Please note: this site relies heavily on the use of javascript. Without a javascript-enabled browser, this site will not function correctly. Please enable javascript and reload the page, or switch to a different browser.
206  structures 2786  species 0  interactions 16926  sequences 244  architectures

Family: Methyltransf_2 (PF00891)

Summary: O-methyltransferase domain

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

The Pfam group coordinates the annotation of Pfam families in Wikipedia, but we have not yet assigned a Wikipedia article to this family. If you think that a particular Wikipedia article provides good annotation, please let us know.

This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

O-methyltransferase domain Provide feedback

This family includes a range of O-methyltransferases. These enzymes utilise S-adenosyl methionine.

Literature references

  1. Keller NP, Dischinger HC, Bhatnagar D, Cleveland TE, Ullah AH; , Appl Environ Microbiol 1993;59:479-484.: Purification of a 40-kilodalton methyltransferase active in the aflatoxin biosynthetic pathway. PUBMED:8434913 EPMC:8434913


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR001077

This domain includes a range of O-methyltransferases some of which utilise S-adenosyl methionine as substrate [ PUBMED:8434913 ]. In prokaryotes, the major role of DNA methylation is to protect host DNA against degradation by restriction enzymes. In eukaryotes, DNA methylation has been implicated in the control of several cellular processes, including differentiation, gene regulation, and embryonic development. O-methyltransferases have a common catalytic domain structure, which might be universal among S-adenosyl-L-methionine (AdoMet)-dependent methyltransferases [ PUBMED:7773746 ].

Comparative analysis of the predicted amino acid sequences of a number of plant O-methyltransferase cDNA clones show that they share some 32-71% sequence identity, and can be grouped according to the different compounds they utilise as substrates [ PUBMED:9484457 ].

Gene Ontology

The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

Loading domain graphics...

Pfam Clan

This family is a member of clan NADP_Rossmann (CL0063), which has the following description:

A class of redox enzymes are two domain proteins. One domain, termed the catalytic domain, confers substrate specificity and the precise reaction of the enzyme. The other domain, which is common to this class of redox enzymes, is a Rossmann-fold domain. The Rossmann domain binds nicotinamide adenine dinucleotide (NAD+) and it is this cofactor that reversibly accepts a hydride ion, which is lost or gained by the substrate in the redox reaction. Rossmann domains have an alpha/beta fold, which has a central beta sheet, with approximately five alpha helices found surrounding the beta sheet.The strands forming the beta sheet are found in the following characteristic order 654123. The inter sheet crossover of the stands in the sheet form the NAD+ binding site [1]. In some more distantly relate Rossmann domains the NAD+ cofactor is replaced by the functionally similar cofactor FAD.

The clan contains the following 206 members:

