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5NL0

Crystal structure of a 197-bp palindromic 601L nucleosome in complex with linker histone H1

Functional Information from GO Data
ChainGOidnamespacecontents
A0000786cellular_componentnucleosome
A0003677molecular_functionDNA binding
A0005515molecular_functionprotein binding
A0005634cellular_componentnucleus
A0005654cellular_componentnucleoplasm
A0005694cellular_componentchromosome
A0030527molecular_functionstructural constituent of chromatin
A0046982molecular_functionprotein heterodimerization activity
B0000786cellular_componentnucleosome
B0003677molecular_functionDNA binding
B0005515molecular_functionprotein binding
B0005634cellular_componentnucleus
B0005694cellular_componentchromosome
B0006334biological_processnucleosome assembly
B0030527molecular_functionstructural constituent of chromatin
B0046982molecular_functionprotein heterodimerization activity
C0000786cellular_componentnucleosome
C0003677molecular_functionDNA binding
C0005634cellular_componentnucleus
C0005694cellular_componentchromosome
C0030527molecular_functionstructural constituent of chromatin
C0046982molecular_functionprotein heterodimerization activity
D0000786cellular_componentnucleosome
D0003677molecular_functionDNA binding
D0005515molecular_functionprotein binding
D0005634cellular_componentnucleus
D0005694cellular_componentchromosome
D0030527molecular_functionstructural constituent of chromatin
D0046982molecular_functionprotein heterodimerization activity
E0000786cellular_componentnucleosome
E0003677molecular_functionDNA binding
E0005515molecular_functionprotein binding
E0005634cellular_componentnucleus
E0005654cellular_componentnucleoplasm
E0005694cellular_componentchromosome
E0030527molecular_functionstructural constituent of chromatin
E0046982molecular_functionprotein heterodimerization activity
F0000786cellular_componentnucleosome
F0003677molecular_functionDNA binding
F0005515molecular_functionprotein binding
F0005634cellular_componentnucleus
F0005694cellular_componentchromosome
F0006334biological_processnucleosome assembly
F0030527molecular_functionstructural constituent of chromatin
F0046982molecular_functionprotein heterodimerization activity
G0000786cellular_componentnucleosome
G0003677molecular_functionDNA binding
G0005634cellular_componentnucleus
G0005694cellular_componentchromosome
G0030527molecular_functionstructural constituent of chromatin
G0046982molecular_functionprotein heterodimerization activity
H0000786cellular_componentnucleosome
H0003677molecular_functionDNA binding
H0005515molecular_functionprotein binding
H0005634cellular_componentnucleus
H0005694cellular_componentchromosome
H0030527molecular_functionstructural constituent of chromatin
H0046982molecular_functionprotein heterodimerization activity
K0000786cellular_componentnucleosome
K0003677molecular_functionDNA binding
K0005515molecular_functionprotein binding
K0005634cellular_componentnucleus
K0005654cellular_componentnucleoplasm
K0005694cellular_componentchromosome
K0030527molecular_functionstructural constituent of chromatin
K0046982molecular_functionprotein heterodimerization activity
L0000786cellular_componentnucleosome
L0003677molecular_functionDNA binding
L0005515molecular_functionprotein binding
L0005634cellular_componentnucleus
L0005694cellular_componentchromosome
L0006334biological_processnucleosome assembly
L0030527molecular_functionstructural constituent of chromatin
L0046982molecular_functionprotein heterodimerization activity
M0000786cellular_componentnucleosome
M0003677molecular_functionDNA binding
M0005634cellular_componentnucleus
M0005694cellular_componentchromosome
M0030527molecular_functionstructural constituent of chromatin
M0046982molecular_functionprotein heterodimerization activity
N0000786cellular_componentnucleosome
N0003677molecular_functionDNA binding
N0005515molecular_functionprotein binding
N0005634cellular_componentnucleus
N0005694cellular_componentchromosome
N0030527molecular_functionstructural constituent of chromatin
N0046982molecular_functionprotein heterodimerization activity
Z0000786cellular_componentnucleosome
Z0003677molecular_functionDNA binding
Z0003690molecular_functiondouble-stranded DNA binding
Z0005634cellular_componentnucleus
Z0005694cellular_componentchromosome
Z0006334biological_processnucleosome assembly
Z0030261biological_processchromosome condensation
Z0030527molecular_functionstructural constituent of chromatin
Z0031492molecular_functionnucleosomal DNA binding
Z0045910biological_processnegative regulation of DNA recombination
Functional Information from PROSITE/UniProt
site_idPS00046
Number of Residues7
DetailsHISTONE_H2A Histone H2A signature. AGLqFPV
ChainResidueDetails
CALA21-VAL27

site_idPS00047
Number of Residues5
DetailsHISTONE_H4 Histone H4 signature. GAKRH
ChainResidueDetails
BGLY14-HIS18

site_idPS00322
Number of Residues7
DetailsHISTONE_H3_1 Histone H3 signature 1. KAPRKQL
ChainResidueDetails
ALYS14-LEU20

site_idPS00959
Number of Residues9
DetailsHISTONE_H3_2 Histone H3 signature 2. PFqRLVREI
ChainResidueDetails
APRO66-ILE74

site_idPS00357
Number of Residues23
DetailsHISTONE_H2B Histone H2B signature. REIQTavRlLLpGELaKHAVSEG
ChainResidueDetails
DARG89-GLY111

