RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254781000|ref|YP_003065413.1| tRNA
(uracil-5-)-methyltransferase [Candidatus Liberibacter asiaticus str.
psy62]
(371 letters)
>gnl|CDD|179917 PRK05031, PRK05031, tRNA (uracil-5-)-methyltransferase; Validated.
Length = 362
Score = 670 bits (1730), Expect = 0.0
Identities = 233/365 (63%), Positives = 284/365 (77%), Gaps = 4/365 (1%)
Query: 1 MSGTLLIDQYEQQLAEKVDRLRQMMLAFQVPNLQIFRSEPIHYRMRAEFHIWHDGDDLYH 60
L +QYE QLAEKV RL+++ F P ++FRS P HYRMRAEF IWH+GDDLY+
Sbjct: 2 TPECLPPEQYEAQLAEKVARLKELFAPFSAPEPEVFRSPPSHYRMRAEFRIWHEGDDLYY 61
Query: 61 IMFDQQTKERMRIDYFMPGSLLINALMIEMMATIRLEPLLRAKLFQIDYLTSQSDQAIVT 120
MFDQQTK+R+RID F S LINALM ++A +R P+LR KLFQ+D+L++ S + +V+
Sbjct: 62 AMFDQQTKQRIRIDQFPIASELINALMPALLAALRANPVLRHKLFQVDFLSTLSGEILVS 121
Query: 121 LIYHRLLDDAWRECAIRLRDALHARKYQIQLIGRANKTKICLDRDYVDERLTVAGRTLIY 180
L+YH+ LD+ W + A LRDAL + + LIGR+ K KI LD+DYVDERL VAGR IY
Sbjct: 122 LLYHKKLDEEWEQAAKALRDAL----FNVHLIGRSRKQKIVLDQDYVDERLPVAGREFIY 177
Query: 181 RQIENSFTQPNAGINVHMLEWVLAATKGIQGDLLELYCGNGNFSLVLARHFDRVLAVEIA 240
RQ+ENSFTQPNA +N MLEW L ATKG +GDLLELYCGNGNF+L LAR+F RVLA EI+
Sbjct: 178 RQVENSFTQPNAAVNEKMLEWALDATKGSKGDLLELYCGNGNFTLALARNFRRVLATEIS 237
Query: 241 KPSVEAARYNIAANHVNNVKIVRMSSKEFTQAMRREREFNRLKDIDIHSYRFKTIFVDPP 300
KPSV AA+YNIAAN ++NV+I+RMS++EFTQAM REFNRLK ID+ SY F TIFVDPP
Sbjct: 238 KPSVAAAQYNIAANGIDNVQIIRMSAEEFTQAMNGVREFNRLKGIDLKSYNFSTIFVDPP 297
Query: 301 RSGLDDATVGMVQAYPHILYISCNPDSLCRDLSILSTTHTIERLALFDQFPYTRHMECGV 360
R+GLDD T+ +VQAY ILYISCNP++LC +L LS TH +ER ALFDQFPYT HMECGV
Sbjct: 298 RAGLDDETLKLVQAYERILYISCNPETLCENLETLSQTHKVERFALFDQFPYTHHMECGV 357
Query: 361 LLVRK 365
LL +K
Sbjct: 358 LLEKK 362
>gnl|CDD|131198 TIGR02143, trmA_only, tRNA (uracil-5-)-methyltransferase. This
family consists exclusively of proteins believed to act
as tRNA (uracil-5-)-methyltransferase. All members of
far are proteobacterial. The seed alignment was taken
directly from pfam05958 in Pfam 12.0, but higher cutoffs
are used to select only functionally equivalent
proteins. Homologous proteins excluded by the higher
cutoff scores of this model include other uracil
methyltransferases, such as RumA, active on rRNA.
