query: 271 QAMRREREFNR 281 +R Sbjct: 252 ---PELGVADR 259 >gnl|CDD|145554 pfam02475, Met_10, Met-10+ like-protein. The methionine-10 mutant allele of N. crassa codes for a protein of unknown function. However, homologous proteins have been found in yeast suggesting this protein may be involved in methionine biosynthesis, transport and/or utilisation. Length = 199 Score = 38.1 bits (89), Expect = 0.004 Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 3/60 (5%) Query: 214 LELYCGNGNFSLVLARHF--DRVLAVEIAKPSVEAARYNIAANHVNN-VKIVRMSSKEFT 270 ++++ G G FS+ +A+H RV AVE+ +V+ + NI N V + + ++ Sbjct: 105 VDMFAGIGPFSIPIAKHSKAKRVYAVELNPEAVKYLKENIKLNKVEGVISPILGDVRDVI 164 >gnl|CDD|32715 COG2890, HemK, Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]. Length = 280 Score = 37.7 bits (87), Expect = 0.005 Identities = 19/69 (27%), Positives = 35/69 (50%), Gaps = 2/69 (2%) Query: 199 LEWVLAATKGIQGDLLELYCGNGNFSLVLARHFD--RVLAVEIAKPSVEAARYNIAANHV 256 +E LA + +L+L G+G ++ LA+ V+AV+I+ ++ AR N N + Sbjct: 100 VEAALALLLQLDKRILDLGTGSGAIAIALAKEGPDAEVIAVDISPDALALARENAERNGL 159 Query: 257 NNVKIVRMS 265 V +V+ Sbjct: 160 VRVLVVQSD 168 >gnl|CDD|146308 pfam03602, Cons_hypoth95, Conserved hypothetical protein 95. Length = 181 Score = 36.5 bits (85), Expect = 0.011 Identities = 24/118 (20%), Positives = 49/118 (41%), Gaps = 20/118 (16%) Query: 214 LELYCGNGNFSL-VLARHFDRVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEFTQA 272 L+L+ G+G L L+R V+ VE K +V + N+ A + + +++ + Sbjct: 48 LDLFAGSGALGLEALSRGASSVVFVEKDKKAVATLKENLEALGLEGAVLRMDAARALLRL 107 Query: 273 MRREREFNRLKDIDIHSYRFKTIFVDPP-RSGLDDATVGMVQAYPHILYISCNPDSLC 329 + F+ +F+DPP GL + + ++ + NP++L Sbjct: 108 AGKGPPFDL-------------VFLDPPYAKGLIEEALELLAEKGWL-----NPNALI 147 >gnl|CDD|145502 pfam02390, Methyltransf_4, Putative methyltransferase. This is a family of putative methyltransferases. The aligned region contains the GXGXG S-AdoMet binding site suggesting a putative methyltransferase activity. Length = 199 Score = 35.4 bits (82), Expect = 0.028 Identities = 17/77 (22%), Positives = 36/77 (46%), Gaps = 3/77 (3%) Query: 209 IQGDLLELYCGNGNFSLVLARHF--DRVLAVEIAKPSVEAA-RYNIAANHVNNVKIVRMS 265 Q LE+ CG G+F + +A+ + +EI P V+ A + IA + N++I+ Sbjct: 20 EQPLFLEIGCGMGDFLVAMAKKNPDKLFIGIEIRVPGVDKALKKIIALRGLQNLRILCGD 79 Query: 266 SKEFTQAMRREREFNRL 282 + + + + ++ Sbjct: 80 AMKLLPNLFPDGSLQKI 96 >gnl|CDD|32588 COG2518, Pcm, Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]. Length = 209 Score = 34.8 bits (80), Expect = 0.039 Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 3/65 (4%) Query: 198 MLEWVLAATKGIQGDLLELYCGNGNFSLVLARHFDRVLAVEIAKPSVEAARYNIAANHVN 257 ML+ L G +LE+ G+G + VLAR RV+++E + E AR N+ Sbjct: 64 MLQL-LELKPG--DRVLEIGTGSGYQAAVLARLVGRVVSIERIEELAEQARRNLETLGYE 