UniProtKB - Q7Z7F0 (KHDC4_HUMAN)
Protein
KH homology domain-containing protein 4
Gene
KHDC4
Organism
Homo sapiens (Human)
Status
Functioni
RNA-binding protein involved in pre-mRNA splicing (PubMed:19641227). Interacts with the PRP19C/Prp19 complex/NTC/Nineteen complex which is part of the spliceosome (PubMed:19641227). Involved in regulating splice site selection (PubMed:19641227). Binds preferentially RNA with A/C rich sequences and poly-C stretches (PubMed:23144703).2 Publications
GO - Molecular functioni
- RNA binding Source: UniProtKB
GO - Biological processi
- mRNA splice site selection Source: UniProtKB
Keywordsi
Molecular function | RNA-binding |
Biological process | mRNA processing, mRNA splicing |
Enzyme and pathway databases
PathwayCommonsi | Q7Z7F0 |
Names & Taxonomyi
Protein namesi | Recommended name: KH homology domain-containing protein 4ImportedAlternative name(s): Brings lots of money 71 Publication Pre-mRNA splicing factor protein KHDC4Curated |
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:29145, KHDC4 |
neXtProti | NX_Q7Z7F0 |
VEuPathDBi | HostDB:ENSG00000132680.10 |
Subcellular locationi
Nucleus
- nucleoplasm Source: HPA
- nucleus Source: UniProtKB
Other locations
- cytoplasm Source: UniProtKB
Keywords - Cellular componenti
Cytoplasm, NucleusPathology & Biotechi
Organism-specific databases
DisGeNETi | 22889 |
OpenTargetsi | ENSG00000132680 |
PharmGKBi | PA142671618 |
Miscellaneous databases
Pharosi | Q7Z7F0, Tdark |
Genetic variation databases
BioMutai | KHDC4 |
DMDMi | 74750236 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000296669 | 1 – 614 | KH homology domain-containing protein 4Add BLAST | 614 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 571 | PhosphoserineCombined sources | 1 | |
Modified residuei | 572 | PhosphoserineCombined sources | 1 |
Keywords - PTMi
PhosphoproteinProteomic databases
EPDi | Q7Z7F0 |
jPOSTi | Q7Z7F0 |
MassIVEi | Q7Z7F0 |
MaxQBi | Q7Z7F0 |
PaxDbi | Q7Z7F0 |
PeptideAtlasi | Q7Z7F0 |
PRIDEi | Q7Z7F0 |
ProteomicsDBi | 69525 [Q7Z7F0-1] 69526 [Q7Z7F0-2] 69527 [Q7Z7F0-3] 69528 [Q7Z7F0-4] |
PTM databases
iPTMneti | Q7Z7F0 |
PhosphoSitePlusi | Q7Z7F0 |
Expressioni
Tissue specificityi
Ubiquitous. Expressed at high level in skeletal muscle, kidney, heart, brain and liver.1 Publication
Gene expression databases
Bgeei | ENSG00000132680, Expressed in endometrium and 247 other tissues |
Genevisiblei | Q7Z7F0, HS |
Organism-specific databases
HPAi | ENSG00000132680, Low tissue specificity |
Interactioni
Subunit structurei
Interacts with PRPF19 (PubMed:19641227).
1 PublicationBinary interactionsi
Hide detailsQ7Z7F0
With | #Exp. | IntAct |
---|---|---|
PUF60 [Q9UHX1] | 3 | EBI-751942,EBI-1053259 |
RBM39 [Q14498] | 3 | EBI-751942,EBI-395290 |
RBM39 - isoform 3 [Q14498-3] | 3 | EBI-751942,EBI-6654703 |
SF1 [Q15637] | 5 | EBI-751942,EBI-744603 |
Isoform 4 [Q7Z7F0-4]
Protein-protein interaction databases
BioGRIDi | 116555, 45 interactors |
IntActi | Q7Z7F0, 40 interactors |
STRINGi | 9606.ENSP00000357304 |
Miscellaneous databases
RNActi | Q7Z7F0, protein |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | Q7Z7F0 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | Q7Z7F0 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 100 – 180 | KH 11 PublicationAdd BLAST | 81 | |
Domaini | 235 – 317 | KH 21 PublicationAdd BLAST | 83 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 480 – 549 | Required for nuclear retention1 PublicationAdd BLAST | 70 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 335 – 457 | Pro-richAdd BLAST | 123 |
Domaini
The C-terminal part is necessary for the interaction with the PRP19C/Prp19 complex/NTC/Nineteen complex.1 Publication
The KH domains mediate RNA-binding.1 Publication
Sequence similaritiesi
Belongs to the KHDC4 family.Curated
Phylogenomic databases
eggNOGi | KOG1960, Eukaryota |
GeneTreei | ENSGT00510000047412 |
HOGENOMi | CLU_032219_1_0_1 |
InParanoidi | Q7Z7F0 |
OMAi | MSFCGTQ |
OrthoDBi | 633868at2759 |
PhylomeDBi | Q7Z7F0 |
Family and domain databases
Gene3Di | 3.30.1370.10, 2 hits |
InterProi | View protein in InterPro IPR036612, KH_dom_type_1_sf IPR031121, RIK/BLOM7 |
PANTHERi | PTHR15744, PTHR15744, 1 hit |
SUPFAMi | SSF54791, SSF54791, 2 hits |
s (4)i Sequence
Sequence statusi: Complete.