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues12
DetailsMOD_RES: N6-acetyllysine => ECO:0000250|UniProtKB:P0C1H4
ChainResidueDetails
DLYS2
NLYS9
NLYS12
NLYS17
DLYS9
DLYS12
DLYS17
HLYS2
HLYS9
HLYS12
HLYS17
NLYS2

site_idSWS_FT_FI2
Number of Residues3
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:12757711
ChainResidueDetails
DSER11
HSER11
NSER11

site_idSWS_FT_FI3
Number of Residues3
DetailsCARBOHYD: O-linked (GlcNAc) serine => ECO:0000250|UniProtKB:P62807
ChainResidueDetails
DSER109
HSER109
NSER109
GLYS95
MLYS9
MLYS95

site_idSWS_FT_FI4
Number of Residues6
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000250|UniProtKB:P0C1H4
ChainResidueDetails
DLYS117
GLYS36
HLYS117
NLYS117

site_idSWS_FT_FI5
Number of Residues6
DetailsMOD_RES: N6-(2-hydroxyisobutyryl)lysine => ECO:0000250|UniProtKB:P0C0S8
ChainResidueDetails
CLYS74
LLYS16
LLYS44
LLYS79
CLYS75
GLYS74
GLYS75
MLYS74
MLYS75
FLYS44
FLYS79
LLYS8

site_idSWS_FT_FI6
Number of Residues3
DetailsMOD_RES: N5-methylglutamine => ECO:0000250
ChainResidueDetails
CGLN104
GGLN104
MGLN104
FLYS20
LLYS12
LLYS20

site_idSWS_FT_FI7
Number of Residues3
DetailsMOD_RES: N6-glutaryllysine; alternate => ECO:0000250|UniProtKB:P0C0S8
ChainResidueDetails
CLYS118
GLYS118
MLYS118
FLYS91
LLYS31
LLYS91

site_idSWS_FT_FI8
Number of Residues12
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000250
ChainResidueDetails
CLYS13
MLYS15
MLYS119
FSER47
CLYS15
CLYS119
GLYS13
GLYS15
GLYS119
MLYS13

site_idSWS_FT_FI9
Number of Residues6
DetailsMOD_RES: Phosphotyrosine => ECO:0000250|UniProtKB:P62805
ChainResidueDetails
BTYR51
BTYR88
FTYR51
FTYR88
LTYR51
LTYR88

site_idSWS_FT_FI10
Number of Residues3
DetailsMOD_RES: N6-glutaryllysine; alternate => ECO:0000250|UniProtKB:P62805
ChainResidueDetails
BLYS59
ELYS64
KLYS18
KLYS23
KLYS27
KLYS36
KLYS64
FLYS59
LLYS59
ALYS36
ALYS64
ELYS18
ELYS23
ELYS27
ELYS36

site_idSWS_FT_FI11
Number of Residues3
DetailsMOD_RES: N6-succinyllysine => ECO:0000250|UniProtKB:P62805
ChainResidueDetails
BLYS77
FLYS77
LLYS77

site_idSWS_FT_FI12
Number of Residues3
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in UFM1); alternate => ECO:0000250|UniProtKB:P62805
ChainResidueDetails
BLYS31
FLYS31
LLYS31

site_idSWS_FT_FI13
Number of Residues6
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000250|UniProtKB:P62805
ChainResidueDetails
ALYS37
BLYS91
KLYS37
FLYS91
LLYS91

site_idSWS_FT_FI14
Number of Residues3
DetailsMOD_RES: Phosphotyrosine => ECO:0000250|UniProtKB:Q71DI3
ChainResidueDetails
ATYR41
ETYR41
KTYR41

site_idSWS_FT_FI15
Number of Residues6
DetailsMOD_RES: N6-succinyllysine; alternate => ECO:0000250|UniProtKB:P84228
ChainResidueDetails
ALYS56
ALYS79
ELYS56
ELYS79
KLYS56
KLYS79

site_idSWS_FT_FI16
Number of Residues3
DetailsMOD_RES: Phosphoserine => ECO:0000250|UniProtKB:Q71DI3
ChainResidueDetails
ASER57
ESER57
KSER57

site_idSWS_FT_FI17
Number of Residues6
DetailsMOD_RES: Phosphothreonine => ECO:0000250|UniProtKB:Q71DI3
ChainResidueDetails
ATHR80
ATHR107
ETHR80
ETHR107
KTHR80
KTHR107

site_idSWS_FT_FI18
Number of Residues3
DetailsMOD_RES: Phosphoserine => ECO:0000250|UniProtKB:P84243
ChainResidueDetails
ASER86
ESER86
KSER86

site_idSWS_FT_FI19
Number of Residues3
DetailsMOD_RES: N6-glutaryllysine; alternate => ECO:0000250|UniProtKB:Q71DI3
ChainResidueDetails
ALYS115
ELYS115
KLYS115

site_idSWS_FT_FI20
Number of Residues3
DetailsMOD_RES: N6-succinyllysine; alternate => ECO:0000250|UniProtKB:Q71DI3
ChainResidueDetails
ALYS122
ELYS122
KLYS122

site_idSWS_FT_FI21
Number of Residues3
DetailsLIPID: S-palmitoyl cysteine => ECO:0000250|UniProtKB:Q71DI3
ChainResidueDetails
ACYS110
ECYS110
KCYS110

217705

PDB entries from 2024-03-27

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