RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7827
(140 letters)
>gnl|CDD|216320 pfam01135, PCMT, Protein-L-isoaspartate(D-aspartate)
O-methyltransferase (PCMT).
Length = 210
Score = 120 bits (304), Expect = 2e-35
Identities = 53/110 (48%), Positives = 66/110 (60%), Gaps = 4/110 (3%)
Query: 20 IKSPRVIDAMIHIDRGHFC-AHNDSRKYMLAARDIGYGSIIDNPVQHAEVLELLKDKLVP 78
I S +V +AM+ +DR F S Y IGYG I P HA +LELL+ L P
Sbjct: 16 IASDKVAEAMLAVDREEFVPESFKSYAYEDIPLSIGYGQTISAPHMHAMMLELLE--LKP 73
Query: 79 GAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHA-SNVTTLHY 127
G +VL++GSGSGYLT CFA MVG+ G VV +EHIPE+V A N+ L
Sbjct: 74 GMRVLEIGSGSGYLTACFARMVGEVGLVVSIEHIPELVEIARRNLEKLGL 123
>gnl|CDD|232816 TIGR00080, pimt, protein-L-isoaspartate(D-aspartate)
O-methyltransferase. This is an all-kingdom (but not
all species) full-length ortholog enzyme for repairing
aging proteins. Among the prokaryotes, the gene name is
pcm. Among eukaryotes, pimt [Protein fate, Protein
modification and repair].
Length = 215
Score = 106 bits (267), Expect = 9e-30
Identities = 44/101 (43%), Positives = 59/101 (58%), Gaps = 3/101 (2%)
Query: 20 IKSPRVIDAMIHIDRGHFC-AHNDSRKYMLAARDIGYGSIIDNPVQHAEVLELLKDKLVP 78
IKS RVIDA++ + R F H Y+ +IGYG I P A + ELL+ L P
Sbjct: 20 IKSKRVIDALLSVPREEFVPEHFKEYAYVDTPLEIGYGQTISAPHMVAMMTELLE--LKP 77
Query: 79 GAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHA 119
G KVL++G+GSGY A +VG++G VV +E IPE+ A
Sbjct: 78 GMKVLEIGTGSGYQAAVLAEIVGRDGLVVSIERIPELAEKA 118
>gnl|CDD|225316 COG2518, Pcm, Protein-L-isoaspartate carboxylmethyltransferase
[Posttranslational modification, protein turnover,
chaperones].
Length = 209
Score = 83.1 bits (206), Expect = 1e-20
Identities = 41/118 (34%), Positives = 55/118 (46%), Gaps = 15/118 (12%)
Query: 19 SIKSPRVIDAMIHIDRGHFC-AHNDSRKYMLAARDIGYGSIIDNPVQHAEVLELLKDKLV 77
I RV+ A + + R F A Y A IG G I P A +L+LL+ L
Sbjct: 14 GITDERVLKAFLAVPRELFVPAAYKHLAYEDRALPIGCGQTISAPHMVARMLQLLE--LK 71
Query: 78 PGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHA---------SNVTTLH 126
PG +VL++G+GSGY A +VG+ VV +E I E+ A NVT H
Sbjct: 72 PGDRVLEIGTGSGYQAAVLARLVGR---VVSIERIEELAEQARRNLETLGYENVTVRH 126
>gnl|CDD|184409 PRK13942, PRK13942, protein-L-isoaspartate O-methyltransferase;
Provisional.
Length = 212
Score = 68.5 bits (168), Expect = 5e-15
Identities = 41/101 (40%), Positives = 57/101 (56%), Gaps = 3/101 (2%)
Query: 20 IKSPRVIDAMIHIDRGHFC-AHNDSRKYMLAARDIGYGSIIDNPVQHAEVLELLKDKLVP 78
IKS +VIDA++ + R F + + Y+ +IGYG I A + ELL L
Sbjct: 19 IKSKKVIDALLKVPRHLFVPEYLEEYAYVDTPLEIGYGQTISAIHMVAIMCELLD--LKE 76
Query: 79 GAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHA 119
G KVL++G+GSGY A +VGK+G VV +E IPE+ A
Sbjct: 77 GMKVLEIGTGSGYHAAVVAEIVGKSGKVVTIERIPELAEKA 117
>gnl|CDD|178974 PRK00312, pcm, protein-L-isoaspartate O-methyltransferase;
Reviewed.
Length = 212
Score = 61.4 bits (150), Expect = 2e-12
Identities = 39/117 (33%), Positives = 52/117 (44%), Gaps = 15/117 (12%)
Query: 20 IKSPRVIDAMIHIDRGHFCAHNDSRK-YMLAARDIGYGSIIDNPVQHAEVLELLKDKLVP 78
I RV++A+ R F K Y A IG G I P A + ELL+ K P
Sbjct: 21 ILDERVLEAIEATPRELFVPEAFKHKAYENRALPIGCGQTISQPYMVARMTELLELK--P 78
Query: 79 GAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHA---------SNVTTLH 126
G +VL++G+GSGY AH+V + V VE I + A NV+ H
Sbjct: 79 GDRVLEIGTGSGYQAAVLAHLVRR---VFSVERIKTLQWEAKRRLKQLGLHNVSVRH 132
>gnl|CDD|140001 PRK13944, PRK13944, protein-L-isoaspartate O-methyltransferase;
Provisional.
Length = 205
Score = 50.6 bits (121), Expect = 2e-08
Identities = 39/113 (34%), Positives = 59/113 (52%), Gaps = 10/113 (8%)
Query: 20 IKSPRVIDAMIHIDRGHFCAHNDSRKYMLAARD----IGYGSIIDNPVQHAEVLELLKDK 75
IKS RV AM+ + R F + R M+A D + G+ I P A + EL++ +
Sbjct: 15 IKSERVKKAMLSVPREEFVM-PEYR--MMAYEDRPLPLFAGATISAPHMVAMMCELIEPR 71
Query: 76 LVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHAS-NVTTLHY 127
PG K+L+VG+GSGY A + + G V VE + E+ +A+ N+ L Y
Sbjct: 72 --PGMKILEVGTGSGYQAAVCAEAIERRGKVYTVEIVKELAIYAAQNIERLGY 122
>gnl|CDD|234563 TIGR04364, methyltran_FxLD, methyltransferase, FxLD system.
Members of this family resemble occur regularly in the
vicinity of lantibiotic biosynthesis enzymes and their
probable target, the FxLD family of putative ribosomal
natural product precursor (TIGR04363). Members resemble
protein-L-isoaspartate O-methyltransferase (TIGR00080)
and a predicted methyltranserase, TIGR04188, of another
putative peptide modification system.
