BMRB Entry 5208

Click here to enlarge.

PDB ID: 1bnp
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR5208
MolProbity Validation Chart

NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
XML gzip file.
RDF gzip file.
All files associated with the entry

Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

Select model:

I am color blind

Download raw data. Direct link to this display. Help

Title:

1H, 13C and 15N resonance assignments for the perdeuterated 22 kD palm-thumb domain of DNA polymerase B

Deposition date:

2001-11-14

Original release date:

2002-05-07

Authors:

Gryk, Michael; Maciejewski, Mark; Robertson, Anthony; Mullen, Mary; Wilson, Samuel; Mullen, Gregory

Citation:

Citation: Gryk, Michael; Maciejewski, Mark; Robertson, Anthony; Mullen, Mary; Wilson, Samuel; Mullen, Gregory. "Letter to the Editor: 1H, 13C and 15N Resonance Assignments for the Perdeuterated 22 kD Palm-thumb Domain of DNA Polymerase Beta" J. Biomol. NMR 22, 197-198 (2002).
PubMed: 11883786

Assembly members:

Assembly members:
DNA Polymerase B, polymer, 190 residues, 22022 Da.

Natural source:

Natural source: Common Name: Rat Taxonomy ID: 10116 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Rattus norvegicus

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pET-28a(+)

Entity Sequences (FASTA):

Entity Sequences (FASTA):
DNA Polymerase B: MGKRIPREEMLQMQDIVLNE VKKLDPEYIATVCGSFRRGA ESSGDMDVLLTHPNFTSESS KQPKLLHRVVEQLQKVRFIT DTLSKGETKFMGVCQLPSEN DENEYPHRRIDIRLIPKDQY YCGVLYFTGSDIFNKNMRAH ALEKGFTINEYTIRPLGVTG VAGEPLPVDSEQDIFDYIQW RYREPKDRSE

Data sets:

assigned_chemical_shifts
- Shift_Set_1

Data type	Count
1H chemical shifts	354
13C chemical shifts	621
15N chemical shifts	168

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	B-Pol palm-thumb	1

Entities:

Entity 1, B-Pol palm-thumb 190 residues - 22022 Da.

1	MET	GLY	LYS	ARG	ILE	PRO	ARG	GLU	GLU	MET
2	LEU	GLN	MET	GLN	ASP	ILE	VAL	LEU	ASN	GLU
3	VAL	LYS	LYS	LEU	ASP	PRO	GLU	TYR	ILE	ALA
4	THR	VAL	CYS	GLY	SER	PHE	ARG	ARG	GLY	ALA
5	GLU	SER	SER	GLY	ASP	MET	ASP	VAL	LEU	LEU
6	THR	HIS	PRO	ASN	PHE	THR	SER	GLU	SER	SER
7	LYS	GLN	PRO	LYS	LEU	LEU	HIS	ARG	VAL	VAL
8	GLU	GLN	LEU	GLN	LYS	VAL	ARG	PHE	ILE	THR
9	ASP	THR	LEU	SER	LYS	GLY	GLU	THR	LYS	PHE
10	MET	GLY	VAL	CYS	GLN	LEU	PRO	SER	GLU	ASN
11	ASP	GLU	ASN	GLU	TYR	PRO	HIS	ARG	ARG	ILE
12	ASP	ILE	ARG	LEU	ILE	PRO	LYS	ASP	GLN	TYR
13	TYR	CYS	GLY	VAL	LEU	TYR	PHE	THR	GLY	SER
14	ASP	ILE	PHE	ASN	LYS	ASN	MET	ARG	ALA	HIS
15	ALA	LEU	GLU	LYS	GLY	PHE	THR	ILE	ASN	GLU
16	TYR	THR	ILE	ARG	PRO	LEU	GLY	VAL	THR	GLY
17	VAL	ALA	GLY	GLU	PRO	LEU	PRO	VAL	ASP	SER
18	GLU	GLN	ASP	ILE	PHE	ASP	TYR	ILE	GLN	TRP
19	ARG	TYR	ARG	GLU	PRO	LYS	ASP	ARG	SER	GLU

Samples:

perdeuterated: DNA Polymerase B, U-98% 13C; U-99% 15N; U-97% 2H; except V g-methyls, L d-methyls, I d-methyl, and labile protons. , 46; 5208, 1, 135; 5208, 1, 0.002; 5208, 1, 100; 5208, 1, 1; 5208, 1, 90; 5208, 1, 10; 5208, 1,

perdeuterated_cond1: pH: 6.8 na; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D TROSY 1H-15N HSQC	not available	not available	not available
2D 1H-15N HSQC	not available	not available	not available
2D CT 1H-13C HSQC	not available	not available	not available
3D TROSY HNCACB	not available	not available	not available
3D TROSY HNCO	not available	not available	not available
3D TROSY HN(CA)CO	not available	not available	not available
2D CCH-TOCSY	not available	not available	not available
3D (HM)CMC(CM)HM	not available	not available	not available
3D 15N,13C NOESY	not available	not available	not available

