RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11741
(352 letters)
>gnl|CDD|219760 pfam08242, Methyltransf_12, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 98
Score = 76.6 bits (189), Expect = 1e-17
Identities = 28/108 (25%), Positives = 43/108 (39%), Gaps = 14/108 (12%)
Query: 112 LEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEH----EEYKPDRCHAFVCDV 167
L+IGCG G + ++E + G D S A+ E R V D
Sbjct: 1 LDIGCGTGTLLRALLEA--LPGLEYTGVDISPAALEAAAERLAALGLLDAVRVRLDVLDA 58
Query: 168 TSEDWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMV 215
D P S D+V+ VL + + V+ + + LKPGG++
Sbjct: 59 IDLD------PGSFDVVVASNVLHHLAD--PRAVLRNLRRLLKPGGVL 98
>gnl|CDD|222415 pfam13847, Methyltransf_31, Methyltransferase domain. This family
appears to be have methyltransferase activity.
Length = 151
Score = 71.3 bits (175), Expect = 5e-15
Identities = 36/160 (22%), Positives = 64/160 (40%), Gaps = 12/160 (7%)
Query: 107 STKNILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEH-EEYKPDRCHAFVC 165
S +L++GCG G F + E V G D SE A+ KE+ ++ +
Sbjct: 3 SGIKVLDLGCGTGYLTFILAEK-LGPGAEVVGIDISEEAIEKAKENAKKLGYENVEFIQG 61
Query: 166 DVTSEDWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMVLFRDYGRYDL 225
D+ S D+V+ VL+ + V+ ++ + LKPGG+++ D
Sbjct: 62 DIEELPQL-QLEDNSFDVVISNEVLNHL--PDPDKVLEEIIRVLKPGGVLIVSDPV---- 114
Query: 226 VQLRFKKGRCLQDNFYARGDGTLVYFFTREEVKTMFESAG 265
+ + YA G L ++++ T+ AG
Sbjct: 115 LLSELPALLEDLERLYA---GVLEGAIGKKKLLTILREAG 151
>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 = 67.5 bits (165), Expect = 4e-14
Identities = 24/109 (22%), Positives = 44/109 (40%), Gaps = 8/109 (7%)
Query: 110 NILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKE-HEEYKPDRCHAFVCDVT 168
+L++GCG G + V G D S A+ + ++ D D
Sbjct: 1 RVLDLGCGTGALALALASGPG---ARVTGVDISPVALELARKAAAALLADNVEVLKGDAE 57
Query: 169 SEDWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMVLF 217
PP A ES D+++ L + + + + + + LKPGG+++
Sbjct: 58 E---LPPEADESFDVIISDPPLHHLVED-LARFLEEARRLLKPGGVLVL 102
>gnl|CDD|219759 pfam08241, Methyltransf_11, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 92
Score = 63.4 bits (155), Expect = 8e-13
Identities = 25/107 (23%), Positives = 44/107 (41%), Gaps = 16/107 (14%)
Query: 112 LEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKPDRCHAFVCDVTSED 171
L++GCG G + V G D S + + ++ V D
Sbjct: 1 LDVGCGTGLLAEALARRGGAR---VTGVDLSPEMLALARKRA-----PRKFVVGDAE--- 49
Query: 172 WNPPFAPESLDIVLLIFVLDAI-NPNKMQHVINQVYKYLKPGGMVLF 217
+ PF ES D+V+ VL + +P + + ++ + LKPGG ++
Sbjct: 50 -DLPFPDESFDVVVSSLVLHHLPDPER---ALREIARVLKPGGKLVI 92
>gnl|CDD|222171 pfam13489, Methyltransf_23, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 154
Score = 57.5 bits (139), Expect = 3e-10
Identities = 39/184 (21%), Positives = 65/184 (35%), Gaps = 35/184 (19%)
Query: 84 RHWLFTEFTEIIEPLSSTKTDTCSTKNILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSE 143
R ++ L +L+IGCG G ++ + V G D S
Sbjct: 2 RRQRERFLARLLARLLPRLKPG---GRVLDIGCGTG----ILLRLLRERGFDVTGVDPSP 54
Query: 144 NAVNILKEHEEYKPDRCHAFVCDVTSEDWNPPFAPESLDIVLLIFVLDAI-NPNKMQHVI 202
AV I + P D++ VL+ + +P ++
Sbjct: 55 AAVLIFSLFDAPDPA-----------------VLAGKYDLITAFEVLEHLPDP---PALL 94
Query: 203 NQVYKYLKPGGMVLFRDYGRYDLVQLRFKKGRCLQDNFYARGDGTLVYFFTREEVKTMFE 262
Q+ + LKPGG++L D +L + Y R T + F++ E +K + E
Sbjct: 95 QQLRELLKPGGVLLISTPLADDDARL-------FANWHYLRPRNTHISFYSEESLKRLLE 147
Query: 263 SAGF 266
AGF
Sbjct: 148 KAGF 151
>gnl|CDD|223574 COG0500, SmtA, SAM-dependent methyltransferases [Secondary
metabolites biosynthesis, transport, and catabolism /
General function prediction only].
Length = 257
Score = 54.5 bits (128), Expect = 2e-08
Identities = 40/239 (16%), Positives = 74/239 (30%), Gaps = 5/239 (2%)
Query: 71 AFYNVHQNRFFKDRHWLFTEFTEIIEPLSSTKTDTCSTKNILEIGCGVGNSVFPIVEHCK 130
+ D L E + + +L+IGCG G +
Sbjct: 12 ILELYDRLAELLDAFLLLAEELLDLLLVLRLLRLLPGGLGVLDIGCGTGRLAL--LARLG 69
Query: 131 NDNVFVYGCDFSENAVNILKEHEEYKPDRCHAFVCDVTSEDWNPPFAPESLDIVLLIFVL 190
+V G D S + + + E FV P S D+V+ + VL
Sbjct: 70 GRGAYVVGVDLSPEMLALARARAEGAGLGLVDFVVADALGGVLPFEDSASFDLVISLLVL 129
Query: 191 DAINPNKMQHVINQVYKYLKPGGMVLFRDYGRYDLVQLRFKKGRCLQDNFYARGDGTLVY 250
+ P K + ++ + LKPGG ++ D R L++ R D RGD L
Sbjct: 130 HLLPPAK---ALRELLRVLKPGGRLVLSDLLRDGLLEGRLAALLGFGDPVLERGDILLEL 186
Query: 251 FFTREEVKTMFESAGFVEKQNLIDRRLQVNRGKQIKMYRVWIQAKSYFVHYLFVTEEVK 309
E + + ++R +++++ + + +
Sbjct: 187 EALLRLELLDLEELLGLLGELELERGGLARLLEELRLLLELLALGLEARGFRLLLLLKG 245
>gnl|CDD|221804 pfam12847, Methyltransf_18, Methyltransferase domain. Protein in
this family function as methyltransferases.