Length = 394
Score = 45.0 bits (107), Expect = 2e-06
Identities = 34/119 (28%), Positives = 53/119 (44%), Gaps = 13/119 (10%)
Query: 11 TDYIVEIDSIKSPRVIDAMIHIDRGHFC------AHNDSRKYMLAARDIGYG---SIIDN 61
D + E I+SPRV A + R F + + ++ RD G S +
Sbjct: 9 VDELREDGVIRSPRVEAAFRTVPRHLFAPGAPLEKAYAANRAVVTKRD-EDGAALSSVSA 67
Query: 62 PVQHAEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHAS 120
P A +LE + PG +VL++GSG GY A +VG +G V V+ ++ + A
Sbjct: 68 PHIQAMMLEQAG--VEPGMRVLEIGSG-GYNAALLAELVGPSGEVTTVDIDEDVTDRAR 123
>gnl|CDD|237007 PRK11873, arsM, arsenite S-adenosylmethyltransferase; Reviewed.
Length = 272
Score = 43.0 bits (102), Expect = 9e-06
Identities = 26/61 (42%), Positives = 32/61 (52%), Gaps = 12/61 (19%)
Query: 61 NPVQHAEVLELLKDKLVPGAKVLDVGSGSGYLTTCF--AHMVGKNGSVVGVEHIPEIVNH 118
NP AE L PG VLD+GSG G+ CF A VG G V+GV+ PE++
Sbjct: 68 NPTALAE--------LKPGETVLDLGSGGGF--DCFLAARRVGPTGKVIGVDMTPEMLAK 117
Query: 119 A 119
A
Sbjct: 118 A 118
>gnl|CDD|222415 pfam13847, Methyltransf_31, Methyltransferase domain. This family
appears to be have methyltransferase activity.
Length = 151
Score = 42.0 bits (99), Expect = 1e-05
Identities = 18/42 (42%), Positives = 24/42 (57%)
Query: 78 PGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHA 119
G KVLD+G G+GYLT A +G VVG++ E + A
Sbjct: 3 SGIKVLDLGCGTGYLTFILAEKLGPGAEVVGIDISEEAIEKA 44
>gnl|CDD|234740 PRK00377, cbiT, cobalt-precorrin-6Y C(15)-methyltransferase;
Provisional.
Length = 198
Score = 41.7 bits (98), Expect = 3e-05
Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 62 PVQHAEV--LELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVN 117
P+ E+ L L K +L G +LD+G G+G +T + +VG+ G V V+ + +N
Sbjct: 22 PMTKEEIRALALSKLRLRKGDMILDIGCGTGSVTVEASLLVGETGKVYAVDKDEKAIN 79
>gnl|CDD|225317 COG2519, GCD14, tRNA(1-methyladenosine) methyltransferase and
related methyltransferases [Translation, ribosomal
structure and biogenesis].
Length = 256
Score = 41.9 bits (99), Expect = 3e-05
Identities = 19/67 (28%), Positives = 30/67 (44%), Gaps = 2/67 (2%)
Query: 76 LVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHA-SNVTTLHYPKLNK-R 133
+ PG++VL+ G+GSG LT A VG G V E + A N++ +
Sbjct: 92 ISPGSRVLEAGTGSGALTAYLARAVGPEGHVTTYEIREDFAKTARENLSEFGLGDRVTLK 151
Query: 134 IKFICEY 140
+ + E
Sbjct: 152 LGDVREG 158
>gnl|CDD|237568 PRK13943, PRK13943, protein-L-isoaspartate O-methyltransferase;
Provisional.
Length = 322
Score = 41.0 bits (96), Expect = 6e-05
Identities = 17/44 (38%), Positives = 26/44 (59%)
Query: 76 LVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHA 119
L G +VL++G G+GY + +VG+ G VV VE+ +I A
Sbjct: 78 LDKGMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIA 121
>gnl|CDD|221804 pfam12847, Methyltransf_18, Methyltransferase domain. Protein in
this family function as methyltransferases.
Length = 104
Score = 39.2 bits (92), Expect = 7e-05
Identities = 21/61 (34%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 78 PGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHASNVTTLHYPKLNKRIKFI 137
PGA+VLD+G G+G L + V GV+ PE++ A L L RI F+
Sbjct: 1 PGARVLDIGCGTGSL-AIELARLFPGARVTGVDLSPEMLELARENAKL---ALGPRITFV 56
Query: 138 C 138
Sbjct: 57 Q 57
>gnl|CDD|234689 PRK00216, ubiE, ubiquinone/menaquinone biosynthesis
methyltransferase; Reviewed.
Length = 239
Score = 40.1 bits (95), Expect = 1e-04
Identities = 17/32 (53%), Positives = 20/32 (62%)
Query: 78 PGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGV 109
PG KVLD+ G+G L A VGK G VVG+
Sbjct: 51 PGDKVLDLACGTGDLAIALAKAVGKTGEVVGL 82
>gnl|CDD|181382 PRK08317, PRK08317, hypothetical protein; Provisional.
Length = 241
Score = 39.9 bits (94), Expect = 1e-04
Identities = 21/58 (36%), Positives = 27/58 (46%), Gaps = 2/58 (3%)
Query: 64 QHAEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHASN 121
A ELL + PG +VLDVG G G A VG G VVG++ ++ A
Sbjct: 7 YRARTFELLA--VQPGDRVLDVGCGPGNDARELARRVGPEGRVVGIDRSEAMLALAKE 62
>gnl|CDD|237872 PRK14968, PRK14968, putative methyltransferase; Provisional.
Length = 188
Score = 38.7 bits (91), Expect = 2e-04
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 66 AEVLELLKDKLV--PGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVE 110
AE LL + V G +VL+VG+GSG + VVGV+
Sbjct: 9 AEDSFLLAENAVDKKGDRVLEVGTGSGIVA---IVAAKNGKKVVGVD 52
>gnl|CDD|222295 pfam13659, Methyltransf_26, Methyltransferase domain. This family
contains methyltransferase domains.
Length = 117
Score = 37.4 bits (87), Expect = 4e-04
Identities = 21/60 (35%), Positives = 27/60 (45%), Gaps = 3/60 (5%)
Query: 79 GAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHASNVTTLHYPKLNKRIKFIC 138
G +VLD G+GSG A G + VVGVE PE A L L R++ +
Sbjct: 1 GDRVLDPGAGSGAFLLAAARA-GPDARVVGVELDPEAAALAR--RRLALAGLAPRVRVVV 57
>gnl|CDD|234492 TIGR04188, methyltr_grsp, methyltransferase, ATP-grasp peptide
maturase system. Members of this protein family are
predicted SAM-dependent methyltransferases that
regularly occur in the context of a putative peptide
modification ATP-grasp enzyme (TIGR04187, related to
enzymes of microviridin maturation) and a putative
ribosomal peptide modification target (TIGR04186).
Length = 363
Score = 37.3 bits (87), Expect = 0.001
Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 78 PGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHAS 120
G +VL++G+G+GY H +G + V VE P + A+
Sbjct: 107 DGHRVLEIGTGTGYSAALLCHRLGDDN-VTSVEVDPGLAARAA 148
>gnl|CDD|226607 COG4122, COG4122, Predicted O-methyltransferase [General function
prediction only].
