PDB entry 5ong
View 5ong on RCSB PDB site
Description: X-Ray crystal structure of a nucleosome core particle with its DNA site-specifically crosslinked to the histone octamer
Class: DNA binding protein
Keywords: Nucleosome Core Particle, Histones, Disulfide, Convertible Nucleotide, DNA, DNA binding protein
Deposited on
2017-08-03, released
2017-11-22
The last revision prior to the SCOPe 2.08 freeze date was dated
2017-12-27, with a file datestamp of
2017-12-22.
Experiment type: XRAY
Resolution: 2.8 Å
R-factor: N/A
AEROSPACI score: 0.17
(click here for full SPACI score report)
Chains and heterogens:
- Chain 'A':
Compound: Histone H3.2
Species: Xenopus laevis [TaxId:8355]
Database cross-references and differences (RAF-indexed):
- Uniprot P84233
- engineered mutation (39)
- conflict (101)
- engineered mutation (109)
- Chain 'B':
Compound: histone h4
Species: Xenopus laevis [TaxId:8355]
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d5ongb_ - Chain 'C':
Compound: histone h2a
Species: Xenopus laevis [TaxId:8355]
Gene: hist1h2aj, LOC494591
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d5ongc_ - Chain 'D':
Compound: Histone H2B 1.1
Species: Xenopus laevis [TaxId:8355]
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d5ongd_ - Chain 'E':
Compound: Histone H3.2
Species: Xenopus laevis [TaxId:8355]
Database cross-references and differences (RAF-indexed):
- Uniprot P84233 (Start-134)
- engineered mutation (39)
- conflict (101)
- engineered mutation (109)
- Chain 'F':
Compound: histone h4
Species: Xenopus laevis [TaxId:8355]
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d5ongf_ - Chain 'G':
Compound: histone h2a
Species: Xenopus laevis [TaxId:8355]
Gene: hist1h2aj, LOC494591
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d5ongg_ - Chain 'H':
Compound: Histone H2B 1.1
Species: Xenopus laevis [TaxId:8355]
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d5ongh_ - Chain 'I':
Compound: DNA (147-mer)
Species: Homo sapiens [TaxId:9606]
- Chain 'J':
Compound: DNA (147-mer)
Species: Homo sapiens [TaxId:9606]
- Heterogens: MN, CL, HOH
PDB Chain Sequences:
- Chain 'A':
No sequence available.
- Chain 'B':
Sequence, based on SEQRES records: (download)
>5ongB (B:)
msgrgkggkglgkggakrhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlk
vflenvirdavtytehakrktvtamdvvyalkrqgrtlygfgg
Sequence, based on observed residues (ATOM records): (download)
>5ongB (B:)
niqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtytehakrktvtam
dvvyalkrqgrtlygfgg
- Chain 'C':
Sequence, based on SEQRES records: (download)
>5ongC (C:)
sgrgkqggktrakaktrssraglqfpvgrvhrllrkgnyaervgagapvylaavleylta
eilelagnaardnkktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpkkt
essksaksk
Sequence, based on observed residues (ATOM records): (download)
>5ongC (C:)
ktrssraglqfpvgrvhrllrkgnyaervgagapvylaavleyltaeilelagnaardnk
ktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpkkt
- Chain 'D':
Sequence, based on SEQRES records: (download)
>5ongD (D:)
aksapapkkgskkavtktqkkdgkkrrktrkesyaiyvykvlkqvhpdtgisskamsimn
sfvndvferiageasrlahynkrstitsreiqtavrlllpgelakhavsegtkavtkyts
ak
Sequence, based on observed residues (ATOM records): (download)
>5ongD (D:)
ktrkesyaiyvykvlkqvhpdtgisskamsimnsfvndvferiageasrlahynkrstit
sreiqtavrlllpgelakhavsegtkavtkytsa
- Chain 'E':
No sequence available.
- Chain 'F':
Sequence, based on SEQRES records: (download)
>5ongF (F:)
msgrgkggkglgkggakrhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlk
vflenvirdavtytehakrktvtamdvvyalkrqgrtlygfgg
Sequence, based on observed residues (ATOM records): (download)
>5ongF (F:)
rkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtytehakr
ktvtamdvvyalkrqgrtlygfgg
- Chain 'G':
Sequence, based on SEQRES records: (download)
>5ongG (G:)
sgrgkqggktrakaktrssraglqfpvgrvhrllrkgnyaervgagapvylaavleylta
eilelagnaardnkktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpkkt
essksaksk
Sequence, based on observed residues (ATOM records): (download)
>5ongG (G:)
aktrssraglqfpvgrvhrllrkgnyaervgagapvylaavleyltaeilelagnaardn
kktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpkk
- Chain 'H':
Sequence, based on SEQRES records: (download)
>5ongH (H:)
aksapapkkgskkavtktqkkdgkkrrktrkesyaiyvykvlkqvhpdtgisskamsimn
sfvndvferiageasrlahynkrstitsreiqtavrlllpgelakhavsegtkavtkyts
ak
Sequence, based on observed residues (ATOM records): (download)
>5ongH (H:)
trkesyaiyvykvlkqvhpdtgisskamsimnsfvndvferiageasrlahynkrstits
reiqtavrlllpgelakhavsegtkavtkytsa
- Chain 'I':
No sequence available.
- Chain 'J':
No sequence available.