Length = 104
Score = 51.2 bits (123), Expect = 2e-08
Identities = 22/107 (20%), Positives = 40/107 (37%), Gaps = 14/107 (13%)
Query: 109 KNILEIGCGVGNSVFPIVEHCKND-NVFVYGCDFSENAVNILKEH-EEYKPDRCHAFVCD 166
+L+IGCG G+ +E + V G D S + + +E+ + R FV
Sbjct: 3 ARVLDIGCGTGSL---AIELARLFPGARVTGVDLSPEMLELARENAKLALGPRIT-FVQG 58
Query: 167 VTSEDWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGG 213
+ + D V + + +++ + LKPGG
Sbjct: 59 DAPDALDLLEGF---DAVFIGGGGGD-----LLELLDALASLLKPGG 97
>gnl|CDD|222287 pfam13649, Methyltransf_25, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 97
Score = 48.9 bits (117), Expect = 1e-07
Identities = 29/104 (27%), Positives = 49/104 (47%), Gaps = 8/104 (7%)
Query: 111 ILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKPDRCHAFVCDVTSE 170
IL++GCG G + + V G D S+ A+ + KE K + V D
Sbjct: 1 ILDLGCGTGRVLRALAR---AGPSSVTGVDISKEALELAKERLRDKGPKVRFVVADA--R 55
Query: 171 DWNPPFAPESLDIVLLIF-VLDAINPNKMQHVINQVYKYLKPGG 213
D PF S D+V+ LD ++P +++ ++ + + L+PGG
Sbjct: 56 DL--PFEEGSFDLVICAGLSLDYLSPKQLRALLREAARLLRPGG 97
>gnl|CDD|222295 pfam13659, Methyltransf_26, Methyltransferase domain. This family
contains methyltransferase domains.
Length = 117
Score = 48.6 bits (116), Expect = 2e-07
Identities = 21/120 (17%), Positives = 36/120 (30%), Gaps = 23/120 (19%)
Query: 111 ILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKP--DRCHAFVCDVT 168
+L+ G G G + + V G + A + + R V D
Sbjct: 4 VLDPGAGSGAFLLAAARAGPDAR--VVGVELDPEAAALARRRLALAGLAPRVRVVVGDAR 61
Query: 169 SEDW-----------NPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMVLF 217
NPP+ P + D N + + + LKPGG+++
Sbjct: 62 ELLELPDGSFDLVLGNPPYGPRAGD--------PKDNRDLYDRFLAAALRLLKPGGVLVV 113
>gnl|CDD|225136 COG2226, UbiE, Methylase involved in ubiquinone/menaquinone
biosynthesis [Coenzyme metabolism].
Length = 238
Score = 50.7 bits (122), Expect = 3e-07
Identities = 30/121 (24%), Positives = 54/121 (44%), Gaps = 9/121 (7%)
Query: 110 NILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKE-HEEYKPDRCHAFVCDVT 168
+L++ CG G+ + + V G D SE+ + + +E ++ V D
Sbjct: 54 KVLDVACGTGDMALLLAKSVGTGE--VVGLDISESMLEVAREKLKKKGVQNVEFVVGDAE 111
Query: 169 SEDWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMVLFRDYGRYDLVQL 228
N PF S D V + F L + + + + ++Y+ LKPGG +L ++ + D L
Sbjct: 112 ----NLPFPDNSFDAVTISFGLRNV-TDIDK-ALKEMYRVLKPGGRLLVLEFSKPDNPVL 165
Query: 229 R 229
R
Sbjct: 166 R 166
>gnl|CDD|222236 pfam13578, Methyltransf_24, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 105
Score = 41.5 bits (98), Expect = 5e-05
Identities = 26/114 (22%), Positives = 44/114 (38%), Gaps = 14/114 (12%)
Query: 112 LEIGCGVGNSVFPIVEHCKNDNVF-VYGCD---FSENAVNILKEHEEYKPDRCHAFVCDV 167
+EIG G S + + K++ + +Y D +E N+ K DR D
Sbjct: 1 VEIGVYSGVSTLWLAQALKDNGLGRLYSIDPWPGAEAGANLRKAG---LADRVRLLRGD- 56
Query: 168 TSEDWNPPFAPESLDIVLLIFVLDA-INPNKMQHVINQVYKYLKPGGMVLFRDY 220
S + S+D L+F+ D + + L PGG+++F D
Sbjct: 57 -SLEALARLPDGSID---LLFI-DGDHTYEAVLADLELWLPLLAPGGIIVFHDI 105
>gnl|CDD|177970 PLN02336, PLN02336, phosphoethanolamine N-methyltransferase.
Length = 475
Score = 44.7 bits (106), Expect = 5e-05
Identities = 30/115 (26%), Positives = 61/115 (53%), Gaps = 15/115 (13%)
Query: 109 KNILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKPDRCH---AFVC 165
K++LE+G G+G + + V DF E+ + K++E + + F+C
Sbjct: 39 KSVLELGAGIGRFTGELAKKAGQ----VIALDFIESVI---KKNESI--NGHYKNVKFMC 89
Query: 166 -DVTSEDWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMVLFRD 219
DVTS D N + S+D++ ++L ++ +++++ ++ K+LK GG + FR+
Sbjct: 90 ADVTSPDLN--ISDGSVDLIFSNWLLMYLSDKEVENLAERMVKWLKVGGYIFFRE 142
Score = 40.5 bits (95), Expect = 0.001
Identities = 34/115 (29%), Positives = 52/115 (45%), Gaps = 11/115 (9%)
Query: 109 KNILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKPDRCHAFVCDVT 168
+ +L++GCG+G F + E N +V V G D S N ++ E + V D T
Sbjct: 268 QKVLDVGCGIGGGDFYMAE---NFDVHVVGIDLSVNMISFALERAIGRKCSVEFEVADCT 324
Query: 169 SEDWNPPFAPESLDIVLLIFVLDAI-NPNKMQHVINQVYKYLKPGGMVLFRDYGR 222
+ + S D+ I+ D I + + +K+LKPGG VL DY R
Sbjct: 325 KKT----YPDNSFDV---IYSRDTILHIQDKPALFRSFFKWLKPGGKVLISDYCR 372
>gnl|CDD|181382 PRK08317, PRK08317, hypothetical protein; Provisional.
Length = 241
Score = 42.6 bits (101), Expect = 1e-04
Identities = 27/106 (25%), Positives = 42/106 (39%), Gaps = 7/106 (6%)
Query: 111 ILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKPDRCHAFVCDVTSE 170
+L++GCG GN + + V G D SE + + KE FV
Sbjct: 23 VLDVGCGPGNDARELARRVGPEGR-VVGIDRSEAMLALAKERAAGLGPNV-EFVRGDAD- 79
Query: 171 DWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMVL 216
PF S D V VL + + + ++ + L+PGG V+
Sbjct: 80 --GLPFPDGSFDAVRSDRVLQHL-EDP-ARALAEIARVLRPGGRVV 121
>gnl|CDD|110227 pfam01209, Ubie_methyltran, ubiE/COQ5 methyltransferase family.
Length = 233
Score = 41.3 bits (97), Expect = 3e-04
Identities = 41/178 (23%), Positives = 75/178 (42%), Gaps = 21/178 (11%)
Query: 110 NILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKPDRCHAFVCDVTS 169
L++ G G+ F + + + V G D +EN +LKE E+ + + +
Sbjct: 50 KFLDVAGGTGDWTFGLSDSAGSSGKVV-GLDINEN---MLKEGEKKAKEEGKYNIEFLQG 105
Query: 170 EDWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMVLFRDYGRYDLVQLR 229
PF +S DIV + F L N V+ + ++ LKPGG V+ ++ + + L
Sbjct: 106 NAEELPFEDDSFDIVTISFGLR--NFPDYLKVLKEAFRVLKPGGRVVCLEFSKPENPLLS 163
Query: 230 F-----------KKGRCLQDNF--YARGDGTLVYFFTREEVKTMFESAGF--VEKQNL 272
G+ ++ Y ++ F ++ + +MFE AGF V ++L
Sbjct: 164 QAYELYFKYVMPFMGKMFAKSYKSYQYLQESIRDFPDQKTLASMFEKAGFKSVGYESL 221
>gnl|CDD|203189 pfam05175, MTS, Methyltransferase small domain. This domain is
found in ribosomal RNA small subunit methyltransferase C
as well as other methyltransferases .
