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Protein

Nuclear factor 1 C-type

Gene

Nfic

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Recognizes and binds the palindromic sequence 5'-TTGGCNNNNNGCCAA-3' present in viral and cellular promoters and in the origin of replication of adenovirus type 2. These proteins are individually capable of activating transcription and replication.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi1 – 195195CTF/NF-IPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. double-stranded DNA binding Source: Ensembl
  2. RNA polymerase II core promoter proximal region sequence-specific DNA binding Source: MGI
  3. RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription Source: MGI
  4. sequence-specific DNA binding RNA polymerase II transcription factor activity Source: GO_Central
  5. sequence-specific DNA binding transcription factor activity Source: MGI

GO - Biological processi

  1. DNA replication Source: UniProtKB-KW
  2. negative regulation of transcription from RNA polymerase II promoter Source: UniProtKB
  3. odontogenesis of dentin-containing tooth Source: MGI
  4. positive regulation of transcription from RNA polymerase II promoter Source: UniProtKB
  5. transcription from RNA polymerase II promoter Source: GOC
Complete GO annotation...

Keywords - Molecular functioni

Activator

Keywords - Biological processi

DNA replication, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

ReactomeiREACT_285756. RNA Polymerase III Transcription Termination.
REACT_294024. RNA Polymerase III Abortive And Retractive Initiation.

Names & Taxonomyi

Protein namesi
Recommended name:
Nuclear factor 1 C-type
Short name:
NF1-C
Short name:
Nuclear factor 1/C
Alternative name(s):
CCAAT-box-binding transcription factor
Short name:
CTF
Nuclear factor I/C
Short name:
NF-I/C
Short name:
NFI-C
TGGCA-binding protein
Gene namesi
Name:Nfic
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589 Componenti: Chromosome 10

Organism-specific databases

MGIiMGI:109591. Nfic.

Subcellular locationi

GO - Cellular componenti

  1. nucleolus Source: MGI
  2. nucleoplasm Source: MGI
  3. nucleus Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 439439Nuclear factor 1 C-typePRO_0000100200Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei1 – 11N-acetylmethionineBy similarity
Modified residuei194 – 1941PhosphoserineBy similarity
Modified residuei294 – 2941PhosphoserineBy similarity
Modified residuei323 – 3231Phosphoserine1 Publication
Modified residuei333 – 3331Phosphoserine1 Publication
Modified residuei337 – 3371PhosphoserineBy similarity
Modified residuei339 – 3391Phosphoserine2 Publications
Modified residuei343 – 3431Phosphoserine1 Publication

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

MaxQBiP70255.
PaxDbiP70255.
PRIDEiP70255.

PTM databases

PhosphoSiteiP70255.

Expressioni

Tissue specificityi

Highest levels in skeletal muscle. Lower levels in heart, liver, kidney, lung and brain. Very low levels in testis and spleen.

Gene expression databases

BgeeiP70255.
CleanExiMM_NFIC.
ExpressionAtlasiP70255. baseline and differential.
GenevestigatoriP70255.

Interactioni

Subunit structurei

Binds DNA as a homodimer.

Protein-protein interaction databases

BioGridi201748. 2 interactions.
IntActiP70255. 1 interaction.
MINTiMINT-4103664.

Structurei

3D structure databases

ProteinModelPortaliP70255.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the CTF/NF-I family.PROSITE-ProRule annotation
Contains 1 CTF/NF-I DNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiNOG252172.
GeneTreeiENSGT00390000009905.
HOVERGENiHBG006561.
InParanoidiP70255.
KOiK09170.
OMAiIGSDQED.
OrthoDBiEOG7WDN2K.
PhylomeDBiP70255.
TreeFamiTF313889.

