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1pjl

Crystal structure of human m-NAD-ME in ternary complex with NAD and Lu3+

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

NAD-dependent malic enzyme, mitochondrial

Homo sapiens

UniProt P23368

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 4 LUTETIUM (III) ION × 4 NICOTINAMIDE-ADENINE-DINUCLEOTIDE × 8 water × 4 Consistent with protein count
2 Protein homooligomer Homooligomer Protein 4 LUTETIUM (III) ION × 4 NICOTINAMIDE-ADENINE-DINUCLEOTIDE × 8 water × 4 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer
1do8 1efk 1efl 1gz3 1gz4 1pj2 1pj3 1pj4 1pjl 1pjl 1qr6 7bsj

19 assemblies; showing the first 12

Other homooligomers

None

Heteromeric or nucleic-acid complex

None

View Construct and Data Evidence
UniProt name MAOM_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–584； UniProt 1–584 Author chain B； PDBConstruct 1–584； UniProt 1–584 Author chain C； PDBConstruct 1–584； UniProt 1–584 Author chain D； PDBConstruct 1–584； UniProt 1–584 Author chain E； PDBConstruct 1–584； UniProt 1–584 Author chain F； PDBConstruct 1–584； UniProt 1–584 Author chain G； PDBConstruct 1–584； UniProt 1–584 Author chain H； PDBConstruct 1–584； UniProt 1–584

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_id1pjl
Deposition date deposition_date2003-06-03
Structure title titleCrystal structure of human m-NAD-ME in ternary complex with NAD and Lu3+
Keywords keywordsOXIDOREDUCTASE; OXIDOREDUCTASE
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.

1pjl__assembly_1__model_1

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

Download this curve (.dat)

1pjl__assembly_1__model_1 | I(q)

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

1pjl__assembly_1__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）45.17 Å
Rg (electron density)45.19 Å
Total Rg45.21 Å
Atom count17732
Residues2148
Excluded volume317820 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1pjl__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1pjl__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 (4)

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6. Fold Classification (SCOP + CATH) 32 domains

SCOP 2.08 (16 domains)

