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132  structures 8124  species 0  interactions 62782  sequences 1010  architectures

Family: Methyltransf_11 (PF08241)

Summary: 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.

Methyltransferase domain Provide feedback

Members of this family are SAM dependent methyltransferases.

Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR013216

Methyl transfer from the ubiquitous S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented.

This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to:

  • Arsenite methyltransferase ( EC ) which converts arsenical compounds to their methylated forms [ PUBMED:11790780 ]
  • Biotin synthesis protein bioC, which is involved in the early stages of biotin biosyntheis [ PUBMED:9063571 ]
  • Arginine N-methyltransferase 1, an arginine-methylating enzyme which acts on residues present in a glycine and argine-rich domain and can methylate histones [ PUBMED:10848611 ]
  • Hexaprenyldihydroxybenzoate methyltransferase ( EC ), a mitochodrial enzyme involved in ubiquinone biosynthesis [ PUBMED:10419476 ]
  • A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [ PUBMED:8501034 ]
  • Sterol 24-C-methyltransferase ( EC ), shown to participate in ergosterol biosynthesis [ PUBMED:9593144 ]
  • 3-demethylubiquinone-9 3-methyltransferase ( EC ) involved in ubiquinone biosynthesis [ PUBMED:1479344 ]
Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [ PUBMED:12737817 , PUBMED:14999102 , PUBMED:12429089 ].

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...

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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
(141)
Full
(62782)
Representative proteomes UniProt
(254145)
RP15
(8732)
RP35
(29465)
RP55
(60505)
RP75
(99731)
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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
(141)
Full
(62782)
Representative proteomes UniProt
(254145)
RP15
(8732)
RP35
(29465)
RP55
(60505)
RP75
(99731)
Alignment:
Format:
Order:
Sequence:
Gaps:
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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
(141)
Full
(62782)
Representative proteomes UniProt
(254145)
RP15
(8732)
RP35
(29465)
RP55
(60505)
RP75
(99731)
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_21 (release 17.0)
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Bateman A
Number in seed: 141
Number in full: 62782
Average length of the domain: 94.90 aa
Average identity of full alignment: 22 %
Average coverage of the sequence by the domain: 30.67 %

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 21.2 21.2
Trusted cut-off 21.2 21.2
Noise cut-off 21.1 21.1
Model length: 96
Family (HMM) version: 14
Download: download the raw HMM for this family

Species distribution

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Selections

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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_11 domain has been found. There are 132 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.

