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Protein

DNA-binding protein 7d

Gene

Saci_0064

Organism
Sulfolobus acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 / NCIMB 11770)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Constrain negative DNA supercoils; may be involved in maintaining the integrity of their genome at high temperature.

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-KW
  2. endoribonuclease activity Source: InterPro
Complete GO annotation...

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciSACI330779:GH9J-64-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-binding protein 7d
Alternative name(s):
7 kDa DNA-binding protein d
Sac7d
Cleaved into the following 2 chains:
Alternative name(s):
7 kDa DNA-binding protein a
Sac7a
Alternative name(s):
7 kDa DNA-binding protein b
Sac7b
Gene namesi
Ordered Locus Names:Saci_0064
OrganismiSulfolobus acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 / NCIMB 11770)
Taxonomic identifieri330779 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiSulfolobalesSulfolobaceaeSulfolobus
ProteomesiUP000001018 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed2 Publications
Chaini2 – 6564DNA-binding protein 7dPRO_0000007248Add
BLAST
Chaini2 – 6261DNA-binding protein 7aPRO_0000007249Add
BLAST
Chaini2 – 5958DNA-binding protein 7bPRO_0000007250Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei5 – 51N6-methyllysine; partial1 Publication
Modified residuei7 – 71N6-methyllysine; partial1 Publication

Post-translational modificationi

Lys-5 was 70% monomethylated in form 7a, 25% in form 7b, and 20% in form 7d. Lys-7 was 50% monomethylated in form 7a, 40% in form 7b, and 50% in form 7d.

Keywords - PTMi

Methylation

Interactioni

Subunit structurei

Monomer.

Structurei

Secondary structure

1
66
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi3 – 86Combined sources
Beta strandi11 – 166Combined sources
Helixi17 – 193Combined sources
Beta strandi20 – 267Combined sources
Beta strandi29 – 368Combined sources
Beta strandi39 – 468Combined sources
Helixi47 – 493Combined sources
Helixi52 – 6211Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1AZPX-ray1.60A1-66[»]
1AZQX-ray1.94A1-66[»]
1BF4X-ray1.60A4-66[»]
1CA5X-ray2.20A1-66[»]
1CA6X-ray2.20A1-66[»]
1SAPNMR-A1-66[»]
1WD0X-ray1.90A1-66[»]
1WD1X-ray2.20A1-66[»]
1WTOX-ray1.50A1-66[»]
1WTPX-ray1.90A/B1-66[»]
1WTQX-ray1.70A1-66[»]
1WTRX-ray1.80A1-66[»]
1WTVX-ray1.60A1-66[»]
1WTWX-ray2.20A1-66[»]
1WTXX-ray2.20A1-66[»]
1WVLX-ray2.60A/B1-66[»]
1XX8NMR-A1-66[»]
1XYIX-ray1.45A1-66[»]
2XIWX-ray1.50A/B2-66[»]
4CJ1X-ray1.63B2-62[»]
4CJ2X-ray1.50C/D2-66[»]
SMRiP13123. Positions 1-66.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP13123.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiNOG86455.
HOGENOMiHOG000270553.
KOiK16640.
OMAiMATKIKF.

Family and domain databases

InterProiIPR016197. Chromodomain-like.
IPR003212. DNA-bd_7kDa_arc.
[Graphical view]
PfamiPF02294. 7kD_DNA_binding. 1 hit.
[Graphical view]
PIRSFiPIRSF036912. Sac7. 1 hit.
ProDomiPD010328. 7kDa_DNA_bd_arc. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SUPFAMiSSF54160. SSF54160. 1 hit.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P13123-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVKVKFKYKG EEKEVDTSKI KKVWRVGKMV SFTYDDNGKT GRGAVSEKDA
60
PKELLDMLAR AEREKK
Length:66
Mass (Da):7,609
Last modified:January 22, 2007 - v3
Checksum:iBFF84F058C2DDA97
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M87569 Genomic DNA. Translation: AAA80315.1.
CP000077 Genomic DNA. Translation: AAY79492.1.
PIRiA27749.
RefSeqiYP_254785.1. NC_007181.1.