Domain ID domain_idd1pjla1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.2 — NAD(P)-binding Rossmann-fold domains
Superfamily Superfamily superfamilyc.2.1 — NAD(P)-binding Rossmann-fold domains
Family Family familyc.2.1.7 — Aminoacid dehydrogenase-like, C-terminal domain
Domain ID domain_idd1pjla2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.58 — Aminoacid dehydrogenase-like, N-terminal domain
Superfamily Superfamily superfamilyc.58.1 — Aminoacid dehydrogenase-like, N-terminal domain
Family Family familyc.58.1.3 — Malic enzyme N-domain
Domain ID domain_idd1pjlb1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.2 — NAD(P)-binding Rossmann-fold domains
Superfamily Superfamily superfamilyc.2.1 — NAD(P)-binding Rossmann-fold domains
Family Family familyc.2.1.7 — Aminoacid dehydrogenase-like, C-terminal domain
Domain ID domain_idd1pjlb2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.58 — Aminoacid dehydrogenase-like, N-terminal domain
Superfamily Superfamily superfamilyc.58.1 — Aminoacid dehydrogenase-like, N-terminal domain
Family Family familyc.58.1.3 — Malic enzyme N-domain
Domain ID domain_idd1pjlc1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.2 — NAD(P)-binding Rossmann-fold domains
Superfamily Superfamily superfamilyc.2.1 — NAD(P)-binding Rossmann-fold domains
Family Family familyc.2.1.7 — Aminoacid dehydrogenase-like, C-terminal domain
Domain ID domain_idd1pjlc2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.58 — Aminoacid dehydrogenase-like, N-terminal domain
Superfamily Superfamily superfamilyc.58.1 — Aminoacid dehydrogenase-like, N-terminal domain
Family Family familyc.58.1.3 — Malic enzyme N-domain
Domain ID domain_idd1pjld1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.2 — NAD(P)-binding Rossmann-fold domains
Superfamily Superfamily superfamilyc.2.1 — NAD(P)-binding Rossmann-fold domains
Family Family familyc.2.1.7 — Aminoacid dehydrogenase-like, C-terminal domain
Domain ID domain_idd1pjld2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.58 — Aminoacid dehydrogenase-like, N-terminal domain
Superfamily Superfamily superfamilyc.58.1 — Aminoacid dehydrogenase-like, N-terminal domain
Family Family familyc.58.1.3 — Malic enzyme N-domain
Domain ID domain_idd1pjle1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.2 — NAD(P)-binding Rossmann-fold domains
Superfamily Superfamily superfamilyc.2.1 — NAD(P)-binding Rossmann-fold domains
Family Family familyc.2.1.7 — Aminoacid dehydrogenase-like, C-terminal domain
Domain ID domain_idd1pjle2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.58 — Aminoacid dehydrogenase-like, N-terminal domain
Superfamily Superfamily superfamilyc.58.1 — Aminoacid dehydrogenase-like, N-terminal domain
Family Family familyc.58.1.3 — Malic enzyme N-domain
Domain ID domain_idd1pjlf1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.2 — NAD(P)-binding Rossmann-fold domains
Superfamily Superfamily superfamilyc.2.1 — NAD(P)-binding Rossmann-fold domains
Family Family familyc.2.1.7 — Aminoacid dehydrogenase-like, C-terminal domain
Domain ID domain_idd1pjlf2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.58 — Aminoacid dehydrogenase-like, N-terminal domain
Superfamily Superfamily superfamilyc.58.1 — Aminoacid dehydrogenase-like, N-terminal domain
Family Family familyc.58.1.3 — Malic enzyme N-domain
Domain ID domain_idd1pjlg1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.2 — NAD(P)-binding Rossmann-fold domains
Superfamily Superfamily superfamilyc.2.1 — NAD(P)-binding Rossmann-fold domains
Family Family familyc.2.1.7 — Aminoacid dehydrogenase-like, C-terminal domain
Domain ID domain_idd1pjlg2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.58 — Aminoacid dehydrogenase-like, N-terminal domain
Superfamily Superfamily superfamilyc.58.1 — Aminoacid dehydrogenase-like, N-terminal domain
Family Family familyc.58.1.3 — Malic enzyme N-domain
Domain ID domain_idd1pjlh1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.2 — NAD(P)-binding Rossmann-fold domains
Superfamily Superfamily superfamilyc.2.1 — NAD(P)-binding Rossmann-fold domains
Family Family familyc.2.1.7 — Aminoacid dehydrogenase-like, C-terminal domain
Domain ID domain_idd1pjlh2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.58 — Aminoacid dehydrogenase-like, N-terminal domain
Superfamily Superfamily superfamilyc.58.1 — Aminoacid dehydrogenase-like, N-terminal domain
Family Family familyc.58.1.3 — Malic enzyme N-domain

CATH v4.4 (16 domains)

Domain ID domain_id1pjlA01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10380 — Malic enzyme, N-terminal domain
Domain ID domain_id1pjlA02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily720 — NAD(P)-binding Rossmann-like Domain
Domain ID domain_id1pjlB01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10380 — Malic enzyme, N-terminal domain
Domain ID domain_id1pjlB02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily720 — NAD(P)-binding Rossmann-like Domain
Domain ID domain_id1pjlC01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10380 — Malic enzyme, N-terminal domain
Domain ID domain_id1pjlC02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily720 — NAD(P)-binding Rossmann-like Domain
Domain ID domain_id1pjlD01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10380 — Malic enzyme, N-terminal domain
Domain ID domain_id1pjlD02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily720 — NAD(P)-binding Rossmann-like Domain
Domain ID domain_id1pjlE01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10380 — Malic enzyme, N-terminal domain
Domain ID domain_id1pjlE02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily720 — NAD(P)-binding Rossmann-like Domain
Domain ID domain_id1pjlF01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10380 — Malic enzyme, N-terminal domain
Domain ID domain_id1pjlF02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily720 — NAD(P)-binding Rossmann-like Domain
Domain ID domain_id1pjlG01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10380 — Malic enzyme, N-terminal domain
Domain ID domain_id1pjlG02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily720 — NAD(P)-binding Rossmann-like Domain
Domain ID domain_id1pjlH01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10380 — Malic enzyme, N-terminal domain
Domain ID domain_id1pjlH02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily720 — NAD(P)-binding Rossmann-like Domain
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7. Citations (1)