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Protein

Non-histone chromosomal protein 6B

Gene

NHP6B

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

DNA-binding protein that induces severe bending of DNA. Required for DNA-binding by the FACT complex, a general chromatin factor that acts to reorganize nucleosomes. The FACT complex is involved in multiple processes that require DNA as a template such as mRNA elongation, DNA replication and DNA repair. Also augments the fidelity of transcription by RNA polymerase III independently of any role in the FACT complex. Required for transcriptional initiation fidelity of some but not all tRNA genes. Seems to be functionally redundant with NHP6A.9 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi27 – 9569HMG boxPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. DNA binding, bending Source: SGD
  2. nucleosome binding Source: SGD

GO - Biological processi

  1. chromatin remodeling Source: SGD
  2. DNA repair Source: UniProtKB-KW
  3. maintenance of transcriptional fidelity during DNA-templated transcription elongation from RNA polymerase III promoter Source: SGD
  4. regulation of transcription, DNA-templated Source: UniProtKB-KW
  5. RNA polymerase III transcriptional preinitiation complex assembly Source: SGD
  6. transcription from RNA polymerase II promoter Source: SGD
Complete GO annotation...

Keywords - Biological processi

DNA damage, DNA repair, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-29229-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Non-histone chromosomal protein 6B
Gene namesi
Name:NHP6B
Synonyms:NHPB
Ordered Locus Names:YBR089C-A
ORF Names:YBR090BC
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome II

Organism-specific databases

CYGDiYBR089c-a.
EuPathDBiFungiDB:YBR089C-A.
SGDiS000002157. NHP6B.

Subcellular locationi

  1. Nucleus PROSITE-ProRule annotation1 Publication
  2. Chromosome 1 Publication

GO - Cellular componenti

  1. chromosome Source: UniProtKB-SubCell
  2. nucleus Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 9999Non-histone chromosomal protein 6BPRO_0000048566Add
BLAST

Proteomic databases

PaxDbiP11633.
PeptideAtlasiP11633.

Expressioni

Gene expression databases

GenevestigatoriP11633.

Interactioni

Subunit structurei

Weakly associates with the stable SPT16-POB3 heterodimer to form the FACT (yFACT or SNP) complex, which is associated with nucleosomes. Multiple molecules of NHP6 (NHP6A and/or NHP6B) are required to recruit the SPT16-POB3 heterodimer to DNA.

Protein-protein interaction databases

BioGridi32795. 99 interactions.
DIPiDIP-6748N.
IntActiP11633. 23 interactions.
MINTiMINT-615533.
STRINGi4932.YBR089C-A.

Structurei

3D structure databases

ProteinModelPortaliP11633.
SMRiP11633. Positions 10-99.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the NHP6 family.Curated
Contains 1 HMG box DNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiCOG5648.
GeneTreeiENSGT00760000119164.
HOGENOMiHOG000197861.
InParanoidiP11633.
OMAiDEKASYN.
OrthoDBiEOG70KH25.

Family and domain databases

Gene3Di1.10.30.10. 1 hit.
InterProiIPR009071. HMG_box_dom.
[Graphical view]
PfamiPF00505. HMG_box. 1 hit.
[Graphical view]
SMARTiSM00398. HMG. 1 hit.
[Graphical view]
SUPFAMiSSF47095. SSF47095. 1 hit.
PROSITEiPS50118. HMG_BOX_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P11633-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAATKEAKQP KEPKKRTTRR KKDPNAPKRG LSAYMFFANE NRDIVRSENP
60 70 80 90
DVTFGQVGRI LGERWKALTA EEKQPYESKA QADKKRYESE KELYNATRA
Length:99
Mass (Da):11,476
Last modified:July 27, 2011 - v3
Checksum:i0243FDC7D19B8A59
GO

Sequence cautioni

The sequence X78993 differs from that shown. Reason: Frameshift at position 30. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti30 – 301G → R in X78993 (PubMed:7900426).Curated
Sequence conflicti30 – 301G → R in CAA85042 (PubMed:7813418).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X15318 Genomic DNA. Translation: CAA33378.1.
X78993 Genomic DNA. No translation available.
Z35957 Genomic DNA. Translation: CAA85040.1.
Z35959 Genomic DNA. Translation: CAA85042.1.
AY558566 Genomic DNA. Translation: AAS56892.1.
EF123125 mRNA. Translation: ABM97469.1.
BK006936 Genomic DNA. Translation: DAA07210.2.
PIRiS78076.
RefSeqiNP_009647.2. NM_001180058.2.