2-Hacid_dh_C 3Beta_HSD 3HCDH_N 3HCDH_RFF adh_short adh_short_C2 ADH_zinc_N ADH_zinc_N_2 AdoHcyase_NAD AdoMet_MTase AlaDh_PNT_C Amino_oxidase ApbA AviRa B12-binding Bac_GDH Bin3 Bmt2 CbiJ CheR CMAS CmcI CoA_binding CoA_binding_2 CoA_binding_3 Cons_hypoth95 CoV_ExoN CoV_Methyltr_2 DAO DapB_N DFP DNA_methylase DOT1 DRE2_N DREV DUF1442 DUF1611_N DUF166 DUF1776 DUF2431 DUF268 DUF2855 DUF3410 DUF364 DUF43 DUF5129 DUF5130 DUF6094 DUF938 DXP_reductoisom DXPR_C Eco57I ELFV_dehydrog Eno-Rase_FAD_bd Eno-Rase_NADH_b Enoyl_reductase Epimerase F420_oxidored FAD_binding_2 FAD_binding_3 FAD_oxidored Fibrillarin FMO-like FmrO FtsJ fvmX7 G6PD_N GCD14 GDI GDP_Man_Dehyd GFO_IDH_MocA GIDA GidB GLF Glu_dehyd_C Glyco_hydro_4 Glyco_tran_WecG GMC_oxred_N Gp_dh_N GRAS GRDA HcgC HI0933_like HIM1 IlvN ISPD_C K_oxygenase KR LCM Ldh_1_N LpxI_N Lycopene_cycl Malic_M Mannitol_dh MCRA Met_10 Methyltr_RsmB-F Methyltr_RsmF_N Methyltrans_Mon Methyltrans_SAM Methyltransf_10 Methyltransf_11 Methyltransf_12 Methyltransf_14 Methyltransf_15 Methyltransf_16 Methyltransf_17 Methyltransf_18 Methyltransf_19 Methyltransf_2 Methyltransf_20 Methyltransf_21 Methyltransf_22 Methyltransf_23 Methyltransf_24 Methyltransf_25 Methyltransf_28 Methyltransf_29 Methyltransf_3 Methyltransf_30 Methyltransf_31 Methyltransf_32 Methyltransf_33 Methyltransf_34 Methyltransf_4 Methyltransf_5 Methyltransf_7 Methyltransf_8 Methyltransf_9 Methyltransf_PK MethyltransfD12 MetW Mg-por_mtran_C MOLO1 Mqo MT-A70 MTS Mur_ligase N2227 N6-adenineMlase N6_Mtase N6_N4_Mtase NAD_binding_10 NAD_binding_2 NAD_binding_3 NAD_binding_4 NAD_binding_5 NAD_binding_7 NAD_binding_8 NAD_binding_9 NAD_Gly3P_dh_N NAS NmrA NNMT_PNMT_TEMT NodS OCD_Mu_crystall Orbi_VP4 PALP PARP_regulatory PCMT PDH PglD_N Polysacc_syn_2C Polysacc_synt_2 Pox_MCEL Pox_mRNA-cap Prenylcys_lyase PrmA PRMT5 Pyr_redox Pyr_redox_2 Pyr_redox_3 Reovirus_L2 RmlD_sub_bind Rossmann-like rRNA_methylase RrnaAD Rsm22 RsmJ Sacchrp_dh_NADP SAM_MT SE Semialdhyde_dh Shikimate_DH Spermine_synth TehB THF_DHG_CYH_C Thi4 ThiF TPM_phosphatase TPMT TrkA_N TRM TRM13 TrmK tRNA_U5-meth_tr Trp_halogenase TylF Ubie_methyltran UDPG_MGDP_dh_N UPF0020 UPF0146 Urocanase V_cholerae_RfbT XdhC_C YjeF_N

Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets and the UniProtKB sequence database. More...

View options

We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

  Seed
(8)
Full
(16926)
Representative proteomes UniProt
(35909)
RP15
(1552)
RP35
(7222)
RP55
(13314)
RP75
(20568)
Jalview View  View  View  View  View  View  View 
HTML View             
PP/heatmap 1            

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(8)
Full
(16926)
Representative proteomes UniProt
(35909)
RP15
(1552)
RP35
(7222)
RP55
(13314)
RP75
(20568)
Alignment:
Format:
Order:
Sequence:
Gaps:
Download/view:

Download options

We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

  Seed
(8)
Full
(16926)
Representative proteomes UniProt
(35909)
RP15
(1552)
RP35
(7222)
RP55
(13314)
RP75
(20568)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   Download   Download   Download   Download   Download  

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

HMM logo

HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...

Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

Note: You can also download the data file for the tree.

Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: Pfam-B_152 (release 3.0)
Previous IDs: Methyltransf;
Type: Domain
Sequence Ontology: SO:0000417
Author: Bateman A , Eberhardt R
Number in seed: 8
Number in full: 16926
Average length of the domain: 186.40 aa
Average identity of full alignment: 23 %
Average coverage of the sequence by the domain: 50.91 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 22.3 22.3
Trusted cut-off 22.3 22.3
Noise cut-off 22.2 22.2
Model length: 210
Family (HMM) version: 20
Download: download the raw HMM for this family

Species distribution

Sunburst controls

Hide

Weight segments by...


Change the size of the sunburst

Small
Large

Colour assignments

Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence

Selections

Align selected sequences to HMM

Generate a FASTA-format file

Clear selection

This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...