120 Query: 258 NVKIV 262 NV + Sbjct: 121 NVTVR 125 >gnl|CDD|37289 KOG2078, KOG2078, KOG2078, tRNA modification enzyme [RNA processing and modification]. Length = 495 Score = 34.3 bits (78), Expect = 0.050 Identities = 17/59 (28%), Positives = 33/59 (55%), Gaps = 2/59 (3%) Query: 213 LLELYCGNGNFSLVLARHFDRVLAVEIAKPSVEAARYNIAANHVN--NVKIVRMSSKEF 269 + +++ G G F+L A+ RV A ++ S++ + NI N V+ ++I M +K+F Sbjct: 253 VCDVFAGVGPFALPAAKKGCRVYANDLNPESIKWLKANIKLNKVDPSAIEIFNMDAKDF 311 >gnl|CDD|33834 COG4076, COG4076, Predicted RNA methylase [General function prediction only]. Length = 252 Score = 33.8 bits (77), Expect = 0.086 Identities = 14/54 (25%), Positives = 24/54 (44%) Query: 209 IQGDLLELYCGNGNFSLVLARHFDRVLAVEIAKPSVEAARYNIAANHVNNVKIV 262 + +L G+G S+V A +RV+A+E A N+ N ++V Sbjct: 32 AEDTFADLGAGSGILSVVAAHAAERVIAIEKDPKRARLAEENLHVPGDVNWEVV 85 >gnl|CDD|32445 COG2264, PrmA, Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]. Length = 300 Score = 33.3 bits (76), Expect = 0.12 Identities = 16/48 (33%), Positives = 28/48 (58%), Gaps = 1/48 (2%) Query: 213 LLELYCGNGNFSLVLAR-HFDRVLAVEIAKPSVEAARYNIAANHVNNV 259 +L++ CG+G ++ A+ +V+ V+I +VEAAR N N V + Sbjct: 166 VLDVGCGSGILAIAAAKLGAKKVVGVDIDPQAVEAARENARLNGVELL 213 >gnl|CDD|32444 COG2263, COG2263, Predicted RNA methylase [Translation, ribosomal structure and biogenesis]. Length = 198 Score = 31.7 bits (72), Expect = 0.31 Identities = 21/88 (23%), Positives = 34/88 (38%), Gaps = 21/88 (23%) Query: 214 LELYCGNGNFSL-VLARHFDRVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEFTQA 272 L+L G G ++ RVLAV+I ++E AR N +V+ V +F Sbjct: 50 LDLGAGTGILAIGAALLGASRVLAVDIDPEALEIARANAEELLG-DVEFVVADVSDF--- 105 Query: 273 MRREREFNRLKDIDIHSYRFKTIFVDPP 300 +F T+ ++PP Sbjct: 106 ----------------RGKFDTVIMNPP 117 >gnl|CDD|30493 COG0144, Sun, tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]. Length = 355 Score = 31.6 bits (71), Expect = 0.33 Identities = 19/88 (21%), Positives = 38/88 (43%), Gaps = 18/88 (20%) Query: 233 RVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEFTQAMRREREFNRLKDIDIHSYRF 292 V+AV+++ ++ R N+ V NV +V ++ RL ++ +F Sbjct: 184 IVVAVDVSPKRLKRLRENLKRLGVRNVIVVNKDAR-------------RLAELLPGGEKF 230 Query: 293 KTIFVDPPRSGLDDATVGMVQAYPHILY 320 I +D P SG G+++ P + + Sbjct: 231 DRILLDAPCSGT-----GVIRRDPDVKW 253 >gnl|CDD|39706 KOG4506, KOG4506, KOG4506, Uncharacterized conserved protein [Function unknown]. Length = 598 Score = 31.3 bits (70), Expect = 0.47 Identities = 27/128 (21%), Positives = 52/128 (40%), Gaps = 8/128 (6%) Query: 109 YLTSQSDQAIVTLIYHRLLDDAWRECAIRLRD-ALHARKYQIQLIGRANKTKI---CLDR 164 + S + + + +H +DD + I RD A+ + I+ R + + I L Sbjct: 423 LIQDHSCLSEIHIAFHLCVDDHLKSGEINARDPAIAGLRNIIKTAARHDISTIHIPLLLI 482 Query: 165 