RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17460
(216 letters)
>gnl|CDD|225172 COG2263, COG2263, Predicted RNA methylase [Translation, ribosomal
structure and biogenesis].
Length = 198
Score = 184 bits (469), Expect = 3e-59
Identities = 83/205 (40%), Positives = 113/205 (55%), Gaps = 12/205 (5%)
Query: 4 KHIEQYLQQLTFNFSNPKVHLEQYHTPPHLAATILHTIQNNYNDIDGKTVLDLGCGSGIL 63
K +E L++L F NPK+ LEQY TP LAA IL D++GKTVLDLG G+GIL
Sbjct: 2 KELEILLEKLK-GFPNPKLGLEQYRTPAPLAAYILWVAYLR-GDLEGKTVLDLGAGTGIL 59
Query: 64 TFGSILLGADFCFALECDKEILDIFIDNKNEFEITNCDAILFEINEKSLDSSVFKQKVDT 123
G+ LLGA A++ D E L+I N E + F + D S F+ K DT
Sbjct: 60 AIGAALLGASRVLAVDIDPEALEIARANAEELL----GDVEFVVA----DVSDFRGKFDT 111
Query: 124 VIMNPPFGTRNCGIDLAFVQYAADISKVVYSLHKTSTRESILKKIQAFKNVEQVDVIAEM 183
VIMNPPFG++ D F+ A +IS VVYS+HK +R+ + K V I
Sbjct: 112 VIMNPPFGSQRRHADRPFLLKALEISDVVYSIHKAGSRDFVEKFAAD--LGGTVTHIERA 169
Query: 184 KYDLNQSYKFHKKSLHDIEVDLLRI 208
++ + ++Y FH+K + IEVD+ R
Sbjct: 170 RFPIPRTYPFHRKRVRRIEVDIFRF 194
>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 = 51.9 bits (125), Expect = 5e-08
Identities = 26/78 (33%), Positives = 39/78 (50%), Gaps = 7/78 (8%)
Query: 50 GKTVLDLGCGSGILTFGSILLGADFCFALECDKEILDIFIDNKNEFEITNCDAILFEINE 109
G+TVLD+GCGSGIL ++ LGA ++ D + +N E+ +A L E
Sbjct: 161 GETVLDVGCGSGILAIAALKLGAKKVVGVDIDPVAVRAAKEN---AELNGVEAQL----E 213
Query: 110 KSLDSSVFKQKVDTVIMN 127
L + + K D V+ N
Sbjct: 214 VYLPGDLPEGKADVVVAN 231
>gnl|CDD|188022 TIGR00095, TIGR00095, RNA methyltransferase, RsmD family. This
model represents a family of uncharacterized bacterial
proteins. Members are present in nearly every complete
bacterial genome, always in a single copy. PSI-BLAST
analysis shows homology to several families of
SAM-dependent methyltransferases, including ribosomal
RNA adenine dimethylases [Protein synthesis, tRNA and
rRNA base modification].
Length = 190
Score = 47.4 bits (113), Expect = 7e-07
Identities = 23/89 (25%), Positives = 39/89 (43%), Gaps = 1/89 (1%)
Query: 47 DIDGKTVLDLGCGSGILTFGSILLGADFCFALECDKEILDIFIDNKNEFEITNCDAILFE 106
DI G LDL GSG L ++ GA +E D+++ +N + + + A +
Sbjct: 48 DIVGAHFLDLFAGSGALGLEALSRGAASAVFVEQDRKVAQTLKENLSTLKKSGEQATVLN 107
Query: 107 INEKSLDSSVFKQ-KVDTVIMNPPFGTRN 134
++L KQ D + ++PPF
Sbjct: 108 DAVRALLFLAKKQTPFDIIYLDPPFNRGL 136
>gnl|CDD|222295 pfam13659, Methyltransf_26, Methyltransferase domain. This family
contains methyltransferase domains.
Length = 117
Score = 45.5 bits (108), Expect = 1e-06
Identities = 24/91 (26%), Positives = 31/91 (34%), Gaps = 15/91 (16%)
Query: 50 GKTVLDLGCGSG-ILTFGSILLGADFCFALECDKEILDI------FIDNKNEFEITNCDA 102
G VLD G GSG L + +E D E + + DA
Sbjct: 1 GDRVLDPGAGSGAFLLAAARAGPDARVVGVELDPEAAALARRRLALAGLAPRVRVVVGDA 60
Query: 103 ILFEINEKSLDSSVFKQKVDTVIMNPPFGTR 133
E+ E S D V+ NPP+G R
Sbjct: 61 --RELLELPDGS------FDLVLGNPPYGPR 83
>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 = 45.1 bits (107), Expect = 2e-06
Identities = 16/79 (20%), Positives = 29/79 (36%), Gaps = 3/79 (3%)
Query: 52 TVLDLGCGSGILTFGSILLGADFCFALECDKEILDIFIDNKNEFEITNCDAILFEINEKS 111
VLDLGCG+G L ++ L++ N + + + E
Sbjct: 1 RVLDLGCGTGALALALASGPGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELP 60
Query: 112 LDSSVFKQKVDTVIMNPPF 130
++ + D +I +PP
Sbjct: 61 PEA---DESFDVIISDPPL 76
>gnl|CDD|237872 PRK14968, PRK14968, putative methyltransferase; Provisional.
Length = 188
Score = 45.7 bits (109), Expect = 3e-06
Identities = 25/90 (27%), Positives = 36/90 (40%), Gaps = 16/90 (17%)
Query: 47 DIDGKTVLDLGCGSGILTFGSILLGADFC------FALECDKEILDIFIDNKNEFEITNC 100
D G VL++G GSGI+ + G +A+EC K + N E+
Sbjct: 21 DKKGDRVLEVGTGSGIVAIVAAKNGKKVVGVDINPYAVECAKCNAKLNNIRNNGVEVIRS 80
Query: 101 DAILFEINEKSLDSSVFKQKVDTVIMNPPF 130
D LFE K D ++ NPP+
Sbjct: 81 D--LFE--------PFRGDKFDVILFNPPY 100
>gnl|CDD|202698 pfam03602, Cons_hypoth95, Conserved hypothetical protein 95.
Length = 183
Score = 45.7 bits (109), Expect = 3e-06
Identities = 26/100 (26%), Positives = 41/100 (41%), Gaps = 1/100 (1%)
Query: 44 NYNDIDGKTVLDLGCGSGILTFGSILLGADFCFALECDKEILDIFIDNKNEFEITNCDAI 103
Y +I G VLDL GSG L ++ GA +E DK+ + +N + A+
Sbjct: 38 PYFEIGGARVLDLFAGSGALGLEALSRGAASVVFVEKDKKAVATLKENLEALGLEGETAV 97
Query: 104 LFEINEKSLDSSVFKQKV-DTVIMNPPFGTRNCGIDLAFV 142
L ++L K D V ++PP+ L +
Sbjct: 98 LRNDAARALLRLAGKGPPFDLVFLDPPYAKGLIEEALELL 137
>gnl|CDD|234786 PRK00517, prmA, ribosomal protein L11 methyltransferase; Reviewed.