Length = 170
Score = 38.3 bits (90), Expect = 0.002
Identities = 25/118 (21%), Positives = 43/118 (36%), Gaps = 23/118 (19%)
Query: 110 NILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEH-EEYKPDRCHAFVCDVT 168
+L++GCG G V ++ ++ V D + A+ + + + F D+
Sbjct: 34 KVLDLGCGYG--VLGAALAKRSPDLEVTMVDINARALESARANLAANGLENGEVFWSDLY 91
Query: 169 SE------D---WNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMVLF 217
S D NPPF A + + Q I ++LKPGG +
Sbjct: 92 SAVEPGKFDLIISNPPFH-AGK----------ATDYDVAQRFIAGAARHLKPGGELWI 138
>gnl|CDD|225852 COG3315, COG3315, O-Methyltransferase involved in polyketide
biosynthesis [Secondary metabolites biosynthesis,
transport, and catabolism].
Length = 297
Score = 39.2 bits (92), Expect = 0.002
Identities = 29/151 (19%), Positives = 49/151 (32%), Gaps = 16/151 (10%)
Query: 147 NILKEHEEYKPDRCHAFVCDVTSEDWNPPFAPESLD-------IV--LLIFVLDAINPNK 197
+L E P D+ +DW A D I LL++ +
Sbjct: 132 KLLAERGATPPAHRRLVAVDLREDDWPQALAAAGFDRSRPTLWIAEGLLMY----LPEEA 187
Query: 198 MQHVINQVYKYLKPGGMVLFRDYGRYDLVQLRFKK-GRCLQDNFYARGDGTLVYF-FTRE 255
+ +++++ PG V F DY ++ R ++ G LVYF
Sbjct: 188 VDRLLSRIAALSAPGSRVAF-DYSLPGSLRDRLRRPAARKTMRGEDLDRGELVYFGDDPA 246
Query: 256 EVKTMFESAGFVEKQNLIDRRLQVNRGKQIK 286
E++T G+ N L G+
Sbjct: 247 EIETWLAERGWRSTLNRTTEDLAARYGRPTP 277
>gnl|CDD|131799 TIGR02752, MenG_heptapren, demethylmenaquinone methyltransferase.
MenG is a generic term for a methyltransferase that
catalyzes the last step in menaquinone biosynthesis; the
exact enzymatic activity differs for different MenG
because the menaquinone differ in their prenoid side
chains in different species. Members of this MenG
protein family are 2-heptaprenyl-1,4-naphthoquinone
methyltransferase, and are found together in operons
with the two subunits of the heptaprenyl diphosphate
synthase in Bacillus subtilis and related species
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Menaquinone and ubiquinone].
Length = 231
Score = 38.6 bits (90), Expect = 0.002
Identities = 46/181 (25%), Positives = 72/181 (39%), Gaps = 35/181 (19%)
Query: 109 KNILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKPDRCHAFVCDVT 168
+ L++ CG + + E + V G DFSE N+L + D V V
Sbjct: 47 TSALDVCCGTADWSIALAEAVGPEG-HVIGLDFSE---NMLSVGRQKVKDAGLHNVELVH 102
Query: 169 SEDWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMV------------- 215
PF S D V + F L + P+ MQ V+ ++Y+ +KPGG V
Sbjct: 103 GNAMELPFDDNSFDYVTIGFGLRNV-PDYMQ-VLREMYRVVKPGGKVVCLETSQPTIPGF 160
Query: 216 --LFRDYGRY------DLVQLRFKKGRCLQDNFYARGDGTLVYFFTREEVKTMFESAGFV 267
L+ Y +Y L +K+ LQ++ F +E+ MF+ AGF
Sbjct: 161 KQLYFFYFKYIMPLFGKLFAKSYKEYSWLQESTRD--------FPGMDELAEMFQEAGFK 212
Query: 268 E 268
+
Sbjct: 213 D 213
>gnl|CDD|225137 COG2227, UbiG,
2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol
methylase [Coenzyme metabolism].
Length = 243
Score = 37.7 bits (88), Expect = 0.005
Identities = 29/123 (23%), Positives = 47/123 (38%), Gaps = 26/123 (21%)
Query: 109 KNILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEH-------EEYKPDRCH 161
+L++GCG G P+ V G D SE + + K H +Y+
Sbjct: 61 LRVLDVGCGGGILSEPLAR----LGASVTGIDASEKPIEVAKLHALESGVNIDYRQ---- 112
Query: 162 AFVCDVTSEDWNPPFAPESLDIVLLIFVLDAI-NPNKMQHVINQVYKYLKPGGMVLFRDY 220
T ED A D+V + VL+ + +P + + K +KPGG++
Sbjct: 113 -----ATVEDLA--SAGGQFDVVTCMEVLEHVPDP---ESFLRACAKLVKPGGILFLSTI 162
Query: 221 GRY 223
R
Sbjct: 163 NRT 165
>gnl|CDD|129823 TIGR00740, TIGR00740, tRNA (cmo5U34)-methyltransferase. This tRNA
methyltransferase is involved, together with cmoB, in
preparing the uridine-5-oxyacetic acid (cmo5U) at
position 34 [Unknown function, Enzymes of unknown
specificity].
Length = 239
Score = 37.6 bits (87), Expect = 0.005
Identities = 22/108 (20%), Positives = 47/108 (43%), Gaps = 6/108 (5%)
Query: 110 NILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEH-EEYKPDRCHAFVCDVT 168
N+ ++GC G + + NV + G D S+ V ++H Y + +C+
Sbjct: 56 NVYDLGCSRGAATLSARRNINQPNVKIIGIDNSQPMVERCRQHIAAYHSEIPVEILCNDI 115
Query: 169 SEDWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMVL 216
++ +V+L F L + P ++ ++Y+ L P G+++
Sbjct: 116 RH-----VEIKNASMVILNFTLQFLPPEDRIALLTKIYEGLNPNGVLV 158
>gnl|CDD|185348 PRK15451, PRK15451, tRNA cmo(5)U34 methyltransferase; Provisional.
Length = 247
Score = 36.9 bits (85), Expect = 0.010
Identities = 25/111 (22%), Positives = 53/111 (47%), Gaps = 8/111 (7%)
Query: 111 ILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEH-EEYK-PDRCHAFVCDVT 168
+ ++GC +G + + + +DN + D S + + H + YK P D+
Sbjct: 60 VYDLGCSLGAATLSVRRNIHHDNCKIIAIDNSPAMIERCRRHIDAYKAPTPVDVIEGDIR 119
Query: 169 SEDWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMVLFRD 219
A E+ +V+L F L + P++ Q +++++Y+ L PGG ++ +
Sbjct: 120 D------IAIENASMVVLNFTLQFLEPSERQALLDKIYQGLNPGGALVLSE 164
>gnl|CDD|236467 PRK09328, PRK09328, N5-glutamine S-adenosyl-L-methionine-dependent
methyltransferase; Provisional.