Genome annotation databases

EnsemblFungiiYBR089C-A; YBR089C-A; YBR089C-A.
GeneIDi852386.
KEGGisce:YBR089C-A.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X15318 Genomic DNA. Translation: CAA33378.1.
X78993 Genomic DNA. No translation available.
Z35957 Genomic DNA. Translation: CAA85040.1.
Z35959 Genomic DNA. Translation: CAA85042.1.
AY558566 Genomic DNA. Translation: AAS56892.1.
EF123125 mRNA. Translation: ABM97469.1.
BK006936 Genomic DNA. Translation: DAA07210.2.
PIRiS78076.
RefSeqiNP_009647.2. NM_001180058.2.

3D structure databases

ProteinModelPortaliP11633.
SMRiP11633. Positions 10-99.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi32795. 99 interactions.
DIPiDIP-6748N.
IntActiP11633. 23 interactions.
MINTiMINT-615533.
STRINGi4932.YBR089C-A.

Proteomic databases

PaxDbiP11633.
PeptideAtlasiP11633.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYBR089C-A; YBR089C-A; YBR089C-A.
GeneIDi852386.
KEGGisce:YBR089C-A.

Organism-specific databases

CYGDiYBR089c-a.
EuPathDBiFungiDB:YBR089C-A.
SGDiS000002157. NHP6B.

Phylogenomic databases

eggNOGiCOG5648.
GeneTreeiENSGT00760000119164.
HOGENOMiHOG000197861.
InParanoidiP11633.
OMAiDEKASYN.
OrthoDBiEOG70KH25.

Enzyme and pathway databases

BioCyciYEAST:G3O-29229-MONOMER.

Miscellaneous databases

NextBioi971195.
PROiP11633.

Gene expression databases

GenevestigatoriP11633.