Length = 250
Score = 45.5 bits (109), Expect = 5e-06
Identities = 16/27 (59%), Positives = 19/27 (70%)
Query: 46 NDIDGKTVLDLGCGSGILTFGSILLGA 72
+ GKTVLD+GCGSGIL + LGA
Sbjct: 116 LVLPGKTVLDVGCGSGILAIAAAKLGA 142
>gnl|CDD|223813 COG0742, COG0742, N6-adenine-specific methylase [DNA replication,
recombination, and repair].
Length = 187
Score = 42.6 bits (101), Expect = 3e-05
Identities = 24/91 (26%), Positives = 40/91 (43%), Gaps = 12/91 (13%)
Query: 47 DIDGKTVLDLGCGSGILTFGSILLGADFCFALECDKEILDIFIDNK------NEFEITNC 100
+I+G VLDL GSG L ++ GA +E D++ + I +N E +
Sbjct: 41 EIEGARVLDLFAGSGALGLEALSRGAARVVFVEKDRKAVKILKENLKALGLEGEARVLRN 100
Query: 101 DAILFEINEKSLDSSVFKQKVDTVIMNPPFG 131
DA+ L ++ D V ++PP+
Sbjct: 101 DALRA------LKQLGTREPFDLVFLDPPYA 125
>gnl|CDD|225173 COG2264, PrmA, Ribosomal protein L11 methylase [Translation,
ribosomal structure and biogenesis].
Length = 300
Score = 43.4 bits (103), Expect = 3e-05
Identities = 17/32 (53%), Positives = 21/32 (65%)
Query: 50 GKTVLDLGCGSGILTFGSILLGADFCFALECD 81
GKTVLD+GCGSGIL + LGA ++ D
Sbjct: 163 GKTVLDVGCGSGILAIAAAKLGAKKVVGVDID 194
>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 = 42.1 bits (99), Expect = 9e-05
Identities = 21/81 (25%), Positives = 35/81 (43%), Gaps = 5/81 (6%)
Query: 47 DIDGKTVLDLGCGSGILTFGSILLGADFCFALECDKEILDIFIDNKNEFEITNCDAILFE 106
D+ K V+D+GCGSGIL+ ++ LGA ++ D ++ N E+ L
Sbjct: 157 DLKDKNVIDVGCGSGILSIAALKLGAAKVVGIDIDPLAVESARKN---AELNQVSDRLQV 213
Query: 107 INEKSLDSSVFKQKVDTVIMN 127
+ K D ++ N
Sbjct: 214 KLIYLEQPI--EGKADVIVAN 232
>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 = 40.0 bits (94), Expect = 3e-04
Identities = 16/37 (43%), Positives = 22/37 (59%)
Query: 37 ILHTIQNNYNDIDGKTVLDLGCGSGILTFGSILLGAD 73
I TI+ N + G VLD+GCG G+L+ LGA+
Sbjct: 33 IRDTIRKNKKPLFGLRVLDVGCGGGLLSEPLARLGAN 69
>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 = 39.5 bits (93), Expect = 4e-04
Identities = 41/152 (26%), Positives = 56/152 (36%), Gaps = 40/152 (26%)
Query: 46 NDIDGKTVLDLGCGSGILTFGSILLGA-------DFC----FALECDKEILDIFIDNKNE 94
+ GK VLDLGCG G+L L ALE + L N
Sbjct: 29 KPLGGK-VLDLGCGYGVL---GAALAKRSPDLEVTMVDINARALESARANL-----AANG 79
Query: 95 FEITNCDAILFEINEKSLDSSVFKQKVDTVIMNPPF---GTRNCGIDLAFVQYAADISK- 150
E E+ L S+V K D +I NPPF + + F+ AA K
Sbjct: 80 LENG-------EVFWSDLYSAVEPGKFDLIISNPPFHAGKATDYDVAQRFIAGAARHLKP 132
Query: 151 -----VVYSLHKTSTRESILKKIQAFKNVEQV 177
+V + H S+L++ F NVE +
Sbjct: 133 GGELWIVANRHLGY--PSLLEE--LFGNVEVL 160
>gnl|CDD|225370 COG2813, RsmC, 16S RNA G1207 methylase RsmC [Translation, ribosomal
structure and biogenesis].
Length = 300
Score = 37.6 bits (88), Expect = 0.003
Identities = 27/97 (27%), Positives = 36/97 (37%), Gaps = 25/97 (25%)
Query: 44 NYNDIDGKTVLDLGCGSGILTFGSILL------GADFC----FALECDKEILDIFIDNKN 93
G VLDLGCG G+L G +L A+E ++ L N
Sbjct: 153 TLPPDLGGKVLDLGCGYGVL--GLVLAKKSPQAKLTLVDVNARAVESARKNL---AANGV 207
Query: 94 EFEITNCDAILFEINEKSLDSSVFKQKVDTVIMNPPF 130
E + ++ N L V K D +I NPPF
Sbjct: 208 E------NTEVWASN---LYEPVEG-KFDLIISNPPF 234
>gnl|CDD|235350 PRK05134, PRK05134, bifunctional 3-demethylubiquinone-9
3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol
methylase; Provisional.
Length = 233
Score = 36.3 bits (85), Expect = 0.006
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 41 IQNNYNDIDGKTVLDLGCGSGIL 63
I+ + + GK VLD+GCG GIL
Sbjct: 40 IREHAGGLFGKRVLDVGCGGGIL 62
>gnl|CDD|222415 pfam13847, Methyltransf_31, Methyltransferase domain. This family
appears to be have methyltransferase activity.
Length = 151
Score = 34.7 bits (80), Expect = 0.013
Identities = 28/91 (30%), Positives = 37/91 (40%), Gaps = 19/91 (20%)
Query: 49 DGKTVLDLGCGSGILTF--------GSILLGADF-CFALECDKEILDIFIDNKNEFEITN 99
G VLDLGCG+G LTF G+ ++G D A+E KE + N
Sbjct: 3 SGIKVLDLGCGTGYLTFILAEKLGPGAEVVGIDISEEAIEKAKENAK-------KLGYEN 55
Query: 100 CDAILFEINEKSLDSSVFK-QKVDTVIMNPP 129
+ I +I E L + D VI N
Sbjct: 56 VEFIQGDIEE--LPQLQLEDNSFDVVISNEV 84
>gnl|CDD|225443 COG2890, HemK, Methylase of polypeptide chain release factors
[Translation, ribosomal structure and biogenesis].
Length = 280
Score = 35.0 bits (81), Expect = 0.020
Identities = 22/89 (24%), Positives = 38/89 (42%), Gaps = 19/89 (21%)
Query: 49 DGKTVLDLGCGSGILTFGSILLGADFC----FALECDKEILDIFIDNKNEFEITNCDAIL 104
K +LDLG GSG + +I L + A++ + L + +N E +L
Sbjct: 110 LDKRILDLGTGSGAI---AIALAKEGPDAEVIAVDISPDALALARENA---ERNGLVRVL 163
Query: 105 FEINEKSLDSSVF---KQKVDTVIMNPPF 130
+ S +F + K D ++ NPP+
Sbjct: 164 V------VQSDLFEPLRGKFDLIVSNPPY 186
>gnl|CDD|216342 pfam01170, UPF0020, Putative RNA methylase family UPF0020. This
domain is probably a methylase. It is associated with
the THUMP domain that also occurs with RNA modification
domains.