Family and domain databases

InterProiIPR000647. CTF/NFI.
IPR020604. CTF/NFI_DNA-bd-dom.
IPR019739. CTF/NFI_DNA-bd_CS.
IPR019548. CTF/NFI_DNA-bd_N.
IPR003619. MAD_homology1_Dwarfin-type.
[Graphical view]
PANTHERiPTHR11492. PTHR11492. 1 hit.
PfamiPF00859. CTF_NFI. 1 hit.
PF03165. MH1. 1 hit.
PF10524. NfI_DNAbd_pre-N. 1 hit.
[Graphical view]
SMARTiSM00523. DWA. 1 hit.
[Graphical view]
PROSITEiPS00349. CTF_NFI_1. 1 hit.
PS51080. CTF_NFI_2. 1 hit.
[Graphical view]

Sequences (7)i

Sequence statusi: Complete.

This entry describes 7 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: P70255-1) [UniParc]FASTAAdd to basket

Also known as: C1A, C2

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
MYSSPLCLTQ DEFHPFIEAL LPHVRAFAYT WFNLQARKRK YFKKHEKRMS
60 70 80 90 100
KDEERAVKDE LLGEKAEVKQ KWASRLLAKL RKDIRPECRE DFVLAVTGKK
110 120 130 140 150
APGCVLSNPD QKGKMRRIDC LRQADKVWRL DLVMVILFKG IPLESTDGER
160 170 180 190 200
LVKAAACAHP VLCVQPHHIG VAVKELDLYL AYFVRERDAE QSSSPRTGVG
210 220 230 240 250
SDQEDSKPIT LDTTDFQESF VTSGVFSVTE LIQVSRTPVV TGTGPNFSLG
260 270 280 290 300
ELQGHLAYDL NPASAGMRRT LPSTSSSGSK RHKSGSMEED VDTSPGGDYY
310 320 330 340 350
TSPNSPTSSS RNWTEDIEGG ISSPVKKTEM DKSPFNSPSP QDSPRLSSFT
360 370 380 390 400
QHHRPVIAVH SGIARSPHPT SALHFPATPI LPQTASTYFP HTAIRYPPHL
410 420 430
NPQDPLKDLV SLACDPATQQ PGPPALRPTR PLQTVPLWD
Length:439
Mass (Da):48,768
Last modified:February 1, 1997 - v1
Checksum:iF794131A7A1B686A
GO
Isoform 2 (identifier: P70255-2) [UniParc]FASTAAdd to basket

Also known as: C1B

The sequence of this isoform differs from the canonical sequence as follows:
     1-10: MYSSPLCLTQ → M

Show »
Length:430
Mass (Da):47,775
Checksum:i348C76F604357548
GO
Isoform 3 (identifier: P70255-3) [UniParc]FASTAAdd to basket

Also known as: C5

The sequence of this isoform differs from the canonical sequence as follows:
     424-439: PALRPTRPLQTVPLWD → SWYLG

Show »
Length:428
Mass (Da):47,533
Checksum:i6B9FD2D21C7AC136
GO
Isoform 4 (identifier: P70255-4) [UniParc]FASTAAdd to basket

Also known as: C8

The sequence of this isoform differs from the canonical sequence as follows:
     320-361: Missing.

Show »
Length:397
Mass (Da):44,171
Checksum:iE66D569D32A5AD99
GO
Isoform 5 (identifier: P70255-5) [UniParc]FASTAAdd to basket

Also known as: C9

The sequence of this isoform differs from the canonical sequence as follows:
     362-423: Missing.

Show »
Length:377
Mass (Da):42,137
Checksum:iD6812CA58974C641
GO
Isoform 6 (identifier: P70255-6) [UniParc]FASTAAdd to basket

Also known as: C10

The sequence of this isoform differs from the canonical sequence as follows:
     247-374: Missing.

