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Found 1 Document (0.641 seconds)

BMRB: 15573

2JXT

SOLUTION STRUCTURE OF 50S RIBOSOMAL PROTEIN LX FROM Methanobacterium thermoautotrophicum, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) TARGET TR80

Authors

LIU, G., WANG, D., NWOSU, C., OWENS, L., XIAO, R., LIU, J., BARAN, M.C., SWAPNA, G., ACTON, T.B., ROST, B., MONTELIONE, G.T.

Assembly

Protein LX

Entity

1. Protein LX (polymer, Thiol state: all free), 86 monomers, 10344.86 Da Detail

MKMKTKIFRV KGKFLMGDKL QPFTKELNAI REEEIYERLY SEFGSKHRVP RSKVKIEEIE EISPEEVQDP VVKALVQRLE HHHHHH

Formula weight

10344.86 Da

Source organism

Methanothermobacter thermautotrophicus

Exptl. method

solution NMR

Refine. method

molecular dynamics, simulated annealing, distance geometry, torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 94.2 %, Completeness: 83.2 %, Completeness (bb): 78.5 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	83.2 % (908 of 1091)	89.7 % (521 of 581)	72.4 % (307 of 424)	93.0 % (80 of 86)
Backbone	78.5 % (399 of 508)	91.2 % (156 of 171)	65.5 % (167 of 255)	92.7 % (76 of 82)
Sidechain	88.0 % (586 of 666)	89.3 % (366 of 410)	85.7 % (216 of 252)	100.0 % (4 of 4)
Aromatic	56.0 % (47 of 84)	66.7 % (28 of 42)	45.2 % (19 of 42)
Methyl	97.6 % (82 of 84)	95.2 % (40 of 42)	100.0 % (42 of 42)

1. Protein LX

MKMKTKIFRV KGKFLMGDKL QPFTKELNAI REEEIYERLY SEFGSKHRVP RSKVKIEEIE EISPEEVQDP VVKALVQRLE HHHHHH

Show sample condition

Sample #1

Pressure 1 atm, Temperature 298 K, pH 6.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-100% 13C; U-100% 15N]		1.07 mM

Sample #2

Pressure 1 atm, Temperature 298 K, pH 6.5

#	Name	Isotope labeling	Type	Concentration
2	entity	[U-10% 13C; U-100% 15N]		1.1 mM

LACS Plot; CA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	null	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	null	indirect	0.1013291

Referencing offset: 0.13 ppm, Outliers: 1 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	null	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	null	indirect	0.1013291

Referencing offset: 0.13 ppm, Outliers: 1 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	null	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	null	indirect	0.1013291

Referencing offset: -0.01 ppm, Outliers: 1 Detail

Protein Blocks Logo

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

Release date

2009-04-15

Citation

SOLUTION STRUCTURE OF 50S RIBOSOMAL PROTEIN LX FROM Methanobacterium thermoautotrophicum, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) TARGET TR80
Liu, G., Xiao, R., Montelione, G.T.

Related entities 1. Protein LX, : 1 : 3 : 48 entities Detail

Experiments performed 8 experiments Detail

NMR combined restraints 3 contents Detail

Properties

Input source #1: NMR data (NEF) - Assigned chemical shifts, Distance restraints	combined_15573_2jxt.nef
Input source #2: Coordindates	2jxt.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--------80------
MKMKTKIFRVKGKFLMGDKLQPFTKELNAIREEEIYERLYSEFGSKHRVPRSKVKIEEIEEISPEEVQDPVVKALVQRLEHHHHHH
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
MKMKTKIFRVKGKFLMGDKLQPFTKELNAIREEEIYERLYSEFGSKHRVPRSKVKIEEIEEISPEEVQDPVVKALVQRLEHHHHHH

Chain assignments

Entity_assembly_ID (NMR)	Auth_asym_ID (model)	Length	Unmapped	Conflict	Sequence coverage (%)
A	A	86	0	0	100.0

Content subtype: combined_15573_2jxt.nef

#	Content subtype	Saveframe	Status	# of rows (sets)	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chem_shift_list_1	Warning	891		91.9 (chain: A, length: 86)
1	Distance restraints	CNS/XPLOR_distance_constraints_2	OK	3812 (1)	noe	91.9 (chain: A, length: 86)

Assigned chemical shifts

Saveframe: assigned_chem_shift_list_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 86, Sequence coverage: 91.9%
- Total number of assignments
  - ¹H chemical shifts: 521
  - ¹³C chemical shifts: 291
  - ¹⁵N chemical shifts: 79
- 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

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	581	521	89.7
¹³C chemical shifts	424	291	68.6
¹⁵N chemical shifts	92	79	85.9

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	171	156	91.2
¹³C chemical shifts	172	78	45.3
¹⁵N chemical shifts	82	75	91.5

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	410	365	89.0
¹³C chemical shifts	252	213	84.5
¹⁵N chemical shifts	10	4	40.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	45	43	95.6
¹³C chemical shifts	45	43	95.6

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	42	29	69.0
¹³C chemical shifts	42	17	40.5

Distance restraints

Saveframe: CNS/XPLOR_distance_constraints_2
- Status: OK
- Experiment type: noe
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 86, Sequence coverage: 91.9%
- Total number of restraints: 3812
- Weight of restraints: 1.0 (3812)
- Potential type of restraints: square-well-parabolic (3812)
- Range of distance target values: 2.29, 4.8 (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

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Found 1 Document (0.641 seconds)

BMRB: 15573

Sample #1

Sample #2

Chemical shift reference

Chemical shift reference

Chemical shift reference

Related entities 1. Protein LX, : 1 : 3 : 48 entities Detail

Experiments performed 8 experiments Detail

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NMR combined restraints 3 contents Detail