Length = 172
Score = 34.2 bits (79), Expect = 0.022
Identities = 26/106 (24%), Positives = 44/106 (41%), Gaps = 5/106 (4%)
Query: 30 PPHLAATILHTIQNNYNDIDGKTVLDLGCGSGILTFGSILLGAD--FCFALECDKEILDI 87
P L T+ + N G +LD CGSG + + L+GA+ + + D ++
Sbjct: 9 PAPLKPTLARAMVNLAGWKPGDPLLDPMCGSGTILIEAALMGANIAPLYGSDIDWRMVQG 68
Query: 88 FIDNKNEFEITNCDAILFEINEKSLDSSVFKQKVDTVIMNPPFGTR 133
N + D I F + + + VD ++ NPP+G R
Sbjct: 69 ARINAENAGVG--DKIEF-VQADAAKLPLLNGSVDAIVTNPPYGIR 111
>gnl|CDD|237852 PRK14896, ksgA, 16S ribosomal RNA methyltransferase KsgA/Dim1
family protein; Provisional.
Length = 258
Score = 34.1 bits (79), Expect = 0.033
Identities = 34/138 (24%), Positives = 52/138 (37%), Gaps = 39/138 (28%)
Query: 46 NDIDGKTVLDLGCGSGILTFGSILLGADFCFALECDK---EILDIFIDNKNEFEITNCDA 102
D DG VL++G G G LT + A +A+E D E L EI DA
Sbjct: 26 EDTDGDPVLEIGPGKGALTD-ELAKRAKKVYAIELDPRLAEFLRDDEIAAGNVEIIEGDA 84
Query: 103 ----------------------ILFEINEKSLDSSV------FKQKVDTVIMNPPFGTRN 134
I F++ + + +V F ++ ++ P GT+
Sbjct: 85 LKVDLPEFNKVVSNLPYQISSPITFKLLKHGFEPAVLMYQKEFAER----MVAKP-GTKE 139
Query: 135 CG-IDLAFVQYAADISKV 151
G + + VQY AD+ V
Sbjct: 140 YGRLSVM-VQYYADVEIV 156
>gnl|CDD|234080 TIGR02987, met_A_Alw26, type II restriction m6 adenine DNA
methyltransferase, Alw26I/Eco31I/Esp3I family. Members
of this family are the m6-adenine DNA methyltransferase
protein, or domain of a fusion protein that also carries
m5 cytosine methyltransferase activity, of type II
restriction systems of the Alw26I/Eco31I/Esp3I family. A
methyltransferase of this family is alway accompanied by
a type II restriction endonuclease from the
Alw26I/Eco31I/Esp3I family (TIGR02986) and by an
adenine-specific modification methyltransferase. Members
of this family are unusual in that regions of similarity
to homologs outside this family are circularly permuted
[DNA metabolism, Restriction/modification].
Length = 524
Score = 34.4 bits (79), Expect = 0.043
Identities = 26/119 (21%), Positives = 40/119 (33%), Gaps = 13/119 (10%)
Query: 26 QYHTPPHLAATILHTIQNNYNDID---GKTVLDLGCGSGILTFGSILLGADFCFALECDK 82
+ TPP +A ++ + N D ++D CG G L + + + E +
Sbjct: 5 TFFTPPDIAKAMVANLVNEIGKNDKSTKTKIIDPCCGDGRLIAALLKKNEEINYFKEVEL 64
Query: 83 EILDIFIDNKNEFEITNC-----DAILFEINEKSLDSS-----VFKQKVDTVIMNPPFG 131
I ID + IN SL + D VI NPP+G
Sbjct: 65 NIYFADIDKTLLKRAKKLLGEFALLEINVINFNSLSYVLLNIESYLDLFDIVITNPPYG 123
>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 = 33.2 bits (76), Expect = 0.056
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 5/32 (15%)
Query: 47 DIDGKTVLDLGCGSGILTF-----GSILLGAD 73
+ GK VLD GCG+G+L+ G+I+ D
Sbjct: 53 PLKGKRVLDAGCGTGLLSIELAKRGAIVKAVD 84
>gnl|CDD|216222 pfam00972, Flavi_NS5, Flavivirus RNA-directed RNA polymerase.
Flaviviruses produce a polyprotein from the ssRNA
genome. This protein is also known as NS5. This
RNA-directed RNA polymerase possesses a number of short
regions and motifs homologous to other RNA-directed RNA
polymerases.
Length = 649
Score = 33.6 bits (77), Expect = 0.061
Identities = 12/18 (66%), Positives = 13/18 (72%)
Query: 116 VFKQKVDTVIMNPPFGTR 133
VFK+KVDT PP GTR
Sbjct: 104 VFKEKVDTRAPEPPQGTR 121
>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 = 33.1 bits (76), Expect = 0.083
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 12/49 (24%)
Query: 31 PHLAATILHTIQNNYNDIDGKTVLDLGCGSGILTFGSILLGADFCFALE 79
PHL+ + G+T+LD+GCG+G + + GA ++
Sbjct: 109 PHLS------------PLKGRTILDVGCGNGYHMWRMLGEGAALVVGID 145
>gnl|CDD|184931 PRK14967, PRK14967, putative methyltransferase; Provisional.
Length = 223
Score = 32.7 bits (75), Expect = 0.084
Identities = 20/86 (23%), Positives = 35/86 (40%), Gaps = 16/86 (18%)
Query: 50 GKTVLDLGCGSGILTFGSILLGADFCFALE-CDKEILDIFIDNKNEFEITNCDAIL---- 104
G+ VLDL GSG L + GA A++ + + + +A+L
Sbjct: 37 GRRVLDLCTGSGALAVAAAAAGAGSVTAVDISRRAVRSARL-----------NALLAGVD 85
Query: 105 FEINEKSLDSSVFKQKVDTVIMNPPF 130
++ +V + D V+ NPP+
Sbjct: 86 VDVRRGDWARAVEFRPFDVVVSNPPY 111
>gnl|CDD|234740 PRK00377, cbiT, cobalt-precorrin-6Y C(15)-methyltransferase;
Provisional.
Length = 198
Score = 32.8 bits (75), Expect = 0.086
Identities = 23/74 (31%), Positives = 39/74 (52%), Gaps = 10/74 (13%)
Query: 48 IDGKTVLDLGCGSGILTF-GSILLG-ADFCFALECDKEILDIFIDNKNEFEITN------ 99
G +LD+GCG+G +T S+L+G +A++ D++ +++ N +F + N
Sbjct: 39 RKGDMILDIGCGTGSVTVEASLLVGETGKVYAVDKDEKAINLTRRNAEKFGVLNNIVLIK 98
Query: 100 --CDAILFEINEKS 111
ILF INEK
Sbjct: 99 GEAPEILFTINEKF 112
>gnl|CDD|236467 PRK09328, PRK09328, N5-glutamine S-adenosyl-L-methionine-dependent
methyltransferase; Provisional.