Length = 219
Score = 35.0 bits (81), Expect = 0.006
Identities = 13/55 (23%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 62 PVQHAEVLELLKD--KLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPE 114
P+ E LL+ +L ++L++G+ GY A + +G + +E E
Sbjct: 41 PIIDPETGALLRLLARLSGPKRILEIGTAIGYSALWMALALPDDGRLTTIERDEE 95
>gnl|CDD|225173 COG2264, PrmA, Ribosomal protein L11 methylase [Translation,
ribosomal structure and biogenesis].
Length = 300
Score = 35.0 bits (81), Expect = 0.007
Identities = 14/24 (58%), Positives = 15/24 (62%)
Query: 69 LELLKDKLVPGAKVLDVGSGSGYL 92
LE L+ L G VLDVG GSG L
Sbjct: 153 LEALEKLLKKGKTVLDVGCGSGIL 176
>gnl|CDD|222171 pfam13489, Methyltransf_23, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 154
Score = 34.0 bits (78), Expect = 0.009
Identities = 21/74 (28%), Positives = 31/74 (41%), Gaps = 5/74 (6%)
Query: 66 AEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNG-SVVGVEHIPEIVNHASNVTT 124
A +L L +L PG +VLD+G G+G ++ + G V GV+ P V S
Sbjct: 10 ARLLARLLPRLKPGGRVLDIGCGTGI----LLRLLRERGFDVTGVDPSPAAVLIFSLFDA 65
Query: 125 LHYPKLNKRIKFIC 138
L + I
Sbjct: 66 PDPAVLAGKYDLIT 79
>gnl|CDD|237898 PRK15068, PRK15068, tRNA mo(5)U34 methyltransferase; Provisional.
Length = 322
Score = 34.1 bits (79), Expect = 0.014
Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 15/43 (34%)
Query: 72 LKDKLVPGAKVLDVGSGSGYLTTCFAH---MVGKNG-SVVGVE 110
LK + VLDVG G+GY H M+G VVG++
Sbjct: 121 LKGR-----TVLDVGCGNGY------HMWRMLGAGAKLVVGID 152
>gnl|CDD|233687 TIGR02021, BchM-ChlM, magnesium protoporphyrin O-methyltransferase.
This model represents the
S-adenosylmethionine-dependent O-methyltransferase
responsible for methylation of magnesium protoporphyrin
IX. This step is essentiasl for the biosynthesis of both
chlorophyll and bacteriochlorophyll. This model
encompasses two closely related clades, from
cyanobacteria (and plants) where it is called ChlM and
other photosynthetic bacteria where it is known as BchM
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Chlorophyll and bacteriochlorphyll].
Length = 219
Score = 34.0 bits (78), Expect = 0.015
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 5/60 (8%)
Query: 63 VQHAEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGS-VVGVEHIPEIVNHASN 121
++L+ L + G +VLD G G+G L+ A K G+ V V+ ++V A N
Sbjct: 40 AMRRKLLDWLPKDPLKGKRVLDAGCGTGLLSIELA----KRGAIVKAVDISEQMVQMARN 95
>gnl|CDD|225136 COG2226, UbiE, Methylase involved in ubiquinone/menaquinone
biosynthesis [Coenzyme metabolism].
Length = 238
Score = 33.4 bits (77), Expect = 0.020
Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 7/45 (15%)
Query: 73 KDKLV------PGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEH 111
+ L+ PG KVLDV G+G + A VG G VVG++
Sbjct: 40 RRALISLLGIKPGDKVLDVACGTGDMALLLAKSVG-TGEVVGLDI 83
>gnl|CDD|225443 COG2890, HemK, Methylase of polypeptide chain release factors
[Translation, ribosomal structure and biogenesis].
Length = 280
Score = 33.5 bits (77), Expect = 0.024
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 6/48 (12%)
Query: 63 VQHAEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVE 110
V+ A L L DK ++LD+G+GSG + A G + V+ V+
Sbjct: 100 VEAALALLLQLDK-----RILDLGTGSGAIAIALAKE-GPDAEVIAVD 141
>gnl|CDD|110227 pfam01209, Ubie_methyltran, ubiE/COQ5 methyltransferase family.
Length = 233
Score = 33.2 bits (76), Expect = 0.026
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 78 PGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVE 110
G K LDV G+G T + G +G VVG++
Sbjct: 47 RGNKFLDVAGGTGDWTFGLSDSAGSSGKVVGLD 79
>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 = 32.0 bits (73), Expect = 0.028
Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 5/58 (8%)
Query: 81 KVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHASNVTTLHYPKLNKRIKFIC 138
+VLD+G G+G L A G V GV+ P + A L ++ +
Sbjct: 1 RVLDLGCGTGALALALAS--GPGARVTGVDISPVALELARKA---AAALLADNVEVLK 53
>gnl|CDD|201699 pfam01269, Fibrillarin, Fibrillarin.
Length = 229
Score = 32.9 bits (76), Expect = 0.031
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 78 PGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIP 113
PG+KVL +G+ SG + + +VG G V VE P
Sbjct: 73 PGSKVLYLGAASGTTVSHVSDIVGPEGVVYAVEFSP 108
>gnl|CDD|232960 TIGR00406, prmA, ribosomal protein L11 methyltransferase.
Ribosomal protein L11 methyltransferase is an
S-adenosyl-L-methionine-dependent methyltransferase
required for the modification of ribosomal protein L11.
This protein is found in bacteria and (with a probable
transit peptide) in Arabidopsis [Protein synthesis,
Ribosomal proteins: synthesis and modification].
Length = 288
Score = 32.9 bits (75), Expect = 0.038
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 7/64 (10%)
Query: 69 LELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHASNVTTLHYP 128
LE L+D + V+DVG GSG L+ A +G VVG++ P V +
Sbjct: 150 LEWLEDLDLKDKNVIDVGCGSGILSIA-ALKLGAA-KVVGIDIDPLAVE-----SARKNA 202
Query: 129 KLNK 132
+LN+
Sbjct: 203 ELNQ 206
>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional.
Length = 293
Score = 32.8 bits (75), Expect = 0.038
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 78 PGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVE 110
PG+KVL +G+ SG + + +VG G V VE
Sbjct: 132 PGSKVLYLGAASGTTVSHVSDLVGPEGVVYAVE 164
>gnl|CDD|219269 pfam07021, MetW, Methionine biosynthesis protein MetW. This family
consists of several bacterial and one archaeal
methionine biosynthesis MetW proteins. Biosynthesis of
methionine from homoserine in Pseudomonas putida takes
place in three steps. The first step is the acylation of
homoserine to yield an acyl-L-homoserine. This reaction
is catalyzed by the products of the metXW genes and is
equivalent to the first step in enterobacteria,
gram-positive bacteria and fungi, except that in these
microorganisms the reaction is catalyzed by a single
polypeptide (the product of the metA gene in Escherichia
coli and the met5 gene product in Neurospora crassa). In
Pseudomonas putida, as in gram-positive bacteria and
certain fungi, the second and third steps are a direct
sulfhydrylation that converts the O-acyl-L-homoserine
into homocysteine and further methylation to yield
methionine. The latter reaction can be mediated by
either of the two methionine synthetases present in the
cells.