Length = 353
Score = 566 bits (1461), Expect = e-162
Identities = 223/357 (62%), Positives = 269/357 (75%), Gaps = 4/357 (1%)
Query: 9 QYEQQLAEKVDRLRQMMLAFQVPNLQIFRSEPIHYRMRAEFHIWHDGDDLYHIMFDQQTK 68
QY QLAEKV RL+ + F P ++F S HYRMRAEF IWH+GDDLY+ MFDQQTK
Sbjct: 1 QYTAQLAEKVSRLKDLFAPFDAPEPEVFESPDKHYRMRAEFRIWHEGDDLYYAMFDQQTK 60
Query: 69 ERMRIDYFMPGSLLINALMIEMMATIRLEPLLRAKLFQIDYLTSQSDQAIVTLIYHRLLD 128
++R+D F S LIN LM ++A +R P LR KLFQ+D+LT+ S +A+V+L+YH+ LD
Sbjct: 61 SKIRVDQFPAASELINRLMPALIAALRQNPALRHKLFQVDFLTTLSGEALVSLLYHKQLD 120
Query: 129 DAWRECAIRLRDALHARKYQIQLIGRANKTKICLDRDYVDERLTVAGRTLIYRQIENSFT 188
D WR+ A L+D K + LIGRA K KI LD+DYVDE L VAGR IYRQ+ENSFT
Sbjct: 121 DEWRQAAEALKDI----KLNVNLIGRARKKKIVLDQDYVDETLPVAGREFIYRQVENSFT 176
Query: 189 QPNAGINVHMLEWVLAATKGIQGDLLELYCGNGNFSLVLARHFDRVLAVEIAKPSVEAAR 248
QPNA +N+ MLEW T+G +GDLLELYCGNGNFSL LA++F RVLA EIAKPSV AA+
Sbjct: 177 QPNAAVNIKMLEWACEVTQGSKGDLLELYCGNGNFSLALAQNFRRVLATEIAKPSVNAAQ 236
Query: 249 YNIAANHVNNVKIVRMSSKEFTQAMRREREFNRLKDIDIHSYRFKTIFVDPPRSGLDDAT 308
YNIAAN+++NV+I+RMS++EFTQAM REF RLK ID+ SY TIFVDPPR+GLD T
Sbjct: 237 YNIAANNIDNVQIIRMSAEEFTQAMNGVREFRRLKGIDLKSYNCSTIFVDPPRAGLDPDT 296
Query: 309 VGMVQAYPHILYISCNPDSLCRDLSILSTTHTIERLALFDQFPYTRHMECGVLLVRK 365
+VQAY ILYISCNP++L +L LS TH +ER ALFDQFPYT HMECGVLL RK
Sbjct: 297 CKLVQAYERILYISCNPETLKANLEQLSETHRVERFALFDQFPYTHHMECGVLLERK 353
>gnl|CDD|114667 pfam05958, tRNA_U5-meth_tr, tRNA (Uracil-5-)-methyltransferase.
This family consists of (Uracil-5-)-methyltransferases
EC:2.1.1.35 from bacteria, archaea and eukaryotes. A
5-methyluridine (m(5)U) residue at position 54 is a
conserved feature of bacterial and eukaryotic tRNAs. The
methylation of U54 is catalysed by the
tRNA(m5U54)methyltransferase, which in Saccharomyces
cerevisiae is encoded by the nonessential TRM2 gene. It
is thought that tRNA modification enzymes might have a
role in tRNA maturation not necessarily linked to their
known catalytic activity.
Length = 353
Score = 566 bits (1461), Expect = e-162
Identities = 223/357 (62%), Positives = 269/357 (75%), Gaps = 4/357 (1%)
Query: 9 QYEQQLAEKVDRLRQMMLAFQVPNLQIFRSEPIHYRMRAEFHIWHDGDDLYHIMFDQQTK 68
QY QLAEKV RL+ + F P ++F S HYRMRAEF IWH+GDDLY+ MFDQQTK
Sbjct: 1 QYTAQLAEKVSRLKDLFAPFDAPEPEVFESPDKHYRMRAEFRIWHEGDDLYYAMFDQQTK 60
Query: 69 ERMRIDYFMPGSLLINALMIEMMATIRLEPLLRAKLFQIDYLTSQSDQAIVTLIYHRLLD 128
++R+D F S LIN LM ++A +R P LR KLFQ+D+LT+ S +A+V+L+YH+ LD
Sbjct: 61 SKIRVDQFPAASELINRLMPALIAALRQNPALRHKLFQVDFLTTLSGEALVSLLYHKQLD 120
Query: 129 DAWRECAIRLRDALHARKYQIQLIGRANKTKICLDRDYVDERLTVAGRTLIYRQIENSFT 188
D WR+ A L+D K + LIGRA K KI LD+DYVDE L VAGR IYRQ+ENSFT
Sbjct: 121 DEWRQAAEALKDI----KLNVNLIGRARKKKIVLDQDYVDETLPVAGREFIYRQVENSFT 176
Query: 189 QPNAGINVHMLEWVLAATKGIQGDLLELYCGNGNFSLVLARHFDRVLAVEIAKPSVEAAR 248
QPNA +N+ MLEW T+G +GDLLELYCGNGNFSL LA++F RVLA EIAKPSV AA+
Sbjct: 177 QPNAAVNIKMLEWACEVTQGSKGDLLELYCGNGNFSLALAQNFRRVLATEIAKPSVNAAQ 236
Query: 249 YNIAANHVNNVKIVRMSSKEFTQAMRREREFNRLKDIDIHSYRFKTIFVDPPRSGLDDAT 308
YNIAAN+++NV+I+RMS++EFTQAM REF RLK ID+ SY TIFVDPPR+GLD T
Sbjct: 237 YNIAANNIDNVQIIRMSAEEFTQAMNGVREFRRLKGIDLKSYNCSTIFVDPPRAGLDPDT 296
Query: 309 VGMVQAYPHILYISCNPDSLCRDLSILSTTHTIERLALFDQFPYTRHMECGVLLVRK 365
+VQAY ILYISCNP++L +L LS TH +ER ALFDQFPYT HMECGVLL RK
Sbjct: 297 CKLVQAYERILYISCNPETLKANLEQLSETHRVERFALFDQFPYTHHMECGVLLERK 353
>gnl|CDD|129571 TIGR00479, rumA, 23S rRNA (uracil-5-)-methyltransferase RumA. This
protein family was first proposed to be RNA
methyltransferases by homology to the TrmA family. The
member from E. coli has now been shown to act as the 23S
RNA methyltransferase for the conserved U1939. The gene
is now designated rumA and was previously designated
ygcA.
