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3D Molecules (3Dmol) templates
Interactive 3D molecular visualization: proteins from PDB, ligands, surfaces, cartoons. WebGL-powered.
Crambin (PDB 1CRN)
Crambin, a small, well-ordered plant protein, fetched from the PDB and drawn as a cartoon. Drag to rotate, scroll to zoom.
Life SciencesInsulin (PDB 1ZNI)
Insulin hexamer — cartoon coloured by chain spectrum.
Life SciencesWater (XYZ)
Inline XYZ coordinates — ball-and-stick.
Chemistry & PhysicsBenzene (XYZ)
Benzene ring rendered as 3D sticks.
Chemistry & PhysicsDNA Double Helix (1BNA)
The Dickerson–Drew dodecamer, the classic B-form DNA double helix. Drag to rotate, scroll to zoom.
Life SciencesHemoglobin (1HHO)
Human deoxyhemoglobin, the oxygen-carrying α/β tetramer, with its heme groups.
Life SciencesLysozyme (2LYZ)
Hen egg-white lysozyme — small enzyme often used in crystallography teaching.
Life SciencesLarge Ribosomal Subunit (1FFK)
Haloarcula marismortui 50S — large ribosomal subunit (heavy structure; allow 5–10 s to load).
Life SciencesSARS-CoV-2 Spike (6VYB)
SARS-CoV-2 spike glycoprotein, one RBD up.
Life SciencesCaffeine (XYZ)
Small-molecule caffeine — 3D ball-and-stick.
Chemistry & PhysicsAntibody — IgG (1IGT)
An intact IgG2a antibody in its characteristic Y shape, with heavy and light chains.
Life SciencestRNA (1EHZ)
Yeast phenylalanine tRNA in its classic L-shaped tertiary fold.
Life SciencesATP Synthase (5T4O)
Mitochondrial ATP synthase — the rotary motor that makes ATP.
Life SciencesGreen Fluorescent Protein (1EMA)
GFP β-barrel from Aequorea victoria — workhorse fluorescent reporter.
Life SciencesPD-1 / PD-L1 Complex (4ZQK)
Immune checkpoint complex targeted by cancer immunotherapy.
Life SciencesKcsA K⁺ Channel (1BL8)
The Streptomyces KcsA potassium channel, the structure that revealed how ion selectivity works.
Life SciencesF-Actin Filament (3J8A)
Cryo-EM structure of an F-actin filament.
Life SciencesChemistry — Methane (3D, XYZ)
Tetrahedral CH₄ as 3D ball-and-stick. Drag to rotate.
Chemistry & PhysicsChemistry — Ammonia (3D, XYZ)
Trigonal-pyramidal NH₃ with its lone pair geometry.
Chemistry & PhysicsChemistry — Carbon Dioxide (3D, XYZ)
Linear CO₂ with two double bonds.
Chemistry & PhysicsChemistry — Methanol (3D, XYZ)
The simplest alcohol in three dimensions.
Chemistry & PhysicsChemistry — Ethene (3D, XYZ)
Planar C₂H₄ showing the C=C double bond.
Chemistry & PhysicsBiology — Lysozyme (PDB 1LYZ)
Hen egg-white lysozyme, a classic enzyme structure.
Life SciencesBiology — Myoglobin (PDB 1MBN)
The first protein structure ever solved by X-ray crystallography.
Life SciencesChemistry — Ethanol (3D, XYZ)
Ethanol as 3D ball-and-stick. Drag to rotate, wheel to zoom.
Chemistry & PhysicsBiology — Collagen Triple Helix (PDB 1CAG)
The triple-helix motif of the body's most abundant protein.
Life SciencesChemistry — Hydrogen (3D, XYZ)
The H2 molecule — the simplest covalent bond.
Chemistry & PhysicsChemistry — Acetylene (3D, XYZ)
Linear C2H2 showing the carbon–carbon triple bond.
Chemistry & PhysicsChemistry — Formaldehyde (3D, XYZ)
The simplest aldehyde, trigonal planar around carbon.
Chemistry & PhysicsBiology — Catalase (PDB 1DGF)
The enzyme that decomposes hydrogen peroxide.
Life SciencesBiology — SARS-CoV-2 Main Protease (PDB 6LU7)
The main protease (Mpro) — a key antiviral drug target.