Length = 275
Score = 32.8 bits (76), Expect = 0.088
Identities = 20/103 (19%), Positives = 35/103 (33%), Gaps = 18/103 (17%)
Query: 32 HLAATILHTIQNNYNDIDGKTVLDLGCGSGILTFGSILLGADFC-----FALECDKEILD 86
L L + + VLDLG GSG + ++ L A A++ E L
Sbjct: 95 ELVEWALEALLLK----EPLRVLDLGTGSGAI---ALAL-AKERPDAEVTAVDISPEALA 146
Query: 87 IFIDNKNEFEITNCDAILFEINEKSLDSSVFKQKVDTVIMNPP 129
+ N + + + + + D ++ NPP
Sbjct: 147 VARRNAKHGLGARVEFL-----QGDWFEPLPGGRFDLIVSNPP 184
>gnl|CDD|237898 PRK15068, PRK15068, tRNA mo(5)U34 methyltransferase; Provisional.
Length = 322
Score = 32.9 bits (76), Expect = 0.098
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 46 NDIDGKTVLDLGCGSG 61
+ + G+TVLD+GCG+G
Sbjct: 119 SPLKGRTVLDVGCGNG 134
>gnl|CDD|215319 PLN02585, PLN02585, magnesium protoporphyrin IX methyltransferase.
Length = 315
Score = 32.5 bits (74), Expect = 0.12
Identities = 12/27 (44%), Positives = 14/27 (51%)
Query: 47 DIDGKTVLDLGCGSGILTFGSILLGAD 73
+ G TV D GCG+G L L GA
Sbjct: 142 SLAGVTVCDAGCGTGSLAIPLALEGAI 168
>gnl|CDD|226608 COG4123, COG4123, Predicted O-methyltransferase [General function
prediction only].
Length = 248
Score = 32.2 bits (74), Expect = 0.12
Identities = 20/91 (21%), Positives = 32/91 (35%), Gaps = 20/91 (21%)
Query: 50 GKTVLDLGCGSGILTFGSILLGADFCFA----LECDKEILDIFIDN------KNEFEITN 99
+LDLG G+G L +LL A +E +E ++ N + ++
Sbjct: 45 KGRILDLGAGNGAL---GLLLAQRTEKAKIVGVEIQEEAAEMAQRNVALNPLEERIQVIE 101
Query: 100 CDAILFEINEKSLDSSVFKQKVDTVIMNPPF 130
D F D +I NPP+
Sbjct: 102 ADIKEFLKALV-------FASFDLIICNPPY 125
>gnl|CDD|223348 COG0270, Dcm, Site-specific DNA methylase [DNA replication,
recombination, and repair].
Length = 328
Score = 32.4 bits (74), Expect = 0.13
Identities = 25/78 (32%), Positives = 35/78 (44%), Gaps = 6/78 (7%)
Query: 52 TVLDLGCGSGILTFGSILLGADFCFALECDKEILDIFIDNKNEFEITNCDAILFEINEKS 111
V+DL G G L+ G G + FA E D + + K F D IL +I E
Sbjct: 5 KVIDLFAGIGGLSLGFEEAGFEIVFANEIDPPAVATY---KANFPHG--DIILGDIKELD 59
Query: 112 LDSSVFKQKVDTVIMNPP 129
+ ++ K VD +I PP
Sbjct: 60 GE-ALRKSDVDVLIGGPP 76
>gnl|CDD|225137 COG2227, UbiG,
2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,
4-benzoquinol methylase [Coenzyme metabolism].
Length = 243
Score = 32.3 bits (74), Expect = 0.15
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 43 NNYNDIDGKTVLDLGCGSGILT 64
D+ G VLD+GCG GIL+
Sbjct: 53 RLRFDLPGLRVLDVGCGGGILS 74
>gnl|CDD|129544 TIGR00452, TIGR00452, tRNA (mo5U34)-methyltransferase. This model
describes a set of proteins with homology in its central
region to a large number of methyltransferases active on
a variety of substrates. The similarity includes a motif
resembling ILDVGCG[SG]G. Known examples to date are
restricted to the proteobacteria [Unknown function,
Enzymes of unknown specificity].
Length = 314
Score = 31.8 bits (72), Expect = 0.24
Identities = 38/168 (22%), Positives = 68/168 (40%), Gaps = 41/168 (24%)
Query: 44 NYNDIDGKTVLDLGCGSGILTFGSI------LLGADFCFALECDKEILDIFIDN------ 91
+ + + G+T+LD+GCGSG + + L+G D C E + +DN
Sbjct: 116 HLSPLKGRTILDVGCGSGYHMWRMLGHGAKSLVGIDPTVLFLCQFEAVRKLLDNDKRAIL 175
Query: 92 ----------KNEFEITNCDAILFEINEKS-LD--SSVFKQKV-------DTVIMNPPFG 131
F+ +L+ + KS L+ + Q V +T++++
Sbjct: 176 EPLGIEQLHELYAFDTVFSMGVLY--HRKSPLEHLKQLKHQLVIKGELVLETLVIDGDLN 233
Query: 132 TRNCGIDLAFVQYAADISKVVYSLHKTSTRESILKKIQAFKNVEQVDV 179
T D +YA K VY + S ++ L+K+ F+N +DV
Sbjct: 234 TVLVPKD----RYAK--MKNVYFIPSVSALKNWLEKV-GFENFRILDV 274
>gnl|CDD|217008 pfam02384, N6_Mtase, N-6 DNA Methylase. Restriction-modification
(R-M) systems protect a bacterial cell against invasion
of foreign DNA by endonucleolytic cleavage of DNA that
lacks a site specific modification. The R-M system is a
complex containing three polypeptides: M (this family),
S (pfam01420), and R. This family consists of N-6
adenine-specific DNA methylase EC:2.1.1.72 from Type I
and Type IC restriction systems. These methylases have
the same sequence specificity as their corresponding
restriction enzymes.
Length = 312
Score = 31.5 bits (72), Expect = 0.25
Identities = 30/123 (24%), Positives = 50/123 (40%), Gaps = 24/123 (19%)
Query: 26 QYHTPPHLAATILHTIQNNYNDIDGKTVLDLGCGSGILTFGSILLGADFCFALECDKEIL 85
+++TP ++ I+ + G+++ D CGSG L+ AD F D +
Sbjct: 27 EFYTPREVSKLIVELL----EPKPGESIYDPACGSG-----GFLIQAD-KFVKSHDGDTN 76
Query: 86 DIFI--DNKNE---------FEITNCDAILFEI-NEKSLDSSVFKQ--KVDTVIMNPPFG 131
DI I N + + F I + +L S F++ K D V+ NPPF
Sbjct: 77 DISIYGQELNPTTYRLARMNMILHGIEYNDFGIRHGDTLLSPKFEEDKKFDVVVANPPFN 136
Query: 132 TRN 134
+
Sbjct: 137 QKW 139
>gnl|CDD|221804 pfam12847, Methyltransf_18, Methyltransferase domain. Protein in
this family function as methyltransferases.
Length = 104
Score = 30.4 bits (69), Expect = 0.25
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 49 DGKTVLDLGCGSGILTF 65
G VLD+GCG+G L
Sbjct: 1 PGARVLDIGCGTGSLAI 17
>gnl|CDD|226562 COG4076, COG4076, Predicted RNA methylase [General function
prediction only].
