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1w2m

Ca-substituted form of E. coli aminopeptidase P

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

XAA-PRO AMINOPEPTIDASE

ESCHERICHIA COLI

UniProt P15034

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 4 ISOPROPYL ALCOHOL × 8 CALCIUM ION × 4 CHLORIDE ION × 4 water × 4 Consistent with protein count
2 Protein homooligomer Homooligomer Protein 4 ISOPROPYL ALCOHOL × 8 CALCIUM ION × 4 CHLORIDE ION × 4 water × 4 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1jaw

1 assemblies

Homodimer
1wl6

1 assemblies

Homotetramer
1a16 1m35 1m35 1n51 1w2m 1w2m 1wbq 1wbq 1wl6 1wl9 1wlr 2bh3

22 assemblies; showing the first 12

Other homooligomers

None

Heteromeric or nucleic-acid complex
1n51 1n51 1w7v 1w7v 2bha 2bhd 2v3x 2v3y 2v3z

9 assemblies

View Construct and Data Evidence
UniProt name AMPP_ECOLI
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–440； UniProt 1–440 Author chain B； PDBConstruct 1–440； UniProt 1–440 Author chain C； PDBConstruct 1–440； UniProt 1–440 Author chain D； PDBConstruct 1–440； UniProt 1–440 Author chain E； PDBConstruct 1–440； UniProt 1–440 Author chain F； PDBConstruct 1–440； UniProt 1–440

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_id1w2m
Deposition date deposition_date2004-07-07
Structure title titleCa-substituted form of E. coli aminopeptidase P
Keywords keywordsHYDROLASE, PROLINE-SPECIFIC PEPTIDASE, METALLOENZYME, PITA- BREAD FOLD, METALLOPROTEASE; HYDROLASE
Experimental Method methodX-RAY DIFFRACTION
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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.

1w2m__assembly_2__model_1

Assembly 2 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

1w2m__assembly_2__model_1 | I(q)

10-2 10-1 106 107 108 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

1w2m__assembly_2__model_1 | 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）40.57 Å
Rg (electron density)40.07 Å
Total Rg40.63 Å
Atom count14020
Residues1754
Excluded volume248080 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1w2m__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1w2m__assembly_2__model_1 tetrameric （4） 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 (5)

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6. Fold Classification (SCOP + CATH) 24 domains

SCOP 2.08 (12 domains)

Domain ID domain_idd1w2ma1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.55 — Ribonuclease H-like motif
Superfamily Superfamily superfamilyc.55.2 — Creatinase/prolidase N-terminal domain
Family Family familyc.55.2.1 — Creatinase/prolidase N-terminal domain
Domain ID domain_idd1w2ma2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.127 — Creatinase/aminopeptidase
Superfamily Superfamily superfamilyd.127.1 — Creatinase/aminopeptidase
Family Family familyd.127.1.1 — Creatinase/aminopeptidase
Domain ID domain_idd1w2mb1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.55 — Ribonuclease H-like motif
Superfamily Superfamily superfamilyc.55.2 — Creatinase/prolidase N-terminal domain
Family Family familyc.55.2.1 — Creatinase/prolidase N-terminal domain
Domain ID domain_idd1w2mb2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.127 — Creatinase/aminopeptidase
Superfamily Superfamily superfamilyd.127.1 — Creatinase/aminopeptidase
Family Family familyd.127.1.1 — Creatinase/aminopeptidase
Domain ID domain_idd1w2mc1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.55 — Ribonuclease H-like motif
Superfamily Superfamily superfamilyc.55.2 — Creatinase/prolidase N-terminal domain
Family Family familyc.55.2.1 — Creatinase/prolidase N-terminal domain
Domain ID domain_idd1w2mc2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.127 — Creatinase/aminopeptidase
Superfamily Superfamily superfamilyd.127.1 — Creatinase/aminopeptidase
Family Family familyd.127.1.1 — Creatinase/aminopeptidase
Domain ID domain_idd1w2md1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.55 — Ribonuclease H-like motif
Superfamily Superfamily superfamilyc.55.2 — Creatinase/prolidase N-terminal domain
Family Family familyc.55.2.1 — Creatinase/prolidase N-terminal domain
Domain ID domain_idd1w2md2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.127 — Creatinase/aminopeptidase
Superfamily Superfamily superfamilyd.127.1 — Creatinase/aminopeptidase
Family Family familyd.127.1.1 — Creatinase/aminopeptidase
Domain ID domain_idd1w2me1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.55 — Ribonuclease H-like motif
Superfamily Superfamily superfamilyc.55.2 — Creatinase/prolidase N-terminal domain
Family Family familyc.55.2.1 — Creatinase/prolidase N-terminal domain
Domain ID domain_idd1w2me2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.127 — Creatinase/aminopeptidase
Superfamily Superfamily superfamilyd.127.1 — Creatinase/aminopeptidase
Family Family familyd.127.1.1 — Creatinase/aminopeptidase
Domain ID domain_idd1w2mf1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.55 — Ribonuclease H-like motif
Superfamily Superfamily superfamilyc.55.2 — Creatinase/prolidase N-terminal domain
Family Family familyc.55.2.1 — Creatinase/prolidase N-terminal domain
Domain ID domain_idd1w2mf2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.127 — Creatinase/aminopeptidase
Superfamily Superfamily superfamilyd.127.1 — Creatinase/aminopeptidase
Family Family familyd.127.1.1 — Creatinase/aminopeptidase

