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Protein

Zinc finger protein 540

Gene

ZNF540

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

May act as a transcriptional repressor.1 Publication

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri187 – 209C2H2-type 1PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri215 – 237C2H2-type 2PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri243 – 265C2H2-type 3PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri271 – 293C2H2-type 4PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri299 – 321C2H2-type 5PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri327 – 349C2H2-type 6PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri355 – 377C2H2-type 7PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri383 – 405C2H2-type 8PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri411 – 433C2H2-type 9PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri439 – 461C2H2-type 10PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri467 – 489C2H2-type 11PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri495 – 517C2H2-type 12PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri523 – 545C2H2-type 13PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri551 – 573C2H2-type 14PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri579 – 601C2H2-type 15PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri607 – 629C2H2-type 16PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri635 – 657C2H2-type 17PROSITE-ProRule annotationAdd BLAST23

GO - Molecular functioni

GO - Biological processi

  • negative regulation of transcription, DNA-templated Source: UniProtKB
  • negative regulation of translation Source: UniProtKB
  • transcription, DNA-templated Source: UniProtKB-KW

Keywordsi

Molecular functionDNA-binding, Repressor
Biological processTranscription, Transcription regulation
LigandMetal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-HSA-212436 Generic Transcription Pathway

Names & Taxonomyi

Protein namesi
Recommended name:
Zinc finger protein 540
Gene namesi
Name:ZNF540
ORF Names:Nbla10512
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 19

Organism-specific databases

EuPathDBiHostDB:ENSG00000171817.16
HGNCiHGNC:25331 ZNF540
MIMi613903 gene
neXtProtiNX_Q8NDQ6

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000171817
PharmGKBiPA134980975

Polymorphism and mutation databases

BioMutaiZNF540
DMDMi74762556

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000476411 – 660Zinc finger protein 540Add BLAST660

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki109Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity

Keywords - PTMi

Isopeptide bond, Ubl conjugation

Proteomic databases

PaxDbiQ8NDQ6
PeptideAtlasiQ8NDQ6
PRIDEiQ8NDQ6

PTM databases

iPTMnetiQ8NDQ6
PhosphoSitePlusiQ8NDQ6

Expressioni

Tissue specificityi

Expressed in several fetal tissues, including gut, heart, brain, muscle, lung, testis and liver.1 Publication

Gene expression databases

BgeeiENSG00000171817
CleanExiHS_ZNF540
ExpressionAtlasiQ8NDQ6 baseline and differential
GenevisibleiQ8NDQ6 HS

Organism-specific databases

HPAiHPA003444

Interactioni

Subunit structurei

May interact with MVP.

Protein-protein interaction databases

STRINGi9606.ENSP00000324598

Structurei

3D structure databases

ProteinModelPortaliQ8NDQ6
SMRiQ8NDQ6
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini6 – 77KRABPROSITE-ProRule annotationAdd BLAST72

Sequence similaritiesi

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri187 – 209C2H2-type 1PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri215 – 237C2H2-type 2PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri243 – 265C2H2-type 3PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri271 – 293C2H2-type 4PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri299 – 321C2H2-type 5PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri327 – 349C2H2-type 6PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri355 – 377C2H2-type 7PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri383 – 405C2H2-type 8PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri411 – 433C2H2-type 9PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri439 – 461C2H2-type 10PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri467 – 489C2H2-type 11PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri495 – 517C2H2-type 12PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri523 – 545C2H2-type 13PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri551 – 573C2H2-type 14PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri579 – 601C2H2-type 15PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri607 – 629C2H2-type 16PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri635 – 657C2H2-type 17PROSITE-ProRule annotationAdd BLAST23

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG1721 Eukaryota
COG5048 LUCA
GeneTreeiENSGT00910000144167
HOVERGENiHBG018163
InParanoidiQ8NDQ6
KOiK09228
OMAiRGQLNRH
OrthoDBiEOG091G02KC
PhylomeDBiQ8NDQ6

Family and domain databases

CDDicd07765 KRAB_A-box, 1 hit
InterProiView protein in InterPro
IPR001909 KRAB
IPR036051 KRAB_dom_sf
IPR036236 Znf_C2H2_sf
IPR013087 Znf_C2H2_type
PfamiView protein in Pfam
PF01352 KRAB, 1 hit
SMARTiView protein in SMART
SM00349 KRAB, 1 hit
SM00355 ZnF_C2H2, 17 hits
SUPFAMiSSF109640 SSF109640, 1 hit
SSF57667 SSF57667, 9 hits
PROSITEiView protein in PROSITE
PS50805 KRAB, 1 hit
PS00028 ZINC_FINGER_C2H2_1, 17 hits
PS50157 ZINC_FINGER_C2H2_2, 17 hits

Sequences (3)i

Sequence statusi: Complete.