Length = 275
Score = 36.7 bits (86), Expect = 0.012
Identities = 27/141 (19%), Positives = 45/141 (31%), Gaps = 46/141 (32%)
Query: 109 KNILEIGCGVGNSVFPIVEHC-------KNDNVFVYGCDFSENAVNILKEHEEYKP-DRC 160
+L++G G G + + V D S A+ + + + ++ R
Sbjct: 110 LRVLDLGTGSG---------AIALALAKERPDAEVTAVDISPEALAVARRNAKHGLGARV 160
Query: 161 HAFVCDVTSEDW---------NPPFAPES----LDIVLLIF------V-----LDAINPN 196
D NPP+ PE+ L + LD
Sbjct: 161 EFLQGDWFEPLPGGRFDLIVSNPPYIPEADIHLLQPEVRDHEPHLALFGGEDGLDFY--- 217
Query: 197 KMQHVINQVYKYLKPGGMVLF 217
+ +I Q +YLKPGG +L
Sbjct: 218 --RRIIEQAPRYLKPGGWLLL 236
>gnl|CDD|225443 COG2890, HemK, Methylase of polypeptide chain release factors
[Translation, ribosomal structure and biogenesis].
Length = 280
Score = 35.4 bits (82), Expect = 0.030
Identities = 26/133 (19%), Positives = 45/133 (33%), Gaps = 24/133 (18%)
Query: 106 CSTKNILEIGCGVGNSVFPIVEHCK--NDNVFVYGCDFSENAVNILKEH-EEYKPDRCHA 162
K IL++G G G I + V D S +A+ + +E+ E R
Sbjct: 109 QLDKRILDLGTGSGA----IAIALAKEGPDAEVIAVDISPDALALARENAERNGLVRVLV 164
Query: 163 FVCDVTSED--------WNPPFAPESLDIVLLIFVLD-----AINPNK----MQHVINQV 205
D+ NPP+ P +L V + + ++ +
Sbjct: 165 VQSDLFEPLRGKFDLIVSNPPYIPAEDPELLPEVVRYEPLLALVGGGDGLEVYRRILGEA 224
Query: 206 YKYLKPGGMVLFR 218
LKPGG+++
Sbjct: 225 PDILKPGGVLILE 237
>gnl|CDD|225139 COG2230, Cfa, Cyclopropane fatty acid synthase and related
methyltransferases [Cell envelope biogenesis, outer
membrane].
Length = 283
Score = 34.9 bits (81), Expect = 0.049
Identities = 28/122 (22%), Positives = 43/122 (35%), Gaps = 12/122 (9%)
Query: 111 ILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKE--HEEYKPDRCHAFVCDVT 168
+L+IGCG G E V V G SE + ++ D V
Sbjct: 76 LLDIGCGWGGLAIYAAEEY---GVTVVGVTLSEEQLAYAEKRIAARGLEDNVE-----VR 127
Query: 169 SEDWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMVLFRDYGRYDLVQL 228
+D+ E D ++ + + + + +VY LKPGG +L D
Sbjct: 128 LQDY--RDFEEPFDRIVSVGMFEHVGKENYDDFFKKVYALLKPGGRMLLHSITGPDQEFR 185
Query: 229 RF 230
RF
Sbjct: 186 RF 187
>gnl|CDD|234689 PRK00216, ubiE, ubiquinone/menaquinone biosynthesis
methyltransferase; Reviewed.
Length = 239
Score = 34.7 bits (81), Expect = 0.049
Identities = 27/110 (24%), Positives = 46/110 (41%), Gaps = 11/110 (10%)
Query: 110 NILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKE--HEEYKPDRCHAFVCDV 167
+L++ CG G+ + + V G DFSE + + +E + D
Sbjct: 54 KVLDLACGTGDLAIALAKAV-GKTGEVVGLDFSEGMLAVGREKLRDLGLSGNVEFVQGDA 112
Query: 168 TSEDWNPPFAPESLDIVLLIFVLDAIN-PNKMQHVINQVYKYLKPGGMVL 216
PF S D V + F L N P+ + + ++Y+ LKPGG ++
Sbjct: 113 E----ALPFPDNSFDAVTIAFGLR--NVPDIDK-ALREMYRVLKPGGRLV 155
>gnl|CDD|173391 PTZ00098, PTZ00098, phosphoethanolamine N-methyltransferase;
Provisional.
Length = 263
Score = 34.6 bits (79), Expect = 0.057
Identities = 34/116 (29%), Positives = 51/116 (43%), Gaps = 20/116 (17%)
Query: 111 ILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKPDRCHAFVCDVTSE 170
+L+IG G+G I E V+G D E VNI K K ++ D+ +
Sbjct: 56 VLDIGSGLGGGCKYINEKY---GAHVHGVDICEKMVNIAKLRNSDK-NKIEFEANDILKK 111
Query: 171 DWNPPFAPESLDIVLLIFVLDAI------NPNKMQHVINQVYKYLKPGGMVLFRDY 220
D F + D +I+ DAI + K+ + YK+LKP G++L DY
Sbjct: 112 D----FPENTFD---MIYSRDAILHLSYADKKKL---FEKCYKWLKPNGILLITDY 157
>gnl|CDD|233668 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 [Biosynthesis of cofactors, prosthetic
groups, and carriers, Menaquinone and ubiquinone].
Length = 224
Score = 34.2 bits (79), Expect = 0.064
Identities = 34/124 (27%), Positives = 54/124 (43%), Gaps = 9/124 (7%)
Query: 94 IIEPLSSTKTDTCSTKNILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHE 153
I + + K +L++GCG G P+ N V G D SE + + K H
Sbjct: 33 IRDTIRKNKKPLFG-LRVLDVGCGGGLLSEPLARLGAN----VTGIDASEENIEVAKLHA 87
Query: 154 EYKPDRCHAFVCDVTSEDWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGG 213
+ P + C + ED +S D+V + VL+ + P+ Q I + LKPGG
Sbjct: 88 KKDPLLKIEYRCT-SVEDL-AEKGAKSFDVVTCMEVLEHV-PD-PQAFIRACAQLLKPGG 143
Query: 214 MVLF 217
++ F
Sbjct: 144 ILFF 147
>gnl|CDD|237872 PRK14968, PRK14968, putative methyltransferase; Provisional.
Length = 188
Score = 33.7 bits (78), Expect = 0.084
Identities = 28/132 (21%), Positives = 47/132 (35%), Gaps = 33/132 (25%)
Query: 109 KNILEIGCGVGNSVFPIV-EHCKNDNVFVYGCDFSENAVNILKEHEEYKPDRC---HAFV 164
+LE+G G G IV + V G D + AV K + + R
Sbjct: 25 DRVLEVGTGSG-----IVAIVAAKNGKKVVGVDINPYAVECAKCNAKLNNIRNNGVEVIR 79
Query: 165 CDVTSEDWNPPFAPESLDIVL-----LIFVLDAINPNKMQH--------------VINQV 205
D+ PF + D++L L + + + + +++V
Sbjct: 80 SDLFE-----PFRGDKFDVILFNPPYLPTEEEEEWDDWLNYALSGGKDGREVIDRFLDEV 134
Query: 206 YKYLKPGGMVLF 217
+YLKPGG +L
Sbjct: 135 GRYLKPGGRILL 146
>gnl|CDD|240229 PTZ00014, PTZ00014, myosin-A; Provisional.