Length = 252
Score = 31.4 bits (71), Expect = 0.30
Identities = 19/84 (22%), Positives = 35/84 (41%), Gaps = 9/84 (10%)
Query: 52 TVLDLGCGSGILTFGSILLGADFCFALECDKEILD-----IFIDNKNEFEITNCDAILFE 106
T DLG GSGIL+ + A+ A+E D + + + +E+ DA ++
Sbjct: 35 TFADLGAGSGILSVVAA-HAAERVIAIEKDPKRARLAEENLHVPGDVNWEVVVGDARDYD 93
Query: 107 INEKSLDSSVFKQKVDTVIMNPPF 130
+ V + +DT ++
Sbjct: 94 FENADV---VICEMLDTALIEEKQ 114
>gnl|CDD|226413 COG3897, COG3897, Predicted methyltransferase [General function
prediction only].
Length = 218
Score = 31.2 bits (71), Expect = 0.32
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 50 GKTVLDLGCGSGILTFGSILLGADF 74
GK VLDLG GSG++ + GA
Sbjct: 80 GKRVLDLGAGSGLVAIAAARAGAAE 104
>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 = 30.9 bits (70), Expect = 0.32
Identities = 38/174 (21%), Positives = 63/174 (36%), Gaps = 31/174 (17%)
Query: 34 AATILHTIQNNYNDI-DGKTVLDLGCGSGILTFGSILLGADFCFALECDKEILDIFIDNK 92
A+ L + + I G TVLDLG G + ++ + D + +
Sbjct: 16 ASFKLLQLNQKFKLIKPGDTVLDLGAAPGGWSQVAVEQVGGKGRVIAVDLQPMK------ 69
Query: 93 NEFEITNCDAI----LFEINEKSLDSSVFKQKVDTVI--MNPPF-GTRNC----GIDLAF 141
I N D I E + V KVD V+ P G + IDL
Sbjct: 70 ---PIENVDFIRGDFTDEEVLNKIRERVGDDKVDVVMSDAAPNISGYWDIDHLRSIDL-- 124
Query: 142 VQYAADISKVVYSLHKTSTRESILKKIQAFKNVEQVDVIAEMKYDLNQSYKFHK 195
V+ A DI+K V + + + ++ F+ E + + E++ + K K
Sbjct: 125 VELALDIAKEVL-----KPKGNFV--VKVFQGEEIDEYLNELRKLFEK-VKVTK 170
>gnl|CDD|177877 PLN02233, PLN02233, ubiquinone biosynthesis methyltransferase.
Length = 261
Score = 31.0 bits (70), Expect = 0.33
Identities = 43/166 (25%), Positives = 63/166 (37%), Gaps = 33/166 (19%)
Query: 50 GKTVLDLGCGSGILTF------GSI--LLGADFCFALECDKEILDIFIDNKNEFEITNCD 101
G VLDL CGSG L F GS ++G DF E L + + + +C
Sbjct: 74 GDRVLDLCCGSGDLAFLLSEKVGSDGKVMGLDF------SSEQLAVAASRQE-LKAKSCY 126
Query: 102 AILFEINEKSLDSSVFKQKVDTVIMNPPFGTRNCGIDLAFVQYAADISKVVYSLHKTSTR 161
+ I + D D + M +G RN V + +Y + K +R
Sbjct: 127 KNIEWIEGDATDLPFDDCYFDAITMG--YGLRN-------VVDRLKAMQEMYRVLKPGSR 177
Query: 162 ESIL---KKIQAFKN------VEQVDVIAEMKYDLNQSYKFHKKSL 198
SIL K Q F ++ V V Y L + Y++ K S+
Sbjct: 178 VSILDFNKSTQPFTTSMQEWMIDNVVVPVATGYGLAKEYEYLKSSI 223
>gnl|CDD|213903 TIGR04290, meth_Rta_06860, methyltransferase, Rta_06860 family.
Members of this family are methyltransferases that mark
a widely distributed large conserved gene neighborhood
of unknown function. It appears most common in soil and
rhizosphere bacteria.
Length = 226
Score = 30.4 bits (69), Expect = 0.45
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 6/38 (15%)
Query: 47 DIDGKTVLDLGCGSGILTFGSILL---GADFCFALECD 81
D+ G +VLD+GC +G F SI + GA ++ D
Sbjct: 47 DLSGWSVLDIGCNAG---FYSIEMKRRGAGRVLGIDSD 81
>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 = 30.7 bits (70), Expect = 0.46
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 44 NYNDIDGKTVLDLGCGSGILTF 65
+VLD+GCG+G LT
Sbjct: 29 EKGIFIPASVLDIGCGTGYLTR 50
>gnl|CDD|225174 COG2265, TrmA, SAM-dependent methyltransferases related to tRNA
(uracil-5-)-methyltransferase [Translation, ribosomal
structure and biogenesis].
Length = 432
Score = 30.7 bits (70), Expect = 0.51
Identities = 33/136 (24%), Positives = 50/136 (36%), Gaps = 32/136 (23%)
Query: 31 PHLAATILHTIQNNYNDIDGKTVLDLGCGSGILTFGSIL-------LGAD-FCFALECDK 82
L T L ++ G+ VLDL CG G TFG L G + A+E +
Sbjct: 279 EKLYETALEWLELA----GGERVLDLYCGVG--TFGLPLAKRVKKVHGVEISPEAVEAAQ 332
Query: 83 EILDIFIDNKNEFEITNCDAILFEIN--EKSLDSSVFKQKVDTVIMNPPFGTRNCGIDLA 140
E D + F E+ + K D V+++PP R G D
Sbjct: 333 ENA----------AANGIDNVEFIAGDAEEFTPAWWEGYKPDVVVVDPP---R-AGADRE 378
Query: 141 FVQYAADIS--KVVYS 154
++ A + ++VY
Sbjct: 379 VLKQLAKLKPKRIVYV 394
>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 = 30.4 bits (69), Expect = 0.51
Identities = 10/15 (66%), Positives = 10/15 (66%)
Query: 49 DGKTVLDLGCGSGIL 63
G VLDLGCG G L
Sbjct: 13 PGSRVLDLGCGDGEL 27
>gnl|CDD|216320 pfam01135, PCMT, Protein-L-isoaspartate(D-aspartate)
O-methyltransferase (PCMT).
Length = 210
Score = 30.0 bits (68), Expect = 0.71
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 6/40 (15%)
Query: 26 QYHTPPHLAATILHTIQNNYNDID-GKTVLDLGCGSGILT 64
Q + PH+ A +L ++ G VL++G GSG LT
Sbjct: 54 QTISAPHMHAMML-----ELLELKPGMRVLEIGSGSGYLT 88
>gnl|CDD|236059 PRK07580, PRK07580, Mg-protoporphyrin IX methyl transferase;
Validated.
Length = 230
Score = 29.8 bits (68), Expect = 0.74
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 44 NYNDIDGKTVLDLGCGSGILTF 65
D+ G +LD GCG G L+
Sbjct: 58 ADGDLTGLRILDAGCGVGSLSI 79
>gnl|CDD|227310 COG4976, COG4976, Predicted methyltransferase (contains TPR repeat)
[General function prediction only].
