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 Publications

Catalytic activityⁱ

adenosine⁴²²⁰ in 28S rRNA
Search proteins in UniProtKB for this molecule.
Search chemical reactions in Rhea for this molecule.
+
S-adenosyl-L-methionine
Search proteins in UniProtKB for this molecule.
Search chemical reactions in Rhea for this molecule.
See the description of this molecule in ChEBI.
=
H⁺
Search proteins in UniProtKB for this molecule.
Search chemical reactions in Rhea for this molecule.
See the description of this molecule in ChEBI.
+
N⁶-methyladenosine⁴²²⁰ in 28S rRNA
Search proteins in UniProtKB for this molecule.
Search chemical reactions in Rhea for this molecule.
+
S-adenosyl-L-homocysteine
Search proteins in UniProtKB for this molecule.
Search chemical reactions in Rhea for this molecule.
See the description of this molecule in ChEBI.
4 Publications
Manual assertion based on experiment inⁱ
- Ref.6
  "N6-methyladenosine methyltransferase ZCCHC4 mediates ribosomal RNA methylation."
  Ma H., Wang X., Cai J., Dai Q., Natchiar S.K., Lv R., Chen K., Lu Z., Chen H., Shi Y.G., Lan F., Fan J., Klaholz B.P., Pan T., Shi Y., He C.
  Nat. Chem. Biol. 15:88-94(2019) [PubMed] [Europe PMC] [Abstract]
  Cited for: FUNCTION, CATALYTIC ACTIVITY, SUBCELLULAR LOCATION, MUTAGENESIS OF 276-ASP--PHE-279.
- Ref.7
  "The human 18S rRNA m6A methyltransferase METTL5 is stabilized by TRMT112."
  van Tran N., Ernst F.G.M., Hawley B.R., Zorbas C., Ulryck N., Hackert P., Bohnsack K.E., Bohnsack M.T., Jaffrey S.R., Graille M., Lafontaine D.L.J.
  Nucleic Acids Res. 47:7719-7733(2019) [PubMed] [Europe PMC] [Abstract]
  Cited for: FUNCTION, CATALYTIC ACTIVITY.
- Ref.8
  "The human methyltransferase ZCCHC4 catalyses N6-methyladenosine modification of 28S ribosomal RNA."
  Pinto R., Vaagboe C.B., Jakobsson M.E., Kim Y., Baltissen M.P., O'Donohue M.F., Guzman U.H., Malecki J.M., Wu J., Kirpekar F., Olsen J.V., Gleizes P.E., Vermeulen M., Leidel S.A., Slupphaug G., Falnes P.O.
  Nucleic Acids Res. 48:830-846(2020) [PubMed] [Europe PMC] [Abstract]
  Cited for: FUNCTION, CATALYTIC ACTIVITY, SUBCELLULAR LOCATION, INTERACTION WITH TRIP4; ASCC1; ASCC2; ASCC3; AHCYL1; AHCYL2 AND YTHDC2, MUTAGENESIS OF ASP-276.
- Ref.9
  "Structure and regulation of ZCCHC4 in m6A-methylation of 28S rRNA."
  Ren W., Lu J., Huang M., Gao L., Li D., Wang G.G., Song J.
  Nat. Commun. 10:5042-5042(2019) [PubMed] [Europe PMC] [Abstract]
  Cited for: X-RAY CRYSTALLOGRAPHY (3.10 ANGSTROMS) OF 24-464 IN COMPLEX WITH S-ADENOSYL-L-METHIONINE AND ZINC, FUNCTION, CATALYTIC ACTIVITY, DOMAIN, MUTAGENESIS OF TYR-173; TYR-340; ASP-341; ASN-342; HIS-343 AND LEU-345.
This reaction proceeds in the
forward
Search for this reaction in UniProtKB.
See the description of this reaction in Rhea.
4 Publications
Manual assertion based on experiment inⁱ
- Ref.6
  "N6-methyladenosine methyltransferase ZCCHC4 mediates ribosomal RNA methylation."
  Ma H., Wang X., Cai J., Dai Q., Natchiar S.K., Lv R., Chen K., Lu Z., Chen H., Shi Y.G., Lan F., Fan J., Klaholz B.P., Pan T., Shi Y., He C.
  Nat. Chem. Biol. 15:88-94(2019) [PubMed] [Europe PMC] [Abstract]
  Cited for: FUNCTION, CATALYTIC ACTIVITY, SUBCELLULAR LOCATION, MUTAGENESIS OF 276-ASP--PHE-279.
- Ref.7
  "The human 18S rRNA m6A methyltransferase METTL5 is stabilized by TRMT112."
  van Tran N., Ernst F.G.M., Hawley B.R., Zorbas C., Ulryck N., Hackert P., Bohnsack K.E., Bohnsack M.T., Jaffrey S.R., Graille M., Lafontaine D.L.J.
  Nucleic Acids Res. 47:7719-7733(2019) [PubMed] [Europe PMC] [Abstract]
  Cited for: FUNCTION, CATALYTIC ACTIVITY.
- Ref.8
  "The human methyltransferase ZCCHC4 catalyses N6-methyladenosine modification of 28S ribosomal RNA."
  Pinto R., Vaagboe C.B., Jakobsson M.E., Kim Y., Baltissen M.P., O'Donohue M.F., Guzman U.H., Malecki J.M., Wu J., Kirpekar F., Olsen J.V., Gleizes P.E., Vermeulen M., Leidel S.A., Slupphaug G., Falnes P.O.
  Nucleic Acids Res. 48:830-846(2020) [PubMed] [Europe PMC] [Abstract]
  Cited for: FUNCTION, CATALYTIC ACTIVITY, SUBCELLULAR LOCATION, INTERACTION WITH TRIP4; ASCC1; ASCC2; ASCC3; AHCYL1; AHCYL2 AND YTHDC2, MUTAGENESIS OF ASP-276.
- Ref.9
  "Structure and regulation of ZCCHC4 in m6A-methylation of 28S rRNA."
  Ren W., Lu J., Huang M., Gao L., Li D., Wang G.G., Song J.
  Nat. Commun. 10:5042-5042(2019) [PubMed] [Europe PMC] [Abstract]
  Cited for: X-RAY CRYSTALLOGRAPHY (3.10 ANGSTROMS) OF 24-464 IN COMPLEX WITH S-ADENOSYL-L-METHIONINE AND ZINC, FUNCTION, CATALYTIC ACTIVITY, DOMAIN, MUTAGENESIS OF TYR-173; TYR-340; ASP-341; ASN-342; HIS-343 AND LEU-345.
direction.
Source:
Rhea
Search for this reaction in UniProtKB.
See the description of this reaction in Rhea.
. Show »« Hide
adenosine⁴²²⁰ in 28S rRNA
AMP residue
zoom
+
S-adenosyl-L-methionine
zoom
=
H⁺
+
N⁶-methyladenosine⁴²²⁰ in 28S rRNA
N⁶-methyladenosine 5'-phosphate residue
zoom
+
S-adenosyl-L-homocysteine
zoom

