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Title: Crystal structure of nucleosome core particle in the presence of histone variant involved in reprogramming      
dateReleased:
09-23-2015
creators:
Padavattan, S.
Shinagawa, T.
Hasegawa, K.
Kumasaka, T.
Ishii, S.
Kumarevel, T.
description:
Histone H3.1, Histone H4, Histone H2A type 1-B/E, Histone H2B type 1-A/DNA Complex
privacy:
not applicable
aggregation:
instance of dataset
ID:
PDB:3X1V
refinement:
curated
keywords:
STRUCTURAL PROTEIN/DNA
nucleosome
chromatin
histone variant
reprogramming
STRUCTURAL PROTEIN-DNA complex
dateCreated:
11-28-2014
availability:
available
types:
structure
strain:
BL21(DE3)
name:
Homo sapiens
ID:
ncbitax:9606
strain:
JM109(DE3)
name:
Homo sapiens
ID:
ncbitax:9606
strain:
BL21(DE3)
name:
Homo sapiens
ID:
ncbitax:9606
strain:
BL21(DE3)
name:
Mus musculus
ID:
ncbitax:10090
name:
Escherichia coli
ID:
ncbitax:469008
name:
Escherichia coli
ID:
ncbitax:562
name:
Escherichia coli
ID:
ncbitax:469008
name:
Escherichia coli
ID:
ncbitax:469008
authors:
Padavattan, S.
Shinagawa, T.
Hasegawa, K.
Kumasaka, T.
Ishii, S.
Kumarevel, T.
alternateID:
doi:10.1016/j.bbrc.2015.07.070
year:
2015
ID: pmid:26188507
title:
Structural and functional analyses of nucleosome complexes with mouse histone variants TH2a and TH2b, involved in reprogramming
formula:
C10 H14 N5 O6 P
name:
2'-DEOXYADENOSINE-5'-MONOPHOSPHATE
roles:
chemical component
formula:
C10 H15 N2 O8 P
name:
THYMIDINE-5'-MONOPHOSPHATE
roles:
chemical component
formula:
C9 H14 N3 O7 P
name:
2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE
roles:
chemical component
formula:
C10 H14 N5 O7 P
name:
2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE
roles:
chemical component
formula:
C5 H9 N O2
name:
PROLINE
roles:
chemical component
formula:
C6 H10 N3 O2 1
name:
HISTIDINE
roles:
chemical component
formula:
C6 H15 N4 O2 1
name:
ARGININE
roles:
chemical component
formula:
C9 H11 N O3
name:
TYROSINE
roles:
chemical component
formula:
C2 H5 N O2
name:
GLYCINE
roles:
chemical component
formula:
C4 H9 N O3
name:
THREONINE
roles:
chemical component
formula:
C5 H11 N O2
name:
VALINE
roles:
chemical component
formula:
C3 H7 N O2
name:
ALANINE
roles:
chemical component
formula:
C6 H13 N O2
name:
LEUCINE
roles:
chemical component
formula:
C5 H9 N O4
name:
GLUTAMIC ACID
roles:
chemical component
formula:
C6 H13 N O2
name:
ISOLEUCINE
roles:
chemical component
formula:
C5 H10 N2 O3
name:
GLUTAMINE
roles:
chemical component
formula:
C6 H15 N2 O2 1
name:
LYSINE
roles:
chemical component
formula:
C3 H7 N O3
name:
SERINE
roles:
chemical component
formula:
C9 H11 N O2
name:
PHENYLALANINE
roles:
chemical component
formula:
C4 H7 N O4
name:
ASPARTIC ACID
roles:
chemical component
formula:
C5 H11 N O2 S
name:
METHIONINE
roles:
chemical component
formula:
C3 H7 N O2 S
name:
CYSTEINE
roles:
chemical component
formula:
C4 H8 N2 O3
name:
ASPARAGINE
roles:
chemical component
formula:
MN 2
name:
MANGANESE (II) ION
roles:
chemical component
formula:
CL -1
name:
CHLORIDE ION
roles:
chemical component
formula:
H2 O
name:
WATER
roles:
chemical component
name:
H3.1
name:
H4
name:
H2A
name:
H2BA
name:
X-RAY DIFFRACTION
ID:
pdb:3X1V
ID:
rcsb:RCSB097073
ID:
ndb:NA3320
accessURL: https://files.rcsb.org/download/3X1V.xml.gz
storedIn:
Protein Data Bank
qualifier:
gzip compressed
license:
Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all copyright restrictions and made fully and freely available for both non-commercial and commercial use. Users of the data should attribute the original authors of that structural data. By using the materials available in the PDB archive, the user agrees to abide by the conditions described in the PDB Advisory Notice.