Length = 821
Score = 34.6 bits (80), Expect = 0.089
Identities = 32/119 (26%), Positives = 55/119 (46%), Gaps = 26/119 (21%)
Query: 46 ENNSVLQIDKNLIQTLNEDVAKNWDAFYNVHQNRFFKDRHWLFTEFTEIIEPLSSTKTDT 105
+NNS+ Q+ I NE + KN F ++ F+ L+ + E +S+ + +
Sbjct: 476 KNNSLEQL---FINITNEMLQKN---FVDI----VFERESKLYKD-----EGISTEELEY 520
Query: 106 CSTKNILEIGCGVGNSVFPIVE-HC----KNDNVFVYGCDFSENAVNILKEHEEYKPDR 159
S ++++++ CG G SV I+E C D FV C LK + +YKP +
Sbjct: 521 TSNESVIDLLCGKGKSVLSILEDQCLAPGGTDEKFVSSC------NTNLKNNPKYKPAK 573
>gnl|CDD|233708 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 [Biosynthesis of
cofactors, prosthetic groups, and carriers, Biotin].
Length = 240
Score = 33.4 bits (77), Expect = 0.12
Identities = 35/162 (21%), Positives = 59/162 (36%), Gaps = 39/162 (24%)
Query: 108 TKNILEIGCGVGN------SVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKPDRCH 161
++L+IGCG G FP E D S + K +
Sbjct: 35 PASVLDIGCGTGYLTRALLKRFPQAE--------FIANDISAGMLAQAKTK--LSENV-- 82
Query: 162 AFVC-DVTSEDWNPPFAPESLDIVLLIFVLDAIN-PNKMQHVINQVYKYLKPGGMVLFRD 219
F+C D P S D LI A+ + + ++++ + LKPGG++ F
Sbjct: 83 QFICGDAE----KLPLEDSSFD---LIVSNLALQWCDDLSQALSELARVLKPGGLLAFST 135
Query: 220 YGRYDLVQLRFKKGRCLQDNFYARGDGTLVYFFTREEVKTMF 261
+G L +LR +F G + + +E+K +
Sbjct: 136 FGPGTLHELR--------QSFGQHGLR----YLSLDELKALL 165
>gnl|CDD|227135 COG4798, COG4798, Predicted methyltransferase [General function
prediction only].
Length = 238
Score = 33.3 bits (76), Expect = 0.13
Identities = 29/141 (20%), Positives = 45/141 (31%), Gaps = 35/141 (24%)
Query: 176 FAPESLDIVLLIFV-----LDAINPNKMQHVINQVYKYLKPGGMVLFRDYGRYDLVQLRF 230
AP+ LD+V I+P V V+K LKPGG+ L D+ R
Sbjct: 118 GAPQKLDLVPTAQNYHDMHNKNIHPATAAKVNAAVFKALKPGGVYLVEDH--------RA 169
Query: 231 KKGRCLQDN---FYARGDGTLVYFFTREEVKTMFESAGFVEKQNLIDRRLQVNRGKQ--- 284
G L D V E+AGF ++ ++
Sbjct: 170 DPGSGLSDTITLHRIDPAV----------VIAEVEAAGFK-----LEAESEILANPDDPR 214
Query: 285 -IKMYRVWIQAKSYFVHYLFV 304
I ++ I+ ++ F
Sbjct: 215 GIWVFDPTIRGETDRFTLKFR 235
>gnl|CDD|234248 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 [Protein fate, Protein modification
and repair].
Length = 251
Score = 32.8 bits (76), Expect = 0.18
Identities = 27/141 (19%), Positives = 44/141 (31%), Gaps = 46/141 (32%)
Query: 109 KNILEIGCGVGNSVFPIVEHC-------KNDNVFVYGCDFSENAVNILKEH-EEYKPDRC 160
+L++G G G + + V D S A+ + +++ D
Sbjct: 89 LRVLDLGTGSG---------AIALALAKERPDARVTAVDISPEALAVARKNAARLGLDNV 139
Query: 161 HAFVCDVTSEDW---------NPPFAPESLDIVLLIFV---------------LDAINPN 196
D NPP+ PE+ +L V LD
Sbjct: 140 EFLQSDWFEPLPGGKFDLIVSNPPYIPEADIHLLDPEVRFHEPRLALFGGEDGLDFY--- 196
Query: 197 KMQHVINQVYKYLKPGGMVLF 217
+ +I Q + LKPGG +L
Sbjct: 197 --RRIIAQAPRLLKPGGWLLL 215
>gnl|CDD|236841 PRK11088, rrmA, 23S rRNA methyltransferase A; Provisional.
Length = 272
Score = 33.0 bits (76), Expect = 0.21
Identities = 28/116 (24%), Positives = 50/116 (43%), Gaps = 28/116 (24%)
Query: 107 STKNILEIGCGVG---NSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKPDR---C 160
+L+IGCG G +++ + + ++G D S+ A+ +Y R
Sbjct: 85 KATALLDIGCGEGYYTHALA--DALPEITTMQLFGLDISKVAI-------KYAAKRYPQV 135
Query: 161 HAFVCDVTSEDWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMVL 216
F C +S PFA +SLD ++ I+ ++ V+ KPGG+V+
Sbjct: 136 T-F-CVASSHRL--PFADQSLDAIIRIYA--PCKAEELARVV-------KPGGIVI 178
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 32.7 bits (74), Expect = 0.33
Identities = 14/54 (25%), Positives = 27/54 (50%), Gaps = 8/54 (14%)
Query: 17 QEDSNVFQHNAWDHVQWDEEQEQQARKLVENNSVLQIDKNLIQTLNEDVAKNWD 70
+ S F + + HV+ DEE++ QA E K+ I++++ D + N +
Sbjct: 4193 ESQSQAFDDSEFMHVKEDEEEDLQALGNAE--------KDQIKSIDRDESANQN 4238
>gnl|CDD|218717 pfam05724, TPMT, Thiopurine S-methyltransferase (TPMT). This
family consists of thiopurine S-methyltransferase
proteins from both eukaryotes and prokaryotes.
Thiopurine S-methyltransferase (TPMT) is a cytosolic
enzyme that catalyzes S-methylation of aromatic and
heterocyclic sulfhydryl compounds, including anticancer
and immunosuppressive thiopurines.
Length = 203
Score = 31.6 bits (72), Expect = 0.38
Identities = 26/101 (25%), Positives = 33/101 (32%), Gaps = 26/101 (25%)
Query: 135 FVYGCDFSENAV------NILKEH-------EEYKPDRCHAFVCDVTSEDWNPPFA--PE 179
FV G + SE AV L +EY+ D F E
Sbjct: 46 FVVGVEISELAVEKFFAEAGLSPPITELSGFKEYRAGGIELLCGDF--------FTLPRE 97
Query: 180 SLDIVLLIF---VLDAINPNKMQHVINQVYKYLKPGGMVLF 217
L LI+ L A+ P Q+Y+ L PGG L
Sbjct: 98 DLGKFDLIYDRAALCALPPEMRPRYAKQMYELLPPGGRGLL 138
>gnl|CDD|225173 COG2264, PrmA, Ribosomal protein L11 methylase [Translation,
ribosomal structure and biogenesis].
Length = 300
Score = 31.9 bits (73), Expect = 0.50
Identities = 27/114 (23%), Positives = 46/114 (40%), Gaps = 21/114 (18%)
Query: 109 KNILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKPDRCHAFVCDVT 168
K +L++GCG G + I K V G D AV +E+ + V
Sbjct: 164 KTVLDVGCGSG--ILAIAAA-KLGAKKVVGVDIDPQAVEAARENARL--NGVELL---VQ 215
Query: 169 SEDWNPPFAPESL--DIV---LLIFVLDAINPNKMQHVINQVYKYLKPGGMVLF 217
++ + PE+ D++ +L VL + P + + LKPGG ++
Sbjct: 216 AKGFLLLEVPENGPFDVIVANILAEVLVELAP--------DIKRLLKPGGRLIL 261
>gnl|CDD|233645 TIGR01934, MenG_MenH_UbiE, ubiquinone/menaquinone biosynthesis
methyltransferases. This model represents a family of
methyltransferases involved in the biosynthesis of
menaquinone and ubiqinone. Some members such as the UbiE
enzyme from E. coli are believed to act in both
pathways, while others may act in only the menaquinone
pathway. These methyltransferases are members of the
UbiE/CoQ family of methyltransferases (pfam01209) which
also contains ubiquinone methyltransferases and other
methyltransferases. Members of this clade include a wide
distribution of bacteria and eukaryotes, but no archaea.