Genome annotation databases

EnsemblBacteriaiAAY79492; AAY79492; Saci_0064.
GeneIDi3473894.
KEGGisai:Saci_0064.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M87569 Genomic DNA. Translation: AAA80315.1.
CP000077 Genomic DNA. Translation: AAY79492.1.
PIRiA27749.
RefSeqiYP_254785.1. NC_007181.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1AZPX-ray1.60A1-66[»]
1AZQX-ray1.94A1-66[»]
1BF4X-ray1.60A4-66[»]
1CA5X-ray2.20A1-66[»]
1CA6X-ray2.20A1-66[»]
1SAPNMR-A1-66[»]
1WD0X-ray1.90A1-66[»]
1WD1X-ray2.20A1-66[»]
1WTOX-ray1.50A1-66[»]
1WTPX-ray1.90A/B1-66[»]
1WTQX-ray1.70A1-66[»]
1WTRX-ray1.80A1-66[»]
1WTVX-ray1.60A1-66[»]
1WTWX-ray2.20A1-66[»]
1WTXX-ray2.20A1-66[»]
1WVLX-ray2.60A/B1-66[»]
1XX8NMR-A1-66[»]
1XYIX-ray1.45A1-66[»]
2XIWX-ray1.50A/B2-66[»]
4CJ1X-ray1.63B2-62[»]
4CJ2X-ray1.50C/D2-66[»]
SMRiP13123. Positions 1-66.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAY79492; AAY79492; Saci_0064.
GeneIDi3473894.
KEGGisai:Saci_0064.

Phylogenomic databases

eggNOGiNOG86455.
HOGENOMiHOG000270553.
KOiK16640.
OMAiMATKIKF.

Enzyme and pathway databases

BioCyciSACI330779:GH9J-64-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP13123.

Family and domain databases

InterProiIPR016197. Chromodomain-like.
IPR003212. DNA-bd_7kDa_arc.
[Graphical view]
PfamiPF02294. 7kD_DNA_binding. 1 hit.
[Graphical view]
PIRSFiPIRSF036912. Sac7. 1 hit.
ProDomiPD010328. 7kDa_DNA_bd_arc. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SUPFAMiSSF54160. SSF54160. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Gene cloning, expression, and characterization of the Sac7 proteins from the hyperthermophile Sulfolobus acidocaldarius."
    McAfee J.G., Edmondson S.P., Datta P.K., Shriver J.W., Gupta R.
    Biochemistry 34:10063-10077(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "The genome of Sulfolobus acidocaldarius, a model organism of the Crenarchaeota."
    Chen L., Bruegger K., Skovgaard M., Redder P., She Q., Torarinsson E., Greve B., Awayez M., Zibat A., Klenk H.-P., Garrett R.A.
    J. Bacteriol. 187:4992-4999(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 / NCIMB 11770.
  3. "The amino acid sequence of a small DNA binding protein from the archaebacterium Sulfolobus solfataricus."
    Kimura M., Kimura J., Davie P., Reinhardt R., Dijk J.
    FEBS Lett. 176:176-178(1983) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 2-65.
  4. "Microsequence analysis of DNA-binding proteins 7a, 7b, and 7e from the archaebacterium Sulfolobus acidocaldarius."
    Choli T., Wittmann-Liebold B., Reinhardt R.
    J. Biol. Chem. 263:7087-7093(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 2-62, METHYLATION AT LYS-5 AND LYS-7.
  5. "Solution structure of the DNA-binding protein Sac7d from the hyperthermophile Sulfolobus acidocaldarius."
    Edmondson S.P., Qiu L., Shriver J.W.
    Biochemistry 34:13289-13304(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR.
  6. "The hyperthermophile chromosomal protein Sac7d sharply kinks DNA."
    Robinson H., Gao Y.-G., McCrary B.S., Edmondson S.P., Shriver J.W., Wang A.H.-J.
    Nature 392:202-205(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.6 ANGSTROMS).

Entry informationi

Entry nameiDN71_SULAC
AccessioniPrimary (citable) accession number: P13123
Secondary accession number(s): Q4JCI7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 31, 1989
Last sequence update: January 22, 2007
Last modified: March 31, 2015
This is version 110 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  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.