BMRB Entry 19914

Name: NMR Structure of KDM5B PHD1 finger in complex with H3K4me0(1-10aa)
Published: 2014-08-04

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PDB ID: 2mnz
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, SPARTA
BMRB Entry DOI: doi:10.13018/BMR19914
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title: NMR Structure of KDM5B PHD1 finger in complex with H3K4me0(1-10aa) PubMed: 24952722

Deposition date: 2014-04-16 Original release date: 2014-08-04

Authors: Zhang, Yan; Yang, Huirong; Guo, Xue; Rong, Naiyan; Song, Yujiao; Xu, Youwei; Lan, Wenxian; Xu, Yanhui; Cao, Chunyang

Citation: Zhang, Yan; Yang, Huirong; Guo, Xue; Rong, Naiyan; Rong, Yujiao; Xu, Youwei; Lan, Wenxian; Xu, Yanhui; Cao, Chunyang. "The PHD1 finger of KDM5B recognizes unmodified H3K4 during the demethylation of histone H3K4me2/3 by KDM5B" Protein Cell ., .-. (2014).

Assembly members:
entity_1, polymer, 55 residues, 7360.083 Da.
ZINC ION, non-polymer, 65.409 Da.
entity_3, polymer, 10 residues, Formula weight is not available

Natural source: Common Name: Human Taxonomy ID: 9606 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Homo sapiens

Experimental source: Production method: recombinant technology Host organism: Escherichia coli

Entity Sequences (FASTA):
entity_1: AVDLYVCLLCGSGNDEDRLL LCDGCDDSYHTFCLIPPLHD VPKGDWRCPKCLAQE
entity_3: ARTKQTARKS

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	165
15N chemical shifts	51
1H chemical shifts	396

Additional metadata:

Assembly
Samples and Experiments
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Entity Assembly ID	Entity Name	Entity ID
1	entity_1	1
2	ZINC ION_1	2
3	ZINC ION_2	2
4	H3K4me0(1-10aa)	3

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC aliphatic	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC aromatic	sample_1	isotropic	sample_conditions_1
3D HNCO	sample_1	isotropic	sample_conditions_1
3D HNCA	sample_1	isotropic	sample_conditions_1
3D HNCACB	sample_1	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY aliphatic	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY aromatic	sample_1	isotropic	sample_conditions_1

BMRB	19913
PDB	2MNY 2MNZ
DBJ	BAC30898 BAD90482 BAE37363 BAE89761 BAG53706
EMBL	CAB43532 CAB61368 CAB63108 CAH65222
GB	AAD16061 AAH48180 AAH57318 AAI56050 AAI57032
REF	NP_001026200 NP_001100647 NP_001300971 NP_006609 NP_690855
SP	Q5F3R2 Q80Y84 Q9UGL1
TPG	DAA21261

Biological Magnetic Resonance Data Bank

BMRB Entry 19914

Title: NMR Structure of KDM5B PHD1 finger in complex with H3K4me0(1-10aa) PubMed: 24952722

Additional metadata:

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Entities:

Samples:

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