BMRB Entry 6551

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PDB ID: 1z00
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR6551
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Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Solution structure of the C-terminal domain of ERCC1 complexed with the C-terminal domain of XPF

Deposition date:

2005-03-18

Original release date:

2005-12-14

Authors:

Tripsianes, K.; Folkers, G.; Odijk, H.; Jaspers, N.; Hoeijmakers, J.; Kaptein, R.; Boelens, R.

Citation:

Citation: Tripsianes, Konstantinos; Folkers, Gert; AB, Eiso; Das, Devashish; Odijk, Hanny; Jaspers, Nicolaas; Hoeijmakers, Jan; Kaptein, Robert; Boelens, Rolf. "The Structure of the Human ERCC1/XPF Interaction Domains Reveals a Complementary Role for the Two Proteins in Nucleotide Excision Repair " Structure (Cambridge, MA, U. S.) 13, 1849-1858 (2005).
PubMed: 16338413

Assembly members:

Assembly members:
ERCC-1, polymer, 89 residues, Formula weight is not available
XPF, polymer, 84 residues, Formula weight is not available

Natural source:

Natural source: Common Name: Human Taxonomy ID: 9606 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Homo sapiens

Experimental source:

Experimental source: Production method: recombinant technology

Entity Sequences (FASTA):

Entity Sequences (FASTA):
ERCC-1: MADLLMEKLEQDFVSRVTEC LTTVKSVNKTDSQTLLTTFG SLEQLIAASREDLALCPGLG PQKARRLFDVLHEPFLKVPG GLEHHHHHH
XPF: MDSETLPESEKYNPGPQDFL LKMPGVNAKNCRSLMHHVKN IAELAALSQDELTSILGNAA NAKQLYDFIHTSFAEVVSKG KGKK

Data sets:

assigned_chemical_shifts
- chemical_shift_set_1
- chemical_shift_set_2

Data type	Count
1H chemical shifts	1184
13C chemical shifts	575
15N chemical shifts	165

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	DNA excision repair protein ERCC-1	1
2	DNA repair endonuclease XPF	2

Entities:

Entity 1, DNA excision repair protein ERCC-1 89 residues - Formula weight is not available

1

MET

ALA

ASP

LEU

MET

GLU

LYS

LEU

GLU

2

GLN

ASP

PHE

VAL

SER

ARG

VAL

THR

GLU

CYS

3

LEU

THR

VAL

LYS

SER

VAL

ASN

LYS

THR

4

ASP

SER

GLN

THR

LEU

THR

PHE

GLY

5

SER

LEU

GLU

GLN

LEU

ILE

ALA

SER

ARG

6

GLU

ASP

LEU

ALA

LEU

CYS

PRO

GLY

LEU

GLY

7

PRO

GLN

LYS

ALA

ARG

LEU

PHE

ASP

VAL

8

LEU

HIS

GLU

PRO

PHE

LEU

LYS

VAL

PRO

GLY

9

GLY

LEU

GLU

HIS

Entity 2, DNA repair endonuclease XPF 84 residues - Formula weight is not available

1

MET

ASP

SER

GLU

THR

LEU

PRO

GLU

SER

GLU

2

LYS

TYR

ASN

PRO

GLY

PRO

GLN

ASP

PHE

LEU

3

LEU

LYS

MET

PRO

GLY

VAL

ASN

ALA

LYS

ASN

4

CYS

ARG

SER

LEU

MET

HIS

VAL

LYS

ASN

5

ILE

ALA

GLU

LEU

ALA

LEU

SER

GLN

ASP

6

GLU

LEU

THR

SER

ILE

LEU

GLY

ASN

ALA

7

ASN

ALA

LYS

GLN

LEU

TYR

ASP

PHE

ILE

HIS

8

THR

SER

PHE

ALA

GLU

VAL

SER

LYS

GLY

9

LYS

GLY

LYS

Samples:

sample_1: ERCC-1, [U-15N; U-13C], 1.5 mM; XPF, [U-15N; U-13C], 1.5 mM; phosphate 50 mM; NaCl 100 mM; D2O 8%; H2O 92%

sample_2: ERCC-1, [U-15N], 1 mM; XPF, [U-15N], 1 mM; phosphate 50 mM; NaCl 100 mM; D2O 8%; H2O 92%

sample_cond_1: pH: 7.0; temperature: 295.5 K; ionic strength: 150 mM; pressure: 1 atm

Experiments:

Name	Sample	Sample state	Sample conditions
3D 13C-separated NOESY	not available	not available	not available
3D 15N-separated NOESY	not available	not available	not available
(h)cCH NOESY HSQC	not available	not available	not available
(h)nCH NOESY HSQC	not available	not available	not available
2D NOESY	not available	not available	not available
2D NOESY 15N filtered	not available	not available	not available

Software:

XWINNMR v3.5 - collection

NMRPipe v2.3 - processing

Sparky v3.110 - data analysis

cyana v2.0 - structure solution

CNS v1.1 - refinement

NMR spectrometers:

Bruker AVANCE 900 MHz

BMRB	6851 6851 6502
PDB	1Z00 2A1J 2AQ0 2KN7 2AQ0 2A1J 1Z00
DBJ	BAF82415 BAG63350 BAG63350 BAF82415
GB	AAB07689 AAB50174 AAI60102 AAL91593 EAW85117
REF	NP_005227 XP_003832737 XP_004057285 XP_510831 XP_510831 NP_005227
SP	Q92889
SWISS-PROT	Q92889
GenBank	EAW85117 AAL91593 AAI60102 AAB50174 AAB07689
AlphaFold	Q92889 Q92889