BMRB Entry 6573

Name: NMR Structure of VPS4A MIT Domain
Published: 2005-10-17

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PDB ID: 1yxr
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR6573
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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:

NMR Structure of VPS4A MIT Domain

Deposition date:

2005-03-31

Original release date:

2005-10-17

Authors:

Scott, J.; Gaspar, J.; Stuchell, M.; Alam, S.; Skalicky, J.; Sundquist, W.

Citation:

Citation: Scott, A.; Gaspar, J.; Stuchell-Brereton, M.; Alam, S.; Skalicky, J.; Sundquist, W.. "Structure and ESCRT-III protein interactions of the MIT domain of human VPS4A." Proc. Natl. Acad. Sci. U. S. A. 102, 13813-13818 (2005).
PubMed: 16174732

Assembly members:

Assembly members:
vacuolar protein sorting factor 4A, polymer, 122 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):
vacuolar protein sorting factor 4A: MTTSTLQKAIDLVTKATEED KAKNYEEALRLYQHAVEYFL HAIKYEAHSDKAKESIRAKC VQYLDRAEKLKDYLRSKEKH GKKPVKENQSEGKGSDSDSE GDNPEKKKLQEQLMGAVVME KP

Data sets:

assigned_chemical_shifts
- chemical_shift_set_1

Data type	Count
1H chemical shifts	869
13C chemical shifts	402
15N chemical shifts	131

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	vacuolar protein sorting factor 4A	1

Entities:

Entity 1, vacuolar protein sorting factor 4A 122 residues - Formula weight is not available

1

MET

THR

SER

THR

LEU

GLN

LYS

ALA

ILE

2

ASP

LEU

VAL

THR

LYS

ALA

THR

GLU

ASP

3

LYS

ALA

LYS

ASN

TYR

GLU

ALA

LEU

ARG

4

LEU

TYR

GLN

HIS

ALA

VAL

GLU

TYR

PHE

LEU

5

HIS

ALA

ILE

LYS

TYR

GLU

ALA

HIS

SER

ASP

6

LYS

ALA

LYS

GLU

SER

ILE

ARG

ALA

LYS

CYS

7

VAL

GLN

TYR

LEU

ASP

ARG

ALA

GLU

LYS

LEU

8

LYS

ASP

TYR

LEU

ARG

SER

LYS

GLU

LYS

HIS

9

GLY

LYS

PRO

VAL

LYS

GLU

ASN

GLN

SER

10

GLU

GLY

LYS

GLY

SER

ASP

SER

ASP

SER

GLU

11

GLY

ASP

ASN

PRO

GLU

LYS

LEU

GLN

12

GLU

GLN

LEU

MET

GLY

ALA

VAL

MET

GLU

13

LYS

PRO

Samples:

sample_1: vacuolar protein sorting factor 4A, [U-13C; U-15N], mM; NaCl 50 mM; sodium phosphate 20 mM; D2O 10%

sample_cond_1: pH: 5.5; temperature: 298 K; ionic strength: 50 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

Software:

FELIX v97 - processing

Sparky v3.110 - data analysis

CYANA v2.0 - structure solution

CNS v1.1 - refinement

NMR spectrometers:

Varian INOVA 600 MHz

PDB	1YXR 2JQ9 2K3W
DBJ	BAC00961 BAC33165 BAE34833 BAE41476 BAG37514
GB	AAD42971 AAD49227 AAF17203 AAG01470 AAH18368
REF	NP_001040080 NP_001253930 NP_037377 NP_569053 NP_663711
SP	Q793F9 Q8VEJ9 Q9UN37
TPG	DAA20141
AlphaFold	Q793F9 Q8VEJ9 Q9UN37