General information
PDB ID 6PWV
Title CRYO-EM STRUCTURE OF MLL1 CORE COMPLEX BOUND TO THE NUCLEOSOME
PDB header HISTONE BINDING/DNA BINDING/DNA
Date 2019-07-23
Experimental method ELECTRON MICROSCOPY
Resolution (A) 6.2
Kind dna
Organism HOMO SAPIENS, XENOPUS LAEVIS, SYNTHETIC CONSTRUCT
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PDB PDBe MMDB Jena OCA
CATH PDBsum HSSP PDBePISA UniProt
ProteopediA BIPA
Composition of PDB entry and biounits
File: Protein chains: DNA chains: RNA chains: No. of models: Action:
PDB entry:
pdb6pwv.pdb ABCGHIJKLMNEFD OP 0
Biounits:
6pwv.pdb1.pdb ABCGHIJKLMNEFD OP 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Histone Domain P84233_37-132 3.8e-46 1 CL0012 G 37 131 OP  H-Bb H-Mj S-Bb L-Bb L-Mn 
CENP-T_C Domain P62799_18-99 4.7e-08 1 CL0012 H 25 98 OP  H-Bb S-Bb L-Bb 
Histone Domain P06897_13-91 5.9e-16 1 CL0012 I 12 90 OP  H-Bb S-Bb L-Bb 
Histone Domain P02281_33-102 1.1e-21 1 CL0012 J 29 98 OP  H-Bb S-Bb L-Bb 
Histone Domain P84233_37-132 3.8e-46 1 CL0012 K 37 131 OP  H-Bb H-Mj S-Bb L-Bb L-Mn 
CENP-T_C Domain P62799_18-99 4.7e-08 1 CL0012 L 25 98 OP  H-Bb S-Bb L-Bb 
Histone Domain P06897_13-91 5.9e-16 1 CL0012 M 12 90 OP  H-Bb S-Bb L-Bb 
Histone Domain P02281_33-102 1.1e-21 1 CL0012 N 29 98 OP  H-Bb S-Bb L-Bb 
SET Family Q03164_3840-3945 3.8e-23 1 No_clan C 3840 3945   
SPRY Family Q9UBL3_420-494 2.1e-06 1 CL0004 D 326 404   
SPRY Family Q9UBL3_360-405 0.0002 0 CL0004 D 441 486   
Histone_H2A_C Family P06897_92-120 3.1e-17 1 No_clan I 91 118   
Histone_H2A_C Family P06897_92-120 3.1e-17 1 No_clan M 91 118   
Dpy-30 Motif Q9C005_52-93 2.1e-22 1 CL0068 E 52 93   
Dpy-30 Motif Q9C005_52-93 2.7e-22 1 CL0068 F 52 93   
WD40 Repeat Q15291_58-94 0.00021 1 CL0186 A 58 94   
WD40 Repeat P61964_77-115 4.6e-10 1 CL0186 B 119 157   
WD40 Repeat P61964_77-115 4.3e-09 1 CL0186 B 161 199   
WD40 Repeat P61964_35-72 6.6e-09 1 CL0186 B 35 72   
WD40 Repeat P61964_77-115 7.4e-09 1 CL0186 B 77 115   
WD40 Repeat P61964_203-242 2e-05 1 CL0186 B 203 242   
WD40 Repeat P61964_246-287 2e-05 1 CL0186 B 246 287   
SCOP domains
No SCOP domains
GO terms
Protein chains: GO type: GO description:
A=2-538 C histone methyltransferase complex
A=2-538 C MLL1 complex
A=2-538 C MLL3/4 complex
A=2-538 C nucleolus
A=2-538 C nucleoplasm
A=2-538 C nucleus
A=2-538 C Set1C/COMPASS complex
A=2-538 F methylated histone binding
A=2-538 F transcription regulatory region sequence-specific DNA binding
A=2-538 P beta-catenin-TCF complex assembly
A=2-538 P cellular response to DNA damage stimulus
A=2-538 P histone H3-K4 methylation
A=2-538 P post-translational protein modification
A=2-538 P regulation of megakaryocyte differentiation
A=2-538 P response to estrogen
B=22-334 C Ada2/Gcn5/Ada3 transcription activator complex
B=22-334 C histone acetyltransferase complex
B=22-334 C histone methyltransferase complex
B=22-334 C MLL1 complex
B=22-334 C MLL3/4 complex
B=22-334 C nucleoplasm
B=22-334 C nucleus
B=22-334 C Set1C/COMPASS complex
B=22-334 F histone binding
B=22-334 F methylated histone binding
B=22-334 P histone H3 acetylation
B=22-334 P histone H3-K4 methylation
B=22-334 P histone H4-K16 acetylation
B=22-334 P histone H4-K5 acetylation
B=22-334 P histone H4-K8 acetylation
B=22-334 P negative regulation of histone H3-K4 methylation
B=22-334 P neuron projection development
B=22-334 P positive regulation of gluconeogenesis
B=22-334 P positive regulation of histone H3-K4 methylation
B=22-334 P post-translational protein modification
B=22-334 P regulation of megakaryocyte differentiation
B=22-334 P skeletal system development
C=3762-3969 C cytosol
C=3762-3969 C histone methyltransferase complex
C=3762-3969 C MLL1 complex
C=3762-3969 C nucleoplasm
C=3762-3969 C nucleus
C=3762-3969 F AT DNA binding
C=3762-3969 F DNA-binding transcription factor activity, RNA polymerase II-specific
C=3762-3969 F histone methyltransferase activity (H3-K4 specific)
C=3762-3969 F identical protein binding
C=3762-3969 F lysine-acetylated histone binding
C=3762-3969 F protein homodimerization activity
