BMRB Entry 11036

Name: NMR solution structures of KAP-1PHD finger-bromodomain
Published: 2008-11-11

Chem Shift validation: AVS_anomalous, AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR11036

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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

NMR solution structures of KAP-1PHD finger-bromodomain

Deposition date:

2008-03-20

Original release date:

2008-11-11

Authors:

Zeng, Lei; Yap, Kyoko; Ivanov, Alexey; Wang, Xueqi; Mujtaba, Shiraz; Plotnikova, Olga; Rauscher, Frank

Citation:

Citation: Zeng, Lei; Yap, Kyoko; Ivanov, Alexey; Wang, Xueqi; Mujtaba, Shiraz; Plotnikova, Olga; Rauscher, Frank; Zhou, Ming-Ming. "Structural insights into human KAP1 PHD finger-bromodomain and its role in gene silencing." Nat. Struct. Mol. Biol. 15, 626-633 (2008).
PubMed: 18488044

Assembly members:

Assembly members:
KAP1 PHD Bromodomains, polymer, 189 residues, 21043.086 Da.
ZN, non-polymer, 65.409 Da.

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 Host organism: Escherichia coli BL21(DE3) Vector: pGEX4T3

Entity Sequences (FASTA):

Entity Sequences (FASTA):
KAP1 PHD Bromodomains: SATICRVCQKPGDLVMCNQC EFCFHLDCHLPALQDVPGEE WSCSLCHVLPDLKEEDGSLS LDGADSTGVVAKLSPANQRK CERVLLALFCHEPCRPLHQL ATDSTFSLDQPGGTLDLTLI RARLQEKLSPPYSSPQEFAQ DVGRMFKQFNKLTEDKADVQ SIIGLQRFFETRMNEAFGDT KFSAVLVEP

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	618
15N chemical shifts	188
1H chemical shifts	1192

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	KAP1 PHD Bromodomains	1
2	ZINC ION No.1	2
3	ZINC ION No.2	2

Entities:

Entity 1, KAP1 PHD Bromodomains 189 residues - 21043.086 Da.

1

SER

ALA

THR

ILE

CYS

ARG

VAL

CYS

GLN

LYS

2

PRO

GLY

ASP

LEU

VAL

MET

CYS

ASN

GLN

CYS

3

GLU

PHE

CYS

PHE

HIS

LEU

ASP

CYS

HIS

LEU

4

PRO

ALA

LEU

GLN

ASP

VAL

PRO

GLY

GLU

5

TRP

SER

CYS

SER

LEU

CYS

HIS

VAL

LEU

PRO

6

ASP

LEU

LYS

GLU

ASP

GLY

SER

LEU

SER

7

LEU

ASP

GLY

ALA

ASP

SER

THR

GLY

VAL

8

ALA

LYS

LEU

SER

PRO

ALA

ASN

GLN

ARG

LYS

9

CYS

GLU

ARG

VAL

LEU

ALA

LEU

PHE

CYS

10

HIS

GLU

PRO

CYS

ARG

PRO

LEU

HIS

GLN

LEU

11

ALA

THR

ASP

SER

THR

PHE

SER

LEU

ASP

GLN

12

PRO

GLY

THR

LEU

ASP

LEU

THR

LEU

ILE

13

ARG

ALA

ARG

LEU

GLN

GLU

LYS

LEU

SER

PRO

14

PRO

TYR

SER

PRO

GLN

GLU

PHE

ALA

GLN

15

ASP

VAL

GLY

ARG

MET

PHE

LYS

GLN

PHE

ASN

16

LYS

LEU

THR

GLU

ASP

LYS

ALA

ASP

VAL

GLN

17

SER

ILE

GLY

LEU

GLN

ARG

PHE

GLU

18

THR

ARG

MET

ASN

GLU

ALA

PHE

GLY

ASP

THR

19

LYS

PHE

SER

ALA

VAL

LEU

VAL

GLU

PRO

Entity 2, ZINC ION No.1 - Zn - 65.409 Da.

1

ZN

Samples:

sample_1: KAP1 PHD Bromodomains, [U-100% 13C; U-100% 15N], 0.5 mM; NaCl 200 mM; D2O 99.9%

sample_conditions_1: ionic strength: 0.2 M; pH: 6.5; pressure: 1 atm; temperature: 303 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D 1H-15N TOCSY	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_1	isotropic	sample_conditions_1

Software:

CNS v1.1, Brunger, Adams, Clore, Gros, Nilges and Read - structure solution

ARIA v2.1, Linge, O'Donoghue and Nilges - data analysis

NMR spectrometers:

Bruker DRX 500 MHz
Bruker DRX 600 MHz
Bruker Avance 800 MHz

PDB	2RO1
DBJ	BAC40742 BAE24661 BAE29223 BAG11035 BAG36262
EMBL	CAA66150 CAA67963
GB	AAA74954 AAB17272 AAB37341 AAB51517 AAG02638
REF	NP_001193738 NP_005753 NP_035718 NP_446368 XP_001098702
SP	O08629 Q13263 Q62318
TPG	DAA19313
AlphaFold	O08629 Q13263 Q62318