BMRBj - BMREntryMaster

Found 1 Document (1.156 seconds)

BMRB: 18142

2LN0

MOZ

Authors

Qiu, Y.

Assembly

PHD zinc finger

Entity

1. PHD zinc finger, entity 1 (polymer, Thiol state: free and other bound), 110 monomers, 12492.48 Da Detail

EPIPICSFCL GTKEQNREKK PEELISCADC GNSGHPSCLK FSPELTVRVK ALRWQCIECK TCSSCRDQGK NADNMLFCDS CDRGFHMECC DPPLTRMPKG MWICQICRPR

2. ZN (non-polymer), 65.409 × 4 Da

Total weight

12754.116 Da

Max. entity weight

12492.48 Da

Entity Connection

na 14 Detail

ID	Type	Value order	Atom ID 1	Atom ID 2
1	na	sing	1:CYS6:SG	2:ZN1:ZN
2	na	sing	1:CYS9:SG	2:ZN1:ZN
3	na	sing	1:CYS38:SG	2:ZN1:ZN
4	na	sing	1:CYS27:SG	2:ZN1:ZN
5	na	sing	1:CYS30:SG	2:ZN1:ZN
6	na	sing	1:CYS56:SG	2:ZN1:ZN
7	na	sing	1:CYS59:SG	2:ZN1:ZN
8	na	sing	1:CYS78:SG	2:ZN1:ZN
9	na	sing	1:CYS81:SG	2:ZN1:ZN
10	na	sing	1:CYS104:SG	2:ZN1:ZN
11	na	sing	1:CYS107:SG	2:ZN1:ZN
12	na	sing	1:CYS62:SG	2:ZN1:ZN
13	na	sing	1:CYS65:SG	2:ZN1:ZN
14	na	sing	1:CYS89:SG	2:ZN1:ZN

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

simulated annealing

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 98.2 %, Completeness: 87.7 %, Completeness (bb): 95.0 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	87.7 % (1113 of 1269)	90.4 % (610 of 675)	82.0 % (396 of 483)	96.4 % (107 of 111)
Backbone	95.0 % (610 of 642)	94.9 % (206 of 217)	94.8 % (307 of 324)	96.0 % (97 of 101)
Sidechain	82.5 % (603 of 731)	88.2 % (404 of 458)	71.9 % (189 of 263)	100.0 % (10 of 10)
Aromatic	41.7 % (30 of 72)	77.8 % (28 of 36)	0.0 % (0 of 34)	100.0 % (2 of 2)
Methyl	86.5 % (64 of 74)	83.8 % (31 of 37)	89.2 % (33 of 37)

1. entity 1

EPIPICSFCL GTKEQNREKK PEELISCADC GNSGHPSCLK FSPELTVRVK ALRWQCIECK TCSSCRDQGK NADNMLFCDS CDRGFHMECC DPPLTRMPKG MWICQICRPR

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 8.0

#	Name	Isotope labeling	Concentration
1	HEPES	natural abundance	50 mM
2	sodium chloride	natural abundance	100 mM
3	entity_1	[U-100% 13C; U-100% 15N]	1 mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

Sample #2

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 8.0

#	Name	Isotope labeling	Concentration
6	HEPES	natural abundance	50 mM
7	sodium chloride	natural abundance	100 mM
8	entity_1	[U-100% 13C; U-100% 15N]	1 mM
9	D2O	natural abundance	100 %

LACS Plot; CA

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹H	water	protons	4.74 ppm	internal	direct	1.0

Referencing offset: -0.02 ppm, Outliers: 6 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹H	water	protons	4.74 ppm	internal	direct	1.0

Referencing offset: -0.02 ppm, Outliers: 6 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹H	water	protons	4.74 ppm	internal	direct	1.0

Referencing offset: 0.04 ppm, Outliers: 1 Detail

LACS Plot; CO

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹H	water	protons	4.74 ppm	internal	direct	1.0

Referencing offset: -1.64 ppm, Outliers: 1 Detail

Protein Blocks Logo

Calculated from 20 models in PDB: 2LN0, Strand ID: A Detail

Release date

2012-06-25

Citation

Combinatorial readout of unmodified H3R2 and acetylated H3K14 by the tandem PHD finger of MOZ reveals a regulatory mechanism for HOXA9 transcription
Qiu, Y., Liu, L., Zhao, C., Han, C., Li, F., Zhang, J., Wu, M., Wu, J., Shi, Y.
Genes. Dev. (2012), 26, 1376-1391, PubMed 22713874 , DOI 10.1101/gad.188359.112 , Abstract

Related entities 1. PHD zinc finger, entity 1, : 1 : 11 : 4 : 1 : 70 entities Detail

Interaction partners 1. PHD zinc finger, entity 1, : 17 interactors Detail

More details for 17 interactors identified by 4 citations

Experiments performed 11 experiments Detail

1 2D 1H-15N HSQC

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 8.0

#	Name	Isotope labeling	Concentration
1	HEPES	natural abundance	50 mM
2	sodium chloride	natural abundance	100 mM
3	entity_1	[U-100% 13C; U-100% 15N]	1 mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

