PDB entry 5omx
View 5omx on RCSB PDB site
Description: X-ray Structure of the H2A-N38C Nucleosome Core Particle
Class: DNA binding protein
Keywords: nucleosome core particle, histone, DNA, DNA binding protein
Deposited on
2017-08-02, released
2017-11-15
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: 2.32 Å
R-factor: N/A
AEROSPACI score: 0.25
(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
- 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: d5omxb_ - 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: d5omxc_ - Chain 'D':
Compound: Histone H2B 1.1
Species: Xenopus laevis [TaxId:8355]
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d5omxd_ - Chain 'E':
Compound: Histone H3.2
Species: Xenopus laevis [TaxId:8355]
Database cross-references and differences (RAF-indexed):
- Uniprot P84233 (Start-134)
- 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: d5omxf_ - 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: d5omxg_ - Chain 'H':
Compound: Histone H2B 1.1
Species: Xenopus laevis [TaxId:8355]
Database cross-references and differences (RAF-indexed):
Domains in SCOPe 2.08: d5omxh_ - Chain 'I':
Compound: DNA (147-mer)
Species: Homo sapiens [TaxId:9606]
Gene: alpha satellite
- 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)
>5omxB (B:)
msgrgkggkglgkggakrhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlk
vflenvirdavtytehakrktvtamdvvyalkrqgrtlygfgg
Sequence, based on observed residues (ATOM records): (download)
>5omxB (B:)
dniqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtytehakrktvta
mdvvyalkrqgrtlygfgg
- Chain 'C':
Sequence, based on SEQRES records: (download)
>5omxC (C:)
sgrgkqggktrakaktrssraglqfpvgrvhrllrkgcyaervgagapvylaavleylta
eilelagnaardnkktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpkkt
essksaksk
Sequence, based on observed residues (ATOM records): (download)
>5omxC (C:)
aktrssraglqfpvgrvhrllrkgcyaervgagapvylaavleyltaeilelagnaardn
kktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpk
- Chain 'D':
Sequence, based on SEQRES records: (download)
>5omxD (D:)
aksapapkkgskkavtktqkkdgkkrrktrkesyaiyvykvlkqvhpdtgisskamsimn
sfvndvferiageasrlahynkrstitsreiqtavrlllpgelakhavsegtkavtkyts
ak
Sequence, based on observed residues (ATOM records): (download)
>5omxD (D:)
trkesyaiyvykvlkqvhpdtgisskamsimnsfvndvferiageasrlahynkrstits
reiqtavrlllpgelakhavsegtkavtkytsak
- Chain 'E':
No sequence available.
- Chain 'F':
Sequence, based on SEQRES records: (download)
>5omxF (F:)
msgrgkggkglgkggakrhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlk
vflenvirdavtytehakrktvtamdvvyalkrqgrtlygfgg
Sequence, based on observed residues (ATOM records): (download)
>5omxF (F:)
rhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtyteha
krktvtamdvvyalkrqgrtlygfgg
- Chain 'G':
Sequence, based on SEQRES records: (download)
>5omxG (G:)
sgrgkqggktrakaktrssraglqfpvgrvhrllrkgcyaervgagapvylaavleylta
eilelagnaardnkktriiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpkkt
essksaksk
Sequence, based on observed residues (ATOM records): (download)
>5omxG (G:)
trssraglqfpvgrvhrllrkgcyaervgagapvylaavleyltaeilelagnaardnkk
triiprhlqlavrndeelnkllgrvtiaqggvlpniqsvllpk
- Chain 'H':
Sequence, based on SEQRES records: (download)
>5omxH (H:)
aksapapkkgskkavtktqkkdgkkrrktrkesyaiyvykvlkqvhpdtgisskamsimn
sfvndvferiageasrlahynkrstitsreiqtavrlllpgelakhavsegtkavtkyts
ak
Sequence, based on observed residues (ATOM records): (download)
>5omxH (H:)
rktrkesyaiyvykvlkqvhpdtgisskamsimnsfvndvferiageasrlahynkrsti
tsreiqtavrlllpgelakhavsegtkavtkytsa
- Chain 'I':
No sequence available.
- Chain 'J':
No sequence available.