Length = 431
Score = 106 bits (267), Expect = 8e-24
Identities = 90/381 (23%), Positives = 148/381 (38%), Gaps = 56/381 (14%)
Query: 10 YEQQLAEKVDRLRQM---MLAFQVPNLQI---FRSEPIHYRMRAEFHIWHDGDDLYHIMF 63
YE QL K ++ + + F ++ +P YR +A + F
Sbjct: 74 YEFQLRSKQQQVIALLERIGKFTSEPIEPLPTIGGDPWGYRNKARLSLGRSPSGQIQAGF 133
Query: 64 DQQTKERMRIDYFMPGSLLINALMIEMMATIRLEPLLRAKL--FQIDYLTSQSDQAIVTL 121
Q+ + + I ++ A L P ++A L F +
Sbjct: 134 YQKGSHDI-VP--------IKQCPVQDPALNLLLPKVKAILENFGASIYLEHKELGKARH 184
Query: 122 IYHRLLDDAWRECAIRLRDAL----HARKYQIQLIGRANKTK-ICLD-------RDYVDE 169
R+ E + LR AL H + ++L R K IC + + +E
Sbjct: 185 GVLRIGRRT-GELLLVLRTALEGFPHKEELALELQERYPDVKSICQNINPEKTNVIFGEE 243
Query: 170 RLTVAGRTLIYRQIE--------NSFTQPNAGINVHMLEWVLAATKGIQGD--LLELYCG 219
+AG IY + F Q N+G N +++ L A + +QG+ +++ YCG
Sbjct: 244 TEQIAGEGPIYEKSGDLSFSLSARDFFQVNSGQNEKLVDRALEALE-LQGEELVVDAYCG 302
Query: 220 NGNFSLVLARHFDRVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEFTQAMRREREF 279
G F+L LA+ V+ +E+ SVE A+ N N + NV EF E
Sbjct: 303 VGTFTLPLAKQAKSVVGIEVVPESVEKAQQNAELNGIANV--------EFLAG-TLETVL 353
Query: 280 NRLKDIDIHSYRFKTIFVDPPRSGLDDATV-GMVQAYP-HILYISCNPDSLCRDLSILST 337
+ + +DPPR G + +++ P I+Y+SCNP +L RDL L
Sbjct: 354 PKQPWAGQ---IPDVLLLDPPRKGCAAEVLRTIIELKPERIVYVSCNPATLARDLEFLCK 410
Query: 338 -THTIERLALFDQFPYTRHME 357
+ I + D FP+T H+E
Sbjct: 411 EGYGITWVQPVDMFPHTAHVE 431
>gnl|CDD|183875 PRK13168, rumA, 23S rRNA m(5)U1939 methyltransferase; Reviewed.
Length = 443
Score = 97.5 bits (244), Expect = 5e-21
Identities = 61/183 (33%), Positives = 90/183 (49%), Gaps = 33/183 (18%)
Query: 187 FTQPNAGINVHM----LEWVLAATKGIQGD-LLELYCGNGNFSLVLARHFDRVLAVEIAK 241
F Q NA +N M LEW L G D +L+L+CG GNF+L LAR V+ VE +
Sbjct: 274 FIQVNAQVNQKMVARALEW-LDPQPG---DRVLDLFCGLGNFTLPLARQAAEVVGVEGVE 329
Query: 242 PSVEAARYNIAANHVNNVKIVRMS-SKEFTQAMRREREFNRLKDIDIHSYRFKTIFVDPP 300
VE AR N N ++NV + ++FT F++ + +DPP
Sbjct: 330 AMVERARENARRNGLDNVTFYHANLEEDFTDQPWALGGFDK-------------VLLDPP 376
Query: 301 RSGLDDATVGMVQAYP-----HILYISCNPDSLCRDLSIL-STTHTIERLALFDQFPYTR 354
R+G ++QA I+Y+SCNP +L RD +L + ++R + D FP+T
Sbjct: 377 RAG----AAEVMQALAKLGPKRIVYVSCNPATLARDAGVLVEAGYRLKRAGMLDMFPHTG 432
Query: 355 HME 357
H+E
Sbjct: 433 HVE 435
>gnl|CDD|179588 PRK03522, rumB, 23S rRNA methyluridine methyltransferase; Reviewed.
Length = 315
Score = 84.9 bits (211), Expect = 3e-17
Identities = 46/152 (30%), Positives = 71/152 (46%), Gaps = 18/152 (11%)
Query: 216 LYCGNGNFSLVLARHFDRVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEFTQAMRR 275
L+CG G F L A ++ +EI+ ++ A+ + A + NV+ + S +F A
Sbjct: 180 LFCGVGGFGLHCATPGMQLTGIEISAEAIACAKQSAAELGLTNVQFQALDSTQFATAQGE 239
Query: 276 EREFNRLKDIDIHSYRFKTIFVDPPRSGLDDATVGMVQ--AYPHILYISCNPDSLCRDLS 333
+ + V+PPR G+ + A ILY SCN ++ +DL+
Sbjct: 240 VPDL---------------VLVNPPRRGIGKELCDYLSQMAPRFILYSSCNAQTMAKDLA 284
Query: 334 ILSTTHTIERLALFDQFPYTRHMECGVLLVRK 365
L IER+ LFD FP+T H E LLVR+
Sbjct: 285 HLPGYR-IERVQLFDMFPHTAHYEVLTLLVRQ 315
>gnl|CDD|131140 TIGR02085, meth_trns_rumB, 23S rRNA (uracil-5-)-methyltransferase
RumB. This family consists of RNA methyltransferases
designated RumB, formerly YbjF. Members act on 23S rRNA
U747 and the equivalent position in other
proteobacterial species. This family is homologous to
the other 23S rRNA methyltransferase RumA and to the
tRNA methyltransferase TrmA.