Length = 193
Score = 32.4 bits (74), Expect = 0.039
Identities = 11/40 (27%), Positives = 17/40 (42%), Gaps = 4/40 (10%)
Query: 65 HAEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNG 104
+ L+ PG++VLD+G G G L +G
Sbjct: 4 FRYIARLIP----PGSRVLDLGCGDGSLLYLLQEEKQVDG 39
>gnl|CDD|227135 COG4798, COG4798, Predicted methyltransferase [General function
prediction only].
Length = 238
Score = 32.5 bits (74), Expect = 0.040
Identities = 15/34 (44%), Positives = 18/34 (52%)
Query: 76 LVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGV 109
L PGA V+D+ G GY T F+ VG G V
Sbjct: 46 LKPGATVIDLIPGGGYFTRIFSPAVGPKGKVYAY 79
>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 = 32.4 bits (75), Expect = 0.048
Identities = 19/69 (27%), Positives = 26/69 (37%), Gaps = 13/69 (18%)
Query: 67 EVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIV---------N 117
LE LK +VLD+G+GSG + A + V V+ PE +
Sbjct: 79 AALERLKKG---PLRVLDLGTGSGAIALALAKER-PDARVTAVDISPEALAVARKNAARL 134
Query: 118 HASNVTTLH 126
NV L
Sbjct: 135 GLDNVEFLQ 143
>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 = 31.5 bits (72), Expect = 0.060
Identities = 19/50 (38%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 68 VLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVN 117
L L K +L PG + D+G+G+G +T A +V NG V +E PE ++
Sbjct: 9 ALTLSKLRLRPGDVLWDIGAGTGSVTIEAARLVP-NGRVYAIERNPEALD 57
>gnl|CDD|219759 pfam08241, Methyltransf_11, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 92
Score = 30.7 bits (70), Expect = 0.068
Identities = 17/56 (30%), Positives = 23/56 (41%), Gaps = 11/56 (19%)
Query: 83 LDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHASNVTTLHYPKLNKRIKFIC 138
LDVG G+G L A G V GV+ PE++ A + KF+
Sbjct: 1 LDVGCGTGLLAEALARRGGAR--VTGVDLSPEMLALA---------RKRAPRKFVV 45
>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 = 31.9 bits (73), Expect = 0.069
Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 9/39 (23%)
Query: 64 QHAEV--------LELLKDKLVP-GAKVLDVGSGSGYLT 93
+HA++ L LLK+K + A VLD+G G+GYLT
Sbjct: 11 RHAKIQREMAKRLLALLKEKGIFIPASVLDIGCGTGYLT 49
>gnl|CDD|234786 PRK00517, prmA, ribosomal protein L11 methyltransferase; Reviewed.
Length = 250
Score = 32.0 bits (74), Expect = 0.071
Identities = 14/24 (58%), Positives = 17/24 (70%)
Query: 69 LELLKDKLVPGAKVLDVGSGSGYL 92
LE L+ ++PG VLDVG GSG L
Sbjct: 110 LEALEKLVLPGKTVLDVGCGSGIL 133
>gnl|CDD|215900 pfam00398, RrnaAD, Ribosomal RNA adenine dimethylase.
Length = 254
Score = 31.9 bits (73), Expect = 0.078
Identities = 19/77 (24%), Positives = 30/77 (38%), Gaps = 7/77 (9%)
Query: 55 YGS-IIDNPVQHAEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIP 113
YG + NP +++ L VL++G G G LTT A + VV +E P
Sbjct: 7 YGQNFLTNPKVINRIVDKAN--LQESDTVLEIGPGKGALTTELAKRAKQ---VVAIEIDP 61
Query: 114 EIVNHASNVTTLHYPKL 130
+ +P +
Sbjct: 62 RLAKRLQE-KLALHPNV 77
>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 = 0.086
Identities = 16/42 (38%), Positives = 20/42 (47%)
Query: 78 PGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHA 119
G KVLDV G+G L A G V GV+ E++ A
Sbjct: 39 KGQKVLDVACGTGDLAIELAKSAPDRGKVTGVDFSSEMLEVA 80
>gnl|CDD|223109 COG0030, KsgA, Dimethyladenosine transferase (rRNA methylation)
[Translation, ribosomal structure and biogenesis].
Length = 259
Score = 31.4 bits (72), Expect = 0.097
Identities = 18/77 (23%), Positives = 32/77 (41%), Gaps = 18/77 (23%)
Query: 57 SIIDNPVQHAEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVE------ 110
++ID V+ A + PG VL++G G G LT ++ + V +E
Sbjct: 17 NVIDKIVEAANIS--------PGDNVLEIGPGLGALT---EPLLERAARVTAIEIDRRLA 65
Query: 111 -HIPEIVNHASNVTTLH 126
+ E N+T ++
Sbjct: 66 EVLKERFAPYDNLTVIN 82
>gnl|CDD|218990 pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA).
This family consists of several Ribosomal protein L11
methyltransferase (EC:2.1.1.-) sequences.
Length = 294
Score = 31.5 bits (72), Expect = 0.11
Identities = 14/24 (58%), Positives = 16/24 (66%)
Query: 69 LELLKDKLVPGAKVLDVGSGSGYL 92
LE L+ + PG VLDVG GSG L
Sbjct: 151 LEALESLVKPGETVLDVGCGSGIL 174
>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 = 31.1 bits (71), Expect = 0.11
Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 10/82 (12%)
Query: 61 NPVQHAEVLELLKDKLVP--GAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNH 118
NP++ + + ++ P G +VLDVG G G L+ A + +V G++ E +
Sbjct: 26 NPLRLDYIRDTIRKNKKPLFGLRVLDVGCGGGLLSEPLARL---GANVTGIDASEENIEV 82
Query: 119 ASNVTTLHYPKLN-KRIKFICE 139
A LH K +I++ C
Sbjct: 83 A----KLHAKKDPLLKIEYRCT 100
>gnl|CDD|128898 smart00650, rADc, Ribosomal RNA adenine dimethylases.