Loading sunburst data...

Tree controls

Hide

The tree shows the occurrence of this domain across different species. More...

Loading...

Please note: for large trees this can take some time. While the tree is loading, you can safely switch away from this tab but if you browse away from the family page entirely, the tree will not be loaded.

Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the Methyltransf_2 domain has been found. There are 206 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein sequence.

Loading structure mapping...

AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
A0A0P0W7B2 View 3D Structure Click here
A0A0P0WVA4 View 3D Structure Click here
A0A0P0X5N4 View 3D Structure Click here
A0A0P0X625 View 3D Structure Click here
A0A0P0XC80 View 3D Structure Click here
A0A0P0XHA8 View 3D Structure Click here
A0A0P0Y1P5 View 3D Structure Click here
A0A0P0Y7X4 View 3D Structure Click here
A0A0P0Y801 View 3D Structure Click here
A0A0P0Y9M0 View 3D Structure Click here
A0A0P0Y9N9 View 3D Structure Click here
A0A0R0EME4 View 3D Structure Click here
A0A0R0EQI8 View 3D Structure Click here
A0A0R0F4I8 View 3D Structure Click here
A0A0R0G7R5 View 3D Structure Click here
A0A0R0GE42 View 3D Structure Click here
A0A0R0GFD5 View 3D Structure Click here
A0A0R0GFL0 View 3D Structure Click here
A0A0R0GFL0 View 3D Structure Click here
A0A0R0GPT0 View 3D Structure Click here
A0A0R0IEJ6 View 3D Structure Click here
A0A0R0IRY8 View 3D Structure Click here
A0A0R0J1M7 View 3D Structure Click here
A0A0R0J5N8 View 3D Structure Click here
A0A0R0KBZ5 View 3D Structure Click here
A0A0R0L842 View 3D Structure Click here
A0A0R4ITX8 View 3D Structure Click here
A0A0R4J3I5 View 3D Structure Click here
A0A0R4J3I7 View 3D Structure Click here
A0A0R4J3J0 View 3D Structure Click here
A0A0R4J3N2 View 3D Structure Click here
A0A0R4J3N6 View 3D Structure Click here
A0A0R4J645 View 3D Structure Click here
A0A1D6EH08 View 3D Structure Click here
A0A1D6HZ97 View 3D Structure Click here
A0A1D6IQZ7 View 3D Structure Click here
A0A1D6K4L2 View 3D Structure Click here
A0A1D6M9X1 View 3D Structure Click here
A0A1D6M9X4 View 3D Structure Click here
A0A1D6M9X7 View 3D Structure Click here
A0A1D6PGY4 View 3D Structure Click here
A0A1D6PSX8 View 3D Structure Click here
A0A1D6PTK2 View 3D Structure Click here
A0A1D6PTQ7 View 3D Structure Click here
A0A1D6QIT0 View 3D Structure Click here
A0A1P8AS31 View 3D Structure Click here
A0A2R8PZN8 View 3D Structure Click here
A0A368UHQ0 View 3D Structure Click here
A3BJI2 View 3D Structure Click here
A3CH16 View 3D Structure Click here
A3KNM1 View 3D Structure Click here
B1P123 View 3D Structure Click here
B3GSH5 View 3D Structure Click here
B4F9X3 View 3D Structure Click here
B4FFG8 View 3D Structure Click here
B4FLE0 View 3D Structure Click here
B4FPP8 View 3D Structure Click here
B4FR22 View 3D Structure Click here
B4FRD8 View 3D Structure Click here
B4G1R5 View 3D Structure Click here
B6SUA1 View 3D Structure Click here
B6TS22 View 3D Structure Click here
B8A095 View 3D Structure Click here
C0HEH4 View 3D Structure Click here
C0PKR0 View 3D Structure Click here
C6TAY1 View 3D Structure Click here
C6TDI4 View 3D Structure Click here
C6TEX3 View 3D Structure Click here
C6TIJ7 View 3D Structure Click here