This entry describes 4 produced by isoformsialternative splicing. AlignAdd to basketIsoform 1 (identifier: Q7Z7F0-1) [UniParc]FASTAAdd to basket
Also known as: Alpha, Blom7alpha1 Publication
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
MSAGSATHPG AGGRRSKWDQ PAPAPLLFLP PAAPGGEVTS SGGSPGGTTA
60 70 80 90 100
APSGALDAAA AVAAKINAML MAKGKLKPTQ NASEKLQAPG KGLTSNKSKD
110 120 130 140 150
DLVVAEVEIN DVPLTCRNLL TRGQTQDEIS RLSGAAVSTR GRFMTTEEKA
160 170 180 190 200
KVGPGDRPLY LHVQGQTREL VDRAVNRIKE IITNGVVKAA TGTSPTFNGA
210 220 230 240 250
TVTVYHQPAP IAQLSPAVSQ KPPFQSGMHY VQDKLFVGLE HAVPTFNVKE
260 270 280 290 300
KVEGPGCSYL QHIQIETGAK VFLRGKGSGC IEPASGREAF EPMYIYISHP
310 320 330 340 350
KPEGLAAAKK LCENLLQTVH AEYSRFVNQI NTAVPLPGYT QPSAISSVPP
360 370 380 390 400
QPPYYPSNGY QSGYPVVPPP QQPVQPPYGV PSIVPPAVSL APGVLPALPT
410 420 430 440 450
GVPPVPTQYP ITQVQPPAST GQSPMGGPFI PAAPVKTALP AGPQPQPQPQ
460 470 480 490 500
PPLPSQPQAQ KRRFTEELPD ERESGLLGYQ HGPIHMTNLG TGFSSQNEIE
510 520 530 540 550
GAGSKPASSS GKERERDRQL MPPPAFPVTG IKTESDERNG SGTLTGSHDY
560 570 580 590 600
PAKKMKTTEK GFGLVAYAAD SSDEEEEHGG HKNASSFPQG WSLGYQYPSS
610
QPRAKQQMPF WMAP
Sequence cautioni
The sequence BAA74930 differs from that shown. Reason: Erroneous initiation. Extended N-terminus.Curated
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_027238 | 228 – 241 | MHYVQ…VGLEH → VCFGEGSLIALSFL in isoform 4. 1 PublicationAdd BLAST | 14 | |
Alternative sequenceiVSP_027239 | 242 – 614 | Missing in isoform 4. 1 PublicationAdd BLAST | 373 | |
Alternative sequenceiVSP_027240 | 338 – 378 | GYTQP…VQPPY → AASSTSLRSTKHSATSCFIS TWSLAGITYWSPTCANTIPD NTSAASS in isoform 3. 1 PublicationAdd BLAST | 41 | |
Alternative sequenceiVSP_027241 | 379 – 614 | Missing in isoform 3. 1 PublicationAdd BLAST | 236 | |
Alternative sequenceiVSP_027242 | 549 – 564 | DYPAK…KGFGL → GECDIAGGTGEWLRLV in isoform 2. 2 PublicationsAdd BLAST | 16 | |
Alternative sequenceiVSP_027243 | 565 – 614 | Missing in isoform 2. 2 PublicationsAdd BLAST | 50 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY112680 mRNA Translation: AAM51855.1 AY112681 mRNA Translation: AAM51856.1 AY112682 mRNA Translation: AAM51857.1 AB020714 mRNA Translation: BAA74930.2 Different initiation. AL355388 Genomic DNA No translation available. BC027182 mRNA Translation: AAH27182.1 BC062637 mRNA Translation: AAH62637.1 |
CCDSi | CCDS30885.1 [Q7Z7F0-1] |
RefSeqi | NP_055764.2, NM_014949.3 [Q7Z7F0-1] |
Genome annotation databases
Ensembli | ENST00000368319; ENSP00000357302; ENSG00000132680 [Q7Z7F0-3] ENST00000368320; ENSP00000357303; ENSG00000132680 [Q7Z7F0-2] ENST00000368321; ENSP00000357304; ENSG00000132680 [Q7Z7F0-1] |
GeneIDi | 22889 |
KEGGi | hsa:22889 |
UCSCi | uc001fmi.2, human [Q7Z7F0-1] |
Keywords - Coding sequence diversityi
Alternative splicingSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY112680 mRNA Translation: AAM51855.1 AY112681 mRNA Translation: AAM51856.1 AY112682 mRNA Translation: AAM51857.1 AB020714 mRNA Translation: BAA74930.2 Different initiation. AL355388 Genomic DNA No translation available. BC027182 mRNA Translation: AAH27182.1 BC062637 mRNA Translation: AAH62637.1 |