Sites

Feature key	Position(s)	DescriptionActions	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

Complete GO annotation on QuickGO ...

GO - Biological processⁱ

Complete GO annotation on QuickGO ...

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	Name:ZCCHC41 PublicationImported
Organismⁱ	Homo sapiens (Human)
Taxonomic identifierⁱ	9606 [NCBI]
Taxonomic lineageⁱ	cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Dipnotetrapodomorpha › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Boreoeutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo
Proteomesⁱ	UP000005640 Componentⁱ: Chromosome 4

Organism-specific databases

Human Gene Nomenclature Database More...HGNCⁱ	HGNC:22917, ZCCHC4
MIMⁱ	611792, gene
neXtProtⁱ	NX_Q9H5U6
VEuPathDBⁱ	HostDB:ENSG00000168228

Keywords - Cellular componentⁱ

Cytoplasm, Nucleus

Pathology & Biotechⁱ

Mutagenesis

Feature key	Position(s)	DescriptionActions	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

DisGeNET More...DisGeNETⁱ	29063
Open Targets More...OpenTargetsⁱ	ENSG00000168228
PharmGKBⁱ	PA134950003

Miscellaneous databases

Pharosⁱ	Q9H5U6, Tdark

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
MaxQB - The MaxQuant DataBase More...MaxQBⁱ	Q9H5U6
PaxDbⁱ	Q9H5U6
PeptideAtlas More...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