Length = 374
Score = 76.0 bits (187), Expect = 1e-14
Identities = 46/154 (29%), Positives = 73/154 (47%), Gaps = 18/154 (11%)
Query: 213 LLELYCGNGNFSLVLARHFDRVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEFTQA 272
+ +L+CG G F L A ++ +EI ++ A+ + ++N+ + S +F A
Sbjct: 237 MWDLFCGVGGFGLHCAGPDTQLTGIEIESEAIACAQQSAQMLGLDNLSFAALDSAKFATA 296
Query: 273 MRREREFNRLKDIDIHSYRFKTIFVDPPRSGL-DDATVGMVQAYPH-ILYISCNPDSLCR 330
E + V+PPR G+ + + Q P ILY SCN ++ +
Sbjct: 297 QMSAPEL---------------VLVNPPRRGIGKELCDYLSQMAPKFILYSSCNAQTMAK 341
Query: 331 DLSILSTTHTIERLALFDQFPYTRHMECGVLLVR 364
D++ LS IER+ LFD FP+T H E LLVR
Sbjct: 342 DIAELSGYQ-IERVQLFDMFPHTSHYEVLTLLVR 374
>gnl|CDD|163311 TIGR03534, RF_mod_PrmC, protein-(glutamine-N5) methyltransferase,
release factor-specific. Members of this protein family
are HemK (PrmC), a protein once thought to be involved
in heme biosynthesis but now recognized to be a
protein-glutamine methyltransferase that modifies the
peptide chain release factors. All members of the seed
alignment are encoded next to the release factor 1 gene
(prfA) and confirmed by phylogenetic analysis. SIMBAL
analysis (manuscript in prep.) shows the motif
[LIV]PRx[DE]TE (in Escherichia coli, IPRPDTE) confers
specificity for the release factors rather than for
ribosomal protein L3.
Length = 251
Score = 43.2 bits (103), Expect = 9e-05
Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 2/69 (2%)
Query: 197 HMLEWVLAATKGIQGDLLELYCGNGNFSLVLARHFD--RVLAVEIAKPSVEAARYNIAAN 254
++E L K +L+L G+G +L LA+ RV AV+I+ ++ AR N A
Sbjct: 75 ELVEAALERLKKGPLRVLDLGTGSGAIALALAKERPDARVTAVDISPEALAVARKNAARL 134
Query: 255 HVNNVKIVR 263
++NV ++
Sbjct: 135 GLDNVTFLQ 143
>gnl|CDD|181780 PRK09328, PRK09328, N5-glutamine S-adenosyl-L-methionine-dependent
methyltransferase; Provisional.
Length = 275
Score = 37.5 bits (88), Expect = 0.006
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 3/67 (4%)
Query: 200 EWVLAATKGIQGD-LLELYCGNGNFSLVLARHFD--RVLAVEIAKPSVEAARYNIAANHV 256
EW L A + +L+L G+G +L LA+ V AV+I+ ++ AR N
Sbjct: 98 EWALEALLLKEPLRVLDLGTGSGAIALALAKERPDAEVTAVDISPEALAVARRNAKHGLG 157
Query: 257 NNVKIVR 263
V+ ++
Sbjct: 158 ARVEFLQ 164
>gnl|CDD|181902 PRK09489, rsmC, 16S ribosomal RNA m2G1207 methyltransferase;
Provisional.
Length = 342
Score = 36.1 bits (84), Expect = 0.013
Identities = 18/53 (33%), Positives = 32/53 (60%), Gaps = 2/53 (3%)
Query: 206 TKGIQGDLLELYCGNGNFSLVLARHFD--RVLAVEIAKPSVEAARYNIAANHV 256
T +G +L++ CG G S VLARH R+ +++ ++E++R +AAN +
Sbjct: 193 TPHTKGKVLDVGCGAGVLSAVLARHSPKIRLTLSDVSAAALESSRATLAANGL 245
>gnl|CDD|149353 pfam08241, Methyltransf_11, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 95
Score = 35.4 bits (82), Expect = 0.027
Identities = 11/45 (24%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 214 LELYCGNGNFSLVLARHFD-RVLAVEIAKPSVEAARYNIAANHVN 257
L++ CG G + LAR +V V+++ + AR + +
Sbjct: 1 LDVGCGTGLLTEALARLPGAQVTGVDLSPEMLALARKRAQEDGLT 45
>gnl|CDD|162363 TIGR01444, fkbM_fam, methyltransferase, FkbM family. Members of
this family are characterized by two well-conserved
short regions separated by a variable in both sequence
and length. The first of the two regions is found in a
large number of proteins outside this subfamily, a
number of which have been characterized as
methyltransferases. One member of the present family,
FkbM, was shown to be required for a specific
methylation in the biosynthesis of the immunosuppressant
FK506 in Streptomyces strain MA6548.
