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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

6YN1

Crystal structure of histone chaperone APLF acidic domain bound to the histone H2A-H2B-H3-H4 octamer

Functional Information from GO Data
ChainGOidnamespacecontents
a0000786cellular_componentnucleosome
a0003677molecular_functionDNA binding
a0030527molecular_functionstructural constituent of chromatin
a0046982molecular_functionprotein heterodimerization activity
A0000786cellular_componentnucleosome
A0003677molecular_functionDNA binding
A0030527molecular_functionstructural constituent of chromatin
A0046982molecular_functionprotein heterodimerization activity
b0000786cellular_componentnucleosome
b0003677molecular_functionDNA binding
b0030527molecular_functionstructural constituent of chromatin
b0046982molecular_functionprotein heterodimerization activity
B0000786cellular_componentnucleosome
B0003677molecular_functionDNA binding
B0030527molecular_functionstructural constituent of chromatin
B0046982molecular_functionprotein heterodimerization activity
c0003677molecular_functionDNA binding
c0030527molecular_functionstructural constituent of chromatin
c0046982molecular_functionprotein heterodimerization activity
C0000786cellular_componentnucleosome
C0003677molecular_functionDNA binding
C0030527molecular_functionstructural constituent of chromatin
C0046982molecular_functionprotein heterodimerization activity
d0003906molecular_functionDNA-(apurinic or apyrimidinic site) endonuclease activity
d0006302biological_processdouble-strand break repair
d0008408molecular_function3'-5' exonuclease activity
D0003677molecular_functionDNA binding
D0030527molecular_functionstructural constituent of chromatin
D0046982molecular_functionprotein heterodimerization activity
e0000786cellular_componentnucleosome
e0003677molecular_functionDNA binding
e0030527molecular_functionstructural constituent of chromatin
e0046982molecular_functionprotein heterodimerization activity
E0003906molecular_functionDNA-(apurinic or apyrimidinic site) endonuclease activity
E0006302biological_processdouble-strand break repair
E0008408molecular_function3'-5' exonuclease activity
f0000786cellular_componentnucleosome
f0003677molecular_functionDNA binding
f0030527molecular_functionstructural constituent of chromatin
f0046982molecular_functionprotein heterodimerization activity
F0000786cellular_componentnucleosome
F0003677molecular_functionDNA binding
F0030527molecular_functionstructural constituent of chromatin
F0046982molecular_functionprotein heterodimerization activity
g0000786cellular_componentnucleosome
g0003677molecular_functionDNA binding
g0030527molecular_functionstructural constituent of chromatin
g0046982molecular_functionprotein heterodimerization activity
G0000786cellular_componentnucleosome
G0003677molecular_functionDNA binding
G0030527molecular_functionstructural constituent of chromatin
G0046982molecular_functionprotein heterodimerization activity
h0003677molecular_functionDNA binding
h0030527molecular_functionstructural constituent of chromatin
h0046982molecular_functionprotein heterodimerization activity
H0000786cellular_componentnucleosome
H0003677molecular_functionDNA binding
H0030527molecular_functionstructural constituent of chromatin
H0046982molecular_functionprotein heterodimerization activity
i0003906molecular_functionDNA-(apurinic or apyrimidinic site) endonuclease activity
i0006302biological_processdouble-strand break repair
i0008408molecular_function3'-5' exonuclease activity
I0003677molecular_functionDNA binding
I0030527molecular_functionstructural constituent of chromatin
I0046982molecular_functionprotein heterodimerization activity
j0000786cellular_componentnucleosome
j0003677molecular_functionDNA binding
j0030527molecular_functionstructural constituent of chromatin
j0046982molecular_functionprotein heterodimerization activity
J0003906molecular_functionDNA-(apurinic or apyrimidinic site) endonuclease activity
J0006302biological_processdouble-strand break repair
J0008408molecular_function3'-5' exonuclease activity
k0000786cellular_componentnucleosome
k0003677molecular_functionDNA binding
k0030527molecular_functionstructural constituent of chromatin
k0046982molecular_functionprotein heterodimerization activity
K0000786cellular_componentnucleosome
K0003677molecular_functionDNA binding