Show »
Length:311
Mass (Da):35,067
Checksum:i546844CFEB48DABF
GO
Isoform 7 (identifier: P70255-7) [UniParc]FASTAAdd to basket

Also known as: C11

The sequence of this isoform differs from the canonical sequence as follows:
     247-374: Missing.
     424-439: PALRPTRPLQTVPLWD → SWYLG

Show »
Length:300
Mass (Da):33,832
Checksum:i86D75E67C14D2ECF
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 1010MYSSPLCLTQ → M in isoform 2. 1 PublicationVSP_003557
Alternative sequencei247 – 374128Missing in isoform 6 and isoform 7. CuratedVSP_007556Add
BLAST
Alternative sequencei320 – 36142Missing in isoform 4. CuratedVSP_007557Add
BLAST
Alternative sequencei362 – 42362Missing in isoform 5. CuratedVSP_007558Add
BLAST
Alternative sequencei424 – 43916PALRP…VPLWD → SWYLG in isoform 3 and isoform 7. CuratedVSP_007559Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y07692 mRNA. Translation: CAA68956.1.
Y07693 mRNA. Translation: CAA68957.1.
U57635 mRNA. Translation: AAB49930.1.
AK087539 mRNA. Translation: BAC39918.1.
AK155258 mRNA. Translation: BAE33151.1.
AF358455 mRNA. Translation: AAK21331.1.
AF358456 mRNA. Translation: AAK21332.1.
AF358457 mRNA. Translation: AAK21333.1.
AF358458 mRNA. Translation: AAK21334.1.
AF358459 mRNA. Translation: AAK21335.1.
AF358460 mRNA. Translation: AAK21336.1.
AF111265 Genomic DNA. Translation: AAD39100.1.
CCDSiCCDS24058.1. [P70255-1]
CCDS35999.1. [P70255-3]
RefSeqiNP_032714.1. NM_008688.3. [P70255-1]
XP_006513398.1. XM_006513335.2. [P70255-2]
UniGeneiMm.426936.
Mm.453078.

Genome annotation databases

EnsembliENSMUST00000020461; ENSMUSP00000020461; ENSMUSG00000055053. [P70255-1]
ENSMUST00000078185; ENSMUSP00000077317; ENSMUSG00000055053. [P70255-4]
ENSMUST00000105321; ENSMUSP00000100958; ENSMUSG00000055053. [P70255-3]
ENSMUST00000117966; ENSMUSP00000113046; ENSMUSG00000055053. [P70255-2]
GeneIDi18029.
KEGGimmu:18029.
UCSCiuc007ghx.1. mouse. [P70255-4]
uc007ghy.1. mouse. [P70255-1]
uc007gia.1. mouse. [P70255-2]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y07692 mRNA. Translation: CAA68956.1.
Y07693 mRNA. Translation: CAA68957.1.
U57635 mRNA. Translation: AAB49930.1.
AK087539 mRNA. Translation: BAC39918.1.
AK155258 mRNA. Translation: BAE33151.1.
AF358455 mRNA. Translation: AAK21331.1.
AF358456 mRNA. Translation: AAK21332.1.
AF358457 mRNA. Translation: AAK21333.1.
AF358458 mRNA. Translation: AAK21334.1.
AF358459 mRNA. Translation: AAK21335.1.
AF358460 mRNA. Translation: AAK21336.1.
AF111265 Genomic DNA. Translation: AAD39100.1.
CCDSiCCDS24058.1. [P70255-1]
CCDS35999.1. [P70255-3]
RefSeqiNP_032714.1. NM_008688.3. [P70255-1]
XP_006513398.1. XM_006513335.2. [P70255-2]
UniGeneiMm.426936.
Mm.453078.

3D structure databases

ProteinModelPortaliP70255.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi201748. 2 interactions.
IntActiP70255. 1 interaction.
MINTiMINT-4103664.

PTM databases

PhosphoSiteiP70255.

Proteomic databases

MaxQBiP70255.
PaxDbiP70255.
PRIDEiP70255.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000020461; ENSMUSP00000020461; ENSMUSG00000055053. [P70255-1]
ENSMUST00000078185; ENSMUSP00000077317; ENSMUSG00000055053. [P70255-4]
ENSMUST00000105321; ENSMUSP00000100958; ENSMUSG00000055053. [P70255-3]
ENSMUST00000117966; ENSMUSP00000113046; ENSMUSG00000055053. [P70255-2]
GeneIDi18029.
KEGGimmu:18029.
UCSCiuc007ghx.1. mouse. [P70255-4]
uc007ghy.1. mouse. [P70255-1]
uc007gia.1. mouse. [P70255-2]

Organism-specific databases

CTDi4782.
MGIiMGI:109591. Nfic.