Length = 143
Score = 34.6 bits (80), Expect = 0.045
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 218 CGNGNFSLVLARHFD--RVLAVEIAKPSVEAARYNIAANHVNNVKIV 262
G+ SL AR RV+A E + E N+ N++ NV ++
Sbjct: 7 ANIGDTSLYFARKGAEGRVIAFEPLPDAYEILEENVKLNNLPNVVLL 53
>gnl|CDD|181047 PRK07580, PRK07580, Mg-protoporphyrin IX methyl transferase;
Validated.
Length = 230
Score = 33.7 bits (78), Expect = 0.082
Identities = 14/41 (34%), Positives = 21/41 (51%)
Query: 218 CGNGNFSLVLARHFDRVLAVEIAKPSVEAARYNIAANHVNN 258
CG G+ S+ LAR +V+A +I+ VE AR +
Sbjct: 72 CGVGSLSIPLARRGAKVVASDISPQMVEEARERAPEAGLAG 112
>gnl|CDD|184932 PRK14968, PRK14968, putative methyltransferase; Provisional.
Length = 188
Score = 33.7 bits (78), Expect = 0.083
Identities = 15/48 (31%), Positives = 29/48 (60%)
Query: 214 LELYCGNGNFSLVLARHFDRVLAVEIAKPSVEAARYNIAANHVNNVKI 261
LE+ G+G ++V A++ +V+ V+I +VE A+ N N++ N +
Sbjct: 28 LEVGTGSGIVAIVAAKNGKKVVGVDINPYAVECAKCNAKLNNIRNNGV 75
>gnl|CDD|134556 PRK01424, PRK01424, S-adenosylmethionine:tRNA
ribosyltransferase-isomerase; Provisional.
Length = 366
Score = 32.6 bits (74), Expect = 0.17
Identities = 19/47 (40%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 179 IYRQIENSFTQPNAGINVHMLEWVL--AATKGIQGDLLELYCGNGNF 223
+Y QIE S P AG+ H + +L KGIQ L L+ G G F
Sbjct: 190 VYSQIEGSVAAPTAGL--HFTKDILDKLKAKGIQTAFLTLHVGAGTF 234
>gnl|CDD|148126 pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA).
This family consists of several Ribosomal protein L11
methyltransferase (EC:2.1.1.-) sequences.
Length = 294
Score = 32.2 bits (74), Expect = 0.22
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 233 RVLAVEIAKPSVEAARYNIAANHVNN 258
+V+ V+I +V AA+ N N V
Sbjct: 185 KVVGVDIDPVAVRAAKENAELNGVEA 210
>gnl|CDD|128898 smart00650, rADc, Ribosomal RNA adenine dimethylases.
Length = 169
Score = 32.1 bits (74), Expect = 0.23
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 213 LLELYCGNGNFSLVLARHFDRVLAVEI 239
+LE+ G G + L RV A+EI
Sbjct: 17 VLEIGPGKGALTEELLERAARVTAIEI 43
>gnl|CDD|149354 pfam08242, Methyltransf_12, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 98
Score = 32.0 bits (73), Expect = 0.25
Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 214 LELYCGNGNFSLVLARHFD--RVLAVEIAKPSVEAARYNIAANHVNNVKIVR 263
L++ CG G L V+I+ ++EAA +AA + + VR
Sbjct: 1 LDIGCGTGTLLRALLEALPGLEYTGVDISPAALEAAAERLAALGLLDAVRVR 52
>gnl|CDD|162639 TIGR01983, UbiG, ubiquinone biosynthesis O-methyltransferase. This
model represents an O-methyltransferase believed to act
at two points in the ubiquinone biosynthetic pathway in
bacteria (UbiG) and fungi (COQ3). A separate methylase
(MenG/UbiE) catalyzes the single C-methylation step. The
most commonly used names for genes in this family do not
indicate whether this gene is an O-methyl, or C-methyl
transferase.
Length = 224
Score = 31.5 bits (72), Expect = 0.40
Identities = 15/84 (17%), Positives = 36/84 (42%), Gaps = 5/84 (5%)
Query: 194 INVHMLEWVLAATKGIQGDLLELY-----CGNGNFSLVLARHFDRVLAVEIAKPSVEAAR 248
+N L+++ + + L L CG G S LAR V ++ ++ ++E A+
Sbjct: 25 MNPLRLDYIRDTIRKNKKPLFGLRVLDVGCGGGLLSEPLARLGANVTGIDASEENIEVAK 84
Query: 249 YNIAANHVNNVKIVRMSSKEFTQA 272
+ + + ++ S ++ +
Sbjct: 85 LHAKKDPLLKIEYRCTSVEDLAEK 108
>gnl|CDD|178880 PRK00121, trmB, tRNA (guanine-N(7)-)-methyltransferase; Reviewed.