2 2D 1H-13C HSQC aromatic

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 8.0

#	Name	Isotope labeling	Concentration
6	HEPES	natural abundance	50 mM
7	sodium chloride	natural abundance	100 mM
8	entity_1	[U-100% 13C; U-100% 15N]	1 mM
9	D2O	natural abundance	100 %

3 3D CBCA(CO)NH

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 8.0

#	Name	Isotope labeling	Concentration
1	HEPES	natural abundance	50 mM
2	sodium chloride	natural abundance	100 mM
3	entity_1	[U-100% 13C; U-100% 15N]	1 mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

4 3D C(CO)NH

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 8.0

#	Name	Isotope labeling	Concentration
1	HEPES	natural abundance	50 mM
2	sodium chloride	natural abundance	100 mM
3	entity_1	[U-100% 13C; U-100% 15N]	1 mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

5 3D HNCO

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 8.0

#	Name	Isotope labeling	Concentration
1	HEPES	natural abundance	50 mM
2	sodium chloride	natural abundance	100 mM
3	entity_1	[U-100% 13C; U-100% 15N]	1 mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

6 3D HNCA

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 8.0

#	Name	Isotope labeling	Concentration
1	HEPES	natural abundance	50 mM
2	sodium chloride	natural abundance	100 mM
3	entity_1	[U-100% 13C; U-100% 15N]	1 mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

7 3D HBHA(CO)NH

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 8.0

#	Name	Isotope labeling	Concentration
1	HEPES	natural abundance	50 mM
2	sodium chloride	natural abundance	100 mM
3	entity_1	[U-100% 13C; U-100% 15N]	1 mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

8 3D HCCH-TOCSY

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 8.0

#	Name	Isotope labeling	Concentration
6	HEPES	natural abundance	50 mM
7	sodium chloride	natural abundance	100 mM
8	entity_1	[U-100% 13C; U-100% 15N]	1 mM
9	D2O	natural abundance	100 %

9 3D 1H-15N NOESY

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 8.0

#	Name	Isotope labeling	Concentration
1	HEPES	natural abundance	50 mM
2	sodium chloride	natural abundance	100 mM
3	entity_1	[U-100% 13C; U-100% 15N]	1 mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

10 3D 1H-13C NOESY

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 8.0

#	Name	Isotope labeling	Concentration
6	HEPES	natural abundance	50 mM
7	sodium chloride	natural abundance	100 mM
8	entity_1	[U-100% 13C; U-100% 15N]	1 mM
9	D2O	natural abundance	100 %

11 3D HCCH-COSY

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 8.0

#	Name	Isotope labeling	Concentration
6	HEPES	natural abundance	50 mM
7	sodium chloride	natural abundance	100 mM
8	entity_1	[U-100% 13C; U-100% 15N]	1 mM
9	D2O	natural abundance	100 %

NMR combined restraints 4 contents Detail

Properties

Input source #1: NMR data (NEF) - Assigned chemical shifts, Distance restraints, Dihedral angle restraints	combined_18142_2ln0.nef
Input source #2: Coordindates	2ln0.cif
Diamagnetism of the molecular assembly	True (excluding Oxygen atoms)
Whether the assembly has a disulfide bond	None
Whether the assembly has a other bond	True (see coodinates for details)
Whether the assembly contains a cyclic polymer	None
Overall data processing status	Warning

Disulfide bonds

None

Other bonds (neither disulfide, covalent nor hydrogen bonds, e.g. Zinc–sulphur bond)

Ptnr_site_1	Ptnr_site_2	Redox_state_prediction_1	Redox_state_prediction_2	Distance (Å)
1:88:HIS:ND1	2:4:ZN:ZN	unknown	unknown	n/a
1:37:HIS:ND1	2:1:ZN:ZN	unknown	unknown	n/a
1:61:CYS:SG	2:2:ZN:ZN	unknown	unknown	n/a
1:64:CYS:SG	2:4:ZN:ZN	unknown	unknown	n/a
1:8:CYS:SG	2:1:ZN:ZN	unknown	unknown	n/a
1:80:CYS:SG	2:3:ZN:ZN	unknown	unknown	n/a
1:67:CYS:SG	2:4:ZN:ZN	unknown	unknown	n/a
1:83:CYS:SG	2:3:ZN:ZN	unknown	unknown	n/a
1:91:CYS:SG	2:4:ZN:ZN	unknown	unknown	n/a
1:109:CYS:SG	2:3:ZN:ZN	unknown	unknown	n/a
1:32:CYS:SG	2:2:ZN:ZN	unknown	unknown	n/a
1:11:CYS:SG	2:1:ZN:ZN	unknown	unknown	n/a
1:106:CYS:SG	2:3:ZN:ZN	unknown	unknown	n/a
1:40:CYS:SG	2:1:ZN:ZN	unknown	unknown	n/a
1:58:CYS:SG	2:2:ZN:ZN	unknown	unknown	n/a
1:29:CYS:SG	2:2:ZN:ZN	unknown	unknown	n/a