An outgroup for this clade is provided by the
phosphatidylethanolamine methyltransferase (EC 2.1.1.17)
from Rhodobacter sphaeroides. Note that a number of
non-orthologous genes which are members of pfam03737
have been erroneously annotated as MenG
methyltransferases [Biosynthesis of cofactors,
prosthetic groups, and carriers, Menaquinone and
ubiquinone].
Length = 223
Score = 31.5 bits (72), Expect = 0.50
Identities = 40/178 (22%), Positives = 70/178 (39%), Gaps = 33/178 (18%)
Query: 110 NILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKPDRCHAFVC-DVT 168
+L++ CG G+ + + + V G DFS + + K+ + + F+ D
Sbjct: 42 KVLDVACGTGDLAIELAKSAPDR-GKVTGVDFSSEMLEVAKK--KSELPLNIEFIQADAE 98
Query: 169 SEDWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMVLFRDYGR------ 222
PF S D V + F L N +Q + ++Y+ LKPGG ++ ++ +
Sbjct: 99 ----ALPFEDNSFDAVTIAFGLR--NVTDIQKALREMYRVLKPGGRLVILEFSKPANALL 152
Query: 223 YDLVQLRFKK-----GRCLQDNFYARGDGTLVY-------FFTREEVKTMFESAGFVE 268
+ K G + N A Y F ++EE+ M + AGF E
Sbjct: 153 KKFYKFYLKNVLPSIGGLISKNAEA-----YTYLPESIRAFPSQEELAAMLKEAGFEE 205
>gnl|CDD|180751 PRK06922, PRK06922, hypothetical protein; Provisional.
Length = 677
Score = 31.0 bits (70), Expect = 1.0
Identities = 29/120 (24%), Positives = 57/120 (47%), Gaps = 15/120 (12%)
Query: 111 ILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKPDRCHAFVCDVTSE 170
I+++G G G + I E + ++ +YG D SEN ++ LK+ ++ + + D
Sbjct: 422 IVDVGAGGGVMLDMIEE--ETEDKRIYGIDISENVIDTLKKKKQNEGRSWNVIKGDAI-- 477
Query: 171 DWNPPFAPESLDIVLLIFVLDAI-----------NPNKMQHVINQVYKYLKPGGMVLFRD 219
+ + F ES+D ++ +L + N ++ + Y+ LKPGG ++ RD
Sbjct: 478 NLSSSFEKESVDTIVYSSILHELFSYIEYEGKKFNHEVIKKGLQSAYEVLKPGGRIIIRD 537
>gnl|CDD|165876 PLN02232, PLN02232, ubiquinone biosynthesis methyltransferase.
Length = 160
Score = 30.0 bits (67), Expect = 1.0
Identities = 33/142 (23%), Positives = 57/142 (40%), Gaps = 16/142 (11%)
Query: 138 GCDFSENAVNILKEHEEYKPDRCHAFVCDVTSEDWNPPFAPESLDIVLLIFVLDAINPNK 197
G DFS + + + K C+ + + + + PF D V + + L N
Sbjct: 2 GLDFSSEQLAVAATRQSLKARSCYKCIEWIEGDAIDLPFDDCEFDAVTMGYGLR--NVVD 59
Query: 198 MQHVINQVYKYLKPGGMVLFRDYGRYDLVQLRFKKGRCLQDNF---------YARGDGTL 248
+ ++Y+ LKPG V D+ + + F +G + DN A+ L
Sbjct: 60 RLRAMKEMYRVLKPGSRVSILDFNKSNQSVTTFMQGWMI-DNVVVPVATVYDLAKEYEYL 118
Query: 249 VY----FFTREEVKTMFESAGF 266
Y + T EE++T+ AGF
Sbjct: 119 KYSINGYLTGEELETLALEAGF 140
>gnl|CDD|221301 pfam11899, DUF3419, Protein of unknown function (DUF3419). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria and eukaryotes.
Proteins in this family are typically between 398 to 802
amino acids in length.
Length = 376
Score = 30.7 bits (70), Expect = 1.1
Identities = 13/55 (23%), Positives = 24/55 (43%)
Query: 176 FAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMVLFRDYGRYDLVQLRF 230
SL +L+ +D ++P ++ + ++ + PG VLFR RF
Sbjct: 288 LPAGSLTRAVLLDAMDWMDPEQLNALWREITRTAAPGARVLFRSAAEPPWYPGRF 342
>gnl|CDD|187647 cd08943, R1PA_ADH_SDR_c, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase, classical (c) SDRs. This family has
bifunctional proteins with an N-terminal aldolase and a
C-terminal classical SDR domain. One member is
identified as a rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase. The SDR domain has a canonical SDR
glycine-rich NAD(P) binding motif and a match to the
characteristic active site triad. However, it lacks an
upstream active site Asn typical of SDRs. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 30.1 bits (68), Expect = 1.4
Identities = 11/36 (30%), Positives = 13/36 (36%), Gaps = 1/36 (2%)
Query: 136 VYGCDFSENAVNILKEHEEYKPDRCHAFVCDVTSED 171
V D + E + P R CDVTSE
Sbjct: 28 VVVADIDPEIAEKVAEAAQGGP-RALGVQCDVTSEA 62
>gnl|CDD|233880 TIGR02469, CbiT, precorrin-6Y C5,15-methyltransferase
(decarboxylating), CbiT subunit. This model recognizes
the CbiT methylase which is responsible, in part (along
with CbiE), for methylating precorrin-6y (or
cobalt-precorrin-6y) at both the 5 and 15 positions as
well as the concomitant decarbozylation at C-12. In many
organisms, this protein is fused to the CbiE subunit.
The fused protein, when found in organisms catalyzing
the oxidative version of the cobalamin biosynthesis
pathway, is called CobL [Biosynthesis of cofactors,
prosthetic groups, and carriers, Heme, porphyrin, and
cobalamin].
Length = 124
Score = 29.2 bits (66), Expect = 1.6
Identities = 23/114 (20%), Positives = 50/114 (43%), Gaps = 25/114 (21%)
Query: 111 ILEIGCGVGN---SVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKPDRCHAF-VCD 166
+ +IG G G+ +V + + VY + + A+++++ + F V +
Sbjct: 23 LWDIGAGTGSVTIEAARLVPNGR-----VYAIERNPEALDLIERN-------LRRFGVSN 70
Query: 167 VTSEDWNPPFAPESLDIVLLIFVLDAI----NPNKMQHVINQVYKYLKPGGMVL 216
+ + + P APE L DA+ + +Q ++ V + L+PGG ++
Sbjct: 71 IVIVEGDAPEAPEDLLPDP-----DAVFVGGSGGLLQEILEAVERRLRPGGRIV 119
>gnl|CDD|162246 TIGR01197, nramp, NRAMP (natural resistance-associated macrophage
protein) metal ion transporters. This model describes
the Nramp metal ion transporter family. Historically, in
mammals these proteins have been functionally
characterized as proteins involved in the host pathogen
resistance, hence the name - NRAMP. At least two
isoforms Nramp1 and Nramp2 have been identified. However
the exact mechanism of pathogen resistance was unclear,
until it was demonstrated by expression cloning and
electrophysiological techniques that this protein was a
metal ion transporter. It was also independently
demonstrated that a microcytic anemia (mk) locus in
mouse, encodes a metal ion transporter (DCT1 or Nramp2).