Family and domain databases

Gene3Di1.10.30.10. 1 hit.
InterProiIPR009071. HMG_box_dom.
[Graphical view]
PfamiPF00505. HMG_box. 1 hit.
[Graphical view]
SMARTiSM00398. HMG. 1 hit.
[Graphical view]
SUPFAMiSSF47095. SSF47095. 1 hit.
PROSITEiPS50118. HMG_BOX_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Duplicated NHP6 genes of Saccharomyces cerevisiae encode proteins homologous to bovine high mobility group protein 1."
    Kolodrubetz D., Burgum A.
    J. Biol. Chem. 265:3234-3239(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: DBY1091 / DKY1.
  2. "Analysis of a 70 kb region on the right arm of yeast chromosome II."
    Mannhaupt G., Stucka R., Ehnle S., Vetter I., Feldmann H.
    Yeast 10:1363-1381(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. "Complete DNA sequence of yeast chromosome II."
    Feldmann H., Aigle M., Aljinovic G., Andre B., Baclet M.C., Barthe C., Baur A., Becam A.-M., Biteau N., Boles E., Brandt T., Brendel M., Brueckner M., Bussereau F., Christiansen C., Contreras R., Crouzet M., Cziepluch C.
    , Demolis N., Delaveau T., Doignon F., Domdey H., Duesterhus S., Dubois E., Dujon B., El Bakkoury M., Entian K.-D., Feuermann M., Fiers W., Fobo G.M., Fritz C., Gassenhuber J., Glansdorff N., Goffeau A., Grivell L.A., de Haan M., Hein C., Herbert C.J., Hollenberg C.P., Holmstroem K., Jacq C., Jacquet M., Jauniaux J.-C., Jonniaux J.-L., Kallesoee T., Kiesau P., Kirchrath L., Koetter P., Korol S., Liebl S., Logghe M., Lohan A.J.E., Louis E.J., Li Z.Y., Maat M.J., Mallet L., Mannhaupt G., Messenguy F., Miosga T., Molemans F., Mueller S., Nasr F., Obermaier B., Perea J., Pierard A., Piravandi E., Pohl F.M., Pohl T.M., Potier S., Proft M., Purnelle B., Ramezani Rad M., Rieger M., Rose M., Schaaff-Gerstenschlaeger I., Scherens B., Schwarzlose C., Skala J., Slonimski P.P., Smits P.H.M., Souciet J.-L., Steensma H.Y., Stucka R., Urrestarazu L.A., van der Aart Q.J.M., Van Dyck L., Vassarotti A., Vetter I., Vierendeels F., Vissers S., Wagner G., de Wergifosse P., Wolfe K.H., Zagulski M., Zimmermann F.K., Mewes H.-W., Kleine K.
    EMBO J. 13:5795-5809(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  4. Cited for: GENOME REANNOTATION, SEQUENCE REVISION TO 30.
    Strain: ATCC 204508 / S288c.
  5. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  6. "High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing."
    Juneau K., Palm C., Miranda M., Davis R.W.
    Proc. Natl. Acad. Sci. U.S.A. 104:1522-1527(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 1-57.
    Strain: ATCC 201390 / BY4743.
  7. "DNA looping by Saccharomyces cerevisiae high mobility group proteins NHP6A/B. Consequences for nucleoprotein complex assembly and chromatin condensation."
    Paull T.T., Johnson R.C.
    J. Biol. Chem. 270:8744-8754(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  8. "Yeast HMG proteins NHP6A/B potentiate promoter-specific transcriptional activation in vivo and assembly of preinitiation complexes in vitro."
    Paull T.T., Carey M., Johnson R.C.
    Genes Dev. 10:2769-2781(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  9. "Chromatin-mediated transcriptional regulation by the yeast architectural factors NHP6A and NHP6B."
    Moreira J.M.A., Holmberg S.
    EMBO J. 19:6804-6813(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  10. "Spt16-Pob3 and the HMG protein Nhp6 combine to form the nucleosome-binding factor SPN."
    Formosa T., Eriksson P., Wittmeyer J., Ginn J., Yu Y., Stillman D.J.
    EMBO J. 20:3506-3517(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: ASSOCIATION WITH THE SPT16-POB3 DIMER AND NUCLEOSOMES, FUNCTION OF THE FACT COMPLEX.
  11. "Nhp6, an HMG1 protein, functions in SNR6 transcription by RNA polymerase III in S. cerevisiae."
    Kruppa M., Moir R.D., Kolodrubetz D., Willis I.M.
    Mol. Cell 7:309-318(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  12. Erratum
    Kruppa M., Moir R.D., Kolodrubetz D., Willis I.M.
    Mol. Cell 8:727-727(2001)
  13. "High-mobility-group proteins NHP6A and NHP6B participate in activation of the RNA polymerase III SNR6 gene."
    Lopez S., Livingstone-Zatchej M., Jourdain S., Thoma F., Sentenac A., Marsolier M.-C.
    Mol. Cell. Biol. 21:3096-3104(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  14. "A bipartite yeast SSRP1 analog comprised of Pob3 and Nhp6 proteins modulates transcription."
    Brewster N.K., Johnston G.C., Singer R.A.
    Mol. Cell. Biol. 21:3491-3502(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: ASSOCIATION WITH THE SPT16-POB3 DIMER.
  15. "Multiple Nhp6 molecules are required to recruit Spt16-Pob3 to form yFACT complexes and to reorganize nucleosomes."
    Ruone S., Rhoades A.R., Formosa T.
    J. Biol. Chem. 278:45288-45295(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  16. "The FACT complex travels with elongating RNA polymerase II and is important for the fidelity of transcriptional initiation in vivo."
    Mason P.B., Struhl K.
    Mol. Cell. Biol. 23:8323-8333(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION OF THE FACT COMPLEX.
  17. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  18. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  19. "Nhp6 is a transcriptional initiation fidelity factor for RNA polymerase III transcription in vitro and in vivo."
    Kassavetis G.A., Steiner D.F.
    J. Biol. Chem. 281:7445-7451(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  20. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiNHP6B_YEAST
AccessioniPrimary (citable) accession number: P11633
Secondary accession number(s): A2TBM2
, D6VQ90, P89500, P89501
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1989
Last sequence update: July 27, 2011
Last modified: April 29, 2015
This is version 146 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 4590 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome II
    Yeast (Saccharomyces cerevisiae) chromosome II: entries and gene names

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.