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

Isoform 1 (identifier: Q8NDQ6-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' 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
MAHALVTFRD VAIDFSQKEW ECLDTTQRKL YRDVMLENYN NLVSLGYSGS
60 70 80 90 100
KPDVITLLEQ GKEPCVVARD VTGRQCPGLL SRHKTKKLSS EKDIHEISLS
110 120 130 140 150
KESIIEKSKT LRLKGSIFRN EWQNKSEFEG QQGLKERSIS QKKIVSKKMS
160 170 180 190 200
TDRKRPSFTL NQRIHNSEKS CDSHLVQHGK IDSDVKHDCK ECGSTFNNVY
210 220 230 240 250
QLTLHQKIHT GEKSCKCEKC GKVFSHSYQL TLHQRFHTGE KPYECQECGK
260 270 280 290 300
TFTLYPQLNR HQKIHTGKKP YMCKKCDKGF FSRLELTQHK RIHTGKKSYE
310 320 330 340 350
CKECGKVFQL IFYFKEHERI HTGKKPYECK ECGKAFSVCG QLTRHQKIHT
360 370 380 390 400
GVKPYECKEC GKTFRLSFYL TEHRRTHAGK KPYECKECGK SFNVRGQLNR
410 420 430 440 450
HKTIHTGIKP FACKVCEKAF SYSGDLRVHS RIHTGEKPYE CKECGKAFML
460 470 480 490 500
RSVLTEHQRL HTGVKPYECK ECGKTFRVRS QISLHKKIHT DVKPYKCVRC
510 520 530 540 550
GKTFRFGFYL TEHQRIHTGE KPYKCKECGK AFIRRGNLKE HLKIHSGLKP
560 570 580 590 600
YDCKECGKSF SRRGQFTEHQ KIHTGVKPYK CKECGKAFSR SVDLRIHQRI
610 620 630 640 650
HTGEKPYECK QCGKAFRLNS HLTEHQRIHT GEKPYECKVC RKAFRQYSHL
660
YQHQKTHNVI
Length:660
Mass (Da):77,094
Last modified:October 1, 2002 - v1
Checksum:i9115ABB3B056D9B3
GO
Isoform 2 (identifier: Q8NDQ6-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     46-77: Missing.

Note: No experimental confirmation available.
Show »
Length:628
Mass (Da):73,708
Checksum:i9F9A840C17682706
GO
Isoform 4 (identifier: Q8NDQ6-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-77: MAHALVTFRD...ARDVTGRQCP → MLPNFKLYNF...NFCLLLCFLS

Note: No experimental confirmation available.
Show »
Length:637
Mass (Da):74,993
Checksum:i7A0FCC9ED61BDE68
GO

Sequence cautioni

The sequence AAH17940 differs from that shown. Contaminating sequence. Potential poly-A sequence.Curated
The sequence CAD97942 differs from that shown. Reason: Frameshift at position 580.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti127E → G in CAD97942 (PubMed:17974005).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_03357553D → V1 PublicationCorresponds to variant dbSNP:rs1975937Ensembl.1
Natural variantiVAR_035586275K → I in a colorectal cancer sample; somatic mutation. 1 Publication1
Natural variantiVAR_069366340G → R1 PublicationCorresponds to variant dbSNP:rs571893947Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0160361 – 77MAHAL…GRQCP → MLPNFKLYNFIEIFFKPLTP SKNRFHFVSYFENVNFMLCW LQENNFCLLLCFLS in isoform 4. 1 PublicationAdd BLAST77
Alternative sequenceiVSP_01603746 – 77Missing in isoform 2. 1 PublicationAdd BLAST32

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK131388 mRNA Translation: BAD18539.1
AK290486 mRNA Translation: BAF83175.1
AL832100 mRNA Translation: CAD91161.1
AL832315 mRNA Translation: CAD38611.1
BX537980 mRNA Translation: CAD97942.1 Frameshift.
BC017940 mRNA Translation: AAH17940.1 Sequence problems.
BC126478 mRNA Translation: AAI26479.1
BC126480 mRNA Translation: AAI26481.1
AB074186 mRNA Translation: BAE45743.1
CCDSiCCDS12506.1 [Q8NDQ6-1]
CCDS54258.1 [Q8NDQ6-2]
RefSeqiNP_001165696.1, NM_001172225.2 [Q8NDQ6-1]
NP_001165697.1, NM_001172226.2 [Q8NDQ6-2]
NP_689819.1, NM_152606.4 [Q8NDQ6-1]
UniGeneiHs.728927

Genome annotation databases

EnsembliENST00000316433; ENSP00000324598; ENSG00000171817 [Q8NDQ6-1]
ENST00000343599; ENSP00000343768; ENSG00000171817 [Q8NDQ6-1]
ENST00000589117; ENSP00000467118; ENSG00000171817 [Q8NDQ6-2]
ENST00000592533; ENSP00000466274; ENSG00000171817 [Q8NDQ6-1]
GeneIDi163255
KEGGihsa:163255
UCSCiuc002ogq.5 human [Q8NDQ6-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Entry informationi

Entry nameiZN540_HUMAN
AccessioniPrimary (citable) accession number: Q8NDQ6
Secondary accession number(s): A0AVS5
, A8K371, Q05D58, Q3LIC5, Q6ZN36, Q7Z3C8, Q86T31
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 8, 2005
Last sequence update: October 1, 2002
Last modified: May 23, 2018
This is version 136 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny 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

Complete proteome, Reference proteome

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