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Protein

Zinc finger protein 250

Gene

ZNF250

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

May be involved in transcriptional regulation.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri199 – 22123C2H2-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri227 – 24923C2H2-type 2PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri255 – 27723C2H2-type 3PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri283 – 30523C2H2-type 4PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri311 – 33323C2H2-type 5PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri339 – 36123C2H2-type 6PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri367 – 38923C2H2-type 7PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri395 – 41723C2H2-type 8PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri423 – 44523C2H2-type 9PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri451 – 47323C2H2-type 10PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri479 – 50123C2H2-type 11PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri507 – 52923C2H2-type 12PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri535 – 55723C2H2-type 13PROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-KW
  2. metal ion binding Source: UniProtKB-KW
  3. sequence-specific DNA binding transcription factor activity Source: GO_Central

GO - Biological processi

  1. regulation of transcription, DNA-templated Source: GO_Central
  2. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Enzyme and pathway databases

ReactomeiREACT_12627. Generic Transcription Pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
Zinc finger protein 250
Alternative name(s):
Zinc finger protein 647
Gene namesi
Name:ZNF250
Synonyms:ZNF647
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 8

Organism-specific databases

HGNCiHGNC:13044. ZNF250.

Subcellular locationi

Nucleus Curated

GO - Cellular componenti

  1. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA37622.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 560560Zinc finger protein 250PRO_0000047483Add
BLAST

Proteomic databases

MaxQBiP15622.
PaxDbiP15622.
PRIDEiP15622.

2D gel databases

REPRODUCTION-2DPAGEP15622.

PTM databases

PhosphoSiteiP15622.

Expressioni

Gene expression databases

BgeeiP15622.
CleanExiHS_ZNF250.
ExpressionAtlasiP15622. baseline and differential.
GenevestigatoriP15622.

Organism-specific databases

HPAiHPA020853.

Interactioni

Protein-protein interaction databases

BioGridi121830. 49 interactions.
IntActiP15622. 16 interactions.
MINTiMINT-1438501.
STRINGi9606.ENSP00000292579.

Structurei

3D structure databases

ProteinModelPortaliP15622.
SMRiP15622. Positions 196-559.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini22 – 9372KRABPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 13 C2H2-type zinc fingers.PROSITE-ProRule annotation
Contains 1 KRAB domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri199 – 22123C2H2-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri227 – 24923C2H2-type 2PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri255 – 27723C2H2-type 3PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri283 – 30523C2H2-type 4PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri311 – 33323C2H2-type 5PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri339 – 36123C2H2-type 6PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri367 – 38923C2H2-type 7PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri395 – 41723C2H2-type 8PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri423 – 44523C2H2-type 9PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri451 – 47323C2H2-type 10PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri479 – 50123C2H2-type 11PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri507 – 52923C2H2-type 12PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri535 – 55723C2H2-type 13PROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiCOG5048.
GeneTreeiENSGT00780000121890.
HOGENOMiHOG000234617.
HOVERGENiHBG018163.
InParanoidiP15622.
KOiK09228.
OMAiNVMMETY.
OrthoDBiEOG7KSX7Q.
PhylomeDBiP15622.
TreeFamiTF341817.

Family and domain databases

Gene3Di3.30.160.60. 13 hits.
InterProiIPR001909. Krueppel-associated_box.
IPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
[Graphical view]
PfamiPF01352. KRAB. 1 hit.
[Graphical view]
SMARTiSM00349. KRAB. 1 hit.
SM00355. ZnF_C2H2. 13 hits.
[Graphical view]
SUPFAMiSSF109640. SSF109640. 1 hit.
PROSITEiPS50805. KRAB. 1 hit.
PS00028. ZINC_FINGER_C2H2_1. 13 hits.
PS50157. ZINC_FINGER_C2H2_2. 13 hits.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