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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
A0A0N7KI91 View 3D Structure Click here
A0A0N7KKQ3 View 3D Structure Click here
A0A0P0WPC3 View 3D Structure Click here
A0A0P0XBA9 View 3D Structure Click here
A0A0P0Y1E1 View 3D Structure Click here
A0A0P0Y7X5 View 3D Structure Click here
A0A0R0EPJ0 View 3D Structure Click here
A0A0R0F845 View 3D Structure Click here
A0A0R0GA16 View 3D Structure Click here
A0A0R0HEM2 View 3D Structure Click here
A0A0R0HV62 View 3D Structure Click here
A0A0R0II64 View 3D Structure Click here
A0A0R0IQZ2 View 3D Structure Click here
A0A0R0JMI8 View 3D Structure Click here
A0A0R0JQC1 View 3D Structure Click here
A0A0R0JZL4 View 3D Structure Click here
A0A0R0KEN7 View 3D Structure Click here
A0A0R0L178 View 3D Structure Click here
A0A0R0L4J8 View 3D Structure Click here
A0A0R4IST8 View 3D Structure Click here
A0A144A2R4 View 3D Structure Click here
A0A1D6DRQ2 View 3D Structure Click here
A0A1D6DTM3 View 3D Structure Click here
A0A1D6E8B5 View 3D Structure Click here
A0A1D6E9T9 View 3D Structure Click here
A0A1D6ET91 View 3D Structure Click here
A0A1D6FP61 View 3D Structure Click here
A0A1D6G378 View 3D Structure Click here
A0A1D6GF62 View 3D Structure Click here
A0A1D6GJ57 View 3D Structure Click here
A0A1D6GRK3 View 3D Structure Click here
A0A1D6HKL4 View 3D Structure Click here
A0A1D6HVT5 View 3D Structure Click here
A0A1D6I0D9 View 3D Structure Click here
A0A1D6I2R0 View 3D Structure Click here
A0A1D6IAK3 View 3D Structure Click here
A0A1D6KJI3 View 3D Structure Click here
A0A1D6KPS5 View 3D Structure Click here
A0A1D6LE95 View 3D Structure Click here
A0A1D6LY38 View 3D Structure Click here
A0A1D6M3F2 View 3D Structure Click here
A0A1D6MBP0 View 3D Structure Click here
A0A1D6MP53 View 3D Structure Click here
A0A1D6N594 View 3D Structure Click here
A0A1D6NEM6 View 3D Structure Click here
A0A1D6NER7 View 3D Structure Click here
A0A1D6NKZ0 View 3D Structure Click here
A0A1D6QMW6 View 3D Structure Click here
A0A1D6QUV9 View 3D Structure Click here
A0A1D8PDG0 View 3D Structure Click here
A0A1D8PDM3 View 3D Structure Click here
A0A1D8PET9 View 3D Structure Click here
A0A1P8AVN1 View 3D Structure Click here
A0A2R8Q1A0 View 3D Structure Click here
A0A2R8Q9I8 View 3D Structure Click here
A0A2R8QBE0 View 3D Structure Click here
A0A2R8QBF6 View 3D Structure Click here
A0A2R8QPE2 View 3D Structure Click here
A0A368UL97 View 3D Structure Click here
A2APY7 View 3D Structure Click here
A3KNP4 View 3D Structure Click here
A3KP37 View 3D Structure Click here
A4ICH1 View 3D Structure Click here
A4IDL2 View 3D Structure Click here
A4IDL3 View 3D Structure Click here
A8MQH8 View 3D Structure Click here
B1H275 View 3D Structure Click here
B2GV71 View 3D Structure Click here
B4F9V9 View 3D Structure Click here
B4FB47 View 3D Structure Click here
B4FBP7 View 3D Structure Click here
B4FF45 View 3D Structure Click here
B4FI30 View 3D Structure Click here
B4FIJ8 View 3D Structure Click here
B4FU16 View 3D Structure Click here
B4FZ18 View 3D Structure Click here
B6SVX3 View 3D Structure Click here
B6TB21 View 3D Structure Click here
B7FA34 View 3D Structure Click here
B7ZD59 View 3D Structure Click here
B9EZ42 View 3D Structure Click here
B9FV09 View 3D Structure Click here
C0H494 View 3D Structure Click here
C0H4F7 View 3D Structure Click here
C0HDZ4 View 3D Structure Click here
C0HFI1 View 3D Structure Click here
C0PBB4 View 3D Structure Click here
C0PCR5 View 3D Structure Click here
C0PDM3 View 3D Structure Click here