Length = 169
Score = 30.6 bits (70), Expect = 0.14
Identities = 20/76 (26%), Positives = 32/76 (42%), Gaps = 18/76 (23%)
Query: 58 IIDNPVQHAEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVE------- 110
+ID V+ A + PG VL++G G G LT ++ + V +E
Sbjct: 1 VIDKIVRAANLR--------PGDTVLEIGPGKGALTE---ELLERAKRVTAIEIDPRLAP 49
Query: 111 HIPEIVNHASNVTTLH 126
+ E A N+T +H
Sbjct: 50 RLREKFAAADNLTVIH 65
>gnl|CDD|177877 PLN02233, PLN02233, ubiquinone biosynthesis methyltransferase.
Length = 261
Score = 30.6 bits (69), Expect = 0.18
Identities = 19/59 (32%), Positives = 31/59 (52%)
Query: 79 GAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHASNVTTLHYPKLNKRIKFI 137
G +VLD+ GSG L + VG +G V+G++ E + A++ L K I++I
Sbjct: 74 GDRVLDLCCGSGDLAFLLSEKVGSDGKVMGLDFSSEQLAVAASRQELKAKSCYKNIEWI 132
>gnl|CDD|183450 PRK12335, PRK12335, tellurite resistance protein TehB; Provisional.
Length = 287
Score = 30.7 bits (70), Expect = 0.20
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 6/33 (18%)
Query: 65 HAEVLELLKDKLVPGAKVLDVGSGSG----YLT 93
H+EVLE ++ V K LD+G G G YL
Sbjct: 109 HSEVLEAVQ--TVKPGKALDLGCGQGRNSLYLA 139
>gnl|CDD|225151 COG2242, CobL, Precorrin-6B methylase 2 [Coenzyme metabolism].
Length = 187
Score = 29.9 bits (68), Expect = 0.31
Identities = 12/41 (29%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 78 PGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNH 118
PG ++ D+G+G+G + T + G +G V+ +E E +
Sbjct: 34 PGDRLWDIGAGTGSI-TIEWALAGPSGRVIAIERDEEALEL 73
>gnl|CDD|183987 PRK13343, PRK13343, F0F1 ATP synthase subunit alpha; Provisional.
Length = 502
Score = 30.3 bits (69), Expect = 0.34
Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 5/32 (15%)
Query: 9 VPTDYIVEIDSIKSP-----RVIDAMIHIDRG 35
P I+E D + P +V+DA+I I RG
Sbjct: 131 RPAPAIIERDFVTEPLQTGIKVVDALIPIGRG 162
>gnl|CDD|222313 pfam13679, Methyltransf_32, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 143
Score = 29.5 bits (67), Expect = 0.36
Identities = 20/83 (24%), Positives = 34/83 (40%), Gaps = 19/83 (22%)
Query: 63 VQH-AEVLELLKDKLV---PGAKVLDVGSGSGYLTTCFA-----HMVGKNGSVVGVEHIP 113
V+ AE +E L +++ V+D G+G GYL F VVG++
Sbjct: 6 VERLAEFVEPLIKEVLDKTGCITVVDHGAGKGYLG--FILYYLLFKRKYGVRVVGIDARA 63
Query: 114 EIVNHASNVTTLHYPKLNKRIKF 136
E+V A+ +++ F
Sbjct: 64 ELVEKAN--------ARAQKLGF 78
>gnl|CDD|184931 PRK14967, PRK14967, putative methyltransferase; Provisional.
Length = 223
Score = 29.6 bits (67), Expect = 0.44
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 66 AEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHM 99
A+ L + L PG +VLD+ +GSG L A
Sbjct: 26 ADALA--AEGLGPGRRVLDLCTGSGALAVAAAAA 57
>gnl|CDD|219979 pfam08704, GCD14, tRNA methyltransferase complex GCD14 subunit.
GCD14 is a subunit of the tRNA methyltransferase complex
and is required for 1-methyladenosine modification and
maturation of initiator methionyl-tRNA.
Length = 309
Score = 29.4 bits (66), Expect = 0.65
Identities = 13/35 (37%), Positives = 18/35 (51%)
Query: 76 LVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVE 110
L PG+ V + G+GSG L+ A V G + E
Sbjct: 100 LKPGSVVCESGTGSGSLSHAIARTVAPTGHLYTFE 134
>gnl|CDD|226608 COG4123, COG4123, Predicted O-methyltransferase [General function
prediction only].
Length = 248
Score = 29.1 bits (66), Expect = 0.69
Identities = 16/61 (26%), Positives = 28/61 (45%), Gaps = 9/61 (14%)
Query: 81 KVLDVGSGSGYLTTCFAHMVGKNGS---VVGVEHIPEIVNHASNVTTLHYPKLNKRIKFI 137
++LD+G+G+G L ++ + +VGVE E A + L +RI+ I
Sbjct: 47 RILDLGAGNGAL----GLLLAQRTEKAKIVGVEIQEEAAEMAQR--NVALNPLEERIQVI 100
Query: 138 C 138
Sbjct: 101 E 101
>gnl|CDD|177970 PLN02336, PLN02336, phosphoethanolamine N-methyltransferase.
Length = 475
Score = 28.9 bits (65), Expect = 0.77
Identities = 19/39 (48%), Positives = 22/39 (56%), Gaps = 5/39 (12%)
Query: 73 KDKLVPGAKVLDVGSGSG----YLTTCF-AHMVGKNGSV 106
K L PG KVLDVG G G Y+ F H+VG + SV
Sbjct: 261 KLDLKPGQKVLDVGCGIGGGDFYMAENFDVHVVGIDLSV 299
>gnl|CDD|183040 PRK11207, PRK11207, tellurite resistance protein TehB;
Provisional.
Length = 197
Score = 28.9 bits (65), Expect = 0.78
Identities = 13/26 (50%), Positives = 18/26 (69%), Gaps = 2/26 (7%)
Query: 65 HAEVLELLKDKLVPGAKVLDVGSGSG 90
H+EVLE +K +V K LD+G G+G
Sbjct: 19 HSEVLEAVK--VVKPGKTLDLGCGNG 42
>gnl|CDD|233713 TIGR02081, metW, methionine biosynthesis protein MetW. This
protein is found alongside MetX, of the enzyme that
acylates homoserine as a first step toward methionine
biosynthesis, in many species. It appears to act in
methionine biosynthesis but is not fully characterized
[Amino acid biosynthesis, Aspartate family].
Length = 194
Score = 28.5 bits (64), Expect = 0.86
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 69 LELLKDKLVPGAKVLDVGSGSGYL 92
LE + + + PG++VLD+G G G L
Sbjct: 4 LESILNLIPPGSRVLDLGCGDGEL 27
>gnl|CDD|233415 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 = 144
Score = 28.5 bits (64), Expect = 0.87
Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 10/55 (18%)
Query: 82 VLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIV---------NHASNVTTLHY 127
V+DVG+ G + FA + G V+ E +P+ N+ NV L+
Sbjct: 2 VIDVGANIGDFSLYFARKGAE-GRVIAFEPLPDAYEILEENVKLNNLPNVVLLNA 55
>gnl|CDD|232976 TIGR00438, rrmJ, cell division protein FtsJ. Methylates the 23S
rRNA. Previously known as cell division protein ftsJ.//
Trusted cutoff too high? [SS 10/1/04] [Protein
synthesis, tRNA and rRNA base modification].