DYVDERLTVA----GRTLIYRQIENSFTQPNAGINVHMLEWVLAATKGIQGDLLELYCGN 220 D +DE +T+A L+++ I FT + ++ K +LE C + Sbjct: 483 DDMDEEMTIAWCLKRAELLFKCIFGPFTNKTSLGTRREGLFLCKRLKLRPDFMLEEACAD 542 Query: 221 GNFSLVLA 228 G ++A Sbjct: 543 GEIIDIMA 550 >gnl|CDD|38220 KOG3010, KOG3010, KOG3010, Methyltransferase [General function prediction only]. Length = 261 Score = 30.7 bits (69), Expect = 0.63 Identities = 16/75 (21%), Positives = 29/75 (38%), Gaps = 10/75 (13%) Query: 199 LEWV--LAATKGIQGDLLELYCGNGNFSLVLARHFDRVLAVEIAKPSVEAARYNIAANHV 256 +W +A+ ++ GNG + +A H+ V+A +++ A +A H Sbjct: 21 TDWFKKIASRTEGHRLAWDVGTGNGQAARGIAEHYKEVIATDVS-----EAMLKVAKKHP 75 Query: 257 NNV---KIVRMSSKE 268 MSS E Sbjct: 76 PVTYCHTPSTMSSDE 90 >gnl|CDD|109456 pfam00398, RrnaAD, Ribosomal RNA adenine dimethylase. Length = 258 Score = 30.3 bits (69), Expect = 0.95 Identities = 10/30 (33%), Positives = 17/30 (56%) Query: 210 QGDLLELYCGNGNFSLVLARHFDRVLAVEI 239 +LE+ G G + LA+ +V+A+EI Sbjct: 31 SDTVLEIGPGKGALTEELAKRAKQVVAIEI 60 >gnl|CDD|30619 COG0270, Dcm, Site-specific DNA methylase [DNA replication, recombination, and repair]. Length = 328 Score = 30.0 bits (67), Expect = 0.98 Identities = 14/60 (23%), Positives = 25/60 (41%), Gaps = 1/60 (1%) Query: 213 LLELYCGNGNFSLVLARH-FDRVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEFTQ 271 +++L+ G G SL F+ V A EI P+V + N + I + + + Sbjct: 6 VIDLFAGIGGLSLGFEEAGFEIVFANEIDPPAVATYKANFPHGDIILGDIKELDGEALRK 65 >gnl|CDD|32409 COG2227, UbiG, 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme metabolism]. Length = 243 Score = 29.9 bits (67), Expect = 1.1 Identities = 11/38 (28%), Positives = 20/38 (52%) Query: 211 GDLLELYCGNGNFSLVLARHFDRVLAVEIAKPSVEAAR 248 +L++ CG G S LAR V ++ ++ +E A+ Sbjct: 61 LRVLDVGCGGGILSEPLARLGASVTGIDASEKPIEVAK 98 >gnl|CDD|30380 COG0030, KsgA, Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]. Length = 259 Score = 29.4 bits (66), Expect = 1.7 Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 2/55 (3%) Query: 186 SFTQPNAGINVHMLEWVLAATKGIQGD-LLELYCGNGNFSLVLARHFDRVLAVEI 239 Q N I+ ++++ ++ A GD +LE+ G G + L RV A+EI Sbjct: 7 RLGQ-NFLIDKNVIDKIVEAANISPGDNVLEIGPGLGALTEPLLERAARVTAIEI 60 >gnl|CDD|37118 KOG1907, KOG1907, KOG1907, Phosphoribosylformylglycinamidine synthase [Nucleotide transport and metabolism]. Length = 1320 Score = 28.4 bits (63), Expect = 3.3 Identities = 18/76 (23%), Positives = 30/76 (39%), Gaps = 2/76 (2%) Query: 191 NAGINVHMLEWVLAATKGIQGDLLELYCGNGNFSLVLARHFDRVLAVEIAKPSVEAARYN 250 + G+ V +LE A GI+ DL F ++ A VL E++ +E Sbjct: 904 DGGLLVTLLEMAFAGNVGIEIDLDSPNQNIKLFDILFAEELGAVL--EVSDTDLEKVLEI 961 Query: 251 IAANHVNNVKIVRMSS 266 + V I + S+ Sbjct: 962 FSEAGVKCEYIGKASA 977 >gnl|CDD|32945 COG3131, MdoG, Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]. Length = 534 Score = 28.4 bits (63), Expect = 3.7 Identities = 8/41 (19%), Positives = 23/41 (56%), Gaps = 1/41 (2%) Query: 273 MRREREFNRLKDIDIHSYRFKTIFVDPPRSGLDDATVGMVQ 313 ++R+R+F+ +D+ + +++V+ P+ V +V+ Sbjct: 334 LQRDRDFSHYQDLGDRYEKRPSLWVE-PKGKWGKGAVELVE 373 >gnl|CDD|36714 KOG1501, KOG1501, KOG1501, Arginine N-methyltransferase [General function prediction only]. Length = 636 Score = 28.1 bits (62), Expect = 4.1 Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 2/60 (3%) Query: 214 LELYCGNGNFSLVLARHF-DRVLAVEIAKPSVEAARYNIAAN-HVNNVKIVRMSSKEFTQ 271 L++ G G S++ R D V A E+ KP V+ AR + N + + ++ S E Sbjct: 71 LDIGTGTGLLSMMAVRAGADSVTACEVFKPMVDLARKIMHKNGMSDKINVINKRSTEVKV 130 >gnl|CDD|31319 COG1122, CbiO, ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]. Length = 235 Score = 27.5 bits (61), Expect = 5.8 Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 1/39 (2%) Query: 2 SGTLLIDQYEQQLAEKVDRLRQMM-LAFQVPNLQIFRSE 39 SG +L+D + + + LRQ + L FQ P+ Q+F Sbjct: 58 SGEVLVDGLDTSSEKSLLELRQKVGLVFQNPDDQLFGPT 96 >gnl|CDD|114142 pfam05401, NodS, Nodulation protein S (NodS). This family consists of nodulation S (NodS) proteins. The products of the rhizobial nodulation genes are involved in the biosynthesis of lipochitin oligosaccharides (LCOs), which are host-specific signal molecules required for nodule formation. NodS is an S-adenosyl-L-methionine (SAM)-dependent methyltransferase involved in N methylation of LCOs. NodS uses N-deacetylated chitooligosaccharides, the products of the NodBC proteins, as its methyl acceptors. Length = 201 Score = 27.4 bits (61), Expect = 6.3 Identities = 15/51 (29%), Positives = 26/51 (50%), Gaps = 2/51 (3%) Query: 198 MLEWVLAATKGIQGDLLELYCGNGNFSLVLARHFDRVLAVEIAKPSVEAAR 248 ML LA +G + LE+ C G F+ LA + R+ +++ ++ AR Sbjct: 34 MLRLSLA--QGTIANALEVGCAAGAFTERLAPYCQRLTVIDVMPEAIARAR 82 >gnl|CDD|31406 COG1213, COG1213, Predicted sugar nucleotidyltransferases [Cell envelope biogenesis, outer membrane]. Length = 239 Score = 27.1 bits (60), Expect = 8.1 Identities = 16/51 (31%), Positives = 20/51 (39%), Gaps = 8/51 (15%) Query: 173 VAGRTLIYRQIENSFTQPNAGINVHMLEWVLAATKGIQGDLLELYCGNGNF 223 V GR +IYR IEN V T G + DL+E + F Sbjct: 28 VGGREIIYRTIENLAKAGITEFVV--------VTNGYRADLVEEFLKKYPF 70 >gnl|CDD|143279 cd05871, Ig_Semaphorin_classIII, Immunoglobulin (Ig)-like domain of class III semaphorin. Ig_Semaphorin_class III; Immunoglobulin (Ig)-like domain of class III semaphorins. Semaphorins are classified into various classes on the basis of structural features additional to the Sema domain. Class III semaphorins are a vertebrate class having a Sema domain, an Ig domain, a short basic domain, and are secreted. They have been shown to be axonal guidance cues and have a part in the regulation of the