The transporter has a broad range of substrate
specificity that include Fe+2, Zn+2, Mn+2, Co+2, Cd+2,
Cu+2, Ni+2 and Pb+2. The uptake of these metal ions is
coupled to proton symport. Metal ions are essential
cofactors in a number of biological process including,
oxidative phosphorylation, gene regulation and metal ion
homeostasis. Nramp1 could confer resistance to infection
in one of the two ways. (1) The uptake of Fe+2 can
produce toxic hydroxyl radicals via Fenton reaction
killing the pathogens in phagosomes or (2) Deplete the
metal ion pools in the phagosome and deprive the
pathogens of metal ions, which is critical for its
survival [Transport and binding proteins, Cations and
iron carrying compounds].
Length = 390
Score = 30.1 bits (68), Expect = 2.1
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 2/56 (3%)
Query: 269 KQNLIDRRLQVNRGKQIKMYRVWIQAKSYFVHYLFVTEEVKTMFESAGFVEKQNLI 324
+ L+DR + MYR A + V + E V +F +A FV L+
Sbjct: 208 QSRLVDRD-VKEGVSEANMYRPIEAAIALSVSFSIN-EFVIALFTAALFVNTNILV 261
>gnl|CDD|233115 TIGR00755, ksgA, dimethyladenosine transferase. In both E. coli
and Saccharomyces cerevisiae, this protein is
responsible for the dimethylation of two adjacent
adenosine residues in a conserved hairpin of 16S rRNA in
bacteria, 18S rRNA in eukaryotes. This adjacent
dimethylation is the only rRNA modification shared by
bacteria and eukaryotes. A single member of this family
is present in each of the first 20 completed microbial
genomes. This protein is essential in yeast, but not in
E. coli, where its deletion leads to resistance to the
antibiotic kasugamycin. Alternate name:
S-adenosylmethionine--6-N',N'-adenosyl (rRNA)
dimethyltransferase [Protein synthesis, tRNA and rRNA
base modification].
Length = 253
Score = 29.5 bits (67), Expect = 2.3
Identities = 15/76 (19%), Positives = 30/76 (39%), Gaps = 11/76 (14%)
Query: 85 HWLFTEFT--EIIEPLSSTKTDTCSTKNILEIGCGVGNSVFPIVEHCKNDNVFVYGCDFS 142
++L E +I+E + + D +LEIG G+G P+++ K V +
Sbjct: 10 NFLIDESVIQKIVEAANVLEGD-----VVLEIGPGLGALTEPLLKRAKK----VTAIEID 60
Query: 143 ENAVNILKEHEEYKPD 158
L++ +
Sbjct: 61 RRLAERLRKLLSLYEN 76
>gnl|CDD|222313 pfam13679, Methyltransf_32, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 143
Score = 28.7 bits (65), Expect = 2.5
Identities = 8/30 (26%), Positives = 12/30 (40%)
Query: 90 EFTEIIEPLSSTKTDTCSTKNILEIGCGVG 119
E +EPL D +++ G G G
Sbjct: 8 RLAEFVEPLIKEVLDKTGCITVVDHGAGKG 37
>gnl|CDD|133117 cd06907, M14_AGBL2-3_like, Peptidase M14-like domain of ATP/GTP
binding protein AGBL-2 and AGBL-3, and related proteins.
Peptidase M14-like domain of ATP/GTP binding
protein_like (AGBL)-2, and related proteins. The
Peptidase M14 family of metallocarboxypeptidases are
zinc-binding carboxypeptidases (CPs) which hydrolyze
single, C-terminal amino acids from polypeptide chains,
and have a recognition site for the free C-terminal
carboxyl group, which is a key determinant of
specificity. This subgroup includes the human AGBL-2,
and -3, and the mouse cytosolic carboxypeptidase
(CCPs)-2, and -3. ATP/GTP binding protein
(AGTPBP-1/Nna1)-like proteins are active
metallopeptidases that are thought to act on cytosolic
proteins such as alpha-tubulin, to remove a C-terminal
tyrosine. Mutations in AGTPBP-1/Nna1 cause Purkinje cell
degeneration (pcd). AGTPBP-1/Nna1 however does not
belong to this subgroup. AGTPBP-1/Nna1-like proteins
from the different phyla are highly diverse, but they
all contain a unique N-terminal conserved domain right
before the CP domain. It has been suggested that this
N-terminal domain might act as a folding domain.
Length = 261
Score = 28.9 bits (65), Expect = 3.4
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 128 HCKNDNVFVYGCDFSENAVNILKE 151
H + +NVF+YGC+ N L E
Sbjct: 154 HSRKNNVFMYGCENKLNPEKWLHE 177
>gnl|CDD|235943 PRK07133, PRK07133, DNA polymerase III subunits gamma and tau;
Validated.
Length = 725
Score = 28.6 bits (64), Expect = 5.3
Identities = 17/107 (15%), Positives = 37/107 (34%)
Query: 9 PQFGNRVLQEDSNVFQHNAWDHVQWDEEQEQQARKLVENNSVLQIDKNLIQTLNEDVAKN 68
Q GN ++ + N + + E + +ID+N+ +T +
Sbjct: 453 GQIGNDIISTEIAQLDENQNLIDTGEFDLENNFSNSFNPENGNKIDENINETFDTSTISA 512
Query: 69 WDAFYNVHQNRFFKDRHWLFTEFTEIIEPLSSTKTDTCSTKNILEIG 115
+ + + F ++ I+ + T T S KN+ + G
Sbjct: 513 NLSENKTNFAQSFNNKDTNLINSEIPIDLIKDTITINNSQKNVKKNG 559
>gnl|CDD|212491 cd05233, SDR_c, classical (c) SDRs. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 234
Score = 28.4 bits (64), Expect = 5.3
Identities = 10/36 (27%), Positives = 14/36 (38%), Gaps = 1/36 (2%)
Query: 136 VYGCDFSENAVNILKEHEEYKPDRCHAFVCDVTSED 171
V D +E A+ L E A DV+ E+
Sbjct: 25 VVLADRNEEALAELAAIEALGG-NAVAVQADVSDEE 59
>gnl|CDD|235350 PRK05134, PRK05134, bifunctional 3-demethylubiquinone-9
3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol
methylase; Provisional.
Length = 233
Score = 28.2 bits (64), Expect = 5.4
Identities = 28/127 (22%), Positives = 46/127 (36%), Gaps = 45/127 (35%)
Query: 109 KNILEIGCG----------VGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEE---- 154
K +L++GCG +G V G D SE + + + H
Sbjct: 50 KRVLDVGCGGGILSESMARLGADVT--------------GIDASEENIEVARLHALESGL 95
Query: 155 ---YKPDRCHAFVCDVTSEDWNPPFAPESLDIVLLIFVLDAI-NPNKMQHVINQVYKYLK 210
Y R T+E+ P D+V + +L+ + +P + K +K
Sbjct: 96 KIDY---RQ------TTAEELAAE-HPGQFDVVTCMEMLEHVPDP---ASFVRACAKLVK 142
Query: 211 PGGMVLF 217
PGG+V F
Sbjct: 143 PGGLVFF 149
>gnl|CDD|225317 COG2519, GCD14, tRNA(1-methyladenosine) methyltransferase and
related methyltransferases [Translation, ribosomal
structure and biogenesis].
