Human multiple PDZ domain protein (7th domain), alt. crystal form

Target ID:

MPDZA

Aliases:

DKFZp781P216FLJ25909FLJ34626FLJ90240MUPP1

Deposition Date:

Monday 3rd July 2006

Families:

Linkers

Related Diseases:

CancerNeurobiology

Structure type:

apo

Download Coordinates:

2IWQ

Authors:

J.M.ELKINS,G.BERRIDGE,P.SAVITSKY,C.E.A.SMEE,A.TURNBULL,E.UGOCHUKWU,E.PAPAGRIGORIOU,M.SUNDSTROM,A.EDWARDS,C.ARROWSMITH,J.WEIGELT,D.A.DOYLE

Site:

Oxford

ICM Datapack:

ICM Datapack

2IWQ

tabs

Structure Details

Epithelial tight junctions perform a barrier role controlling the movement of water, solutes and immune cells through the paracellular pathway as well as defining the polarity of a cell.
How tightly these functions are controlled depends on the composition of proteins at the tight junction.
Some of the major protein families that form the "backbone" of the barrier are the zonula occludens (ZO) and claudins.
MPDZ is a protein that interacts with various members of these families helping to form and regulate the tight junction structure (Turksen & Troy, 2004).

MPDZ (MUPP-1) is a large protein of 2042 amino acids that contains 13 individual PDZ domains (Ullmer et al, 1998). These domains bind to the C-terminal 4-5 residues of the target protein, localising the proteins to defined regions.
The large number of PDZ domains in MPDZ allows the protein to form many connections with several different proteins thus helping to form the large protein scaffold assemblies found at tight junctions.

Here we present the first crystal structure of any of the MPDZ PDZ domains.
This seventh PDZ domain was crystallised by adding a C-terminal extension that matched the expected binding motif.
This allowed the C-terminus of one domain to reach over and bind to the ligand binding site of another PDZ domain, initiating the protein-protein interactions that eventually formed the crystal.

One of the identified binding partners of the 7th PDZ domain of MPDZ is the adenovirus E4-ORF1 that codes for an UTPase (Lee et al, 2000).
This virus is known to play a role in tumor formation with the E4-ORF1 protein being identified as oncogenic (Javier, 1994; Javier & Shenk, 1996).
It is the specific interaction of the E4-ORF1 with MPDZ that causes cell proliferation as disruption of the MPDZ binding site prevents cell transformation (Lee et al, 2000).
Hence, the 7th domain of MPDZ is targeted by the adenovirus E4-ORF1 whose function is important in controlling cellular proliferation.

Materials and Methods

Entry Clone Source: Origene

Entry Clone Accession: NM_003829 Variant

SGC Construct ID: MPDZA-c119

GenBank GI number: gi|4505231

Vector: pNIC28-BSA4. Details [ PDF ]; Sequence [ FASTA ] or [ GenBank ]

Tags and additions: N-terminal hexahistidine tag before TEV cleavage site C-terminal PDZ recognition motif

Sequence:
mhhhhhhssgvdlgtenlyfqsmQPRRVE
LWREPSKSLGISIVGGRGMGSRLSNGEVM
RGIFIKHVLEDSPAGKNGTLKPGDRIVEV
DGMDLRDASHEQAVEAIRKAGNPVVFMVQ
SIISTRL
Lower case characters highlight the N-terminal hexahistidine tag and TEV cleavage recognition site
STRL: C-terminal extension containing PDZ recognition motif

Host : BL-21(DE3)R3 phage resistant

Growth medium, induction protocol: Transformed 50 µl competent BL-21 (DE3) phage resistant cells with 10 µl of the plasmid DNA and plated out onto LB plate plus 50 µg/ml kanamycin. The next day colonies were picked out into fresh deep well blocks containing 1 ml TB + 50 µg/ml kanamycin. These were grown overnight and glycerol stocks prepared by adding 333 µl of 60 % glycerol to 1 ml of cell suspension, mixing and then storing in a -80°C freezer.
The glycerol stock was used to innoculate 20 mls of TB + 50 µg/ml kanamycin which was grown overnight at 37°C as a starter culture for a 1 litre growth. The large scale growth was grown at 37°C until approximately 30 mins before induction when the temperature was lowered to 25°C. Protein production was induced with the addition of 1mM IPTG. The next day cells were harvested by centrifugation at 4000 rpm for 15 minutes. The pellet was then stored in the -80°C freezer.

