UniProtKB - Q9H5U6 (ZCHC4_HUMAN)
rRNA N6-adenosine-methyltransferase ZCCHC4
ZCCHC4
Functioni
rRNA N6-methyltransferase that specifically methylates the adenine in position 4220 of 28S rRNA (PubMed:30531910, PubMed:31328227, PubMed:31799605, PubMed:31695039).
N6-methylation of adenine(4220) in 28S rRNA is required for translation (PubMed:30531910, PubMed:31799605).
4 PublicationsCatalytic activityi
- adenosine4220 in 28S rRNA + S-adenosyl-L-methionine = H+ + N6-methyladenosine4220 in 28S rRNA + S-adenosyl-L-homocysteine4 PublicationsThis reaction proceeds in the forward4 Publications direction.
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Metal bindingi | 40 | Zinc 1Combined sources1 Publication | 1 | |
Metal bindingi | 42 | Zinc 1Combined sources1 Publication | 1 | |
Metal bindingi | 64 | Zinc 1Combined sources1 Publication | 1 | |
Metal bindingi | 73 | Zinc 1Combined sources1 Publication | 1 | |
Metal bindingi | 125 | Zinc 2Combined sources1 Publication | 1 | |
Metal bindingi | 128 | Zinc 2Combined sources1 Publication | 1 | |
Metal bindingi | 140 | Zinc 2Combined sources1 Publication | 1 | |
Metal bindingi | 143 | Zinc 2Combined sources1 Publication | 1 | |
Binding sitei | 202 | S-adenosyl-L-methionineCombined sources1 Publication | 1 | |
Binding sitei | 225 | S-adenosyl-L-methionineCombined sources1 Publication | 1 | |
Binding sitei | 276 | S-adenosyl-L-methionineCombined sources1 Publication | 1 | |
Metal bindingi | 380 | Zinc 3Combined sources1 Publication | 1 | |
Metal bindingi | 383 | Zinc 3Combined sources1 Publication | 1 | |
Metal bindingi | 393 | Zinc 3Combined sources1 Publication | 1 | |
Metal bindingi | 394 | Zinc 4Combined sources1 Publication | 1 | |
Metal bindingi | 397 | Zinc 4Combined sources1 Publication | 1 | |
Metal bindingi | 400 | Zinc 3Combined sources1 Publication | 1 | |
Metal bindingi | 410 | Zinc 4Combined sources1 Publication | 1 | |
Metal bindingi | 411 | Zinc 5Combined sources1 Publication | 1 | |
Metal bindingi | 414 | Zinc 5Combined sources1 Publication | 1 | |
Metal bindingi | 417 | Zinc 4Combined sources1 Publication | 1 | |
Metal bindingi | 424 | Zinc 5Combined sources1 Publication | 1 | |
Metal bindingi | 425 | Zinc 6Combined sources1 Publication | 1 | |
Metal bindingi | 428 | Zinc 6Combined sources1 Publication | 1 | |
Metal bindingi | 431 | Zinc 5Combined sources1 Publication | 1 | |
Metal bindingi | 436 | Zinc 6Combined sources1 Publication | 1 | |
Metal bindingi | 438 | Zinc 6Combined sources1 Publication | 1 |
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 38 – 82 | GRF-typeSequence analysisAdd BLAST | 45 | |
Zinc fingeri | 443 – 460 | CCHC-typeAdd BLAST | 18 |
GO - Molecular functioni
- nucleic acid binding Source: InterPro
- rRNA (adenine-N6-)-methyltransferase activity Source: UniProtKB
- S-adenosyl-L-methionine binding Source: UniProtKB
- zinc ion binding Source: UniProtKB
GO - Biological processi
- positive regulation of translation Source: UniProtKB
- rRNA methylation Source: UniProtKB
Keywordsi
Molecular function | Methyltransferase, Transferase |
Ligand | Metal-binding, S-adenosyl-L-methionine, Zinc |
Enzyme and pathway databases
PathwayCommonsi | Q9H5U6 |
SignaLinki | Q9H5U6 |
Names & Taxonomyi
Protein namesi | Recommended name: rRNA N6-adenosine-methyltransferase ZCCHC4Curated (EC:2.1.1.-3 Publications)Alternative name(s): Zinc finger CCHC domain-containing protein 4Curated |
Gene namesi | |
Organismi | Homo sapiens (Human) |
Taxonomic identifieri | 9606 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Proteomesi |
|
Organism-specific databases