K0030527molecular_functionstructural constituent of chromatin
K0046982molecular_functionprotein heterodimerization activity
l0000786cellular_componentnucleosome
l0003677molecular_functionDNA binding
l0030527molecular_functionstructural constituent of chromatin
l0046982molecular_functionprotein heterodimerization activity
L0000786cellular_componentnucleosome
L0003677molecular_functionDNA binding
L0030527molecular_functionstructural constituent of chromatin
L0046982molecular_functionprotein heterodimerization activity
m0003677molecular_functionDNA binding
m0030527molecular_functionstructural constituent of chromatin
m0046982molecular_functionprotein heterodimerization activity
M0000786cellular_componentnucleosome
M0003677molecular_functionDNA binding
M0030527molecular_functionstructural constituent of chromatin
M0046982molecular_functionprotein heterodimerization activity
n0003906molecular_functionDNA-(apurinic or apyrimidinic site) endonuclease activity
n0006302biological_processdouble-strand break repair
n0008408molecular_function3'-5' exonuclease activity
N0003677molecular_functionDNA binding
N0030527molecular_functionstructural constituent of chromatin
N0046982molecular_functionprotein heterodimerization activity
O0003906molecular_functionDNA-(apurinic or apyrimidinic site) endonuclease activity
O0006302biological_processdouble-strand break repair
O0008408molecular_function3'-5' exonuclease activity
P0000786cellular_componentnucleosome
P0003677molecular_functionDNA binding
P0030527molecular_functionstructural constituent of chromatin
P0046982molecular_functionprotein heterodimerization activity
Q0000786cellular_componentnucleosome
Q0003677molecular_functionDNA binding
Q0030527molecular_functionstructural constituent of chromatin
Q0046982molecular_functionprotein heterodimerization activity
R0000786cellular_componentnucleosome
R0003677molecular_functionDNA binding
R0030527molecular_functionstructural constituent of chromatin
R0046982molecular_functionprotein heterodimerization activity
S0003677molecular_functionDNA binding
S0030527molecular_functionstructural constituent of chromatin
S0046982molecular_functionprotein heterodimerization activity
T0003906molecular_functionDNA-(apurinic or apyrimidinic site) endonuclease activity
T0006302biological_processdouble-strand break repair
T0008408molecular_function3'-5' exonuclease activity
U0000786cellular_componentnucleosome
U0003677molecular_functionDNA binding
U0030527molecular_functionstructural constituent of chromatin
U0046982molecular_functionprotein heterodimerization activity
V0000786cellular_componentnucleosome
V0003677molecular_functionDNA binding
V0030527molecular_functionstructural constituent of chromatin
V0046982molecular_functionprotein heterodimerization activity
W0000786cellular_componentnucleosome
W0003677molecular_functionDNA binding
W0030527molecular_functionstructural constituent of chromatin
W0046982molecular_functionprotein heterodimerization activity
X0003677molecular_functionDNA binding
X0030527molecular_functionstructural constituent of chromatin
X0046982molecular_functionprotein heterodimerization activity
Y0003906molecular_functionDNA-(apurinic or apyrimidinic site) endonuclease activity
Y0006302biological_processdouble-strand break repair
Y0008408molecular_function3'-5' exonuclease activity
Z0000786cellular_componentnucleosome
Z0003677molecular_functionDNA binding
Z0030527molecular_functionstructural constituent of chromatin
Z0046982molecular_functionprotein heterodimerization activity
Functional Information from PDB Data
site_idAC1
Number of Residues7
Detailsbinding site for residue GOL A 201
ChainResidue
AASN110
AGLN112
AHOH302
HASN108
IGLY41
IGLY42
IHOH207
site_idAC2
Number of Residues2
Detailsbinding site for residue GOL D 201
ChainResidue
DTHR30
DARG36
site_idAC3
Number of Residues6
Detailsbinding site for residue GOL H 201
ChainResidue
HTYR99
HARG128
HGLU133
IASN64
IGLN93
IARG95
site_idAC4
Number of Residues5
Detailsbinding site for residue CL J 501
ChainResidue
JTYR476
JGLU477
ZARG17
ZSER18
ZGLY28
site_idAC5
Number of Residues6
Detailsbinding site for residue GOL K 201
ChainResidue
KASN110
KGLN112
KHOH302
RASN108
SGLY41
SGLY42
site_idAC6
Number of Residues3
Detailsbinding site for residue GOL N 201
ChainResidue
NTHR30
NPRO32
NARG36
site_idAC7
Number of Residues6