Length = 188
Score = 28.2 bits (63), Expect = 1.1
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 73 KDKLV-PGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIP--EIVN 117
K KL+ PG VLD+G+ G + VG G V+ V+ P I N
Sbjct: 26 KFKLIKPGDTVLDLGAAPGGWSQVAVEQVGGKGRVIAVDLQPMKPIEN 73
>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 = 28.2 bits (63), Expect = 1.1
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 79 GAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVE 110
G LDV G+ + A VG G V+G++
Sbjct: 46 GTSALDVCCGTADWSIALAEAVGPEGHVIGLD 77
>gnl|CDD|202783 pfam03848, TehB, Tellurite resistance protein TehB.
Length = 192
Score = 28.3 bits (63), Expect = 1.3
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 65 HAEVLELLKDKLVPGAKVLDVGSGSG 90
H+EVLE +K V K LD+G G G
Sbjct: 19 HSEVLEAVK--TVKPGKALDLGCGQG 42
>gnl|CDD|149273 pfam08123, DOT1, Histone methylation protein DOT1. The DOT1 domain
regulates gene expression by methylating histone H3. H3
methylation by DOT1 has been shown to be required for
the DNA damage checkpoint in yeast.
Length = 205
Score = 28.0 bits (63), Expect = 1.3
Identities = 26/81 (32%), Positives = 37/81 (45%), Gaps = 9/81 (11%)
Query: 55 YGSIIDNPVQHAEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPE 114
YG + P ++VL+ K L P +D+GSG G A G S G E
Sbjct: 23 YGEL--LPEFLSDVLD--KCNLGPQDVFVDLGSGVGNCVLQAALEFGCKLSF-GCE---- 73
Query: 115 IVNHASNVTTLHYPKLNKRIK 135
I+++ASN+ L + KR K
Sbjct: 74 IMDNASNLAELQDEEFKKRCK 94
>gnl|CDD|223574 COG0500, SmtA, SAM-dependent methyltransferases [Secondary
metabolites biosynthesis, transport, and catabolism /
General function prediction only].
Length = 257
Score = 28.3 bits (60), Expect = 1.4
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 1/80 (1%)
Query: 40 HNDSRKYMLAARDIGYGSIIDNPVQHAEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHM 99
Y A + ++ + ++ L L G VLD+G G+G L A +
Sbjct: 10 SRILELYDRLAELLDAFLLLAEELLDLLLVLRLLRLLPGGLGVLDIGCGTGRL-ALLARL 68
Query: 100 VGKNGSVVGVEHIPEIVNHA 119
G+ VVGV+ PE++ A
Sbjct: 69 GGRGAYVVGVDLSPEMLALA 88
>gnl|CDD|236467 PRK09328, PRK09328, N5-glutamine S-adenosyl-L-methionine-dependent
methyltransferase; Provisional.
Length = 275
Score = 28.2 bits (64), Expect = 1.5
Identities = 11/24 (45%), Positives = 14/24 (58%), Gaps = 2/24 (8%)
Query: 67 EVLELLKDKLVPGAKVLDVGSGSG 90
LE L K +VLD+G+GSG
Sbjct: 99 WALEALLLK--EPLRVLDLGTGSG 120
>gnl|CDD|235350 PRK05134, PRK05134, bifunctional 3-demethylubiquinone-9
3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol
methylase; Provisional.
Length = 233
Score = 27.8 bits (63), Expect = 1.6
Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 9/51 (17%)
Query: 61 NPVQHAEVLELLKDKLVP--GAKVLDVGSGSGYLTTCFAHMVGKNGSVVGV 109
NP++ L +++ G +VLDVG G G L+ A + V G+
Sbjct: 33 NPLR----LNYIREHAGGLFGKRVLDVGCGGGILSESMARL---GADVTGI 76
>gnl|CDD|225139 COG2230, Cfa, Cyclopropane fatty acid synthase and related
methyltransferases [Cell envelope biogenesis, outer
membrane].
Length = 283
Score = 27.6 bits (62), Expect = 1.9
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 6/44 (13%)
Query: 67 EVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGK-NGSVVGV 109
+LE L L PG +LD+G G G L + + +VVGV
Sbjct: 63 LILEKLG--LKPGMTLLDIGCGWGGLA---IYAAEEYGVTVVGV 101
>gnl|CDD|237858 PRK14904, PRK14904, 16S rRNA methyltransferase B; Provisional.
Length = 445
Score = 27.7 bits (62), Expect = 2.3
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 7/64 (10%)
Query: 61 NPVQHAEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPE----IV 116
NP Q L LL PG+ VLD+ + G +T A ++ G + V+ P+ I
Sbjct: 236 NPTQALACL-LLNP--QPGSTVLDLCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIR 292
Query: 117 NHAS 120
+HAS
Sbjct: 293 SHAS 296
>gnl|CDD|236841 PRK11088, rrmA, 23S rRNA methyltransferase A; Provisional.
Length = 272
Score = 27.6 bits (62), Expect = 2.5
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 9/61 (14%)
Query: 42 DSRKYMLAAR---DIGYGSIIDNPVQHAEVLELLKDKLVPGAK-VLDVGSGSGYLTTCFA 97
D+++ M A R D G+ P++ A V LL ++L A +LD+G G GY T A
Sbjct: 50 DNKEMMQARRAFLDAGHY----QPLRDA-VANLLAERLDEKATALLDIGCGEGYYTHALA 104
Query: 98 H 98
Sbjct: 105 D 105
>gnl|CDD|178018 PLN02396, PLN02396, hexaprenyldihydroxybenzoate methyltransferase.
Length = 322
Score = 27.4 bits (60), Expect = 2.8
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 79 GAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHA 119
G K +D+G G G L+ A M +V GV+ + + V A
Sbjct: 132 GLKFIDIGCGGGLLSEPLARM---GATVTGVDAVDKNVKIA 169
>gnl|CDD|225137 COG2227, UbiG,
2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol
methylase [Coenzyme metabolism].
Length = 243
Score = 26.9 bits (60), Expect = 3.1
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 61 NPVQHAEVLELLKDKL-VPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGV 109
NP++ + E+ + + +PG +VLDVG G G L+ A + G + V G+
Sbjct: 41 NPLRLDYIREVARLRFDLPGLRVLDVGCGGGILSEPLARL-GAS--VTGI 87
>gnl|CDD|237291 PRK13168, rumA, 23S rRNA m(5)U1939 methyltransferase; Reviewed.
