PDBsum entry 2pqh

Structural protein

PDB id

2pqh

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Contents

			Protein chains

					64 a.a. *

			Waters ×145

* Residue conservation analysis

Superseded by:

3thk

PDB id:

2pqh

Links

Name:

Structural protein

Title:

Structure of sh3 chimera with a type ii ligand linked to the chain c- terminal

Structure:

Spectrin alpha chain, brain. Chain: a, b. Fragment: sh3 domain. Synonym: spectrin, non-erythroid alpha chain, fodrin alpha chain. Engineered: yes

Source:

Gallus gallus. Chicken. Organism_taxid: 9031. Gene: sptan1, spta2. Expressed in: escherichia coli. Expression_system_taxid: 562.

Resolution:

1.75Å

R-factor:

0.171

R-free:

0.214

Authors:

A.G.Gabdoulkhakov,L.V.Gushchina,A.D.Nikulin,S.V.Nikonov,V.V.Filimonov

Key ref:

A.N.Mak et al. (2007). Structure-function study of maize ribosome-inactivating protein: implications for the internal inactivation region and the sole glutamate in the active site. Nucleic Acids Res, 35, 6259-6267. PubMed id: 17855394

Date:

02-May-07

Release date:

14-Oct-08

PROCHECK

	Headers

	References

Protein chains

P07751 (SPTN1_CHICK) - Spectrin alpha chain, non-erythrocytic 1 from Gallus gallus

Seq: Struc:

Seq: Struc:

Seq: Struc:

Seq: Struc:

Seq: Struc:					2477 a.a. 64 a.a.*

Key:

PfamA domain

Secondary structure

CATH domain

* PDB and UniProt seqs differ at 6 residue positions (black crosses)

	Nucleic Acids Res 35:6259-6267 (2007)
PubMed id: 17855394

Structure-function study of maize ribosome-inactivating protein: implications for the internal inactivation region and the sole glutamate in the active site.
A.N.Mak, Y.T.Wong, Y.J.An, S.S.Cha, K.H.Sze, S.W.Au, K.B.Wong, P.C.Shaw.

ABSTRACT

Maize ribosome-inactivating protein is classified as a class III or an atypical RNA N-glycosidase. It is synthesized as an inactive precursor with a 25-amino acid internal inactivation region, which is removed in the active form. As the first structural example of this class of proteins, crystals of the precursor and the active form were diffracted to 2.4 and 2.5 A, respectively. The two proteins are similar, with main chain root mean square deviation (RMSD) of 0.519. In the precursor, the inactivation region is found on the protein surface and consists of a flexible loop followed by a long alpha-helix. This region diminished both the interaction with ribosome and cytotoxicity, but not cellular uptake. Like bacterial ribosome-inactivating proteins, maize ribosome-inactivating protein does not have a back-up glutamate in the active site, which helps the protein to retain some activity if the catalytic glutamate is mutated. The structure reveals that the active site is too small to accommodate two glutamate residues. Our structure suggests that maize ribosome-inactivating protein may represent an intermediate product in the evolution of ribosome-inactivating proteins.

Literature references that cite this PDB file's key reference

PubMed id

Reference

21195767

Y.M.Ng, Y.Yang, K.H.Sze, X.Zhang, Y.T.Zheng, and P.C.Shaw (2011).
Structural characterization and anti-HIV-1 activities of arginine/glutamate-rich polypeptide Luffin P1 from the seeds of sponge gourd (Luffa cylindrica).

J Struct Biol, 174, 164-172.

PDB code:

2l37

20558598

S.K.Law, R.R.Wang, A.N.Mak, K.B.Wong, Y.T.Zheng, and P.C.Shaw (2010).
A switch-on mechanism to activate maize ribosome-inactivating protein for targeting HIV-infected cells.

Nucleic Acids Res, 38, 6803-6812.

The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB code is shown on the right.