Length = 287
Score = 30.1 bits (68), Expect = 0.77
Identities = 12/37 (32%), Positives = 17/37 (45%), Gaps = 5/37 (13%)
Query: 27 YHTPPHLAATILHTIQNNYNDIDGKTVLDLGCGSGIL 63
Y P LA I + + +LDLGCG+G+
Sbjct: 108 YSVPELLAEMIGKA-----DLGPFRRMLDLGCGTGLT 139
>gnl|CDD|173441 PTZ00152, PTZ00152, cofilin/actin-depolymerizing factor 1-like
protein; Provisional.
Length = 122
Score = 29.2 bits (65), Expect = 0.84
Identities = 15/76 (19%), Positives = 32/76 (42%), Gaps = 2/76 (2%)
Query: 95 FEITNCDAILFEINEKSLDSSVFKQKVD-TVIMNPPFGTRNCGIDLAFVQYAADISKVVY 153
F I NC+ I+ + + +D + + + + F YA + S
Sbjct: 29 FVIENCE-IIIHSKGATTTLTELVGSIDKNDKIQCAYVVFDAVNKIHFFMYARESSNSRD 87
Query: 154 SLHKTSTRESILKKIQ 169
+ S+++++LKKI+
Sbjct: 88 RMTYASSKQALLKKIE 103
>gnl|CDD|129628 TIGR00537, hemK_rel_arch, HemK-related putative methylase. The
gene hemK from E. coli was found to contribute to heme
biosynthesis and originally suggested to be
protoporphyrinogen oxidase (Medline 95189105).
Functional analysis of the nearest homolog in
Saccharomyces cerevisiae, YNL063w, finds it is not
protoporphyrinogen oxidase and sequence analysis
suggests that HemK homologs have
S-adenosyl-methionine-dependent methyltransferase
activity (Medline 99237242). Homologs are found, usually
in a single copy, in nearly all completed genomes, but
varying somewhat in apparent domain architecture. This
model represents an archaeal and eukaryotic protein
family that lacks an N-terminal domain found in HemK and
its eubacterial homologs. It is found in a single copy
in the first six completed archaeal and eukaryotic
genomes [Unknown function, Enzymes of unknown
specificity].
Length = 179
Score = 29.4 bits (66), Expect = 0.86
Identities = 21/99 (21%), Positives = 42/99 (42%), Gaps = 26/99 (26%)
Query: 41 IQNNYNDIDGKTVLDLGCGSGILTF-----GSILLGADFC-FALECDKEILDIFIDNKNE 94
++ N ++ VL++G G+G++ G +L D FA++ +E
Sbjct: 11 LEANLRELKPDDVLEIGAGTGLVAIRLKGKGKCILTTDINPFAVKELRE----------- 59
Query: 95 FEITNCDAILFEINEKSLDSSVFK---QKVDTVIMNPPF 130
+A L + + + +FK K D ++ NPP+
Sbjct: 60 ------NAKLNNVGLDVVMTDLFKGVRGKFDVILFNPPY 92
>gnl|CDD|222171 pfam13489, Methyltransf_23, Methyltransferase domain. This
family appears to be a methyltransferase domain.
Length = 154
Score = 29.4 bits (66), Expect = 0.90
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 49 DGKTVLDLGCGSGILT 64
G VLD+GCG+GIL
Sbjct: 22 PGGRVLDIGCGTGILL 37
>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 = 0.96
Identities = 25/84 (29%), Positives = 36/84 (42%), Gaps = 12/84 (14%)
Query: 50 GKTVLDLGCGSGILTFGSILLGADFCFALECDK---EILDIFIDNKNEFEITNCDAILFE 106
G VL++G G G LT +L A A+E D+ E L + EI DA+ +
Sbjct: 30 GDVVLEIGPGLGALTE-PLLKRAKKVTAIEIDRRLAERLRKLLSLYENLEIIEGDALKVD 88
Query: 107 INEKSLDSSVFKQKVDTVIMNPPF 130
+NE K V+ N P+
Sbjct: 89 LNE--------FPKQLKVVSNLPY 104
>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 = 29.3 bits (66), Expect = 1.2
Identities = 10/15 (66%), Positives = 10/15 (66%)
Query: 49 DGKTVLDLGCGSGIL 63
G VLDLGCG G L
Sbjct: 13 PGSRVLDLGCGDGSL 27
>gnl|CDD|234456 TIGR04074, bacter_Hen1, 3' terminal RNA ribose
2'-O-methyltransferase Hen1. Members of this protein
family are bacterial Hen1, a 3' terminal RNA ribose
2'-O-methyltransferase that acts in bacterial RNA
repair. All members of the seed alignment belong to a
cassette with the RNA repair enzyme polynucleotide
kinase-phosphatase (Pnkp). Chemically similar Hen1 in
eukaryotes acts instead on small regulatory RNAs
[Transcription, RNA processing, Protein synthesis, tRNA
and rRNA base modification].
Length = 462
Score = 29.6 bits (67), Expect = 1.4
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 51 KTVLDLGCGSGILT 64
++VLDLGCG G L
Sbjct: 284 RSVLDLGCGEGKLL 297
>gnl|CDD|222287 pfam13649, Methyltransf_25, Methyltransferase domain. This
family appears to be a methyltransferase domain.
Length = 97
Score = 27.7 bits (62), Expect = 1.5
Identities = 11/35 (31%), Positives = 18/35 (51%)
Query: 53 VLDLGCGSGILTFGSILLGADFCFALECDKEILDI 87
+LDLGCG+G + G ++ KE L++
Sbjct: 1 ILDLGCGTGRVLRALARAGPSSVTGVDISKEALEL 35
>gnl|CDD|237007 PRK11873, arsM, arsenite S-adenosylmethyltransferase; Reviewed.
Length = 272
Score = 29.1 bits (66), Expect = 1.6
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 50 GKTVLDLGCGSGI 62
G+TVLDLG G G
Sbjct: 78 GETVLDLGSGGGF 90
>gnl|CDD|234556 TIGR04345, ovoA_Cterm, putative 4-mercaptohistidine
N1-methyltranferase. Ovothiol A is
N1-methyl-4-mercaptohistidine. In the absence of
S-adenosylmethione, a methyl donor, the intermediate
produced is 4-mercaptohistidine. In both Erwinia
tasmaniensis and Trypanosoma cruzi, a protein occurs
with 5-histidylcysteine sulfoxide synthase activity,
but these two enzymes and most homologs share an
additional C-terminal methyltransferase domain. Thus
OvoA may be a bifunctional enzyme with
5-histidylcysteine sulfoxide synthase and
4-mercaptohistidine N1-methyltranferase activity. This
model describes C-terminal putative 4-mercaptohistidine
N1-methyltranferase domain [Biosynthesis of cofactors,
prosthetic groups, and carriers, Glutathione and
analogs].
Length = 242
Score = 28.7 bits (65), Expect = 1.7
Identities = 10/41 (24%), Positives = 17/41 (41%)
Query: 25 EQYHTPPHLAATILHTIQNNYNDIDGKTVLDLGCGSGILTF 65
E+Y P+ + + + K LD+GC G +F
Sbjct: 17 EEYFGVPNFPVKLAELALAQFRNKSRKRALDIGCAVGRASF 57
>gnl|CDD|225136 COG2226, UbiE, Methylase involved in ubiquinone/menaquinone
biosynthesis [Coenzyme metabolism].