Length = 202
Score = 31.3 bits (72), Expect = 0.47
Identities = 14/62 (22%), Positives = 28/62 (45%), Gaps = 2/62 (3%)
Query: 214 LELYCGNGNFSLVLARHF--DRVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEFTQ 271
LE+ G G F + +A+ + +E+ +P V A I + N++++ + E
Sbjct: 45 LEIGFGKGEFLVEMAKANPDINFIGIEVHEPGVGKALKKIEEEGLTNLRLLCGDAVEVLL 104
Query: 272 AM 273
M
Sbjct: 105 DM 106
>gnl|CDD|162684 TIGR02072, BioC, biotin biosynthesis protein BioC. This enzyme,
which is found in biotin biosynthetic gene clusters in
proteobacteria, firmicutes, green-sulfur bacteria,
fusobacterium and bacteroides, is believed to carry out
an enzymatic step prior to the formation of pimeloyl-CoA
(although attribution of this annotation is not
traceable). The enzyme appears related to
methyltransferases by homology.
Length = 240
Score = 30.3 bits (69), Expect = 0.82
Identities = 12/63 (19%), Positives = 28/63 (44%), Gaps = 2/63 (3%)
Query: 194 INVHMLEWVLAATKGIQGDLLELYCGNGNFSLVLARHF--DRVLAVEIAKPSVEAARYNI 251
+ +L + I +L++ CG G + L + F +A++I+ + A+ +
Sbjct: 19 MAKRLLALLKEKGIFIPASVLDIGCGTGYLTRALLKRFPQAEFIALDISAGMLAQAKTKL 78
Query: 252 AAN 254
+ N
Sbjct: 79 SEN 81
>gnl|CDD|161703 TIGR00091, TIGR00091, tRNA (guanine-N(7)-)-methyltransferase. In
E. coli, this protein flanks the DNA repair protein
MutY, also called micA.
Length = 194
Score = 29.6 bits (67), Expect = 1.2
Identities = 20/89 (22%), Positives = 34/89 (38%), Gaps = 12/89 (13%)
Query: 213 LLELYCGNGNFSLVLARHF--DRVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEFT 270
LE+ CG G F + +A+ L +EI P V AA + N+ ++ + E
Sbjct: 20 HLEIGCGKGRFLIDMAKQNPDKNFLGIEIHTPIVLAANNKANKLGLKNLHVLCGDANELL 79
Query: 271 QAMRREREFNRLKDIDIHSYRFKTIFVDP 299
+ L + ++ F DP
Sbjct: 80 DKFFPD---GSLSKVFLN-------FPDP 98
>gnl|CDD|183040 PRK11207, PRK11207, tellurite resistance protein TehB; Provisional.
Length = 197
Score = 28.9 bits (65), Expect = 2.0
Identities = 23/64 (35%), Positives = 32/64 (50%), Gaps = 3/64 (4%)
Query: 202 VLAATKGIQ-GDLLELYCGNGNFSLVL-ARHFDRVLAVEIAKPSVEAARYNIAANHVNNV 259
VL A K ++ G L+L CGNG SL L A FD V A + S+ AA +++N+
Sbjct: 22 VLEAVKVVKPGKTLDLGCGNGRNSLYLAANGFD-VTAWDKNPMSIANLERIKAAENLDNL 80
Query: 260 KIVR 263
Sbjct: 81 HTAV 84
>gnl|CDD|181382 PRK08317, PRK08317, hypothetical protein; Provisional.
Length = 241
Score = 28.7 bits (65), Expect = 2.2
Identities = 15/62 (24%), Positives = 25/62 (40%), Gaps = 4/62 (6%)
Query: 200 EWVLAATKGIQGDL-LELYCGNGNFSLVLARHFD---RVLAVEIAKPSVEAARYNIAANH 255
GD L++ CG GN + LAR RV+ ++ ++ + A+ A
Sbjct: 9 ARTFELLAVQPGDRVLDVGCGPGNDARELARRVGPEGRVVGIDRSEAMLALAKERAAGLG 68
Query: 256 VN 257
N
Sbjct: 69 PN 70
>gnl|CDD|184890 PRK14896, ksgA, 16S ribosomal RNA methyltransferase KsgA/Dim1
family protein; Provisional.
Length = 258
Score = 28.7 bits (65), Expect = 2.3
Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 2/51 (3%)
Query: 212 DLLELYCGNGNFSLVLARHFDRVLAVEIAKPSVEAARYNIAANHVNNVKIV 262
+LE+ G G + LA+ +V A+E+ E R + A NV+I+
Sbjct: 32 PVLEIGPGKGALTDELAKRAKKVYAIELDPRLAEFLRDDEIA--AGNVEII 80
>gnl|CDD|150417 pfam09741, DUF2045, Uncharacterized conserved protein (DUF2045).
This entry is the conserved 250 residues of proteins of
approximately 450 amino acids. It contains several
highly conserved motifs including a CVxLxxxD motif.The
function is unknown.