Length = 443
Score = 27.0 bits (61), Expect = 3.2
Identities = 24/70 (34%), Positives = 28/70 (40%), Gaps = 16/70 (22%)
Query: 63 VQHAEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIV------ 116
V A LE L PG +VLD+ G G T A VVGVE + +V
Sbjct: 286 VARA--LEWLD--PQPGDRVLDLFCGLGNFTLPLARQAA---EVVGVEGVEAMVERAREN 338
Query: 117 ---NHASNVT 123
N NVT
Sbjct: 339 ARRNGLDNVT 348
>gnl|CDD|234496 TIGR04198, paramyx_RNAcap, mRNA capping enzyme, paramyxovirus
family. This model represents a common C-terminal
region shared by paramyxovirus-like RNA-dependent RNA
polymerases (see model pfam00946). Polymerase proteins
described by these two models are often called L protein
(large polymerase protein). Capping of mRNA requires RNA
triphosphatase and guanylyl transferase activities,
demonstrated for the rinderpest virus L protein and at
least partially localized to the region of this model.
Length = 893
Score = 27.5 bits (61), Expect = 3.3
Identities = 10/36 (27%), Positives = 16/36 (44%)
Query: 66 AEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVG 101
+L LLK + L +G GSG + + +V
Sbjct: 516 RSILSLLKKLKILYGDCLFLGEGSGGMLSLLERLVP 551
>gnl|CDD|201880 pfam01596, Methyltransf_3, O-methyltransferase. Members of this
family are O-methyltransferases. The family includes
catechol o-methyltransferase, caffeoyl-CoA
O-methyltransferase and a family of bacterial
O-methyltransferases that may be involved in antibiotic
production.
Length = 204
Score = 26.9 bits (60), Expect = 3.3
Identities = 13/60 (21%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 55 YGSIIDNPVQHAEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPE 114
S + + + L +L KL+ + L++G +GY A + ++G + + PE
Sbjct: 22 PLSPMQISPEEGQFLSMLL-KLIGAKRTLEIGVFTGYSLLATALALPEDGKITACDIDPE 80
>gnl|CDD|149213 pfam08003, Methyltransf_9, Protein of unknown function (DUF1698).
This family contains many hypothetical proteins. It also
includes two putative methyltransferase proteins.
Length = 315
Score = 27.0 bits (60), Expect = 3.9
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 15/43 (34%)
Query: 72 LKDKLVPGAKVLDVGSGSGYLTTCFAH---MVGKNG-SVVGVE 110
LK + + LDVG G+GY H M+G+ VVG++
Sbjct: 114 LKGRTI-----LDVGCGNGY------HMWRMLGEGAALVVGID 145
>gnl|CDD|129627 TIGR00536, hemK_fam, HemK family putative methylases. 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. Both
E. coli and H. influenzae have two members rather than
one. The members from the Mycoplasmas have an additional
C-terminal domain [Protein fate, Protein modification
and repair].
Length = 284
Score = 26.6 bits (59), Expect = 4.7
Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 81 KVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHASNVTTLHYPKLNKRIKFI 137
+LD+G+GSG + A+ N V+ V+ P+ + A + +L R++FI
Sbjct: 117 HILDLGTGSGCIALALAYEF-PNAEVIAVDISPDALAVAEENAEKN--QLEHRVEFI 170
>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 = 26.4 bits (59), Expect = 5.1
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 77 VPGAKVLDVGSGSGYL 92
G KVLD+G G G L
Sbjct: 30 PLGGKVLDLGCGYGVL 45
>gnl|CDD|183025 PRK11188, rrmJ, 23S rRNA methyltransferase J; Provisional.
Length = 209
Score = 26.2 bits (58), Expect = 5.3
Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 73 KDKLV-PGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIP 113
DKL PG V+D+G+ G + +G G V+ + +P
Sbjct: 45 SDKLFKPGMTVVDLGAAPGGWSQYAVTQIGDKGRVIACDILP 86
>gnl|CDD|225370 COG2813, RsmC, 16S RNA G1207 methylase RsmC [Translation, ribosomal
structure and biogenesis].
Length = 300
Score = 26.5 bits (59), Expect = 6.1
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 78 PGAKVLDVGSGSGYL 92
G KVLD+G G G L
Sbjct: 158 LGGKVLDLGCGYGVL 172
>gnl|CDD|180694 PRK06789, PRK06789, flagellar motor switch protein; Validated.
Length = 74
Score = 25.2 bits (55), Expect = 6.4
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 7/68 (10%)
Query: 9 VPTDYIVEIDSIKSPRVIDAMIHIDRGHFCAHNDSRK----YMLAARDIGYGSII-DNPV 63
+P EI + K I+ ++HI +G +S K ML +IG G I+ N
Sbjct: 7 IPLTIYFEIGNTKKK--IEDLLHITKGTLYRLENSTKNTVRLMLENEEIGTGKILTKNGK 64
Query: 64 QHAEVLEL 71
+ E++EL
Sbjct: 65 MYVEIVEL 72
>gnl|CDD|132164 TIGR03120, one_C_mch, methenyltetrahydromethanopterin
cyclohydrolase. Members of this protein family are the
enzyme methenyltetrahydromethanopterin cyclohydrolase,
a key enzyme for tetrahydromethanopterin (H4MPT)-linked
C1 transfer metabolism [Central intermediary
metabolism, One-carbon metabolism].
Length = 312
Score = 26.1 bits (58), Expect = 6.5
Identities = 11/29 (37%), Positives = 19/29 (65%)
Query: 58 IIDNPVQHAEVLELLKDKLVPGAKVLDVG 86
I+++ +++AE L + KL GA V+D G
Sbjct: 9 IVESMIRNAEKLRVEVAKLENGATVIDCG 37
>gnl|CDD|216988 pfam02353, CMAS, Mycolic acid cyclopropane synthetase. This family
consist of Cyclopropane-fatty-acyl-phospholipid synthase
or CFA synthase EC:2.1.1.79 this enzyme catalyze the
reaction: S-adenosyl-L-methionine + phospholipid
olefinic fatty acid <=> S-adenosyl-L-homocysteine +
phospholipid cyclopropane fatty acid.
Length = 273
Score = 26.1 bits (58), Expect = 6.7
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 8/55 (14%)
Query: 60 DNPVQHAEV--LELLKDK--LVPGAKVLDVGSGSGYLTTCFAHMVGKNG-SVVGV 109
D ++ A+ L+L+ DK L PG +LD+G G G L + +VVG+
Sbjct: 40 DMTLEEAQQAKLDLILDKLGLKPGMTLLDIGCGWGGLMR---RAAERYDVNVVGL 91
>gnl|CDD|216169 pfam00881, Nitroreductase, Nitroreductase family. The
nitroreductase family comprises a group of FMN- or
FAD-dependent and NAD(P)H-dependent enzymes able to
metabolize nitrosubstituted compounds.