C6T667 View 3D Structure Click here
C6TGX5 View 3D Structure Click here
C6TI19 View 3D Structure Click here
C6TI82 View 3D Structure Click here
D2D5G3 View 3D Structure Click here
D3ZK29 View 3D Structure Click here
D3ZQW3 View 3D Structure Click here
D4ADU7 View 3D Structure Click here
E7EZR9 View 3D Structure Click here
E9QB52 View 3D Structure Click here
F1M3Y3 View 3D Structure Click here
F1QJM0 View 3D Structure Click here
F4I0B5 View 3D Structure Click here
F4I261 View 3D Structure Click here
F4J554 View 3D Structure Click here
F8WRI5 View 3D Structure Click here
G3X9G9 View 3D Structure Click here
I1JB52 View 3D Structure Click here
I1JN67 View 3D Structure Click here
I1JVF7 View 3D Structure Click here
I1JVJ7 View 3D Structure Click here
I1JZG1 View 3D Structure Click here
I1K3T9 View 3D Structure Click here
I1K5B7 View 3D Structure Click here
I1K7G0 View 3D Structure Click here
I1KE05 View 3D Structure Click here
I1KJV5 View 3D Structure Click here
I1KRC9 View 3D Structure Click here
I1L2A0 View 3D Structure Click here
I1L567 View 3D Structure Click here
I1L5K3 View 3D Structure Click here
I1L880 View 3D Structure Click here
I1L8V0 View 3D Structure Click here
I1L9T0 View 3D Structure Click here
I1LNX7 View 3D Structure Click here
I1LNX8 View 3D Structure Click here
I1LNY8 View 3D Structure Click here
I1LP31 View 3D Structure Click here
I1LSB3 View 3D Structure Click here
I1LT11 View 3D Structure Click here
I1LVI4 View 3D Structure Click here
I1LZ39 View 3D Structure Click here
I1MHZ0 View 3D Structure Click here
I1MSN5 View 3D Structure Click here
I1N7H2 View 3D Structure Click here
I1NIB5 View 3D Structure Click here
I6XES4 View 3D Structure Click here
I6YAZ1 View 3D Structure Click here
K7K3Z1 View 3D Structure Click here
K7KFS5 View 3D Structure Click here
K7KUC4 View 3D Structure Click here
K7KXV5 View 3D Structure Click here
K7KXV9 View 3D Structure Click here
K7L0V0 View 3D Structure Click here
K7LU17 View 3D Structure Click here
K7LWC3 View 3D Structure Click here
K7UBZ6 View 3D Structure Click here
K7VKS0 View 3D Structure Click here
O01889 View 3D Structure Click here
O06593 View 3D Structure Click here
O13871 View 3D Structure Click here
O14321 View 3D Structure Click here
O33365 View 3D Structure Click here
O43709 View 3D Structure Click here
O49354 View 3D Structure Click here
O53532 View 3D Structure Click here
O74198 View 3D Structure Click here
O74529 View 3D Structure Click here
O80543 View 3D Structure Click here
O82427 View 3D Structure Click here
P0DPD7 View 3D Structure Click here
P0DPE0 View 3D Structure Click here
P25087 View 3D Structure Click here
P25627 View 3D Structure Click here
P30866 View 3D Structure Click here
P38892 View 3D Structure Click here
P49957 View 3D Structure Click here
P71794 View 3D Structure Click here
P75672 View 3D Structure Click here
P96246 View 3D Structure Click here
P9WIN3 View 3D Structure Click here
P9WJZ1 View 3D Structure Click here
P9WJZ5 View 3D Structure Click here
P9WJZ9 View 3D Structure Click here
P9WK01 View 3D Structure Click here
P9WLW9 View 3D Structure Click here
P9WLY7 View 3D Structure Click here
Q0J5R5 View 3D Structure Click here
Q0WPT7 View 3D Structure Click here
Q10162 View 3D Structure Click here
Q10224 View 3D Structure Click here
Q18489 View 3D Structure Click here
Q1LYQ0 View 3D Structure Click here
Q1PBH6 View 3D Structure Click here
Q20587 View 3D Structure Click here
Q22993 View 3D Structure Click here
Q2V2U9 View 3D Structure Click here
Q336N1 View 3D Structure Click here
Q33AG7 View 3D Structure Click here
