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1l5g

CRYSTAL STRUCTURE OF THE EXTRACELLULAR SEGMENT OF INTEGRIN AVB3 IN COMPLEX WITH AN ARG-GLY-ASP LIGAND

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

INTEGRIN BETA-3

Homo sapiens

UniProt P05106

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 3 其他Polymer 7 INTEGRIN ALPHA V × 1 CYCLIC ARG-GLY-ASP PEPTIDE × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 4 2-acetamido-2-deoxy-alpha-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 3 2-acetamido-2-deoxy-beta-D-glucopyranose × 4 MANGANESE (II) ION × 8 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1s4x 2kv9 2l91 2ljd 2lje 2ljf 2rmz 2rn0

8 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1kup 1kuz 1l5g 1m1x 1m8o 1miz 1mk7 1mk7 1mk9 1mk9 1mk9 1mk9

169 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name ITB3_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 1–692； UniProt 27–718

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_id1l5g
Deposition date deposition_date2002-03-06
Structure title titleCRYSTAL STRUCTURE OF THE EXTRACELLULAR SEGMENT OF INTEGRIN AVB3 IN COMPLEX WITH AN ARG-GLY-ASP LIGAND
Keywords keywords;GENU, HYBRID DOMAIN, BETA-TAIL DOMAIN, PSI DOMAIN, EGF DOMAIN, MIDAS, ADMIDAS, LIMBS, CAGE MOTIF, PROPELLER, A-DOMAIN, THIGH DOMAIN, CALF DOMAIN, RGD LIGAND, CELL ADHESION ;; CELL ADHESION
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.

1l5g__assembly_1__model_1

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

Download this curve (.dat)

1l5g__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.

1l5g__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）40.10 Å
Rg (electron density)39.66 Å
Total Rg40.01 Å
Atom count11700
Residues1470
Excluded volume207540 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1l5g__assembly_1__model_1 trimeric （3） 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 (7)

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6. Fold Classification (SCOP + CATH) 17 domains

SCOP 2.08 (9 domains)

Domain ID domain_idd1l5ga1
Class classb — All beta proteins
Fold Fold foldb.1 — Immunoglobulin-like beta-sandwich
Superfamily Superfamily superfamilyb.1.15 — Integrin domains
Family Family familyb.1.15.1 — Integrin domains
Domain ID domain_idd1l5ga2
Class classb — All beta proteins
Fold Fold foldb.1 — Immunoglobulin-like beta-sandwich
Superfamily Superfamily superfamilyb.1.15 — Integrin domains
Family Family familyb.1.15.1 — Integrin domains
Domain ID domain_idd1l5ga3
Class classb — All beta proteins
Fold Fold foldb.1 — Immunoglobulin-like beta-sandwich
Superfamily Superfamily superfamilyb.1.15 — Integrin domains
Family Family familyb.1.15.1 — Integrin domains
Domain ID domain_idd1l5ga4
Class classb — All beta proteins
Fold Fold foldb.69 — 7-bladed beta-propeller
Superfamily Superfamily superfamilyb.69.8 — Integrin alpha N-terminal domain
Family Family familyb.69.8.1 — Integrin alpha N-terminal domain
Domain ID domain_idd1l5gb1
Class classb — All beta proteins
Fold Fold foldb.1 — Immunoglobulin-like beta-sandwich
Superfamily Superfamily superfamilyb.1.15 — Integrin domains
Family Family familyb.1.15.1 — Integrin domains
Domain ID domain_idd1l5gb2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.62 — vWA-like
Superfamily Superfamily superfamilyc.62.1 — vWA-like
Family Family familyc.62.1.1 — Integrin A (or I) domain
Domain ID domain_idd1l5gb3
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.200 — Integrin beta tail domain
Superfamily Superfamily superfamilyd.200.1 — Integrin beta tail domain
Family Family familyd.200.1.1 — Integrin beta tail domain
Domain ID domain_idd1l5gb4
Class classg — Small proteins
Fold Fold foldg.3 — Knottins (small inhibitors, toxins, lectins)
Superfamily Superfamily superfamilyg.3.11 — EGF/Laminin
Family Family familyg.3.11.6 — Integrin beta EGF-like domains
Domain ID domain_idd1l5gb5
Class classg — Small proteins
Fold Fold foldg.3 — Knottins (small inhibitors, toxins, lectins)
Superfamily Superfamily superfamilyg.3.11 — EGF/Laminin
Family Family familyg.3.11.6 — Integrin beta EGF-like domains

CATH v4.4 (8 domains)

Domain ID domain_id1l5gA01
Class class2 — Mainly Beta
Architecture architecture130 — 7 Propeller
Topology topology10 — Methylamine Dehydrogenase; Chain H
Homologous superfamily homologous superfamily130 — Integrin alpha, N-terminal
Domain ID domain_id1l5gA02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily1460 — Integrin domains. Chain A, domain 2
Domain ID domain_id1l5gA03
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily1510 — ntegrin, alpha v. Chain A, domain 3
Domain ID domain_id1l5gA04
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily1530 — ntegrin, alpha v. Chain A, domain 4
Domain ID domain_id1l5gB01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily1510 — ntegrin, alpha v. Chain A, domain 3
Domain ID domain_id1l5gB02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily410 — von Willebrand factor, type A domain
Domain ID domain_id1l5gB03
Class class2 — Mainly Beta
Architecture architecture10 — Ribbon
Topology topology25 — Laminin
Homologous superfamily homologous superfamily10 — Laminin
Domain ID domain_id1l5gB04
Class class4 — Few Secondary Structures
Architecture architecture10 — Irregular
Topology topology1240 — Hormone receptor fold
Homologous superfamily homologous superfamily30 —
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7. Citations (1)