HGNCi | HGNC:22917, ZCCHC4 |
MIMi | 611792, gene |
neXtProti | NX_Q9H5U6 |
VEuPathDBi | HostDB:ENSG00000168228 |
Pathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 173 | Y → A: Abolished rRNA methyltransferase activity. 1 Publication | 1 | |
Mutagenesisi | 276 – 279 | DPPF → AAAA: Loss of methyltransferase activity. 1 Publication | 4 | |
Mutagenesisi | 276 | D → A: Loss of methyltransferase activity. 1 Publication | 1 | |
Mutagenesisi | 340 | Y → A: Strongly impaired rRNA methyltransferase activity. 1 Publication | 1 | |
Mutagenesisi | 341 | D → A: Increased rRNA methylation. 1 Publication | 1 | |
Mutagenesisi | 342 | N → A: Strongly impaired rRNA methyltransferase activity. 1 Publication | 1 | |
Mutagenesisi | 343 | H → A: Decreased S-adenosyl-L-methionine-binding. 1 Publication | 1 | |
Mutagenesisi | 343 | H → A: Strongly impaired rRNA methyltransferase activity. 1 Publication | 1 | |
Mutagenesisi | 345 | L → A: Increased rRNA methylation. 1 Publication | 1 |
Organism-specific databases
DisGeNETi | 29063 |
OpenTargetsi | ENSG00000168228 |
PharmGKBi | PA134950003 |
Miscellaneous databases
Pharosi | Q9H5U6, Tdark |
Genetic variation databases
BioMutai | ZCCHC4 |
DMDMi | 85700439 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000150952 | 1 – 513 | rRNA N6-adenosine-methyltransferase ZCCHC4Add BLAST | 513 |
Proteomic databases
EPDi | Q9H5U6 |
jPOSTi | Q9H5U6 |
MassIVEi | Q9H5U6 |
MaxQBi | Q9H5U6 |
PaxDbi | Q9H5U6 |
PeptideAtlasi | Q9H5U6 |
PRIDEi | Q9H5U6 |
ProteomicsDBi | 80928 [Q9H5U6-1] 80929 [Q9H5U6-2] 80930 [Q9H5U6-3] |
PTM databases
iPTMneti | Q9H5U6 |
PhosphoSitePlusi | Q9H5U6 |
Expressioni
Gene expression databases
Bgeei | ENSG00000168228, Expressed in heart and 137 other tissues |
ExpressionAtlasi | Q9H5U6, baseline and differential |
Genevisiblei | Q9H5U6, HS |
Organism-specific databases
HPAi | ENSG00000168228, Low tissue specificity |
Interactioni
Subunit structurei
Protein-protein interaction databases
BioGRIDi | 118838, 2 interactors |
IntActi | Q9H5U6, 1 interactor |
STRINGi | 9606.ENSP00000303468 |
Miscellaneous databases
RNActi | Q9H5U6, protein |
Structurei
Secondary structure
3D structure databases
SMRi | Q9H5U6 |
ModBasei | Search... |
PDBe-KBi | Search... |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 395 – 447 | DHHCPROSITE-ProRule annotationAdd BLAST | 53 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 172 – 175 | S-adenosyl-L-methionine bindingCombined sources1 Publication | 4 | |
Regioni | 243 – 244 | S-adenosyl-L-methionine bindingCombined sources1 Publication | 2 | |
Regioni | 337 – 357 | Regulatory loop1 PublicationAdd BLAST | 21 | |
Regioni | 466 – 513 | DisorderedSequence analysisAdd BLAST | 48 |
Domaini
Sequence similaritiesi
Zinc finger
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 38 – 82 | GRF-typeSequence analysisAdd BLAST | 45 | |
Zinc fingeri | 443 – 460 | CCHC-typeAdd BLAST | 18 |
Keywords - Domaini
Zinc-fingerPhylogenomic databases
eggNOGi | KOG4399, Eukaryota |
GeneTreei | ENSGT00390000012556 |
HOGENOMi | CLU_034589_0_0_1 |
InParanoidi | Q9H5U6 |
OMAi | EFCLYNM |
OrthoDBi | 709190at2759 |
PhylomeDBi | Q9H5U6 |
TreeFami | TF313872 |
Family and domain databases
InterProi | View protein in InterPro IPR002052, DNA_methylase_N6_adenine_CS IPR041370, Mlase_EEF1AKMT1/ZCCHC4 IPR039846, ZCCHC4 IPR010666, Znf_GRF |
PANTHERi | PTHR13493, PTHR13493, 1 hit |
Pfami | View protein in Pfam PF10237, N6-adenineMlase, 1 hit PF06839, zf-GRF, 1 hit |
PROSITEi | View protein in PROSITE PS50216, DHHC, 1 hit PS00092, N6_MTASE, 1 hit |
s (3+)i Sequence
Sequence statusi: Complete.