Life SciencesChemistry — Hydrogen Chloride (3D, XYZ)
A simple polar diatomic molecule.
Chemistry & PhysicsChemistry — Nitrogen (3D, XYZ)
The N2 molecule with its triple bond.
Chemistry & PhysicsChemistry — Hydrogen Cyanide (3D, XYZ)
Linear HCN with a carbon–nitrogen triple bond.
Chemistry & PhysicsBiology — Ubiquitin (PDB 1UBQ)
The compact regulatory protein that tags others for degradation.
Life SciencesBiology — HIV-1 Protease (PDB 1HVR)
A landmark structure-based drug-design target.
Life SciencesChemistry — Hydrogen Peroxide (3D, XYZ)
The non-planar H2O2 molecule.
Chemistry & PhysicsChemistry — Ethane (3D, XYZ)
Staggered ethane showing the C–C single bond.
Chemistry & PhysicsBiology — Ferritin (PDB 1FHA)
The iron-storage protein's hollow spherical shell.
Life SciencesBiology — Adenylate Kinase (PDB 1AKE)
A classic example of induced-fit conformational change.
Life SciencesChemistry — Sulfur Hexafluoride (3D, XYZ)
Octahedral SF6 — a classic VSEPR geometry.
Chemistry & PhysicsChemistry — Boron Trifluoride (3D, XYZ)
Trigonal-planar BF3.
Chemistry & PhysicsBiology — Cytochrome c (PDB 1HRC)
The heme electron carrier of the respiratory chain.
Life SciencesBiology — Trypsin (PDB 2PTN)
A classic serine-protease digestive enzyme.
Life SciencesChemistry — Phosphorus Pentachloride (3D, XYZ)
Trigonal-bipyramidal PCl5 — a five-coordinate geometry.
Chemistry & PhysicsChemistry — Xenon Tetrafluoride (3D, XYZ)
Square-planar XeF4 — a noble-gas compound.
Chemistry & PhysicsBiology — Insulin (PDB 4INS)
The 2-Zn insulin structure at high resolution.
Life SciencesBiology — Pepsin (PDB 5PEP)
The stomach's aspartic-protease digestive enzyme.
Life SciencesChemistry — Methylamine (3D, XYZ)
The simplest primary amine.
Chemistry & PhysicsChemistry — Hydronium Ion (3D, XYZ)
The H3O+ ion responsible for acidity.
Chemistry & PhysicsBiology — Rhodopsin (PDB 1F88)
The light-sensing GPCR of the retina.
Life SciencesBiology — Aquaporin (PDB 1J4N)
The membrane channel that conducts water.
Life SciencesChemistry — Carbon Tetrachloride (3D, XYZ)
Tetrahedral CCl4.
Chemistry & PhysicsChemistry — Propane (3D, XYZ)
The three-carbon alkane in 3D.
Chemistry & PhysicsBiology — Chymotrypsin (PDB 4CHA)
A serine-protease digestive enzyme.
Life SciencesBiology — Calmodulin (PDB 1CLL)
The dumbbell-shaped calcium-signalling protein.
Life SciencesChemistry — Ethylene Oxide (3D, XYZ)
The strained three-membered epoxide ring.
Chemistry & PhysicsChemistry — Formic Acid (3D, XYZ)
The simplest carboxylic acid.
Chemistry & PhysicsBiology — Carbonic Anhydrase (PDB 1CA2)
A zinc enzyme that interconverts CO2 and bicarbonate.
Life SciencesBiology — Thrombin (PDB 1PPB)
The clotting protease that converts fibrinogen to fibrin.
Life SciencesChemistry — Ozone (3D, XYZ)
The bent, resonance-stabilised O3 molecule.
Chemistry & PhysicsChemistry — Sulfur Dioxide (3D, XYZ)
Bent SO2 with a lone pair on sulfur.
Chemistry & PhysicsBiology — Ras GTPase (PDB 5P21)
The signalling GTPase mutated in many cancers.
Life SciencesBiology — Superoxide Dismutase (PDB 2SOD)
The antioxidant enzyme that detoxifies superoxide.
Life SciencesChemistry — Cyclopropane (3D, XYZ)
The strained three-membered carbon ring.