D3KU66 View 3D Structure Click here
F4K5W7 View 3D Structure Click here
G9I8U0 View 3D Structure Click here
I1JJX3 View 3D Structure Click here
I1KB23 View 3D Structure Click here
I1KEW1 View 3D Structure Click here
I1KEW2 View 3D Structure Click here
I1KWF7 View 3D Structure Click here
I1KWG9 View 3D Structure Click here
I1L2A6 View 3D Structure Click here
I1L2A8 View 3D Structure Click here
I1L776 View 3D Structure Click here
I1LC13 View 3D Structure Click here
I1LC14 View 3D Structure Click here
I1LC15 View 3D Structure Click here
I1LD68 View 3D Structure Click here
I1LN10 View 3D Structure Click here
I1LS00 View 3D Structure Click here
I1LS89 View 3D Structure Click here
I1M2U5 View 3D Structure Click here
I1MIW4 View 3D Structure Click here
I1N4K6 View 3D Structure Click here
I1NCY1 View 3D Structure Click here
I1NID5 View 3D Structure Click here
I1NID6 View 3D Structure Click here
I1NID7 View 3D Structure Click here
I1NID7 View 3D Structure Click here
K7LQI4 View 3D Structure Click here
K7M0A6 View 3D Structure Click here
K7M862 View 3D Structure Click here
K7M863 View 3D Structure Click here
K7MLV2 View 3D Structure Click here
K7MUZ8 View 3D Structure Click here
K7N0J9 View 3D Structure Click here
K7UB55 View 3D Structure Click here
K7UQQ3 View 3D Structure Click here
K7UX80 View 3D Structure Click here
K7V2Q7 View 3D Structure Click here
K7VHA0 View 3D Structure Click here
K7WCJ0 View 3D Structure Click here
O49010 View 3D Structure Click here
O53764 View 3D Structure Click here
O95671 View 3D Structure Click here
P46597 View 3D Structure Click here
P47917 View 3D Structure Click here
Q06509 View 3D Structure Click here
Q0IP69 View 3D Structure Click here
Q2QS38 View 3D Structure Click here
Q2R333 View 3D Structure Click here
Q2R6G9 View 3D Structure Click here
Q2R6H4 View 3D Structure Click here
Q53LW0 View 3D Structure Click here
Q53LX2 View 3D Structure Click here
Q53QK0 View 3D Structure Click here
Q54B59 View 3D Structure Click here
Q54B60 View 3D Structure Click here
Q54FP4 View 3D Structure Click here
Q54GZ0 View 3D Structure Click here
Q54S95 View 3D Structure Click here
Q57551 View 3D Structure Click here
Q6EPG8 View 3D Structure Click here
Q6K9X3 View 3D Structure Click here
Q6VWG3 View 3D Structure Click here
Q6Z9P5 View 3D Structure Click here
Q6ZD89 View 3D Structure Click here
Q75IK0 View 3D Structure Click here
Q75IK1 View 3D Structure Click here
Q7XPB2 View 3D Structure Click here
Q7XXD3 View 3D Structure Click here
Q7XXD4 View 3D Structure Click here
Q7XXI9 View 3D Structure Click here
Q86HS9 View 3D Structure Click here
Q86I40 View 3D Structure Click here
Q8RV92 View 3D Structure Click here
Q8T638 View 3D Structure Click here
Q8VWG4 View 3D Structure Click here
Q8VWJ6 View 3D Structure Click here
Q9CAQ3 View 3D Structure Click here
Q9CAQ4 View 3D Structure Click here
Q9FHZ5 View 3D Structure Click here
Q9FK25 View 3D Structure Click here
Q9LPU5 View 3D Structure Click here
Q9LPU6 View 3D Structure Click here
Q9LPU7 View 3D Structure Click here
Q9LPU8 View 3D Structure Click here
Q9LQ17 View 3D Structure Click here
Q9MAP0 View 3D Structure Click here
Q9SCP7 View 3D Structure Click here
Q9SRD4 View 3D Structure Click here
Q9T002 View 3D Structure Click here
Q9T003 View 3D Structure Click here
Q9ZU24 View 3D Structure Click here