Non-standard residues

Chain_ID	Seq_ID	Comp_ID	Chem_comp_name	Experimental evidences
B	1	ZN	ZINC ION	None
B	2	ZN	ZINC ION	None
B	3	ZN	ZINC ION	None
B	4	ZN	ZINC ION	None

Sequence alignments

Entity_assembly_ID (NMR): A vs Auth_asym_ID (model): A

------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-
HMEPIPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIECKTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMP
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
HMEPIPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIECKTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMP
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100

------310---
KGMWICQICRPR
||||||||||||
KGMWICQICRPR
-------110--

Chain assignments

Entity_assembly_ID (NMR)	Auth_asym_ID (model)	Length	Unmapped	Conflict	Sequence coverage (%)
A	A	112	0	0	100.0

Content subtype: combined_18142_2ln0.nef

#	Content subtype	Saveframe	Status	# of rows (sets)	Experiment type	Sequence coverage (%)
1	Covalent bonds	assembly	OK	16		No information
1	Assigned chemical shifts	assigned_chem_shift_list_1	Warning	1106		95.5 (chain: A, length: 112)
1	Distance restraints	CNS/XPLOR_distance_constraints_2	Warning	3397 (1)	noe	97.3 (chain: A, length: 112)
1	Dihedral angle restraints	CNS/XPLOR_dihedral_3	OK	111 (111)	.	82.1 (chain: A, length: 112)

Assigned chemical shifts

Saveframe: assigned_chem_shift_list_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 112, Sequence coverage: 95.5%
- Total number of assignments
  - ¹H chemical shifts: 609
  - ¹³C chemical shifts: 392
  - ¹⁵N chemical shifts: 105
- Completeness of assignments
  - Entity_assemble_ID: A
- Redox state of CYS
- Peptide bond of PRO
- Rotameric state of ILE , LEU, and VAL
- Histogram of normalized assigned chemical shifts
- Random coil index and derived parameters (S² and NMR RMSD)
  - Chain_ID: A

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	688	609	88.5
¹³C chemical shifts	493	392	79.5
¹⁵N chemical shifts	121	105	86.8

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	221	209	94.6
¹³C chemical shifts	224	207	92.4
¹⁵N chemical shifts	103	96	93.2

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	467	400	85.7
¹³C chemical shifts	269	185	68.8
¹⁵N chemical shifts	18	9	50.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	42	34	81.0
¹³C chemical shifts	42	33	78.6

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	38	28	73.7
¹³C chemical shifts	36	0	0.0
¹⁵N chemical shifts	2	2	100.0

Covalent bonds

Saveframe: assembly
- Status: OK

Distance restraints

Saveframe: CNS/XPLOR_distance_constraints_2
- Status: Warning
- Experiment type: noe
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 112, Sequence coverage: 97.3%
- Total number of restraints: 3397
- Weight of restraints: 1.0 (3397)
- Potential type of restraints: square-well-parabolic (3397)
- Range of distance target values: 2.05, 4.65 (Å)
- Histogram of distance target values
- Histogram of discrepancy in distance target values
- Distance restraints per residue
  - Chain_ID: A
  - Chain_ID: B
    None
- Distance restraints on contact map

Dihedral angle restraints

Saveframe: CNS/XPLOR_dihedral_3
- Status: OK
- Experiment type: .
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 112, Sequence coverage: 82.1%
- Total number of restraints: 111
- Total number of restraints per polymer type: 111
- Weight of restraints: 1.0 (111)
- Potential type of restraints: square-well-parabolic (111)
- Plot of Phi-Psi angle restraints
- Dihedral angle restraints per residue
  - Chain_ID: A

Keywords PHD zinc finger

Search

Query history

Resources

Search for primary databases

Search for subsidiary databases

Display

Hits per page

Statistics

Query Changes will take effect after "OK" button is selected.

Maximum hits

Default conjunction operator

Omni-box

Search filter

Sequence search (BLAST)

E-value

Query sequence coverage

Miscellaneous

The number of previewed publications

Completeness of assigned chemical shift

Sequence chart about top aligned regions

Sequence chart about interacting regions

Hit context with highlight

Link destinations for BMRB, PDB and EMDB

Found 1 Document (1.156 seconds)

BMRB: 18142

Sample #1

Sample #2

Chemical shift reference

Chemical shift reference

Chemical shift reference

Chemical shift reference

Related entities 1. PHD zinc finger, entity 1, : 1 : 11 : 4 : 1 : 70 entities Detail

Interaction partners 1. PHD zinc finger, entity 1, : 17 interactors Detail

Experiments performed 11 experiments Detail

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

NMR combined restraints 4 contents Detail