Length = 163
Score = 25.8 bits (57), Expect = 6.8
Identities = 19/53 (35%), Positives = 22/53 (41%), Gaps = 6/53 (11%)
Query: 21 KSPRVIDAMIHIDRGHFCAHNDSRKYMLAARDIGYGS-IIDNPVQHAEVLELL 72
KS +D G A N +LAA +G GS I AEV ELL
Sbjct: 100 KSGEKAYRYALLDAGLA-AQN----LLLAATALGLGSCWIGGFDAAAEVRELL 147
>gnl|CDD|180548 PRK06380, PRK06380, metal-dependent hydrolase; Provisional.
Length = 418
Score = 26.4 bits (58), Expect = 7.2
Identities = 20/75 (26%), Positives = 30/75 (40%), Gaps = 21/75 (28%)
Query: 62 PVQHAEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVV-------------G 108
PV+H E + L KL+ V + T ++ KNG V G
Sbjct: 224 PVEHLEKIGFLNSKLIAAHCV--------WATYHEIKLLSKNGVKVSWNSVSNFKLGTGG 275
Query: 109 VEHIPEIVNHASNVT 123
IPE++++ NVT
Sbjct: 276 SPPIPEMLDNGINVT 290
>gnl|CDD|132282 TIGR03238, dnd_assoc_3, DNA phosphorothioation-dependent
restriction protein DptF. A DNA sulfur modification
(phosphorothioation) system, dnd (degradation during
electrophoresis), is sparsely and sporadically
distributed among the bacteria. This protein is one
member of a three-gene restriction enzyme cassette that
depends on DNA phosphorothioation [DNA metabolism,
Restriction/modification].
Length = 504
Score = 26.4 bits (58), Expect = 7.2
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 102 KNGSVVGVEHIPEIVNHASNVTTLHYPKLNK 132
KN V E + +I A + LH+P ++
Sbjct: 457 KNTVVKLTEFVEKITKFAEKKSELHFPNDSR 487
>gnl|CDD|223931 COG0863, COG0863, DNA modification methylase [DNA replication,
recombination, and repair].
Length = 302
Score = 26.1 bits (57), Expect = 7.7
Identities = 21/53 (39%), Positives = 26/53 (49%), Gaps = 7/53 (13%)
Query: 71 LLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGS--VVGVEHIPEIVNHASN 121
L++D PG VLD +GSG TT A KN +G+E PE V A
Sbjct: 215 LIRDYSFPGDIVLDPFAGSG--TTGIA---AKNLGRRFIGIEINPEYVEVALK 262
>gnl|CDD|235607 PRK05785, PRK05785, hypothetical protein; Provisional.
Length = 226
Score = 25.8 bits (57), Expect = 8.6
Identities = 11/39 (28%), Positives = 19/39 (48%), Gaps = 2/39 (5%)
Query: 81 KVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHA 119
KVLDV +G G L+ F + VV +++ ++
Sbjct: 54 KVLDVAAGKGELSYHFKKVFKY--YVVALDYAENMLKMN 90
>gnl|CDD|216666 pfam01728, FtsJ, FtsJ-like methyltransferase. This family consists
of FtsJ from various bacterial and archaeal sources FtsJ
is a methyltransferase, but actually has no effect on
cell division. FtsJ's substrate is the 23S rRNA. The 1.5
A crystal structure of FtsJ in complex with its cofactor
S-adenosylmethionine revealed that FtsJ has a
methyltransferase fold. This family also includes the N
terminus of flaviviral NS5 protein. It has been
hypothesised that the N-terminal domain of NS5 is a
methyltransferase involved in viral RNA capping.
Length = 177
Score = 25.6 bits (57), Expect = 8.6
Identities = 14/44 (31%), Positives = 18/44 (40%), Gaps = 1/44 (2%)
Query: 66 AEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGV 109
E+ E K G VLD+G+ G + G G VV V
Sbjct: 10 LEIDERFGLKPGKGKTVLDLGAAPGGFSQVLLER-GGAGKVVAV 52
>gnl|CDD|222287 pfam13649, Methyltransf_25, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 97
Score = 25.0 bits (55), Expect = 8.6
Identities = 15/57 (26%), Positives = 24/57 (42%), Gaps = 6/57 (10%)
Query: 82 VLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHASNVTTLHYPKLNKRIKFIC 138
+LD+G G+G + A SV GV+ E + A PK ++F+
Sbjct: 1 ILDLGCGTGRVLRALARAGPS--SVTGVDISKEALELAKERLRDKGPK----VRFVV 51
>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 [Protein synthesis, tRNA and rRNA base
modification].
Length = 431
Score = 25.9 bits (57), Expect = 9.4
Identities = 20/59 (33%), Positives = 24/59 (40%), Gaps = 5/59 (8%)
Query: 61 NPVQHAEVLELLKDKLVPGAKVLDVGSGSGYLTTCFAHMVGKNGSVVGVEHIPEIVNHA 119
N LE L+ L V+D G G T A SVVG+E +PE V A
Sbjct: 277 NEKLVDRALEALE--LQGEELVVDAYCGVGTFTLPLAKQAK---SVVGIEVVPESVEKA 330
>gnl|CDD|107294 cd06299, PBP1_LacI_like_13, Ligand-binding domain of DNA-binding
regulatory protein from Corynebacterium glutamicum
which has a unique ability to produce significant
amounts of L-glutamate directly from cheap sugar and
ammonia. This group includes the ligand-binding domain
of DNA-binding regulatory protein from Corynebacterium
glutamicum which has a unique ability to produce
significant amounts of L-glutamate directly from cheap
sugar and ammonia. This regulatory protein is a member
of the LacI-GalR family of bacterial transcription
repressors. The LacI-GalR family repressors are
composed of two functional domains: an N-terminal HTH
(helix-turn-helix) domain, which is responsible for the
DNA-binding specificity, and a C-terminal
ligand-binding domain, which is homologous to the
sugar-binding domain of ABC-type transport systems that
contain the type I periplasmic binding protein-like
fold. As also observed in the periplasmic binding
proteins, the C-terminal domain of the bacterial
transcription repressor undergoes a conformational
change upon ligand binding which in turn changes the
DNA binding affinity of the repressor.
Length = 265
Score = 25.8 bits (57), Expect = 9.6
Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 4/49 (8%)
Query: 49 AARDIGYGSII----DNPVQHAEVLELLKDKLVPGAKVLDVGSGSGYLT 93
AA GY +II +NP L+ L + V G V+ + L
Sbjct: 24 AASAAGYSTIIGNSDENPETENRYLDNLLSQRVDGIIVVPHEQSAEQLE 72
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
0.323 0.140 0.423
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: 7,236,984
Number of extensions: 649402
Number of successful extensions: 771
Number of sequences better than 10.0: 1
Number of HSP's gapped: 757
Number of HSP's successfully gapped: 107
Length of query: 140
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 53
Effective length of database: 7,078,804
Effective search space: 375176612
Effective search space used: 375176612
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (24.4 bits)