Phylogenomic databases

eggNOGiNOG252172.
GeneTreeiENSGT00390000009905.
HOVERGENiHBG006561.
InParanoidiP70255.
KOiK09170.
OMAiIGSDQED.
OrthoDBiEOG7WDN2K.
PhylomeDBiP70255.
TreeFamiTF313889.

Enzyme and pathway databases

ReactomeiREACT_285756. RNA Polymerase III Transcription Termination.
REACT_294024. RNA Polymerase III Abortive And Retractive Initiation.

Miscellaneous databases

ChiTaRSiNfic. mouse.
NextBioi293103.
PROiP70255.
SOURCEiSearch...

Gene expression databases

BgeeiP70255.
CleanExiMM_NFIC.
ExpressionAtlasiP70255. baseline and differential.
GenevestigatoriP70255.

Family and domain databases

InterProiIPR000647. CTF/NFI.
IPR020604. CTF/NFI_DNA-bd-dom.
IPR019739. CTF/NFI_DNA-bd_CS.
IPR019548. CTF/NFI_DNA-bd_N.
IPR003619. MAD_homology1_Dwarfin-type.
[Graphical view]
PANTHERiPTHR11492. PTHR11492. 1 hit.
PfamiPF00859. CTF_NFI. 1 hit.
PF03165. MH1. 1 hit.
PF10524. NfI_DNAbd_pre-N. 1 hit.
[Graphical view]
SMARTiSM00523. DWA. 1 hit.
[Graphical view]
PROSITEiPS00349. CTF_NFI_1. 1 hit.
PS51080. CTF_NFI_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Genomic organization, splice products and mouse chromosomal localization of genes for transcription factor Nuclear Factor One."
    Gruender A., Qian F., Ebel T.T., Mincheva A., Lichter P., Kruse U., Sippel A.E.
    Gene 304:171-181(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 2).
    Strain: NIH Swiss.
  2. "Expression patterns of the four nuclear factor I genes during mouse embryogenesis indicate a potential role in development."
    Chaudhry A.Z., Lyons G.E., Gronostajski R.M.
    Dev. Dyn. 208:313-325(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    Strain: BALB/c.
    Tissue: Liver and Skeletal muscle.
  3. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Strain: C57BL/6J and NOD.
    Tissue: Eye.
  4. Kane R., Martin F.
    Submitted (MAR-2001) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE OF 179-439 (ISOFORMS 1; 3; 4; 5; 6 AND 7).
    Strain: CD-1.
    Tissue: Mammary gland.
  5. "Exon structure of the nuclear factor I DNA-binding domain from C. elegans to mammals."
    Fletcher C.F., Jenkins N.A., Copeland N.G., Chaudhry A.Z., Gronostajski R.M.
    Mamm. Genome 10:390-396(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE OF 11-187.
    Strain: 129.
  6. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-323; SER-333; SER-339 AND SER-343, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver.
  7. "Large scale localization of protein phosphorylation by use of electron capture dissociation mass spectrometry."
    Sweet S.M., Bailey C.M., Cunningham D.L., Heath J.K., Cooper H.J.
    Mol. Cell. Proteomics 8:904-912(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-339, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Embryonic fibroblast.

Entry informationi

Entry nameiNFIC_MOUSE
AccessioniPrimary (citable) accession number: P70255
Secondary accession number(s): O09072
, P70256, Q3U2I9, Q99MA3, Q99MA4, Q99MA5, Q99MA6, Q99MA7, Q99MA8, Q9R1G3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: February 1, 1997
Last modified: April 1, 2015
This is version 141 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  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.