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3zgp

NMR structure of the catalytic domain from E. faecium L,D- transpeptidase acylated by ertapenem

Method: SOLUTION NMR
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1. Protein Identity and Related Structures Protein Identity & Related Structures

ERFK/YBIS/YCFS/YNHG

ENTEROCOCCUS FAECIUM

UniProt Q3Y185

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein monomer Monomer Protein 1 ;(4R,5S)-3-({(3S,5S)-5-[(3-carboxyphenyl)carbamoyl]pyrrolidin-3-yl}sulfanyl)-5-[(1S,2R)-1-formyl-2-hydroxypropyl]-4-methyl-4,5-dihydro-1H-pyrrole-2-carboxylic acid ; × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1zat 2hkl 2hkl 2hkl 3zg4 3zgp

6 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex

None

View Construct and Data Evidence
UniProt name Q3Y185_ENTFC
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 4–129； UniProt 341–466

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id3zgp
Deposition date deposition_date2012-12-18
Structure title titleNMR structure of the catalytic domain from E. faecium L,D- transpeptidase acylated by ertapenem
Keywords keywordsTRANSFERASE, TRANSPEPTIDATION, PEPTIDOGLYCAN BIOSYNTHESIS, ANTIBIOTIC RESISTANCE; TRANSFERASE
Experimental Method methodSOLUTION NMR
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

3zgp__assembly_1__model_8

Assembly 1 · Model 8 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

3zgp__assembly_1__model_8 | I(q)

10-2 10-1 105 106 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

3zgp__assembly_1__model_8 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）14.53 Å
Rg (electron density)13.17 Å
Total Rg14.32 Å
Atom count2040
Residues129
Excluded volume18690 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 3zgp__assembly_1__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 2 3zgp__assembly_1__model_2 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 3 3zgp__assembly_1__model_3 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 4 3zgp__assembly_1__model_4 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 5 3zgp__assembly_1__model_5 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 6 3zgp__assembly_1__model_6 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 7 3zgp__assembly_1__model_7 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 8 3zgp__assembly_1__model_8 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 9 3zgp__assembly_1__model_9 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 10 3zgp__assembly_1__model_10 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 11 3zgp__assembly_1__model_11 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 12 3zgp__assembly_1__model_12 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 13 3zgp__assembly_1__model_13 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 14 3zgp__assembly_1__model_14 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 15 3zgp__assembly_1__model_15 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 16 3zgp__assembly_1__model_16 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 17 3zgp__assembly_1__model_17 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 18 3zgp__assembly_1__model_18 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 19 3zgp__assembly_1__model_19 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
1 20 3zgp__assembly_1__model_20 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (2)

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6. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

Domain ID domain_id3zgpA00
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology440 — L,D-transpeptidase catalytic domain-like
Homologous superfamily homologous superfamily10 — L,D-transpeptidase catalytic domain-like
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7. Citations (1)