CATH v4.4 (12 domains)

Domain ID domain_id1w2mA01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology350 — Creatine Amidinohydrolase; Chain A, domain 1
Homologous superfamily homologous superfamily10 — Creatinase/prolidase N-terminal domain
Domain ID domain_id1w2mA02
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology230 — Creatine Amidinohydrolase
Homologous superfamily homologous superfamily10 — Creatinase/methionine aminopeptidase superfamily
Domain ID domain_id1w2mB01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology350 — Creatine Amidinohydrolase; Chain A, domain 1
Homologous superfamily homologous superfamily10 — Creatinase/prolidase N-terminal domain
Domain ID domain_id1w2mB02
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology230 — Creatine Amidinohydrolase
Homologous superfamily homologous superfamily10 — Creatinase/methionine aminopeptidase superfamily
Domain ID domain_id1w2mC01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology350 — Creatine Amidinohydrolase; Chain A, domain 1
Homologous superfamily homologous superfamily10 — Creatinase/prolidase N-terminal domain
Domain ID domain_id1w2mC02
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology230 — Creatine Amidinohydrolase
Homologous superfamily homologous superfamily10 — Creatinase/methionine aminopeptidase superfamily
Domain ID domain_id1w2mD01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology350 — Creatine Amidinohydrolase; Chain A, domain 1
Homologous superfamily homologous superfamily10 — Creatinase/prolidase N-terminal domain
Domain ID domain_id1w2mD02
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology230 — Creatine Amidinohydrolase
Homologous superfamily homologous superfamily10 — Creatinase/methionine aminopeptidase superfamily
Domain ID domain_id1w2mE01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology350 — Creatine Amidinohydrolase; Chain A, domain 1
Homologous superfamily homologous superfamily10 — Creatinase/prolidase N-terminal domain
Domain ID domain_id1w2mE02
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology230 — Creatine Amidinohydrolase
Homologous superfamily homologous superfamily10 — Creatinase/methionine aminopeptidase superfamily
Domain ID domain_id1w2mF01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology350 — Creatine Amidinohydrolase; Chain A, domain 1
Homologous superfamily homologous superfamily10 — Creatinase/prolidase N-terminal domain
Domain ID domain_id1w2mF02
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology230 — Creatine Amidinohydrolase
Homologous superfamily homologous superfamily10 — Creatinase/methionine aminopeptidase superfamily
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7. Citations (1)