PDBsum entry 1c3t

De novo protein

PDB id

1c3t

Loading ...

Contents

			Protein chain

					76 a.a. *

* Residue conservation analysis

PDB id:

1c3t

Links

Name:

De novo protein

Title:

Rotamer strain as a determinant of protein structural specificity

Structure:

Protein (1d8 ubiquitin). Chain: a. Engineered: yes. Mutation: yes

Source:

Homo sapiens. Human. Organism_taxid: 9606. Expressed in: escherichia coli bl21. Expression_system_taxid: 511693.

NMR struc:

20 models

Authors:

G.A.Lazar,E.C.Johnson,J.R.Desjarlais,T.M.Handel

Key ref:

G.A.Lazar et al. (1999). Rotamer strain as a determinant of protein structural specificity. Protein Sci, 8, 2598-2610. PubMed id: 10631975 DOI: 10.1110/ps.8.12.2598

Date:

28-Jul-99

Release date:

20-Aug-99

PROCHECK

	Headers

	References

Protein chain

P0CG48 (UBC_HUMAN) - Polyubiquitin-C from Homo sapiens

Seq: Struc:

Seq: Struc:					685 a.a. 76 a.a.*

Key:

PfamA domain

Secondary structure

CATH domain

* PDB and UniProt seqs differ at 8 residue positions (black crosses)



		Enzyme reactions

Enzyme class:

E.C.?

[IntEnz] [ExPASy] [KEGG] [BRENDA]

DOI no: 10.1110/ps.8.12.2598	Protein Sci 8:2598-2610 (1999)
PubMed id: 10631975

Rotamer strain as a determinant of protein structural specificity.
G.A.Lazar, E.C.Johnson, J.R.Desjarlais, T.M.Handel.

ABSTRACT

We present direct evidence for a change in protein structural specificity due to hydrophobic core packing. High resolution structural analysis of a designed core variant of ubiquitin reveals that the protein is in slow exchange between two conformations. Examination of side-chain rotamers indicates that this dynamic response and the lower stability of the protein are coupled to greater strain and mobility in the core. The results suggest that manipulating the level of side-chain strain may be one way of fine tuning the stability and specificity of proteins.

Literature references that cite this PDB file's key reference

PubMed id

Reference

20160946

S.P.Mielke, and V.V.Krishnan (2009).
Characterization of protein secondary structure from NMR chemical shifts.

Prog Nucl Magn Reson Spectrosc, 54, 141-165.

18931085

L.M.Chen, B.N.Tran, Q.Lin, T.K.Lim, F.Wang, and C.L.Hew (2008).
iTRAQ analysis of Singapore grouper iridovirus infection in a grouper embryonic cell line.

J Gen Virol, 89, 2869-2876.

16786062

R.L.Koder, and P.L.Dutton (2006).
Intelligent design: the de novo engineering of proteins with specified functions.

Dalton Trans, (), 3045-3051.

16688326

S.E.Jackson (2006).
Ubiquitin: a small protein folding paradigm.

Org Biomol Chem, 4, 1845-1853.

10892804

K.Raha, A.M.Wollacott, M.J.Italia, and J.R.Desjarlais (2000).
Prediction of amino acid sequence from structure.

Protein Sci, 9, 1106-1119.

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.