C=3762-3969 F transcription regulatory region sequence-specific DNA binding
C=3762-3969 F unmethylated CpG binding
C=3762-3969 F zinc ion binding
C=3762-3969 P apoptotic process
C=3762-3969 P circadian regulation of gene expression
C=3762-3969 P embryonic hemopoiesis
C=3762-3969 P histone H3-K4 dimethylation
C=3762-3969 P histone H3-K4 methylation
C=3762-3969 P histone H3-K4 monomethylation
C=3762-3969 P histone H3-K4 trimethylation
C=3762-3969 P histone H4-K16 acetylation
C=3762-3969 P negative regulation of DNA methylation
C=3762-3969 P positive regulation of cellular response to drug
C=3762-3969 P positive regulation of histone H3-K4 methylation
C=3762-3969 P positive regulation of transcription by RNA polymerase II
C=3762-3969 P positive regulation of transcription, DNA-templated
C=3762-3969 P positive regulation of transporter activity
C=3762-3969 P protein-containing complex assembly
C=3762-3969 P regulation of hematopoietic stem cell differentiation
C=3762-3969 P regulation of histone H3-K14 acetylation
C=3762-3969 P regulation of histone H3-K9 acetylation
C=3762-3969 P regulation of megakaryocyte differentiation
D=96-628 C histone methyltransferase complex
D=96-628 C MLL1 complex
D=96-628 C MLL3/4 complex
D=96-628 C nuclear euchromatin
D=96-628 C nucleoplasm
D=96-628 C nucleus
D=96-628 C Set1C/COMPASS complex
D=96-628 F beta-catenin binding
D=96-628 F euchromatin binding
D=96-628 F metal ion binding
D=96-628 F transcription regulatory region sequence-specific DNA binding
D=96-628 P beta-catenin-TCF complex assembly
D=96-628 P cellular response to DNA damage stimulus
D=96-628 P hemopoiesis
D=96-628 P histone H3-K4 methylation
D=96-628 P positive regulation of cell population proliferation
D=96-628 P positive regulation of transcription by RNA polymerase II
D=96-628 P regulation of megakaryocyte differentiation
D=96-628 P response to estrogen
E/F=1-99 C chromosome, telomeric region
E/F=1-99 C Golgi apparatus
E/F=1-99 C histone methyltransferase complex
E/F=1-99 C MLL3/4 complex
E/F=1-99 C nucleoplasm
E/F=1-99 C nucleus
E/F=1-99 C Set1C/COMPASS complex
E/F=1-99 C trans-Golgi network
E/F=1-99 F identical protein binding
E/F=1-99 F protein homodimerization activity
E/F=1-99 P chromatin silencing at telomere
E/F=1-99 P endosomal transport
E/F=1-99 P histone H3-K4 methylation
E/F=1-99 P regulation of megakaryocyte differentiation
G/K=1-136 C nucleoplasm
G/K=1-136 C nucleosome
G/K=1-136 F DNA binding
G/K=1-136 F protein heterodimerization activity
H/L=1-103 C host cell nucleus
H/L=1-103 C nucleosome
H/L=1-103 C nucleus
H/L=1-103 F DNA binding
H/L=1-103 F protein heterodimerization activity
H/L=1-103 P DNA-templated transcription, initiation
I/M=2-130 C nucleosome
I/M=2-130 C nucleus
I/M=2-130 F DNA binding
I/M=2-130 F protein heterodimerization activity
J/N=5-126 C nucleosome
J/N=5-126 C nucleus
J/N=5-126 F DNA binding
J/N=5-126 F protein heterodimerization activity
Sequences
Download file with secondary structure created by Stride  
6pwv.pdb1.pdb:   [ download sequences in FASTA format ]
O (dna): 
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P (dna): 
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A (protein): 
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B (protein): 
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C (protein): 
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D (protein): 
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E (protein): 
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F (protein): 
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G (protein): 
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H (protein): 
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I (protein): 
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J (protein): 
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K (protein): 
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L (protein): 
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M (protein): 
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N (protein): 
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