Q39227 View 3D Structure Click here
Q3KRE2 View 3D Structure Click here
Q4CLW8 View 3D Structure Click here
Q4CM63 View 3D Structure Click here
Q4CMB7 View 3D Structure Click here
Q4CPB0 View 3D Structure Click here
Q4CYR6 View 3D Structure Click here
Q4DDK7 View 3D Structure Click here
Q4DGE3 View 3D Structure Click here
Q4DRD9 View 3D Structure Click here
Q4DZU0 View 3D Structure Click here
Q4W5T6 View 3D Structure Click here
Q50584 View 3D Structure Click here
Q54D70 View 3D Structure Click here
Q54EN8 View 3D Structure Click here
Q54ET9 View 3D Structure Click here
Q54GQ3 View 3D Structure Click here
Q54I98 View 3D Structure Click here
Q54JJ5 View 3D Structure Click here
Q54QA3 View 3D Structure Click here
Q54SL7 View 3D Structure Click here
Q553T0 View 3D Structure Click here
Q55DA6 View 3D Structure Click here
Q55EX9 View 3D Structure Click here
Q55GB9 View 3D Structure Click here
Q55GC0 View 3D Structure Click here
Q562C4 View 3D Structure Click here
Q564W8 View 3D Structure Click here
Q56GA2 View 3D Structure Click here
Q58055 View 3D Structure Click here
Q58523 View 3D Structure Click here
Q58630 View 3D Structure Click here
Q58648 View 3D Structure Click here
Q5A1M9 View 3D Structure Click here
Q5A386 View 3D Structure Click here
Q5I0W6 View 3D Structure Click here
Q5TEU4 View 3D Structure Click here
Q67W64 View 3D Structure Click here
Q69XX7 View 3D Structure Click here
Q6FI81 View 3D Structure Click here
Q6K852 View 3D Structure Click here
Q6UX53 View 3D Structure Click here
Q6YXU4 View 3D Structure Click here
Q6Z2U2 View 3D Structure Click here
Q6Z8K5 View 3D Structure Click here
Q6ZIK0 View 3D Structure Click here
Q6ZIX2 View 3D Structure Click here
Q7EZA5 View 3D Structure Click here
Q7K1S1 View 3D Structure Click here
Q7XUQ3 View 3D Structure Click here
Q7XVE1 View 3D Structure Click here
Q80WQ4 View 3D Structure Click here
Q80Y20 View 3D Structure Click here
Q8C6B0 View 3D Structure Click here
Q8IJC4 View 3D Structure Click here
Q8LBV4 View 3D Structure Click here
Q8N6R0 View 3D Structure Click here
Q8RXT8 View 3D Structure Click here
Q8VYT6 View 3D Structure Click here
Q8WTY4 View 3D Structure Click here
Q91YR5 View 3D Structure Click here
Q941B1 View 3D Structure Click here
Q944H0 View 3D Structure Click here
Q94A09 View 3D Structure Click here
Q94JS4 View 3D Structure Click here
Q96BT7 View 3D Structure Click here
Q9C6B9 View 3D Structure Click here
Q9CY21 View 3D Structure Click here
Q9DD20 View 3D Structure Click here
Q9FR44 View 3D Structure Click here
Q9FYL5 View 3D Structure Click here
Q9H8H3 View 3D Structure Click here
Q9LDW4 View 3D Structure Click here
Q9LEV6 View 3D Structure Click here
Q9LFH7 View 3D Structure Click here
Q9LM02 View 3D Structure Click here
Q9LSR5 View 3D Structure Click here
Q9LVD0 View 3D Structure Click here
Q9LY74 View 3D Structure Click here
Q9M005 View 3D Structure Click here
Q9M2E3 View 3D Structure Click here
Q9M389 View 3D Structure Click here
Q9NAP7 View 3D Structure Click here
Q9NZJ6 View 3D Structure Click here
Q9P272 View 3D Structure Click here
Q9SS89 View 3D Structure Click here
Q9SU88 View 3D Structure Click here
Q9SUW6 View 3D Structure Click here
Q9SZ14 View 3D Structure Click here
Q9TYP1 View 3D Structure Click here
Q9U3P9 View 3D Structure Click here
Q9UTA9 View 3D Structure Click here
Q9VBJ3 View 3D Structure Click here
Q9VIF3 View 3D Structure Click here
Q9VIK9 View 3D Structure Click here
Q9W232 View 3D Structure Click here
Q9XII4 View 3D Structure Click here
Q9ZSK1 View 3D Structure Click here
Q9ZVC3 View 3D Structure Click here