This entry describes 3 produced by isoformsialternative splicing. AlignAdd to basketThis entry has 3 described isoforms and 2 potential isoforms that are computationally mapped.Show allAlign All
This isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
10 20 30 40 50
MAASRNGFEA VEAEGSAGCR GSSGMEVVLP LDPAVPAPLC PHGPTLLFVK
60 70 80 90 100
VTQGKEETRR FYACSACRDR KDCNFFQWED EKLSGARLAA REAHNRRCQP
110 120 130 140 150
PLSRTQCVER YLKFIELPLT QRKFCQTCQQ LLLPDDWGQH SEHQVLGNVS
160 170 180 190 200
ITQLRRPSQL LYPLENKKTN AQYLFADRSC QFLVDLLSAL GFRRVLCVGT
210 220 230 240 250
PRLHELIKLT ASGDKKSNIK SLLLDIDFRY SQFYMEDSFC HYNMFNHHFF
260 270 280 290 300
DGKTALEVCR AFLQEDKGEG IIMVTDPPFG GLVEPLAITF KKLIAMWKEG
310 320 330 340 350
QSQDDSHKEL PIFWIFPYFF ESRICQFFPS FQMLDYQVDY DNHALYKHGK
360 370 380 390 400
TGRKQSPVRI FTNIPPNKII LPTEEGYRFC SPCQRYVSLE NQHCELCNSC
410 420 430 440 450
TSKDGRKWNH CFLCKKCVKP SWIHCSICNH CAVPDHSCEG PKHGCFICGE
460 470 480 490 500
LDHKRSTCPN IATSKRANKA VRKQKQRKSN KMKMETTKGQ SMNHTSATRR
510
KKRRERAHQY LGS
Computationally mapped potential isoform sequencesi
There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basketH0Y8V8 | H0Y8V8_HUMAN | rRNA N6-adenosine-methyltransferase... | ZCCHC4 | 302 | Annotation score: | ||
A0A087X0K5 | A0A087X0K5_HUMAN | rRNA N6-adenosine-methyltransferase... | ZCCHC4 | 127 | Annotation score: |
Sequence cautioni
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 348 | H → R in BAG61250 (PubMed:14702039).Curated | 1 |
Natural variant
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural variantiVAR_053751 | 382 | P → L. Corresponds to variant dbSNP:rs3752873EnsemblClinVar. | 1 | |
Natural variantiVAR_024925 | 396 | L → H3 PublicationsCorresponds to variant dbSNP:rs315675Ensembl. | 1 |
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_043359 | 230 – 513 | Missing in isoform 2. 1 PublicationAdd BLAST | 284 | |
Alternative sequenceiVSP_043360 | 470 – 472 | Missing in isoform 3. 1 Publication | 3 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY629351 mRNA Translation: AAV41218.1 CH471069 Genomic DNA Translation: EAW92837.1 AK299211 mRNA Translation: BAG61250.1 AK026677 mRNA Translation: BAB15524.1 Different initiation. BC016914 mRNA Translation: AAH16914.1 Different initiation. BC157834 mRNA Translation: AAI57835.1 BC171821 mRNA Translation: AAI71821.1 |
CCDSi | CCDS43218.1 [Q9H5U6-1] |
RefSeqi | NP_079212.2, NM_024936.2 [Q9H5U6-1] |
Genome annotation databases
Ensembli | ENST00000302874; ENSP00000303468; ENSG00000168228 ENST00000507760; ENSP00000422115; ENSG00000168228 [Q9H5U6-2] |
GeneIDi | 29063 |
KEGGi | hsa:29063 |
MANE-Selecti | ENST00000302874.9; ENSP00000303468.4; NM_024936.3; NP_079212.2 |
UCSCi | uc003grl.5, human [Q9H5U6-1] |
Keywords - Coding sequence diversityi
Alternative splicingSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY629351 mRNA Translation: AAV41218.1 CH471069 Genomic DNA Translation: EAW92837.1 AK299211 mRNA Translation: BAG61250.1 AK026677 mRNA Translation: BAB15524.1 Different initiation. BC016914 mRNA Translation: AAH16914.1 Different initiation. BC157834 mRNA Translation: AAI57835.1 BC171821 mRNA Translation: AAI71821.1 |
CCDSi | CCDS43218.1 [Q9H5U6-1] |
RefSeqi | NP_079212.2, NM_024936.2 [Q9H5U6-1] |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
