ISDA

Deposition Date 2008-07-17

Release Date 2008-08-05

Last Version Date 2024-10-09

Entry Detail

PDB ID:

3DUE

Keywords:

UNKNOWN FUNCTION

Title:

CRYSTAL STRUCTURE OF A PUTATIVE PERIPLASMIC PROTEIN FROM DUF2874 FAMILY (BVU_2987) FROM BACTEROIDES VULGATUS ATCC 8482 AT 1.85 A RESOLUTION

Biological Source:

Source Organism:

Bacteroides vulgatus ATCC 8482 (Taxon ID: 435590)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.85 Å

R-Value Free:

0.23

R-Value Work:

0.19

R-Value Observed:

0.19

Space Group:

P 21 21 21

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative periplasmic protein
Gene (Uniprot):BVU_2987
Chain IDs:A
Chain Length:127
Number of Molecules:1
Biological Source:Bacteroides vulgatus ATCC 8482

UniProt ID:A6L4L1 Pfam ID:PF11396

Modified Residue

Compound ID	Chain ID	Parent Comp ID	Details	2D Image
MSE	A	MET	SELENOMETHIONINE

Ligand Molecules

CAC

Primary Citation

The structure of BVU2987 from Bacteroides vulgatus reveals a superfamily of bacterial periplasmic proteins with possible inhibitory function.

Das, D, Finn, R.D, Carlton, D, Miller, M.D, Abdubek, P, Astakhova, T, Axelrod, H.L, Bakolitsa, C, Chen, C, Chiu, H.J, Chiu, M, Clayton, T, Deller, M.C, Duan, L, Ellrott, K, Ernst, D, Farr, C.L, Feuerhelm, J, Grant, J.C, Grzechnik, A, Han, G.W, Jaroszewski, L, Jin, K.K, Klock, H.E, Knuth, M.W, Kozbial, P, Krishna, S.S, Kumar, A, Marciano, D, McMullan, D, Morse, A.T, Nigoghossian, E, Nopakun, A, Okach, L, Puckett, C, Reyes, R, Rife, C.L, Sefcovic, N, Tien, H.J, Trame, C.B, van den Bedem, H, Weekes, D, Wooten, T, Xu, Q, Hodgson, K.O, Wooley, J, Elsliger, M.A, Deacon, A.M, Godzik, A, Lesley, S.A, Wilson, I.A.Show

Acta Crystallogr.,Sect.F 66 1265 1273 (2010)

PMID: 20944221 DOI: 10.1107/S1744309109046788

Abstact

Proteins that contain the DUF2874 domain constitute a new Pfam family PF11396. Members of this family have predominantly been identified in microbes found in the human gut and oral cavity. The crystal structure of one member of this family, BVU2987 from Bacteroides vulgatus, has been determined, revealing a β-lactamase inhibitor protein-like structure with a tandem repeat of domains. Sequence analysis and structural comparisons reveal that BVU2987 and other DUF2874 proteins are related to β-lactamase inhibitor protein, PepSY and SmpA_OmlA proteins and hence are likely to function as inhibitory proteins.

Legend

Protein

Chemical

Disease

Primary Citation of related structures