CCDSi | CCDS30885.1 [Q7Z7F0-1] |
RefSeqi | NP_055764.2, NM_014949.3 [Q7Z7F0-1] |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
2YQR | NMR | - | A | 227-338 | [»] | |
SMRi | Q7Z7F0 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 116555, 45 interactors |
IntActi | Q7Z7F0, 40 interactors |
STRINGi | 9606.ENSP00000357304 |
PTM databases
iPTMneti | Q7Z7F0 |
PhosphoSitePlusi | Q7Z7F0 |
Genetic variation databases
BioMutai | KHDC4 |
DMDMi | 74750236 |
Proteomic databases
EPDi | Q7Z7F0 |
jPOSTi | Q7Z7F0 |
MassIVEi | Q7Z7F0 |
MaxQBi | Q7Z7F0 |
PaxDbi | Q7Z7F0 |
PeptideAtlasi | Q7Z7F0 |
PRIDEi | Q7Z7F0 |
ProteomicsDBi | 69525 [Q7Z7F0-1] 69526 [Q7Z7F0-2] 69527 [Q7Z7F0-3] 69528 [Q7Z7F0-4] |
Protocols and materials databases
Antibodypediai | 1657, 83 antibodies |
DNASUi | 22889 |
Genome annotation databases
Ensembli | ENST00000368319; ENSP00000357302; ENSG00000132680 [Q7Z7F0-3] ENST00000368320; ENSP00000357303; ENSG00000132680 [Q7Z7F0-2] ENST00000368321; ENSP00000357304; ENSG00000132680 [Q7Z7F0-1] |
GeneIDi | 22889 |
KEGGi | hsa:22889 |
UCSCi | uc001fmi.2, human [Q7Z7F0-1] |
Organism-specific databases
CTDi | 22889 |
DisGeNETi | 22889 |
GeneCardsi | KHDC4 |
HGNCi | HGNC:29145, KHDC4 |
HPAi | ENSG00000132680, Low tissue specificity |
neXtProti | NX_Q7Z7F0 |
OpenTargetsi | ENSG00000132680 |
PharmGKBi | PA142671618 |
VEuPathDBi | HostDB:ENSG00000132680.10 |
HUGEi | Search... |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG1960, Eukaryota |
GeneTreei | ENSGT00510000047412 |
HOGENOMi | CLU_032219_1_0_1 |
InParanoidi | Q7Z7F0 |
OMAi | MSFCGTQ |
OrthoDBi | 633868at2759 |
PhylomeDBi | Q7Z7F0 |
Enzyme and pathway databases
PathwayCommonsi | Q7Z7F0 |
Miscellaneous databases
BioGRID-ORCSi | 22889, 31 hits in 999 CRISPR screens |
ChiTaRSi | KIAA0907, human |
EvolutionaryTracei | Q7Z7F0 |
GenomeRNAii | 22889 |
Pharosi | Q7Z7F0, Tdark |
PROi | PR:Q7Z7F0 |
RNActi | Q7Z7F0, protein |
Gene expression databases
Bgeei | ENSG00000132680, Expressed in endometrium and 247 other tissues |
Genevisiblei | Q7Z7F0, HS |
Family and domain databases
Gene3Di | 3.30.1370.10, 2 hits |
InterProi | View protein in InterPro IPR036612, KH_dom_type_1_sf IPR031121, RIK/BLOM7 |
PANTHERi | PTHR15744, PTHR15744, 1 hit |
SUPFAMi | SSF54791, SSF54791, 2 hits |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | KHDC4_HUMAN | |
Accessioni | Q7Z7F0Primary (citable) accession number: Q7Z7F0 Secondary accession number(s): O94981 Q8TBQ0 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | July 24, 2007 |
Last sequence update: | October 1, 2003 | |
Last modified: | April 7, 2021 | |
This is version 141 of the entry and version 1 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
- Uncharacterized protein families (UPF)
List of uncharacterized protein family (UPF) entries - Human chromosome 1
Human chromosome 1: entries, gene names and cross-references to MIM - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families