6UCA | X-ray | 3.10 | A/B/C/D/E/F | 24-464 | [»] | |
SMRi | Q9H5U6 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 118838, 2 interactors |
IntActi | Q9H5U6, 1 interactor |
STRINGi | 9606.ENSP00000303468 |
PTM databases
iPTMneti | Q9H5U6 |
PhosphoSitePlusi | Q9H5U6 |
Genetic variation databases
BioMutai | ZCCHC4 |
DMDMi | 85700439 |
Proteomic databases
EPDi | Q9H5U6 |
jPOSTi | Q9H5U6 |
MassIVEi | Q9H5U6 |
MaxQBi | Q9H5U6 |
PaxDbi | Q9H5U6 |
PeptideAtlasi | Q9H5U6 |
PRIDEi | Q9H5U6 |
ProteomicsDBi | 80928 [Q9H5U6-1] 80929 [Q9H5U6-2] 80930 [Q9H5U6-3] |
Protocols and materials databases
Antibodypediai | 23199, 81 antibodies from 14 providers |
DNASUi | 29063 |
Genome annotation databases
Ensembli | ENST00000302874; ENSP00000303468; ENSG00000168228 ENST00000507760; ENSP00000422115; ENSG00000168228 [Q9H5U6-2] |
GeneIDi | 29063 |
KEGGi | hsa:29063 |
MANE-Selecti | ENST00000302874.9; ENSP00000303468.4; NM_024936.3; NP_079212.2 |
UCSCi | uc003grl.5, human [Q9H5U6-1] |
Organism-specific databases
CTDi | 29063 |
DisGeNETi | 29063 |
GeneCardsi | ZCCHC4 |
HGNCi | HGNC:22917, ZCCHC4 |
HPAi | ENSG00000168228, Low tissue specificity |
MIMi | 611792, gene |
neXtProti | NX_Q9H5U6 |
OpenTargetsi | ENSG00000168228 |
PharmGKBi | PA134950003 |
VEuPathDBi | HostDB:ENSG00000168228 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG4399, Eukaryota |
GeneTreei | ENSGT00390000012556 |
HOGENOMi | CLU_034589_0_0_1 |
InParanoidi | Q9H5U6 |
OMAi | EFCLYNM |
OrthoDBi | 709190at2759 |
PhylomeDBi | Q9H5U6 |
TreeFami | TF313872 |
Enzyme and pathway databases
PathwayCommonsi | Q9H5U6 |
SignaLinki | Q9H5U6 |
Miscellaneous databases
BioGRID-ORCSi | 29063, 6 hits in 1048 CRISPR screens |
ChiTaRSi | ZCCHC4, human |
GenomeRNAii | 29063 |
Pharosi | Q9H5U6, Tdark |
PROi | PR:Q9H5U6 |
RNActi | Q9H5U6, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000168228, Expressed in heart and 137 other tissues |
ExpressionAtlasi | Q9H5U6, baseline and differential |
Genevisiblei | Q9H5U6, HS |
Family and domain databases
InterProi | View protein in InterPro IPR002052, DNA_methylase_N6_adenine_CS IPR041370, Mlase_EEF1AKMT1/ZCCHC4 IPR039846, ZCCHC4 IPR010666, Znf_GRF |
PANTHERi | PTHR13493, PTHR13493, 1 hit |
Pfami | View protein in Pfam PF10237, N6-adenineMlase, 1 hit PF06839, zf-GRF, 1 hit |
PROSITEi | View protein in PROSITE PS50216, DHHC, 1 hit PS00092, N6_MTASE, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | ZCHC4_HUMAN | |
Accessioni | Q9H5U6Primary (citable) accession number: Q9H5U6 Secondary accession number(s): B2RXF6 Q96AN7 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | August 31, 2004 |
Last sequence update: | January 24, 2006 | |
Last modified: | February 23, 2022 | |
This is version 148 of the entry and version 3 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program | |
Disclaimer | Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care. |
Miscellaneousi
Keywords - Technical termi
3D-structure, Reference proteomeDocuments
- Human chromosome 4
Human chromosome 4: entries, gene names and cross-references to MIM - Human entries with genetic variants
List of human entries with genetic variants - Human variants curated from literature reports
Index of human variants curated from literature reports - MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families