Extraction buffer, extraction method: Lysis buffer: 10mM Imidazole, 300mM NaCl, 50mM pH8.0 NaH₂PO₄, 0.5mM TCEP, 1x complete PI EDTA free tablet/50mls.
The pellet (19.52 gms) was resuspended with 3x volume of lysis buffer (approximately 50 mls final) by intermitently placing the pellet in a 37°C water bath and vortexing. Once resuspended the cells were (1) broken by one passage through the Constant Systems cell breaker; (2) sonicating; (3) DNA precipitation with the addition of PEI to a final concentration of 0.15 % for 30 mins on ice followed by a 17,000 rpm at 4°C to remove precipitation; (4) the supernatant was filtered through a GF/0.2 µM serum acrodiscs.

Column 1 : Ni-affinity, HisTrap, 1 ml (GE/Amersham)

Buffers: Affinity binding buffer: 10mM Imidazole, 300mM NaCl, 50mM pH8.0 NaH₂PO₄, 0.5mM TCEP. Affinity wash buffer: 50mM Imidazole, 300mM NaCl, 50mM pH8.0 NaH₂PO₄, 0.5mM TCEP. Affinity Elution Buffer: 250mM Imidazole, 300mM NaCl, 50mM pH8.0 NaH₂PO₄, 0.5mM TCEP

Procedure: The cell extract was loaded on the column at 0.8 ml/min on an AKTA-express system (GE/Amersham). The column was then washed with 10 column volumes of Affinity Binding buffer, 10 column volumes of Affinity wash buffer, and then eluted with Affinity elution buffer at 0.8 ml/min. The eluted peak of A280 was automatically collected.

Column 2 : Gel filtration, Hiload 16/60, S75 16/60 - 120 ml

Buffers : Gel Filtration: 10mM pH7.4 Hepes, 500mM NaCl, 5% glycerol, 0.5mM TCEP

Procedure: The eluted fractions from the Ni-affinity Histrap columns were loaded on the gel filtration column in GF buffer at 1.0 ml/min. Eluted proteins were collected in 1 ml fractions.

Concentration : Using a Centricon 10 K cutoff concentrator the MPDZA-p065 pooled fractions was concentrated to 57.6 mg/ml. Concentration was determined from the absorbance at 280 nm.

Mass spec characterization : Expected mass spect for full length construct 13590.4; recorded mass 13590.7.

Crystallisation: 2CFC: Crystals grew from a 1:2 ratio mix of MPDZA-to-reservoir ( 30% mPEG 2K; 0.10M KSCN ); 2IWQ: Crystals grew from a 1:2 ratio mix of MPDZA-to-reservoir (0.2 M NaF; 0.1M BTProp pH 8.5; 20 % PEG 3350; 10 % ethylene glycol).

Data Collection: Resolution: 1.76Å (2CFC) and 1.8Å (2IWQ); X-ray source: Synchrotron SLS -X10, single wavelength.

References

Javier RT. Adenovirus type 9 E4 open reading frame 1 encodes a transforming protein required for the production of mammary tumors in rats. J Virol. 1994 Jun;68(6):3917-24.

Javier R, Shenk T. Mammary tumors induced by human adenovirus type 9: a role for the viral early region 4 gene. Breast Cancer Res Treat. 1996;39(1):57-67.

Lee SS, Glaunsinger B, Mantovani F, Banks L, Javier RT. (2000). Multi-PDZ domain protein MUPP1 is a cellular target for both adenovirus E4-ORF1 and high-risk papillomavirus type 18 E6 oncoproteins. J. Virol. 74: 9680-9693.

Turksen K, Troy TC. (2004). Barriers built on claudins. J. Cell Sci. 117: 2435-2447.

Ullmer C, Schmuck K, Figge A, Lubbert H. (1998). Cloning and characterization of MUPP1, a novel PDZ domain protein. FEBS Lett. 424: 63-68.