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

Isoform 1 (identifier: P15622-1) [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
MAAARLLPVP AGPQPLSFQA KLTFEDVAVL LSQDEWDRLC PAQRGLYRNV
60 70 80 90 100
MMETYGNVVS LGLPGSKPDI ISQLERGEDP WVLDRKGAKK SQGLWSDYSD
110 120 130 140 150
NLKYDHTTAC TQQDSLSCPW ECETKGESQN TDLSPKPLIS EQTVILGKTP
160 170 180 190 200
LGRIDQENNE TKQSFCLSPN SVDHREVQVL SQSMPLTPHQ AVPSGERPYM
210 220 230 240 250
CVECGKCFGR SSHLLQHQRI HTGEKPYVCS VCGKAFSQSS VLSKHRRIHT
260 270 280 290 300
GEKPYECNEC GKAFRVSSDL AQHHKIHTGE KPHECLECRK AFTQLSHLIQ
310 320 330 340 350
HQRIHTGERP YVCPLCGKAF NHSTVLRSHQ RVHTGEKPHR CNECGKTFSV
360 370 380 390 400
KRTLLQHQRI HTGEKPYTCS ECGKAFSDRS VLIQHHNVHT GEKPYECSEC
410 420 430 440 450
GKTFSHRSTL MNHERIHTEE KPYACYECGK AFVQHSHLIQ HQRVHTGEKP
460 470 480 490 500
YVCGECGHAF SARRSLIQHE RIHTGEKPFQ CTECGKAFSL KATLIVHLRT
510 520 530 540 550
HTGEKPYECN SCGKAFSQYS VLIQHQRIHT GEKPYECGEC GRAFNQHGHL
560
IQHQKVHRKL
Length:560
Mass (Da):63,468
Last modified:July 19, 2004 - v3
Checksum:i800170E1875D988C
GO
Isoform 2 (identifier: P15622-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     15-19: Missing.
     366-477: Missing.

Show »
Length:443
Mass (Da):50,022
Checksum:i5C51169876D5BBF5
GO
Isoform 3 (identifier: P15622-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     15-19: Missing.

Note: No experimental confirmation available.

Show »
Length:555
Mass (Da):62,895
Checksum:i28038298ED50A5B1
GO

Sequence cautioni

The sequence BAD92047.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated
The sequence CAA34358.1 differs from that shown. Reason: Frameshift at positions 458 and 488. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti515 – 5217AFSQYSV → PSASTQL (Ref. 6) Curated
Sequence conflicti542 – 5421R → G (Ref. 6) Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei15 – 195Missing in isoform 2 and isoform 3. 2 PublicationsVSP_011039
Alternative sequencei366 – 477112Missing in isoform 2. 1 PublicationVSP_011040Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK095705 mRNA. Translation: BAC04614.1.
AB208810 mRNA. Translation: BAD92047.1. Different initiation.
AF235103 Genomic DNA. No translation available.
CH471162 Genomic DNA. Translation: EAW82029.1.
CH471162 Genomic DNA. Translation: EAW82030.1.
BC017091 mRNA. Translation: AAH17091.2.
X16282 mRNA. Translation: CAA34358.1. Frameshift.
CCDSiCCDS34972.1. [P15622-1]
CCDS55282.1. [P15622-3]
PIRiS06781.
RefSeqiNP_001103159.1. NM_001109689.3. [P15622-3]
NP_066405.1. NM_021061.4. [P15622-1]
XP_005272384.1. XM_005272327.1. [P15622-3]
XP_005272385.1. XM_005272328.1. [P15622-3]
XP_006716675.1. XM_006716612.1. [P15622-1]
XP_006716676.1. XM_006716613.1. [P15622-1]
UniGeneiHs.532277.

Genome annotation databases

EnsembliENST00000292579; ENSP00000292579; ENSG00000196150. [P15622-1]
ENST00000417550; ENSP00000393442; ENSG00000196150. [P15622-3]
GeneIDi58500.
KEGGihsa:58500.
UCSCiuc003zeq.4. human. [P15622-1]
uc003zer.4. human.

Polymorphism databases

DMDMi50403721.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK095705 mRNA. Translation: BAC04614.1.
AB208810 mRNA. Translation: BAD92047.1. Different initiation.
AF235103 Genomic DNA. No translation available.
CH471162 Genomic DNA. Translation: EAW82029.1.
CH471162 Genomic DNA. Translation: EAW82030.1.
BC017091 mRNA. Translation: AAH17091.2.
X16282 mRNA. Translation: CAA34358.1. Frameshift.
CCDSiCCDS34972.1. [P15622-1]
CCDS55282.1. [P15622-3]
PIRiS06781.
RefSeqiNP_001103159.1. NM_001109689.3. [P15622-3]
NP_066405.1. NM_021061.4. [P15622-1]
XP_005272384.1. XM_005272327.1. [P15622-3]
XP_005272385.1. XM_005272328.1. [P15622-3]
XP_006716675.1. XM_006716612.1. [P15622-1]
XP_006716676.1. XM_006716613.1. [P15622-1]
UniGeneiHs.532277.

3D structure databases

ProteinModelPortaliP15622.
SMRiP15622. Positions 196-559.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121830. 49 interactions.
IntActiP15622. 16 interactions.
MINTiMINT-1438501.
STRINGi9606.ENSP00000292579.

