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BMRB: 18190

2LO1

NMR structure of the protein BC008182, a DNAJ-like domain from Homo sapiens

Authors

Serrano, P., Dutta, S.K., Geralt, M., Wuthrich, K., JCSG, J.

Assembly

BC008182

Entity

1. BC008182 (polymer, Thiol state: not present), 71 monomers, 8209.167 Da Detail

GMVKETTYYD VLGVKPNATQ EELKKAYRKL ALKYHPDKNP NEGEKFKQIS QAYEVLSDAK KRELYDKGGE Q

Formula weight

8209.167 Da

Source organism

Exptl. method

Refine. method

molecular dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 98.6 %, Completeness: 88.4 %, Completeness (bb): 85.2 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	88.4 % (767 of 868)	93.1 % (430 of 462)	79.5 % (263 of 331)	98.7 % (74 of 75)
Backbone	85.2 % (358 of 420)	96.5 % (139 of 144)	73.1 % (152 of 208)	98.5 % (67 of 68)
Sidechain	92.4 % (475 of 514)	91.5 % (291 of 318)	93.7 % (177 of 189)	100.0 % (7 of 7)
Aromatic	96.8 % (60 of 62)	100.0 % (31 of 31)	93.5 % (29 of 31)
Methyl	96.7 % (58 of 60)	96.7 % (29 of 30)	96.7 % (29 of 30)

1. entity

GMVKETTYYD VLGVKPNATQ EELKKAYRKL ALKYHPDKNP NEGEKFKQIS QAYEVLSDAK KRELYDKGGE Q

Show sample condition

Sample

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 6.0

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-98% 13C; U-98% 15N]		1.2 mM
2	sodium phosphate	natural abundance		20 mM
3	sodium azide	natural abundance		5 mM
4	sodium chloride	natural abundance		50 mM
5	H2O	natural abundance		95 %
6	D2O	natural abundance		5 %

LACS Plot; CA

Referencing offset: 2.26 ppm, Outliers: 2 Detail

LACS Plot; CB

Referencing offset: 2.26 ppm, Outliers: 2 Detail

LACS Plot; HA

Referencing offset: 0.16 ppm, Outliers: 1 Detail

Protein Blocks Logo

Calculated from 20 models in PDB: 2LO1, Strand ID: A Detail

Release date

2012-02-12

Citation

NMR structure of the protein BC008182, DNAJ homolog from Homo sapiens
Dutta, S.K., Serrano, P., Geralt, M., Wuthrich, K., JCSG, J.
Not known

Related entities 1. BC008182, : 1 : 7 : 276 entities Detail

Interaction partners 1. BC008182, : 125 interactors Detail

More details for 125 interactors identified by 42 citations

Experiments performed 7 experiments Detail

1 2D 1H-15N HSQC

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 6.0

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-98% 13C; U-98% 15N]		1.2 mM
2	sodium phosphate	natural abundance		20 mM
3	sodium azide	natural abundance		5 mM
4	sodium chloride	natural abundance		50 mM
5	H2O	natural abundance		95 %
6	D2O	natural abundance		5 %

2 4D HACANH APSY

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 6.0

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-98% 13C; U-98% 15N]		1.2 mM
2	sodium phosphate	natural abundance		20 mM
3	sodium azide	natural abundance		5 mM
4	sodium chloride	natural abundance		50 mM
5	H2O	natural abundance		95 %
6	D2O	natural abundance		5 %

3 5D HACACONH APSY

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 6.0

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-98% 13C; U-98% 15N]		1.2 mM
2	sodium phosphate	natural abundance		20 mM
3	sodium azide	natural abundance		5 mM
4	sodium chloride	natural abundance		50 mM
5	H2O	natural abundance		95 %
6	D2O	natural abundance		5 %

4 5D CBCACONH APSY

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 6.0

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-98% 13C; U-98% 15N]		1.2 mM
2	sodium phosphate	natural abundance		20 mM
3	sodium azide	natural abundance		5 mM
4	sodium chloride	natural abundance		50 mM
5	H2O	natural abundance		95 %
6	D2O	natural abundance		5 %

5 3D 1H-15N NOESY

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 6.0

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-98% 13C; U-98% 15N]		1.2 mM
2	sodium phosphate	natural abundance		20 mM
3	sodium azide	natural abundance		5 mM
4	sodium chloride	natural abundance		50 mM
5	H2O	natural abundance		95 %
6	D2O	natural abundance		5 %

6 3D 1H-13C NOESY aliphatic

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 6.0

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-98% 13C; U-98% 15N]		1.2 mM
2	sodium phosphate	natural abundance		20 mM
3	sodium azide	natural abundance		5 mM
4	sodium chloride	natural abundance		50 mM
5	H2O	natural abundance		95 %
6	D2O	natural abundance		5 %

7 3D 1H-13C NOESY aromatic

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 6.0

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-98% 13C; U-98% 15N]		1.2 mM
2	sodium phosphate	natural abundance		20 mM
3	sodium azide	natural abundance		5 mM
4	sodium chloride	natural abundance		50 mM
5	H2O	natural abundance		95 %
6	D2O	natural abundance		5 %

NMR combined restraints 3 contents Detail

Properties

Input source #1: NMR data (NEF) - Assigned chemical shifts, Distance restraints	combined_18190_2lo1.nef
Input source #2: Coordindates	2lo1.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	None
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)

None

Non-standard residues

None

Sequence alignments

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

--------10--------20--------30--------40--------50--------60--------70-
GMVKETTYYDVLGVKPNATQEELKKAYRKLALKYHPDKNPNEGEKFKQISQAYEVLSDAKKRELYDKGGEQ
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
GMVKETTYYDVLGVKPNATQEELKKAYRKLALKYHPDKNPNEGEKFKQISQAYEVLSDAKKRELYDKGGEQ

Chain assignments

Entity_assembly_ID (NMR)	Auth_asym_ID (model)	Length	Unmapped	Conflict	Sequence coverage (%)
A	A	71	0	0	100.0

Content subtype: combined_18190_2lo1.nef

#	Content subtype	Saveframe	Status	# of rows (sets)	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chem_shift_list_1	Warning	750		98.6 (chain: A, length: 71)
1	Distance restraints	DYANA/DIANA_distance_constraints_2	Warning	2951 (1)	noe	98.6 (chain: A, length: 71)

Assigned chemical shifts

Saveframe: assigned_chem_shift_list_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 71, Sequence coverage: 98.6%
- Total number of assignments
  - ¹H chemical shifts: 431
  - ¹³C chemical shifts: 244
  - ¹⁵N chemical shifts: 75
- Completeness of assignments
  - Entity_assemble_ID: A
- Peptide bond of PRO
- Tautomeric state of HIS
- 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

Distance restraints

Saveframe: DYANA/DIANA_distance_constraints_2
- Status: Warning
- Experiment type: noe
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 71, Sequence coverage: 98.6%
- Total number of restraints: 2951
- Weight of restraints: 1.0 (2951)
- Potential type of restraints: upper-bound-parabolic (2951)
- Range of distance target values: 2.4, 5.5 (Å)
- Histogram of distance target values
- Histogram of discrepancy in distance target values
- Distance restraints per residue
  - Chain_ID: A
- Distance restraints on contact map

Keywords Human DNAJ homolog