Length = 238
Score = 28.8 bits (65), Expect = 2.0
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 50 GKTVLDLGCGSGILTF 65
G VLD+ CG+G +
Sbjct: 52 GDKVLDVACGTGDMAL 67
>gnl|CDD|152510 pfam12075, KN_motif, KN motif. This small motif is found at the
N-terminus of Kank proteins and has been called the KN
(for Kank N-terminal) motif. This protein is found in
eukaryotes. Proteins in this family are typically
between 413 to 1202 amino acids in length. This protein
is found associated with pfam00023. This protein has two
conserved sequence motifs: TPYG and LDLDF. Kank1 was
obtained by positional cloning of a tumor suppressor
gene in renal cell carcinoma, while the other members
were found by homology search. The family is involved in
the regulation of actin polymerization and cell motility
through signaling pathways containing PI3K/Akt and/or
unidentified modulators/effectors.
Length = 39
Score = 26.1 bits (58), Expect = 2.2
Identities = 12/41 (29%), Positives = 18/41 (43%), Gaps = 8/41 (19%)
Query: 127 NPPFGTRNCGIDLAFVQYAADISKVVYSLHKTSTRESILKK 167
P+G +DL F++Y DI K T R I ++
Sbjct: 5 ETPYGYH---LDLDFLKYVEDIEK-----GNTIRRVPIQRR 37
>gnl|CDD|177639 PHA03411, PHA03411, putative methyltransferase; Provisional.
Length = 279
Score = 28.5 bits (63), Expect = 2.2
Identities = 29/93 (31%), Positives = 34/93 (36%), Gaps = 31/93 (33%)
Query: 53 VLDLGCGSGILTFGSILLGADFCFALECDKEILDIFIDNKNEF-----------EITNCD 101
VLDL G G L+F C C E + + ++ EF E D
Sbjct: 68 VLDLCAGIGRLSF---------CMLHRCKPEKI-VCVELNPEFARIGKRLLPEAEWITSD 117
Query: 102 AILFEINEKSLDSSVFKQKVDTVIMNPPFGTRN 134
FE NEK D VI NPPFG N
Sbjct: 118 VFEFESNEK----------FDVVISNPPFGKIN 140
>gnl|CDD|131546 TIGR02493, PFLA, pyruvate formate-lyase 1-activating enzyme. An
iron-sulfur protein with a radical-SAM domain
(pfam04055). A single glycine residue in EC 2.3.1.54,
formate C-acetyltransferase (formate-pyruvate lyase), is
oxidized to the corresponding radical by transfer of H
from its CH2 to AdoMet with concomitant cleavage of the
latter. The reaction requires Fe2+. The first stage is
reduction of the AdoMet to give methionine and the
5'-deoxyadenosin-5-yl radical, which then abstracts a
hydrogen radical from the glycine residue [Energy
metabolism, Anaerobic, Protein fate, Protein
modification and repair].
Length = 235
Score = 28.5 bits (64), Expect = 2.2
Identities = 40/163 (24%), Positives = 64/163 (39%), Gaps = 44/163 (26%)
Query: 59 GSGILTF--GSILLGADF--CFALECDKE----ILDI--FIDNKNE-----FEITNCDAI 103
G G+ TF G LL +F C + LD F+ E E T D +
Sbjct: 66 GGGV-TFSGGEPLLQPEFLSELFKACKELGIHTCLDTSGFLGGCTEAADELLEYT--DLV 122
Query: 104 LFEINEKSLDSSVFKQKVDTVIMNPPFGTRNCGIDLAFVQYAADISKVVYSLH-----KT 158
L +I K + +K K+ V + P L F +Y A +K ++ + T
Sbjct: 123 LLDI--KHFNPEKYK-KLTGVSLQPT---------LDFAKYLAKRNKPIWIRYVLVPGYT 170
Query: 159 STRESI--LKK-IQAFKNVEQVDVI-----AEMKYD-LNQSYK 192
+ E I L + ++ NVE+V+V+ K++ L Y
Sbjct: 171 DSEEDIEALAEFVKTLPNVERVEVLPYHQLGVYKWEALGIEYP 213
>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 = 28.3 bits (63), Expect = 2.7
Identities = 11/40 (27%), Positives = 18/40 (45%), Gaps = 6/40 (15%)
Query: 26 QYHTPPHLAATILHTIQNNYNDID-GKTVLDLGCGSGILT 64
Q + PH+ A + ++ G VL++G GSG
Sbjct: 58 QTISAPHMVAMMT-----ELLELKPGMKVLEIGTGSGYQA 92
>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 = 28.2 bits (64), Expect = 2.7
Identities = 8/15 (53%), Positives = 9/15 (60%)
Query: 49 DGKTVLDLGCGSGIL 63
VLDLG GSG +
Sbjct: 87 GPLRVLDLGTGSGAI 101
>gnl|CDD|225139 COG2230, Cfa, Cyclopropane fatty acid synthase and related
methyltransferases [Cell envelope biogenesis, outer
membrane].
Length = 283
Score = 28.4 bits (64), Expect = 3.0
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 49 DGKTVLDLGCGSG 61
G T+LD+GCG G
Sbjct: 72 PGMTLLDIGCGWG 84
>gnl|CDD|238680 cd01384, MYSc_type_XI, Myosin motor domain, plant-specific type XI
myosin, involved in organelle transport. This catalytic
(head) domain has ATPase activity and belongs to the
larger group of P-loop NTPases. Myosins are
actin-dependent molecular motors that play important
roles in muscle contraction, cell motility, and
organelle transport. The head domain is a molecular
motor, which utilizes ATP hydrolysis to generate
directed movement toward the plus end along actin
filaments. A cyclical interaction between myosin and
actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 674
Score = 28.5 bits (64), Expect = 3.1
Identities = 11/38 (28%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 86 DIFIDNKNEFEITNCDAILFEINEKSLDSSVFKQKVDT 123
+ D K+EF + A L +EK+L+ ++ K+ + T
Sbjct: 282 SVLKDEKSEFHLKTA-AELLMCDEKALEDALCKRVMVT 318
>gnl|CDD|177779 PLN00185, PLN00185, 60S ribosomal protein L4-1; Provisional.
Length = 405
Score = 28.2 bits (63), Expect = 3.5
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 148 ISKVVYSLHKTSTRESILKKIQAFKNVEQV 177
+S S+ KTS ILK+I A+ +VE+
Sbjct: 158 VSDSAESIEKTSAAIKILKQIGAYADVEKA 187
>gnl|CDD|223194 COG0116, COG0116, Predicted N6-adenine-specific DNA methylase [DNA
replication, recombination, and repair].