PTM databases

PhosphoSiteiP15622.

Polymorphism databases

DMDMi50403721.

2D gel databases

REPRODUCTION-2DPAGEP15622.

Proteomic databases

MaxQBiP15622.
PaxDbiP15622.
PRIDEiP15622.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000292579; ENSP00000292579; ENSG00000196150. [P15622-1]
ENST00000417550; ENSP00000393442; ENSG00000196150. [P15622-3]
GeneIDi58500.
KEGGihsa:58500.
UCSCiuc003zeq.4. human. [P15622-1]
uc003zer.4. human.

Organism-specific databases

CTDi58500.
GeneCardsiGC08M146078.
HGNCiHGNC:13044. ZNF250.
HPAiHPA020853.
neXtProtiNX_P15622.
PharmGKBiPA37622.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiCOG5048.
GeneTreeiENSGT00780000121890.
HOGENOMiHOG000234617.
HOVERGENiHBG018163.
InParanoidiP15622.
KOiK09228.
OMAiNVMMETY.
OrthoDBiEOG7KSX7Q.
PhylomeDBiP15622.
TreeFamiTF341817.

Enzyme and pathway databases

ReactomeiREACT_12627. Generic Transcription Pathway.

Miscellaneous databases

GenomeRNAii58500.
NextBioi65004.
PROiP15622.

Gene expression databases

BgeeiP15622.
CleanExiHS_ZNF250.
ExpressionAtlasiP15622. baseline and differential.
GenevestigatoriP15622.

Family and domain databases

Gene3Di3.30.160.60. 13 hits.
InterProiIPR001909. Krueppel-associated_box.
IPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
[Graphical view]
PfamiPF01352. KRAB. 1 hit.
[Graphical view]
SMARTiSM00349. KRAB. 1 hit.
SM00355. ZnF_C2H2. 13 hits.
[Graphical view]
SUPFAMiSSF109640. SSF109640. 1 hit.
PROSITEiPS50805. KRAB. 1 hit.
PS00028. ZINC_FINGER_C2H2_1. 13 hits.
PS50157. ZINC_FINGER_C2H2_2. 13 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Tissue: Brain.
  2. "Homo sapiens protein coding cDNA."
    Totoki Y., Toyoda A., Takeda T., Sakaki Y., Tanaka A., Yokoyama S., Ohara O., Nagase T., Kikuno R.F.
    Submitted (MAR-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 3).
    Tissue: Brain.
  3. "DNA sequence and analysis of human chromosome 8."
    Nusbaum C., Mikkelsen T.S., Zody M.C., Asakawa S., Taudien S., Garber M., Kodira C.D., Schueler M.G., Shimizu A., Whittaker C.A., Chang J.L., Cuomo C.A., Dewar K., FitzGerald M.G., Yang X., Allen N.R., Anderson S., Asakawa T.
    , Blechschmidt K., Bloom T., Borowsky M.L., Butler J., Cook A., Corum B., DeArellano K., DeCaprio D., Dooley K.T., Dorris L. III, Engels R., Gloeckner G., Hafez N., Hagopian D.S., Hall J.L., Ishikawa S.K., Jaffe D.B., Kamat A., Kudoh J., Lehmann R., Lokitsang T., Macdonald P., Major J.E., Matthews C.D., Mauceli E., Menzel U., Mihalev A.H., Minoshima S., Murayama Y., Naylor J.W., Nicol R., Nguyen C., O'Leary S.B., O'Neill K., Parker S.C.J., Polley A., Raymond C.K., Reichwald K., Rodriguez J., Sasaki T., Schilhabel M., Siddiqui R., Smith C.L., Sneddon T.P., Talamas J.A., Tenzin P., Topham K., Venkataraman V., Wen G., Yamazaki S., Young S.K., Zeng Q., Zimmer A.R., Rosenthal A., Birren B.W., Platzer M., Shimizu N., Lander E.S.
    Nature 439:331-335(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  5. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Colon.
  6. Ammendola S., Ciliberto G.
    Submitted (AUG-1989) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 250-560 (ISOFORM 1).

Entry informationi

Entry nameiZN250_HUMAN
AccessioniPrimary (citable) accession number: P15622
Secondary accession number(s): D3DWP1
, Q59HE9, Q8N942, Q96AH9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1990
Last sequence update: July 19, 2004
Last modified: February 4, 2015
This is version 153 of the entry and version 3 of the sequence. [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

Documents

  1. Human chromosome 8
    Human chromosome 8: entries, gene names and cross-references to MIM
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.