Human Protein Atlas More...HPAⁱ	ENSG00000168228, Low tissue specificity

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

RNActⁱ

Q9H5U6, protein

Structureⁱ

Secondary structure

Legend: HelixTurnBeta strandPDB Structure known for this area

Feature key	Position(s)	DescriptionActions	Length
Beta strandⁱ	46 – 50	Combined sources	5
Turnⁱ	53 – 55	Combined sources	3
Beta strandⁱ	60 – 63	Combined sources	4
Turnⁱ	70 – 72	Combined sources	3
Beta strandⁱ	77 – 80	Combined sources	4
Helixⁱ	85 – 97	Combined sources	13
Helixⁱ	104 – 114	Combined sources	11
Helixⁱ	119 – 121	Combined sources	3
Beta strandⁱ	123 – 125	Combined sources	3
Turnⁱ	126 – 129	Combined sources	4
Beta strandⁱ	130 – 132	Combined sources	3
Helixⁱ	134 – 140	Combined sources	7
Helixⁱ	151 – 154	Combined sources	4
Helixⁱ	157 – 159	Combined sources	3
Turnⁱ	167 – 170	Combined sources	4
Helixⁱ	177 – 190	Combined sources	14
Beta strandⁱ	193 – 199	Combined sources	7
Helixⁱ	201 – 212	Combined sources	12
Beta strandⁱ	220 – 226	Combined sources	7
Helixⁱ	228 – 232	Combined sources	5
Turnⁱ	236 – 238	Combined sources	3
Beta strandⁱ	239 – 243	Combined sources	5
Turnⁱ	244 – 247	Combined sources	4
Helixⁱ	253 – 264	Combined sources	12
Helixⁱ	265 – 268	Combined sources	4
Beta strandⁱ	270 – 275	Combined sources	6
Beta strandⁱ	279 – 281	Combined sources	3
Helixⁱ	284 – 298	Combined sources	15
Beta strandⁱ	312 – 317	Combined sources	6
Helixⁱ	318 – 320	Combined sources	3
Helixⁱ	321 – 327	Combined sources	7
Beta strandⁱ	340 – 342	Combined sources	3
Beta strandⁱ	350 – 352	Combined sources	3
Beta strandⁱ	358 – 364	Combined sources	7
Helixⁱ	366 – 368	Combined sources	3
Helixⁱ	373 – 375	Combined sources	3
Beta strandⁱ	376 – 380	Combined sources	5
Turnⁱ	381 – 384	Combined sources	4
Beta strandⁱ	385 – 388	Combined sources	4
Turnⁱ	395 – 398	Combined sources	4
Beta strandⁱ	404 – 406	Combined sources	3
Beta strandⁱ	409 – 411	Combined sources	3
Turnⁱ	412 – 415	Combined sources	4
Beta strandⁱ	416 – 418	Combined sources	3
Turnⁱ	426 – 428	Combined sources	3
Beta strandⁱ	430 – 432	Combined sources	3

Show more details

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	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

The regulatory loop blocks the catalytic center by bridging the methyltransferase domain and the C-terminal CCHC-type zinc finger, resulting in an autoinhibitory conformation.1 Publication

Sequence similaritiesⁱ

Belongs to the ZCCHC4 family.Curated

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-finger

Phylogenomic databases

eggNOGⁱ	KOG4399, Eukaryota
Ensembl GeneTree More...GeneTreeⁱ	ENSGT00390000012556
HOGENOMⁱ	CLU_034589_0_0_1
InParanoidⁱ	Q9H5U6
OMAⁱ	EFCLYNM
Database of Orthologous Groups More...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
Pfam protein domain database More...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

Sequences (3+)ⁱ

Sequence statusⁱ: Complete.

This entry describes 3 isoformsⁱ produced by alternative splicing. Align Add to basket

This entry has 3 described isoforms and 2 potential isoforms that are computationally mapped.Show all Align All

Isoform 1 (identifier: Q9H5U6-1) [UniParc]FASTA Add to basket

This isoform has been chosen as the canonicalⁱ sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        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

Length:513

Mass (Da):59,010

Last modified:January 24, 2006 - v3

Checksum:ⁱD74690827DC935F4

GO

Isoform 2 (identifier: Q9H5U6-2) [UniParc]FASTA Add to basket

The sequence of this isoform differs from the canonical sequence as follows:
230-513: Missing.

« Hide

        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 
PRLHELIKLT ASGDKKSNIK SLLLDIDFR

Show »

Length:229

Mass (Da):25,866

Checksum:ⁱ20D6F1827E273314

GO

Isoform 3 (identifier: Q9H5U6-3) [UniParc]FASTA Add to basket

The sequence of this isoform differs from the canonical sequence as follows:
470-472: Missing.