Length = 256
Score = 28.4 bits (64), Expect = 5.4
Identities = 31/112 (27%), Positives = 43/112 (38%), Gaps = 21/112 (18%)
Query: 111 ILEIGCGVGN---SVFPIVEHCKNDNVFVYGC--DFSENAVNILKEHEEYKPDRCHAFVC 165
+LE G G G + V +V Y DF++ A L E DR +
Sbjct: 98 VLEAGTGSGALTAYLARAV--GPEGHVTTYEIREDFAKTARENLSEFGL--GDRVTLKLG 153
Query: 166 DVTSEDWNPPFAPESLDIVLLIFVLDAINPNKMQHVINQVYKYLKPGGMVLF 217
DV E +D V LD +P +V+ V LKPGG+V+
Sbjct: 154 DVRE-----GIDEEDVDAV----FLDLPDP---WNVLEHVSDALKPGGVVVV 193
>gnl|CDD|240807 cd12361, RRM1_2_CELF1-6_like, RNA recognition motif 1 and 2 in
CELF/Bruno-like family of RNA binding proteins and plant
flowering time control protein FCA. This subfamily
corresponds to the RRM1 and RRM2 domains of the CUGBP1
and ETR-3-like factors (CELF) as well as plant flowering
time control protein FCA. CELF, also termed BRUNOL
(Bruno-like) proteins, is a family of structurally
related RNA-binding proteins involved in regulation of
pre-mRNA splicing in the nucleus, and control of mRNA
translation and deadenylation in the cytoplasm. The
family contains six members: CELF-1 (also known as
BRUNOL-2, CUG-BP1, NAPOR, EDEN-BP), CELF-2 (also known
as BRUNOL-3, ETR-3, CUG-BP2, NAPOR-2), CELF-3 (also
known as BRUNOL-1, TNRC4, ETR-1, CAGH4, ER DA4), CELF-4
(BRUNOL-4), CELF-5 (BRUNOL-5) and CELF-6 (BRUNOL-6).
They all contain three highly conserved RNA recognition
motifs (RRMs), also known as RBDs (RNA binding domains)
or RNPs (ribonucleoprotein domains): two consecutive
RRMs (RRM1 and RRM2) situated in the N-terminal region
followed by a linker region and the third RRM (RRM3)
close to the C-terminus of the protein. The low sequence
conservation of the linker region is highly suggestive
of a large variety in the co-factors that associate with
the various CELF family members. Based on both, sequence
similarity and function, the CELF family can be divided
into two subfamilies, the first containing CELFs 1 and
2, and the second containing CELFs 3, 4, 5, and 6. The
different CELF proteins may act through different sites
on at least some substrates. Furthermore, CELF proteins
may interact with each other in varying combinations to
influence alternative splicing in different contexts.
This subfamily also includes plant flowering time
control protein FCA that functions in the
posttranscriptional regulation of transcripts involved
in the flowering process. FCA contains two RRMs, and a
WW protein interaction domain. .
Length = 77
Score = 26.4 bits (59), Expect = 5.7
Identities = 10/32 (31%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 252 FTREEVKTMFESAGFVEKQNLI-DRRLQVNRG 282
T E+V+ +FE G +E+ +I D+ ++G
Sbjct: 11 ATEEDVRALFEEYGNIEEVTIIRDKDTGQSKG 42
>gnl|CDD|202783 pfam03848, TehB, Tellurite resistance protein TehB.
Length = 192
Score = 27.9 bits (62), Expect = 5.7
Identities = 28/136 (20%), Positives = 60/136 (44%), Gaps = 18/136 (13%)
Query: 80 FFKDRHWLFTEFTEIIEPLSSTKTDTCSTKNILEIGCGVG-NSVFPIVEHCKNDNVF-VY 137
+F ++ +E++E + + K L++GCG G NS+F + + V
Sbjct: 8 YFHKKYNTTPTHSEVLEAVKTVKP--GKA---LDLGCGQGRNSLF------LSLLGYDVT 56
Query: 138 GCDFSENAVNILKEHEEYKPDRCHAFVCDVTSEDWNPPFAPESLDIVLLIFVLDAINPNK 197
D +EN++ L++ +E + + D+ S + E+ D +L VL + +
Sbjct: 57 AVDHNENSIANLQDIKEKENLDIPTALYDINSASID-----ENYDFILSTVVLMFLQAER 111
Query: 198 MQHVINQVYKYLKPGG 213
+ +I + ++ GG
Sbjct: 112 IPAIIANMQEHTNVGG 127
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 28.1 bits (63), Expect = 6.5
Identities = 10/19 (52%), Positives = 10/19 (52%)
Query: 153 EEYKPDRCHAFVCDVTSED 171
E R A VCDVTSE
Sbjct: 64 AELGLGRVEAVVCDVTSEA 82
>gnl|CDD|128898 smart00650, rADc, Ribosomal RNA adenine dimethylases.
Length = 169
Score = 27.5 bits (62), Expect = 6.9
Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 5/39 (12%)
Query: 93 EIIEPLSSTKTDTCSTKNILEIGCGVGNSVFPIVEHCKN 131
+I+ + D +LEIG G G ++E K
Sbjct: 4 KIVRAANLRPGD-----TVLEIGPGKGALTEELLERAKR 37
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 27.7 bits (62), Expect = 8.1
Identities = 9/55 (16%), Positives = 18/55 (32%), Gaps = 12/55 (21%)
Query: 117 GVGNSVFPIVEHCKNDNVFVYGCDFSENAVNILKEHEEYKPDRCHAFVCDVTSED 171
G+G + IV+ + V D + + + DV+S +
Sbjct: 20 GIGLA---IVKELLANGANVVNADIHGG---------DGQHENYQFVPTDVSSAE 62
>gnl|CDD|187605 cd05347, Ga5DH-like_SDR_c, gluconate 5-dehydrogenase (Ga5DH)-like,
classical (c) SDRs. Ga5DH catalyzes the NADP-dependent
conversion of carbon source D-gluconate and
5-keto-D-gluconate. This SDR subgroup has a classical
Gly-rich NAD(P)-binding motif and a conserved active
site tetrad pattern. However, it has been proposed that
Arg104 (Streptococcus suis Ga5DH numbering), as well as
an active site Ca2+, play a critical role in catalysis.
In addition to Ga5DHs this subgroup contains Erwinia
chrysanthemi KduD which is involved in pectin
degradation, and is a putative
2,5-diketo-3-deoxygluconate dehydrogenase. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107,15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 248
Score = 27.7 bits (62), Expect = 9.1
Identities = 8/36 (22%), Positives = 15/36 (41%)
Query: 136 VYGCDFSENAVNILKEHEEYKPDRCHAFVCDVTSED 171
+ +E ++ E + AF CDV+ E+
Sbjct: 32 IVINSRNEEKAEEAQQLIEKEGVEATAFTCDVSDEE 67
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.322 0.138 0.424
Gapped
Lambda K H
0.267 0.0829 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,022,085
Number of extensions: 1714637
Number of successful extensions: 1726
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1685
Number of HSP's successfully gapped: 75
Length of query: 352
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 254
Effective length of database: 6,590,910
Effective search space: 1674091140
Effective search space used: 1674091140
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 (21.9 bits)
S2: 59 (26.3 bits)