Software:

NMRPipe v1.8 - spectral processing

sbtools - NMR data processing script generation

XEASY v1.2 - spectral analysis

NMR spectrometers:

Varian INOVA 600 MHz

BMRB	18267 7319
PDB	1BPB 1BPD 1BPE 1HUO 1HUZ 1JN3 1NOM 1RPL 1ZQU 1ZQV 1ZQW 1ZQX 1ZQY 1ZQZ 2BPC 2BPF 2BPG 2VAN 3K75 3LQC 3UXN 3UXO 3UXP 3V72 3V7J 3V7K 3V7L
GB	AAA41900 AAA41901 AAB00389 AAH98668 EDM09009
REF	NP_058837
SP	P06766
AlphaFold	P06766 P06766 P06766 P06766

1	MET	GLY	LYS	ARG	ILE	PRO	ARG	GLU	GLU	MET
2	LEU	GLN	MET	GLN	ASP	ILE	VAL	LEU	ASN	GLU
3	VAL	LYS	LYS	LEU	ASP	PRO	GLU	TYR	ILE	ALA
4	THR	VAL	CYS	GLY	SER	PHE	ARG	ARG	GLY	ALA
5	GLU	SER	SER	GLY	ASP	MET	ASP	VAL	LEU	LEU
6	THR	HIS	PRO	ASN	PHE	THR	SER	GLU	SER	SER
7	LYS	GLN	PRO	LYS	LEU	LEU	HIS	ARG	VAL	VAL
8	GLU	GLN	LEU	GLN	LYS	VAL	ARG	PHE	ILE	THR
9	ASP	THR	LEU	SER	LYS	GLY	GLU	THR	LYS	PHE
10	MET	GLY	VAL	CYS	GLN	LEU	PRO	SER	GLU	ASN
11	ASP	GLU	ASN	GLU	TYR	PRO	HIS	ARG	ARG	ILE
12	ASP	ILE	ARG	LEU	ILE	PRO	LYS	ASP	GLN	TYR
13	TYR	CYS	GLY	VAL	LEU	TYR	PHE	THR	GLY	SER
14	ASP	ILE	PHE	ASN	LYS	ASN	MET	ARG	ALA	HIS
15	ALA	LEU	GLU	LYS	GLY	PHE	THR	ILE	ASN	GLU
16	TYR	THR	ILE	ARG	PRO	LEU	GLY	VAL	THR	GLY
17	VAL	ALA	GLY	GLU	PRO	LEU	PRO	VAL	ASP	SER
18	GLU	GLN	ASP	ILE	PHE	ASP	TYR	ILE	GLN	TRP
19	ARG	TYR	ARG	GLU	PRO	LYS	ASP	ARG	SER	GLU

1	MET	GLY	LYS	ARG	ILE	PRO	ARG	GLU	GLU	MET
2	LEU	GLN	MET	GLN	ASP	ILE	VAL	LEU	ASN	GLU
3	VAL	LYS	LYS	LEU	ASP	PRO	GLU	TYR	ILE	ALA
4	THR	VAL	CYS	GLY	SER	PHE	ARG	ARG	GLY	ALA
5	GLU	SER	SER	GLY	ASP	MET	ASP	VAL	LEU	LEU
6	THR	HIS	PRO	ASN	PHE	THR	SER	GLU	SER	SER
7	LYS	GLN	PRO	LYS	LEU	LEU	HIS	ARG	VAL	VAL
8	GLU	GLN	LEU	GLN	LYS	VAL	ARG	PHE	ILE	THR
9	ASP	THR	LEU	SER	LYS	GLY	GLU	THR	LYS	PHE
10	MET	GLY	VAL	CYS	GLN	LEU	PRO	SER	GLU	ASN
11	ASP	GLU	ASN	GLU	TYR	PRO	HIS	ARG	ARG	ILE
12	ASP	ILE	ARG	LEU	ILE	PRO	LYS	ASP	GLN	TYR
13	TYR	CYS	GLY	VAL	LEU	TYR	PHE	THR	GLY	SER
14	ASP	ILE	PHE	ASN	LYS	ASN	MET	ARG	ALA	HIS
15	ALA	LEU	GLU	LYS	GLY	PHE	THR	ILE	ASN	GLU
16	TYR	THR	ILE	ARG	PRO	LEU	GLY	VAL	THR	GLY
17	VAL	ALA	GLY	GLU	PRO	LEU	PRO	VAL	ASP	SER
18	GLU	GLN	ASP	ILE	PHE	ASP	TYR	ILE	GLN	TRP
19	ARG	TYR	ARG	GLU	PRO	LYS	ASP	ARG	SER	GLU