Length = 381
Score = 28.0 bits (63), Expect = 4.2
Identities = 28/125 (22%), Positives = 42/125 (33%), Gaps = 43/125 (34%)
Query: 49 DGKTVLDLGCGSGILTFGSILLGAD----------FCFALECDKEILDIFIDNKNEFEI- 97
+ +LD CGSG + + L+ A+ F F DK++ D + E E
Sbjct: 191 PDEPLLDPMCGSGTILIEAALIAANIAPGLNRRFGFEFWDWFDKDLWD---KLREEAEER 247
Query: 98 TNCDAIL-----FEINEKSL-------------DSSVFKQK-----------VDTVIMNP 128
L +I+ + + D FKQ VI NP
Sbjct: 248 ARRGKELPIIYGSDIDPRHIEGAKANARAAGVGDLIEFKQADATDLKEPLEEYGVVISNP 307
Query: 129 PFGTR 133
P+G R
Sbjct: 308 PYGER 312
>gnl|CDD|225316 COG2518, Pcm, Protein-L-isoaspartate carboxylmethyltransferase
[Posttranslational modification, protein turnover,
chaperones].
Length = 209
Score = 27.6 bits (62), Expect = 4.4
Identities = 12/37 (32%), Positives = 20/37 (54%), Gaps = 6/37 (16%)
Query: 26 QYHTPPHLAATILHTIQNNYNDID-GKTVLDLGCGSG 61
Q + PH+ A +L + ++ G VL++G GSG
Sbjct: 53 QTISAPHMVARMLQLL-----ELKPGDRVLEIGTGSG 84
>gnl|CDD|181902 PRK09489, rsmC, 16S ribosomal RNA m2G1207 methyltransferase;
Provisional.
Length = 342
Score = 27.6 bits (62), Expect = 4.9
Identities = 11/22 (50%), Positives = 16/22 (72%), Gaps = 3/22 (13%)
Query: 48 IDGKTVLDLGCGSGILTFGSIL 69
GK VLD+GCG+G+L ++L
Sbjct: 196 TKGK-VLDVGCGAGVL--SAVL 214
>gnl|CDD|222313 pfam13679, Methyltransf_32, Methyltransferase domain. This
family appears to be a methyltransferase domain.
Length = 143
Score = 26.8 bits (60), Expect = 5.2
Identities = 12/35 (34%), Positives = 15/35 (42%), Gaps = 2/35 (5%)
Query: 32 HLAATILHTIQNNYNDIDG-KTVLDLGCGSGILTF 65
LA + + D G TV+D G G G L F
Sbjct: 8 RLAE-FVEPLIKEVLDKTGCITVVDHGAGKGYLGF 41
>gnl|CDD|236646 PRK10064, PRK10064, catecholate siderophore receptor CirA;
Provisional.
Length = 663
Score = 27.5 bits (61), Expect = 5.7
Identities = 12/28 (42%), Positives = 14/28 (50%)
Query: 39 HTIQNNYNDIDGKTVLDLGCGSGILTFG 66
I + N IDGK L L + LTFG
Sbjct: 308 SPITSESNSIDGKYTLPLTAINQFLTFG 335
>gnl|CDD|183450 PRK12335, PRK12335, tellurite resistance protein TehB; Provisional.
Length = 287
Score = 27.2 bits (61), Expect = 5.7
Identities = 19/63 (30%), Positives = 25/63 (39%), Gaps = 4/63 (6%)
Query: 52 TVLDLGCGSGILTFGSILLGADFCFALECDKEILDI-FIDNKNEFEITNCDAILFEINEK 110
LDLGCG G + LLG D D + + E E N L++IN
Sbjct: 123 KALDLGCGQGRNSLYLALLGFD---VTAVDINQQSLENLQEIAEKENLNIRTGLYDINSA 179
Query: 111 SLD 113
S+
Sbjct: 180 SIQ 182
>gnl|CDD|177970 PLN02336, PLN02336, phosphoethanolamine N-methyltransferase.
Length = 475
Score = 27.4 bits (61), Expect = 6.3
Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 9/38 (23%)
Query: 50 GKTVLDLGCGSGILTFGSILLGADFCFALECDKEILDI 87
G+ VLD+GCG G G DF A D ++ I
Sbjct: 267 GQKVLDVGCGIG---------GGDFYMAENFDVHVVGI 295
>gnl|CDD|181382 PRK08317, PRK08317, hypothetical protein; Provisional.
Length = 241
Score = 26.8 bits (60), Expect = 7.3
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 49 DGKTVLDLGCGSG 61
G VLD+GCG G
Sbjct: 19 PGDRVLDVGCGPG 31
>gnl|CDD|223574 COG0500, SmtA, SAM-dependent methyltransferases [Secondary
metabolites biosynthesis, transport, and catabolism /
General function prediction only].
Length = 257
Score = 27.2 bits (57), Expect = 7.9
Identities = 16/67 (23%), Positives = 26/67 (38%), Gaps = 3/67 (4%)
Query: 49 DGKTVLDLGCGSGILTFGSILLGADFCFALECD--KEILDIFIDNKNEFEITNCDAILFE 106
G VLD+GCG+G L LG + + D E+L + + D ++ +
Sbjct: 48 GGLGVLDIGCGTGRLAL-LARLGGRGAYVVGVDLSPEMLALARARAEGAGLGLVDFVVAD 106
Query: 107 INEKSLD 113
L
Sbjct: 107 ALGGVLP 113
>gnl|CDD|110227 pfam01209, Ubie_methyltran, ubiE/COQ5 methyltransferase family.
Length = 233
Score = 27.0 bits (60), Expect = 8.1
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 46 NDIDGKTVLDLGCGSGILTFG 66
G LD+ G+G TFG
Sbjct: 44 GVKRGNKFLDVAGGTGDWTFG 64
>gnl|CDD|234689 PRK00216, ubiE, ubiquinone/menaquinone biosynthesis
methyltransferase; Reviewed.
Length = 239
Score = 26.7 bits (60), Expect = 8.2
Identities = 28/95 (29%), Positives = 40/95 (42%), Gaps = 23/95 (24%)
Query: 50 GKTVLDLGCGSGILTF------GSI--LLGADFCFA-LECDKE-ILDIFIDNKNEFEITN 99
G VLDL CG+G L G ++G DF L +E + D+ + EF +
Sbjct: 52 GDKVLDLACGTGDLAIALAKAVGKTGEVVGLDFSEGMLAVGREKLRDLGLSGNVEFVQGD 111
Query: 100 CDAILFEINEKSLDSSVFKQKVDTVIMNPPFGTRN 134
+A+ F D+S D V + FG RN
Sbjct: 112 AEALPFP------DNS-----FDAVTIA--FGLRN 133
>gnl|CDD|219759 pfam08241, Methyltransf_11, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 92
Score = 25.7 bits (57), Expect = 9.2
Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 7/41 (17%)
Query: 54 LDLGCGSGILT------FGSILLGADFCFA-LECDKEILDI 87
LD+GCG+G+L G+ + G D L ++
Sbjct: 1 LDVGCGTGLLAEALARRGGARVTGVDLSPEMLALARKRAPR 41
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
0.321 0.137 0.397
Gapped
Lambda K H
0.267 0.0668 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,926,068
Number of extensions: 1024427
Number of successful extensions: 1092
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1075
Number of HSP's successfully gapped: 109
Length of query: 216
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 123
Effective length of database: 6,812,680
Effective search space: 837959640
Effective search space used: 837959640
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.9 bits)