BMRBj - BMREntryMaster

Found 1 Document (2.976 seconds)

BMRB: 7020

2F3I

Chemical Shift Assignments for a Subunit of RNA Polymerase II

Authors

Kang, X., Xia, B., Jin, C.

Assembly

RNA Polymerase II subunit

Entity

1. RNA Polymerase II subunit (polymer, Thiol state: all free), 150 monomers, 17143.10 Da Detail

MAGILFEDIF DVKDIDPEGK KFDRVSRLHC ESESFKMDLI LDVNIQIYPV DLGDKFRLVI ASTLYEDGTL DDGEYNPTDD RPSRADQFEY VMYGKVYRIE GDETSTEAAT RLSAYVSYGG LLMRLQGDAN NLHGFEVDSR VYLLMKKLAF

Formula weight

17143.1 Da

Source organism

Homo sapiens

Exptl. method

NMR

Refine. method

simulated annealing molecular dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 92.7 %, Completeness: 75.2 %, Completeness (bb): 86.8 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	75.2 % (1316 of 1749)	73.8 % (668 of 905)	74.7 % (516 of 691)	86.3 % (132 of 153)
Backbone	86.8 % (774 of 892)	87.0 % (267 of 307)	87.0 % (382 of 439)	85.6 % (125 of 146)
Sidechain	66.2 % (659 of 996)	66.6 % (398 of 598)	65.0 % (254 of 391)	100.0 % (7 of 7)
Aromatic	16.2 % (26 of 160)	30.0 % (24 of 80)	2.5 % (2 of 80)
Methyl	68.3 % (112 of 164)	67.1 % (55 of 82)	69.5 % (57 of 82)

1. hRPB8

MAGILFEDIF DVKDIDPEGK KFDRVSRLHC ESESFKMDLI LDVNIQIYPV DLGDKFRLVI ASTLYEDGTL DDGEYNPTDD RPSRADQFEY VMYGKVYRIE GDETSTEAAT RLSAYVSYGG LLMRLQGDAN NLHGFEVDSR VYLLMKKLAF

Show sample condition

Sample

Pressure 1 (±0.1) atm, Temperature 303 (±0.1) K, pH 6.3 (±0.2)

#	Name	Isotope labeling	Concentration
1	hRPB8	[U-13C; U-15N]	1 mM
2	sodium phosphate		20 mM
3	dithiothreitol		10 mM
4	H2O		95 %
5	D2O		5 %

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: -0.11 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: -0.11 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: -0.11 ppm, Outliers: 1 Detail

LACS Plot; CO

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: 0.45 ppm, Outliers: 2 Detail

Protein Blocks Logo

Calculated from 21 models in PDB: 2F3I, Strand ID: A Detail

Release date

2006-09-21

Citation

Structural, biochemical, and dynamic characterizations of the hRPB8 subunit of human RNA polymerases
Kang, X., Hu, Y., Li, Y., Guo, X., Jiang, X., Lai, L., Xia, B., Jin, C.
J. Biol. Chem. (2006), 281, 18216-18226, PubMed 16632472 , DOI 10.1074/jbc.M513241200 , Abstract

Entries sharing articles Swiss-Prot: 1 entries Detail

Swiss-Prot: P52434 released on 1996-10-01
Title RPAB3_HUMAN Entity DNA-directed RNA polymerases I, II, and III subunit RPABC3

Related entities 1. RNA Polymerase II subunit, : 1 : 111 : 37 entities Detail

Interaction partners 1. RNA Polymerase II subunit, : 44 interactors Detail

More details for 44 interactors identified by 17 citations

Experiments performed 3 experiments Detail

Chemical shift validation 3 contents Detail

Properties

Input source #1: Assigned chemical shifts - Assigned chemical shifts	bmr7020_3.str
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

Content subtype: bmr7020_3.str

#	Content subtype	Saveframe	Status	# of rows	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	chem_shift_list_1	Warning	1407		91.3 (chain: 1, length: 150)
1	Chemical shift references	chemical_shift_referencing	OK	3		No information

Assigned chemical shifts

Saveframe: chem_shift_list_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: 1, Chain length: 150, Sequence coverage: 91.3%
- Total number of assignments
  - ¹H chemical shifts: 761
  - ¹³C chemical shifts: 514
  - ¹⁵N chemical shifts: 132
- Completeness of assignments
  - Entity_assemble_ID: 1
- 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: 1

Comp_index_ID	Comp_ID	Atom_ID	CS value (ppm)
44	ASN	CG	180.032
46	GLN	CD	180.008
76	ASN	CG	177.179
87	GLN	CD	180.187
126	GLN	CD	177.181
130	ASN	CG	176.612
131	ASN	CG	177.185
133	HIS	HE2	7.353

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	905	646	71.4
¹³C chemical shifts	691	507	73.4
¹⁵N chemical shifts	162	132	81.5

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	307	262	85.3
¹³C chemical shifts	300	256	85.3
¹⁵N chemical shifts	146	121	82.9

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	598	384	64.2
¹³C chemical shifts	391	251	64.2
¹⁵N chemical shifts	16	11	68.8

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	87	57	65.5
¹³C chemical shifts	87	59	67.8

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	80	22	27.5
¹³C chemical shifts	80	0	0.0

Keywords hRPB8

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Found 1 Document (2.976 seconds)

BMRB: 7020

Sample

Chemical shift reference

Chemical shift reference

Chemical shift reference

Chemical shift reference

Entries sharing articles Swiss-Prot: 1 entries Detail

Related entities 1. RNA Polymerase II subunit, : 1 : 111 : 37 entities Detail

Interaction partners 1. RNA Polymerase II subunit, : 44 interactors Detail

Experiments performed 3 experiments Detail

Instrument

Sample

Instrument

Sample

Instrument

Sample

Chemical shift validation 3 contents Detail