Length = 237
Score = 28.7 bits (64), Expect = 2.6
Identities = 13/53 (24%), Positives = 25/53 (47%)
Query: 282 LKDIDIHSYRFKTIFVDPPRSGLDDATVGMVQAYPHILYISCNPDSLCRDLSI 334
LKD+ +T++ P R +D AYP+I ++ + D + D+ +
Sbjct: 100 LKDLSPIYKVSQTVYASPSRFHMDSKGEVETIAYPNICFMVDDFDEVFDDVVV 152
>gnl|CDD|147829 pfam05891, Hydroxy-O-Methy, Putative
hydroxyindole-O-methyltransferase. This family of
proteins is a putative hydroxyindole-O-methyltransferase
and by homology, is expected to catalyse the conversion
of N-acetyl serotonin to melatonin. The protein is
expressed in the tail neuron PVT and in uterine cells
[worm-base].
Length = 217
Score = 28.5 bits (64), Expect = 3.0
Identities = 10/50 (20%), Positives = 19/50 (38%)
Query: 226 VLARHFDRVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEFTQAMRR 275
+L F +V VE + + A+ +A + ++FT R
Sbjct: 73 LLLPLFSKVDLVEPVEDFLAKAKEYLAEEKKKVGNFFCVGLQDFTPEEGR 122
>gnl|CDD|173405 PTZ00113, PTZ00113, proliferating cell nuclear antigen;
Provisional.
Length = 275
Score = 28.3 bits (63), Expect = 3.4
Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 232 DRVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEFTQAMRREREF-NRLK-DIDIHS 289
D+V + + S+E +I N V +SSKE T R+ EF + +K +ID +S
Sbjct: 109 DKVSSFSLKLMSIEQDALSIPENEEGFDAEVTLSSKELTNICRQMNEFSDTVKIEIDSNS 168
Query: 290 YRFKT 294
+F T
Sbjct: 169 IKFTT 173
>gnl|CDD|184931 PRK14967, PRK14967, putative methyltransferase; Provisional.
Length = 223
Score = 28.1 bits (63), Expect = 3.8
Identities = 21/83 (25%), Positives = 38/83 (45%), Gaps = 6/83 (7%)
Query: 197 HMLEWVLAATKGIQG-DLLELYCGNGNFSLVLARH-FDRVLAVEIAKPSVEAARYNIAAN 254
+L LAA G +L+L G+G ++ A V AV+I++ +V +AR N
Sbjct: 23 QLLADALAAEGLGPGRRVLDLCTGSGALAVAAAAAGAGSVTAVDISRRAVRSARLNALLA 82
Query: 255 HVNNVKIVRMSSKEFTQAMRRER 277
V+ V + ++ +A+
Sbjct: 83 GVD----VDVRRGDWARAVEFRP 101
>gnl|CDD|184963 PRK15001, PRK15001, SAM-dependent 23S ribosomal RNA mG1835
methyltransferase; Provisional.
Length = 378
Score = 27.7 bits (61), Expect = 4.5
Identities = 24/97 (24%), Positives = 48/97 (49%), Gaps = 22/97 (22%)
Query: 209 IQGDLLELYCGNGNFSL-VLARHFD-RVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSS 266
++G++++L CGNG L +L ++ +V+ V+ + +V ++R N+ N
Sbjct: 228 LEGEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETN------------ 275
Query: 267 KEFTQAMRREREF---NRLKDIDIHSYRFKTIFVDPP 300
+A+ R EF N L ++ +RF + +PP
Sbjct: 276 --MPEALDRC-EFMINNALSGVE--PFRFNAVLCNPP 307
>gnl|CDD|152815 pfam12380, Peptidase_C62, Gill-associated viral 3C-like peptidase.
a positive-stranded RNA virus of prawns, that has been
called yellow head virus protease and gill-associated
virus 3C-like peptidase. The GAV cysteine protease is
predicted to be the key enzyme in the processing of the
GAV replicase polyprotein precursors, pp1a and pp1ab.
This protease employs a Cys(2968)-His(2879) catalytic
dyad.
Length = 284
Score = 27.7 bits (61), Expect = 4.6
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 6/80 (7%)
Query: 281 RLKDIDIH---SYRFKTIFVDPPRSGLDDATVGMVQAYPHILYISCNPDSLCRDLSIL-- 335
R++D++ H YR + V R L+ G +P ++ SC ++L R + +
Sbjct: 17 RVEDLNKHPYNKYRKNIVRVYGERGDLNGFLSGKFLHFPRHIFDSCTDNTLTRHIRVTKG 76
Query: 336 STTHTIERLA-LFDQFPYTR 354
TH IE L+ +D P+ +
Sbjct: 77 EETHDIELLSEEYDATPFIK 96
>gnl|CDD|181982 PRK09602, PRK09602, translation-associated GTPase; Reviewed.
Length = 396
Score = 27.9 bits (63), Expect = 4.8
Identities = 19/57 (33%), Positives = 25/57 (43%), Gaps = 19/57 (33%)
Query: 282 LKDIDIHSYRFKTIFVDPPRSGLDDATVGMVQAY-----PHI-LYISCNP-DSLCRD 331
L D++I +Y F TI D VG+ AY P L + CNP + C D
Sbjct: 23 LADVEIANYPFTTI----------DPNVGV--AYVRVECPCKELGVKCNPRNGKCID 67
>gnl|CDD|171521 PRK12467, PRK12467, peptide synthase; Provisional.
