7UC3 | pdb_00007uc3

Intramolecular ester bond-containing repeat domain from G. bergeri adhesin

PDB DOI: https://doi.org/10.2210/pdb7UC3/pdb

Classification: CELL ADHESION
Organism(s): Gemella bergeri
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2022-03-15 Released: 2023-03-22
Deposition Author(s): Wardega, J.K., Squire, C.J., Young, P.G.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.44 Å
R-Value Free:
0.223 (Depositor), 0.220 (DCC)
R-Value Work:
0.168 (Depositor), 0.170 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Intramolecular ester bond-containing repeat domain from G. bergeri adhesin

Wardega, J.K., Squire, C.J., Young, P.G.

To be published.

Macromolecule Content

Total Structure Weight: 17.06 kDa
Atom Count: 1,258
Modeled Residue Count: 145
Deposited Residue Count: 155
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Adhesin	A	155	Gemella bergeri	Mutation(s): 0 Gene Names: HMPREF1983_01328
UniProt
Find proteins for U2Q1B9 (Gemella bergeri ATCC 700627) Explore U2Q1B9 Go to UniProtKB: U2Q1B9
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	U2Q1B9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.44 Å
R-Value Free: 0.223 (Depositor), 0.220 (DCC)
R-Value Work: 0.168 (Depositor), 0.170 (DCC)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 31.542	α = 90
b = 46.647	β = 90.594
c = 48.536	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-03-22

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2023-03-22
Type: Initial release
Version 1.1: 2023-10-25
Changes: Data collection, Refinement description
Version 1.2: 2024-10-23
Changes: Structure summary

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.