format:
PDBML/XML
accessType:
download
authentication:
none
authorization:
none
accessURL: https://files.rcsb.org/download/3X1V.pdb.gz
storedIn:
Protein Data Bank
qualifier:
gzip compressed
license:
Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all copyright restrictions and made fully and freely available for both non-commercial and commercial use. Users of the data should attribute the original authors of that structural data. By using the materials available in the PDB archive, the user agrees to abide by the conditions described in the PDB Advisory Notice.
format:
PDB Format
accessType:
download
authentication:
none
authorization:
none
accessURL: https://files.rcsb.org/download/3X1V.cif.gz
storedIn:
Protein Data Bank
qualifier:
gzip compressed
license:
Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all copyright restrictions and made fully and freely available for both non-commercial and commercial use. Users of the data should attribute the original authors of that structural data. By using the materials available in the PDB archive, the user agrees to abide by the conditions described in the PDB Advisory Notice.
format:
PDBx/mmCIF
accessType:
download
authentication:
none
authorization:
none
accessURL: http://www.rcsb.org/pdb/download/downloadFile.do?fileFormat=FASTA&compression=NO&structureId=3X1V
storedIn:
Protein Data Bank
license:
Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all copyright restrictions and made fully and freely available for both non-commercial and commercial use. Users of the data should attribute the original authors of that structural data. By using the materials available in the PDB archive, the user agrees to abide by the conditions described in the PDB Advisory Notice.
format:
FASTA
accessType:
download
authentication:
none
authorization:
none
accessURL: https://files.rcsb.org/download/3X1V-sf.cif.gz
storedIn:
Protein Data Bank
qualifier:
gzip compressed
license:
Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all copyright restrictions and made fully and freely available for both non-commercial and commercial use. Users of the data should attribute the original authors of that structural data. By using the materials available in the PDB archive, the user agrees to abide by the conditions described in the PDB Advisory Notice.
format:
CIF
accessType:
download
authentication:
none
authorization:
none
accessURL: https://files.rcsb.org/download/3X1V.pdb1.gz
storedIn:
Protein Data Bank
qualifier:
gzip compressed
license:
Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all copyright restrictions and made fully and freely available for both non-commercial and commercial use. Users of the data should attribute the original authors of that structural data. By using the materials available in the PDB archive, the user agrees to abide by the conditions described in the PDB Advisory Notice.
format:
PDB Format (A)
accessType:
download
authentication:
none
authorization:
none
accessURL: http://www.rcsb.org/pdb/explore/jmol.do?structureId=3X1V&bionumber=1
storedIn:
Protein Data Bank
license:
Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all copyright restrictions and made fully and freely available for both non-commercial and commercial use. Users of the data should attribute the original authors of that structural data. By using the materials available in the PDB archive, the user agrees to abide by the conditions described in the PDB Advisory Notice.
format:
JSmol
accessType:
view
authentication:
none
authorization:
none
abbreviation:
wwPDB
homePage: http://www.wwpdb.org
ID:
SCR:006555
name:
Worldwide Protein Data Bank
abbreviation:
PDB
homePage: http://www.rcsb.org/pdb/
ID:
SCR:012820
name:
Protein Data Bank