Length = 3956
Score = 27.4 bits (61), Expect = 6.4
Identities = 9/34 (26%), Positives = 18/34 (52%), Gaps = 5/34 (14%)
Query: 98 PLLRAKLFQIDYLTSQSDQAIVTLIYHRLLDDAW 131
PLLR +L ++ D+ ++ + H ++ D W
Sbjct: 161 PLLRVRLLRLA-----DDEHVLVVTLHHIISDGW 189
>gnl|CDD|129628 TIGR00537, hemK_rel_arch, HemK-related putative methylase. The
gene hemK from E. coli was found to contribute to heme
biosynthesis and originally suggested to be
protoporphyrinogen oxidase (Medline 95189105).
Functional analysis of the nearest homolog in
Saccharomyces cerevisiae, YNL063w, finds it is not
protoporphyrinogen oxidase and sequence analysis
suggests that HemK homologs have
S-adenosyl-methionine-dependent methyltransferase
activity (Medline 99237242). Homologs are found, usually
in a single copy, in nearly all completed genomes, but
varying somewhat in apparent domain architecture. This
model represents an archaeal and eukaryotic protein
family that lacks an N-terminal domain found in HemK and
its eubacterial homologs. It is found in a single copy
in the first six completed archaeal and eukaryotic
genomes.
Length = 179
Score = 27.1 bits (60), Expect = 6.6
Identities = 20/79 (25%), Positives = 32/79 (40%), Gaps = 12/79 (15%)
Query: 179 IYRQIENSFTQPNAGINVHMLEWVLAATKGIQGDLLELYCGNGNFSLVLARHFDRVLAVE 238
+Y E+S +LE L K D+LE+ G G ++ L +L +
Sbjct: 1 VYEPAEDSL----------LLEANLRELKP--DDVLEIGAGTGLVAIRLKGKGKCILTTD 48
Query: 239 IAKPSVEAARYNIAANHVN 257
I +V+ R N N+V
Sbjct: 49 INPFAVKELRENAKLNNVG 67
>gnl|CDD|179053 PRK00517, prmA, ribosomal protein L11 methyltransferase; Reviewed.
Length = 250
Score = 27.4 bits (62), Expect = 6.9
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 233 RVLAVEIAKPSVEAARYNIAANHVNN 258
+VLAV+I +VEAAR N N V
Sbjct: 144 KVLAVDIDPQAVEAARENAELNGVEL 169
>gnl|CDD|132493 TIGR03452, mycothione_red, mycothione reductase. Mycothiol, a
glutathione analog in Mycobacterium tuberculosis and
related species, can form a disulfide-linked dimer
called mycothione. This enzyme can reduce mycothione to
regenerate two mycothiol molecules. The enzyme shows
some sequence similarity to glutathione-disulfide
reductase, trypanothione-disulfide reductase, and
dihydrolipoamide dehydrogenase. The characterized
protein from M. tuberculosis, a homodimer, has FAD as a
cofactor, one per monomer, and uses NADPH as a
substrate.
Length = 452
Score = 27.4 bits (61), Expect = 6.9
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 10/73 (13%)
Query: 234 VLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEF-------TQAMRREREFNRLKDID 286
V A E+A+ E+AR I A +++V+ + S+ F R + +ID
Sbjct: 50 VYAAEVAQSIGESARLGIDA-EIDSVRWPDIVSRVFGDRIDPIAAGGEDYRRGDETPNID 108
Query: 287 IHSYRFKTIFVDP 299
+ Y FV P
Sbjct: 109 V--YDGHARFVGP 119
>gnl|CDD|178974 PRK00312, pcm, protein-L-isoaspartate O-methyltransferase;
Reviewed.
Length = 212
Score = 27.1 bits (61), Expect = 8.7
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 214 LELYCGNGNFSLVLARHFDRVLAVEIAKPSVEAARYNIAANHVNNVKIVR 263
LE+ G+G + VLA RV +VE K A+ + ++NV VR
Sbjct: 83 LEIGTGSGYQAAVLAHLVRRVFSVERIKTLQWEAKRRLKQLGLHNV-SVR 131
>gnl|CDD|162023 TIGR00755, ksgA, dimethyladenosine transferase. Alternate name:
S-adenosylmethionine--6-N',N'-adenosyl (rRNA)
dimethyltransferase.
Length = 253
Score = 26.9 bits (60), Expect = 8.9
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 213 LLELYCGNGNFSLVLARHFDRVLAVEI 239
+LE+ G G + L + +V A+EI
Sbjct: 33 VLEIGPGLGALTEPLLKRAKKVTAIEI 59
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.327 0.139 0.418
Gapped
Lambda K H
0.267 0.0858 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 6,275,756
Number of extensions: 410951
Number of successful extensions: 1082
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1062
Number of HSP's successfully gapped: 44
Length of query: 371
Length of database: 5,994,473
Length adjustment: 95
Effective length of query: 276
Effective length of database: 3,941,713
Effective search space: 1087912788
Effective search space used: 1087912788
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 (25.9 bits)