BMRB Entry 18682

Name: LIP5-CHMP5
Published: 2012-11-27

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PDB ID: 2lxm
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR18682
MolProbity Validation Chart

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Nicholas Rego and David Koes
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

LIP5-CHMP5

Deposition date:

2012-08-29

Original release date:

2012-11-27

Authors:

Skalicky, Jack; Sundquist, Wes

Citation:

Citation: Skalicky, Jack; Arii, Jun; Wenzel, Dawn; Stubblefield, William-May; Katsuyama, Angela; Uter, Nathan; Bajorek, Monika; Myszka, David; Sundquist, Wesley. "Interactions of the human LIP5 regulatory protein with endosomal sorting complexes required for transport." J. Biol. Chem. 287, 43910-43926 (2012).
PubMed: 23105106

Assembly members:

Assembly members:
LIP5(1-168), polymer, 168 residues, 18833.916 Da.
CHMP5(139-195), polymer, 59 residues, 3797.847 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 Vector: pGEX

Entity Sequences (FASTA):

Entity Sequences (FASTA):
LIP5(1-168): MAALAPLPPLPAQFKSIQHH LRTAQEHDKRDPVVAYYCRL YAMQTGMKIDSKTPECRKFL SKLMDQLEALKKQLGDNEAI TQEIVGCAHLENYALKMFLY ADNEDRAGRFHKNMIKSFYT ASLLIDVITVFGELTDENVK HRKYARWKATYIHNCLKNGE TPQAGPVG
CHMP5(139-195): GHMEDANEIQEALSRSYGTP ELDEDDLEAELDALGDELLA DEDSSYLDEAASAPAIPEG

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	651
15N chemical shifts	228
1H chemical shifts	1397

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	LIP5(1-168)	1
2	CHMP5(139-195)	2

Entities:

Entity 1, LIP5(1-168) 168 residues - 18833.916 Da.

1

MET

ALA

LEU

ALA

PRO

LEU

PRO

LEU

2

PRO

ALA

GLN

PHE

LYS

SER

ILE

GLN

HIS

3

LEU

ARG

THR

ALA

GLN

GLU

HIS

ASP

LYS

ARG

4

ASP

PRO

VAL

ALA

TYR

CYS

ARG

LEU

5

TYR

ALA

MET

GLN

THR

GLY

MET

LYS

ILE

ASP

6

SER

LYS

THR

PRO

GLU

CYS

ARG

LYS

PHE

LEU

7

SER

LYS

LEU

MET

ASP

GLN

LEU

GLU

ALA

LEU

8

LYS

GLN

LEU

GLY

ASP

ASN

GLU

ALA

ILE

9

THR

GLN

GLU

ILE

VAL

GLY

CYS

ALA

HIS

LEU

10

GLU

ASN

TYR

ALA

LEU

LYS

MET

PHE

LEU

TYR

11

ALA

ASP

ASN

GLU

ASP

ARG

ALA

GLY

ARG

PHE

12

HIS

LYS

ASN

MET

ILE

LYS

SER

PHE

TYR

THR

13

ALA

SER

LEU

ILE

ASP

VAL

ILE

THR

VAL

14

PHE

GLY

GLU

LEU

THR

ASP

GLU

ASN

VAL

LYS

15

HIS

ARG

LYS

TYR

ALA

ARG

TRP

LYS

ALA

THR

16

TYR

ILE

HIS

ASN

CYS

LEU

LYS

ASN

GLY

GLU

17

THR

PRO

GLN

ALA

GLY

PRO

VAL

GLY

Entity 2, CHMP5(139-195) 59 residues - 3797.847 Da.

1

GLY

HIS

MET

GLU

ASP

ALA

ASN

GLU

ILE

GLN

2

GLU

ALA

LEU

SER

ARG

SER

TYR

GLY

THR

PRO

3

GLU

LEU

ASP

GLU

ASP

LEU

GLU

ALA

GLU

4

LEU

ASP

ALA

LEU

GLY

ASP

GLU

LEU

ALA

5

ASP

GLU

ASP

SER

TYR

LEU

ASP

GLU

ALA

6

ALA

SER

ALA

PRO

ALA

ILE

PRO

GLU

GLY

Samples:

sample_1: LIP5(1-168), [U-100% 13C; U-100% 15N], 0.5 mM; CHMP5(139-195), [U-100% 13C; U-100% 15N], 0.5 mM; sodium phosphate 25 mM; sodium chloride 50 mM; DTT 0.5 mM; EDTA 0.1 mM; H2O 92%; D2O 8%

sample_conditions_1: ionic strength: 75 mM; pH: 6.3; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D 1H-13C NOESY aliphatic	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY aromatic	sample_1	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC aliphatic	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC aromatic	sample_1	isotropic	sample_conditions_1
3D HNCACB	sample_1	isotropic	sample_conditions_1
3D CBCA(CO)NH	sample_1	isotropic	sample_conditions_1
3D HBHA(CO)NH	sample_1	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_1	isotropic	sample_conditions_1
3D HNHA	sample_1	isotropic	sample_conditions_1
3D H(CCO)NH	sample_1	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1

Software:

SPARKY, Goddard - data analysis

NMR spectrometers:

Varian INOVA 600 MHz
Varian DirectDrive 900 MHz

BMRB	18681
PDB	2LXL 2LXM 4TXP 4TXQ 4TXR 4U7E 2LXM 3ULY 3UM1
DBJ	BAA90909 BAB22228 BAB26150 BAE43171 BAG73861 BAB25962 BAE27642 BAG37842 BAI46888
EMBL	CAB66619 CAG33488 CAH92851 CAH90797
GB	AAF76210 AAG43125 AAH05937 AAH06989 AAH22536 AAD27743 AAF29140 AAF42917 AAG23821 AAH06947
REF	NP_001033134 NP_001126666 NP_001248449 NP_001273300 NP_057569 NP_001020581 NP_001029854 NP_001125453 NP_001231673 NP_001253497
SP	Q32L63 Q5R5W5 Q9CR26 Q9NP79 Q4QQV8 Q5RBR3 Q9D7S9 Q9NZZ3
TPG	DAA26071 DAA26641
AlphaFold	Q32L63 Q5R5W5 Q9CR26 Q9NP79 Q4QQV8 Q5RBR3 Q9D7S9 Q9NZZ3