Chemistry & PhysicsChemistry — Allene (3D, XYZ)
Cumulated double bonds with perpendicular CH2 groups.
Chemistry & PhysicsBiology — Deoxyhemoglobin (PDB 2HHB)
The tense (T) state of hemoglobin.
Life SciencesBiology — Nucleosome (PDB 1AOI)
DNA wound around the histone octamer.
Life SciencesBiology — ATP Synthase F1 (PDB 1E79)
The rotary motor that makes ATP.
Life SciencesBiology — HIV Protease (PDB 1HHP)
The unliganded HIV-1 protease dimer.
Life SciencesChemistry — Propene (3D, XYZ)
The simplest alkene with a methyl group.
Chemistry & PhysicsChemistry — Cyclobutane (3D, XYZ)
The puckered four-membered carbon ring.
Chemistry & PhysicsBiology — Actin (PDB 1ATN)
The cytoskeletal and muscle filament protein.
Life SciencesBiology — Tubulin (PDB 1TUB)
The building block of microtubules.
Life SciencesBiology — Rubredoxin (PDB 1RB9)
A small iron–sulfur electron-transfer protein.
Life SciencesBiology — Ferredoxin (PDB 1FXD)
An iron–sulfur protein of photosynthesis and respiration.
Life SciencesChemistry — Acetaldehyde (3D, XYZ)
Ethanal — the simplest methyl aldehyde.
Chemistry & PhysicsChemistry — Dimethyl Ether (3D, XYZ)
The simplest ether, an isomer of ethanol.
Chemistry & PhysicsBiology — Papain (PDB 9PAP)
A cysteine protease from papaya.
Life SciencesBiology — Ribonuclease A (PDB 7RSA)
A classic enzyme of protein-folding studies.
Life SciencesBiology — Concanavalin A (PDB 3CNA)
A carbohydrate-binding lectin.
Life SciencesBiology — Elastase (PDB 3EST)
A serine protease that digests elastin.
Life SciencesChemistry — Phosphine (3D, XYZ)
Pyramidal PH3, the phosphorus analogue of ammonia.
Chemistry & PhysicsChemistry — Hydrogen Sulfide (3D, XYZ)
Bent H2S, heavier analogue of water.
Chemistry & PhysicsChemistry — Silane (3D, XYZ)
Tetrahedral SiH4, the silicon analogue of methane.
Chemistry & PhysicsChemistry — Carbon Monoxide (3D, XYZ)
The CO molecule with a triple bond.
Chemistry & PhysicsBiology — Leucine Zipper (PDB 2ZTA)
The GCN4 coiled-coil DNA-binding motif.
Life SciencesBiology — Zinc Finger (PDB 1ZNF)
A zinc-stabilised DNA-binding domain.
Life SciencesBiology — Streptavidin (PDB 1STP)
The biotin-binding protein used throughout biotech.
Life SciencesBiology — Oxymyoglobin (PDB 1MBO)
Myoglobin with bound oxygen at the heme.
Life SciencesChemistry — Hydrazine (3D, XYZ)
N2H4, with an N–N single bond.
Chemistry & PhysicsChemistry — Nitrogen Dioxide (3D, XYZ)
Bent NO2, an odd-electron molecule.
Chemistry & PhysicsChemistry — Boron Trichloride (3D, XYZ)
Trigonal-planar BCl3.
Chemistry & PhysicsChemistry — Phosphorus Trichloride (3D, XYZ)
Pyramidal PCl3 with a lone pair.
Chemistry & PhysicsBiology — Haemoglobin (PDB 4HHB)
Perutz's classic deoxyhaemoglobin tetramer.
Life SciencesBiology — Lysozyme + Substrate (PDB 1HEW)
Lysozyme with a tri-NAG substrate analogue.
Life SciencesBiology — GFP Dimer (PDB 1GFL)
Green fluorescent protein as a dimer.
Life SciencesChemistry — Hydrogen Fluoride (3D, XYZ)
A strongly polar diatomic that hydrogen-bonds.
Chemistry & PhysicsChemistry — Chloromethane (3D, XYZ)
A simple polar halogenoalkane.
Chemistry & PhysicsChemistry — Nitrous Oxide (3D, XYZ)
Linear N-N-O, a greenhouse and anaesthetic gas.
Chemistry & Physics