« Hide

        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 IATSKRANKK QKQRKSNKMK METTKGQSMN HTSATRRKKR 
       510
RERAHQYLGS

Show »

Length:510

Mass (Da):58,683

Checksum:ⁱA70B1ECBB327ED3B

GO

Computationally mapped potential isoform sequencesⁱ

There are 2 potential isoforms mapped to this entry.BLAST Align Show all Add to basket

Entry	Entry name	Protein names	Gene names	Length	Annotation

H0Y8V8	H0Y8V8_HUMAN	rRNA N6-adenosine-methyltransferase... rRNA N6-adenosine-methyltransferase ZCCHC4	ZCCHC4	302	Annotation score:
A0A087X0K5	A0A087X0K5_HUMAN	rRNA N6-adenosine-methyltransferase... rRNA N6-adenosine-methyltransferase ZCCHC4	ZCCHC4	127	Annotation score:

Sequence cautionⁱ

The sequence AAH16914 differs from that shown. Reason: Erroneous initiation. Truncated N-terminus.Curated

The sequence BAB15524 differs from that shown. Reason: Erroneous initiation. Truncated N-terminus.Curated

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
The Consensus CDS (CCDS) project More...CCDSⁱ	CCDS43218.1 [Q9H5U6-1]
NCBI Reference Sequences More...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
UCSC genome browser More...UCSCⁱ	uc003grl.5, human [Q9H5U6-1]

Keywords - Coding sequence diversityⁱ

Alternative splicing

Similar proteinsⁱ

90% Identity
50% Identity

Protein	Similar proteins		Species	Score	Length	Source
Q9H5U6	Zinc finger CCHC domain-containing protein 4		SAIBB		517	UniRef90_Q9H5U6
Zinc finger CCHC domain-containing protein 4		CERAT		513
Zinc finger CCHC domain-containing protein 4		PAPAN		513
Zinc finger CCHC domain-containing protein 4		RHIBE		513
Zinc finger CCHC domain-containing protein 4		RHIRO		513
+53

Protein	Similar proteins		Species	Score	Length	Source
Q9H5U6	rRNA N6-adenosine-methyltransferase ZCCHC4		MOUSE		512	UniRef50_Q9H5U6
rRNA N6-adenosine-methyltransferase ZCCHC4		RAT		489
rRNA N6-adenosine-methyltransferase ZCCHC4		BOVIN		516
Zinc finger CCHC domain-containing protein 4		SAIBB		517
Zinc finger CCHC domain-containing protein 4		MANLE		513
+378

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: Protein Data Bank Europe More...PDBeⁱ Protein Data Bank RCSB More...RCSB PDBⁱ Protein Data Bank Japan More...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
The DNASU plasmid repository More...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
GenAtlas: human gene database More...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
Protein Ontology More...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 , B4DRD8, B7ZW20, Q5IW78, 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 proteome

Documents

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

UniProtKB

UniParc

Help

UniRef

Proteomes

Annotation systems

Supporting data

UniProtKB - Q9H5U6 (ZCHC4_HUMAN)

Your basket is currently empty. i <p>When browsing through different UniProt proteins, you can use the 'basket' to save them, so that you can back to find or analyse them later.<p><a href='/help/basket' target='_top'>More...</a></p>

rRNA N6-adenosine-methyltransferase ZCCHC4

Select a section on the left to see content.

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

Sites

Regions

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

Enzyme and pathway databases

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

Organism-specific databases

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Nucleus

Cytoplasm and Cytosol

Nucleus

Other locations

Keywords - Cellular componenti

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Mutagenesis

Organism-specific databases

Miscellaneous databases

Genetic variation databases

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Proteomic databases

PTM databases

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

Organism-specific databases

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

Miscellaneous databases

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

Secondary structure

3D structure databases

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Region

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Zinc finger

Keywords - Domaini

Phylogenomic databases

Family and domain databases

<p>This subsection of the 'Sequence' section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

Experimental Info

Natural variant

Alternative sequence

Sequence databases

Genome annotation databases

Keywords - Coding sequence diversityi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

3D structure databases

Protein-protein interaction databases

PTM databases

Genetic variation databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Miscellaneous databases

Gene expression databases

Family and domain databases

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Documents

UniProt is an ELIXIR core data resource

Your basket is currently empty. ⁱ

Functionⁱ

Catalytic activityⁱ

GO - Molecular functionⁱ

GO - Biological processⁱ

Names & Taxonomyⁱ

Subcellular locationⁱ

Keywords - Cellular componentⁱ

Pathology & Biotechⁱ

PTM / Processingⁱ

Expressionⁱ

Interactionⁱ

Structureⁱ

Family & Domainsⁱ

Sequence similaritiesⁱ

Keywords - Domainⁱ

Sequence cautionⁱ

Keywords - Coding sequence diversityⁱ

Cross-referencesⁱ

Entry informationⁱ

Miscellaneousⁱ

Keywords - Technical termⁱ