cardiovascular, immune and respiratory systems. Sema3A, the prototype member of this class III subfamily, induces growth cone collapse and is an inhibitor of axonal sprouting. In perinatal rat cortex as a chemoattractant, it functions to direct, for pyramidal neurons, the orientated extension of apical dendrites. It may play a role, prior to the development of apical dendrites, in signaling the radial migration of newborn cortical neurons towards the upper layers. Sema3A selectively inhibits vascular endothelial growth factor receptor (VEGF)-induced angiogenesis and induces microvascular permeability. This group also includes Sema3B, -C, -D, -E, -G. Length = 91 Score = 27.0 bits (60), Expect = 8.5 Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 13/47 (27%) Query: 167 VDERLTVAGRTLIYRQI-------------ENSFTQPNAGINVHMLE 200 +ERL R L+ R + E+SF+Q A +H++E Sbjct: 44 TEERLIHTERGLLLRSLQRSDAGVYTCTAVEHSFSQTLAKYTLHVIE 90 >gnl|CDD|38110 KOG2899, KOG2899, KOG2899, Predicted methyltransferase [General function prediction only]. Length = 288 Score = 26.9 bits (59), Expect = 8.9 Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 2/42 (4%) Query: 212 DLLELYCGNGNFSLVLARHFD--RVLAVEIAKPSVEAARYNI 251 L++ C +G +L +A+ F R+L V+I ++ AR I Sbjct: 61 QALDIGCNSGFLTLSIAKDFGPRRILGVDIDPVLIQRARKEI 102 >gnl|CDD|39190 KOG3987, KOG3987, KOG3987, Uncharacterized conserved protein DREV/CGI-81 [Function unknown]. Length = 288 Score = 26.9 bits (59), Expect = 9.5 Identities = 11/28 (39%), Positives = 18/28 (64%) Query: 213 LLELYCGNGNFSLVLARHFDRVLAVEIA 240 LL+L G+G +L +A F+ V A E++ Sbjct: 116 LLDLGAGDGEITLRMAPTFEEVYATELS 143 >gnl|CDD|147424 pfam05219, DREV, DREV methyltransferase. This family contains DREV protein homologues from several eukaryotes. The function of this protein is unknown. However, these proteins appear to be related to other methyltransferases (Bateman A pers obs). Length = 265 Score = 26.8 bits (59), Expect = 9.9 Identities = 11/28 (39%), Positives = 18/28 (64%) Query: 213 LLELYCGNGNFSLVLARHFDRVLAVEIA 240 LL+L G+G +L +A F+ V A E++ Sbjct: 98 LLDLGAGDGEITLRMAPTFEEVYATELS 125 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.327 0.139 0.418 Gapped Lambda K H 0.267 0.0655 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 4,622,670 Number of extensions: 248640 Number of successful extensions: 758 Number of sequences better than 10.0: 1 Number of HSP's gapped: 741 Number of HSP's successfully gapped: 43 Length of query: 371 Length of database: 6,263,737 Length adjustment: 95 Effective length of query: 276 Effective length of database: 4,210,882 Effective search space: 1162203432 Effective search space used: 1162203432 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 58 (26.3 bits)