Detailsbinding site for residue GOL P 201
ChainResidue
MASN108
NGLY41
NGLY42
PASN110
PGLN112
PHOH303
site_idAC8
Number of Residues6
Detailsbinding site for residue GOL S 201
ChainResidue
RGLU133
RHOH215
SPHE61
SASN64
SGLN93
SARG95
site_idAC9
Number of Residues6
Detailsbinding site for residue GOL U 201
ChainResidue
UASN110
UGLN112
UHOH302
bGLU105
bASN108
cGLY41
site_idAD1
Number of Residues3
Detailsbinding site for residue GOL b 201
ChainResidue
UASN73
UARG81
bLYS56
site_idAD2
Number of Residues8
Detailsbinding site for residue GOL c 201
ChainResidue
bTYR99
bARG128
bGLU133
bHOH311
cPHE61
cASN64
cGLN93
cARG95
site_idAD3
Number of Residues6
Detailsbinding site for residue GOL e 201
ChainResidue
eASN110
eGLN112
lASN108
mGLY41
mGLY42
mHOH204
site_idAD4
Number of Residues3
Detailsbinding site for residue GOL h 201
ChainResidue
gARG63
hTHR30
hARG36
site_idAD5
Number of Residues6
Detailsbinding site for residue GOL j 201
ChainResidue
gASN108
hGLY41
jASN110
jGLN112
jHOH305
jHOH306
site_idAD6
Number of Residues6
Detailsbinding site for residue GOL j 202
ChainResidue
jTHR16
jSER18
jPRO26
jVAL27
jGLY28
kTYR40
Functional Information from PROSITE/UniProt
site_idPS00046
Number of Residues7
DetailsHISTONE_H2A Histone H2A signature. AGLqFPV
ChainResidueDetails
AALA21-VAL27
site_idPS00357
Number of Residues23
DetailsHISTONE_H2B Histone H2B signature. REIQTavRlLLpGELaKHAVSEG
ChainResidueDetails
aARG92-GLY114
site_idPS00959
Number of Residues9
DetailsHISTONE_H3_2 Histone H3 signature 2. PFqRLVREI
ChainResidueDetails
bPRO66-ILE74
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues8
DetailsGlycosylation: {"description":"O-linked (GlcNAc) serine","evidences":[{"source":"UniProtKB","id":"P62807","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues16
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"UniProtKB","id":"P0C1H4","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues8
DetailsModified residue: {"description":"Phosphotyrosine","evidences":[{"source":"UniProtKB","id":"P84243","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues16
DetailsModified residue: {"description":"N6-succinyllysine; alternate","evidences":[{"source":"UniProtKB","id":"P84244","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI5
Number of Residues8
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"UniProtKB","id":"P84243","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI6
Number of Residues8
DetailsModified residue: {"description":"N6-methylated lysine","evidences":[{"source":"UniProtKB","id":"P84243","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI7
Number of Residues8
DetailsModified residue: {"description":"Phosphothreonine","evidences":[{"source":"UniProtKB","id":"P84243","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI8
Number of Residues8
DetailsModified residue: {"description":"N6-glutaryllysine; alternate","evidences":[{"source":"UniProtKB","id":"P84243","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI9
Number of Residues8
DetailsModified residue: {"description":"N6-succinyllysine; alternate","evidences":[{"source":"UniProtKB","id":"P84243","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI10
Number of Residues16
DetailsModified residue: {"description":"N6-succinyllysine; alternate","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI11
Number of Residues16
DetailsModified residue: {"description":"N6-propionyllysine; alternate","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI12
Number of Residues8
DetailsModified residue: {"description":"Phosphoserine; by PAK2","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI13
Number of Residues16
DetailsModified residue: {"description":"Phosphotyrosine","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI14
Number of Residues8
DetailsModified residue: {"description":"N6-glutaryllysine; alternate","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI15
Number of Residues8
DetailsModified residue: {"description":"N6-succinyllysine","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI16
Number of Residues8
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in UFM1); alternate","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI17
Number of Residues16
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails

246704

PDB entries from 2025-12-24

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