1rbl

STRUCTURE DETERMINATION AND REFINEMENT OF RIBULOSE 1,5 BISPHOSPHATE CARBOXYLASE(SLASH)OXYGENASE FROM SYNECHOCOCCUS PCC6301

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

RIBULOSE 1,5 BISPHOSPHATE CARBOXYLASE/OXYGENASE (LARGE CHAIN)

Synechococcus elongatus

UniProt P00880

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 16 RIBULOSE 1,5 BISPHOSPHATE CARBOXYLASE/OXYGENASE (SMALL CHAIN) × 8 (P04716) MAGNESIUM ION × 8 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE × 8 FORMIC ACID × 8 water × 8 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RBL_SYNP6
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–467; UniProt 6–472 Author chain B; PDBConstruct 1–467; UniProt 6–472 Author chain C; PDBConstruct 1–467; UniProt 6–472 Author chain D; PDBConstruct 1–467; UniProt 6–472 Author chain E; PDBConstruct 1–467; UniProt 6–472 Author chain F; PDBConstruct 1–467; UniProt 6–472 Author chain G; PDBConstruct 1–467; UniProt 6–472 Author chain H; PDBConstruct 1–467; UniProt 6–472

RIBULOSE 1,5 BISPHOSPHATE CARBOXYLASE/OXYGENASE (SMALL CHAIN)

Synechococcus elongatus

UniProt P04716

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 16 RIBULOSE 1,5 BISPHOSPHATE CARBOXYLASE/OXYGENASE (LARGE CHAIN) × 8 (P00880) MAGNESIUM ION × 8 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE × 8 FORMIC ACID × 8 water × 8 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RBS_SYNP6
Isoform —
PDB entities 2
Chains and sequence ranges Author chain I; PDBConstruct 1–109; UniProt 1–109 Author chain J; PDBConstruct 1–109; UniProt 1–109 Author chain K; PDBConstruct 1–109; UniProt 1–109 Author chain L; PDBConstruct 1–109; UniProt 1–109 Author chain M; PDBConstruct 1–109; UniProt 1–109 Author chain N; PDBConstruct 1–109; UniProt 1–109 Author chain O; PDBConstruct 1–109; UniProt 1–109 Author chain P; PDBConstruct 1–109; UniProt 1–109

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_id1rbl
Deposition date deposition_date1993-05-12
Structure title titleSTRUCTURE DETERMINATION AND REFINEMENT OF RIBULOSE 1,5 BISPHOSPHATE CARBOXYLASE(SLASH)OXYGENASE FROM SYNECHOCOCCUS PCC6301
Keywords keywordsLYASE(CARBON-CARBON), LYASE; LYASE
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.

1rbl__assembly_1__model_1

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

Download this curve (.dat)

1rbl__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 109 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

1rbl__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)47.50 Å
Rg (electron density)46.62 Å
Total Rg46.89 Å
Atom count36696
Residues4608
Excluded volume649610 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1rbl__assembly_1__model_1 hexadecameric (16) 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 (6)

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6. Fold Classification (SCOP + CATH) 48 domains

SCOP 2.08 (24 domains)

Domain ID domain_idd1rbla1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.14 — RuBisCo, C-terminal domain
Family Family familyc.1.14.1 — RuBisCo, large subunit, C-terminal domain
Domain ID domain_idd1rbla2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.9 — RuBisCO, large subunit, small (N-terminal) domain
Family Family familyd.58.9.1 — Ribulose 1,5-bisphosphate carboxylase-oxygenase
Domain ID domain_idd1rblb1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.14 — RuBisCo, C-terminal domain
Family Family familyc.1.14.1 — RuBisCo, large subunit, C-terminal domain
Domain ID domain_idd1rblb2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.9 — RuBisCO, large subunit, small (N-terminal) domain
Family Family familyd.58.9.1 — Ribulose 1,5-bisphosphate carboxylase-oxygenase
Domain ID domain_idd1rblc1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.14 — RuBisCo, C-terminal domain
Family Family familyc.1.14.1 — RuBisCo, large subunit, C-terminal domain
Domain ID domain_idd1rblc2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.9 — RuBisCO, large subunit, small (N-terminal) domain
Family Family familyd.58.9.1 — Ribulose 1,5-bisphosphate carboxylase-oxygenase
Domain ID domain_idd1rbld1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.14 — RuBisCo, C-terminal domain
Family Family familyc.1.14.1 — RuBisCo, large subunit, C-terminal domain
Domain ID domain_idd1rbld2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.9 — RuBisCO, large subunit, small (N-terminal) domain
Family Family familyd.58.9.1 — Ribulose 1,5-bisphosphate carboxylase-oxygenase
Domain ID domain_idd1rble1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.14 — RuBisCo, C-terminal domain
Family Family familyc.1.14.1 — RuBisCo, large subunit, C-terminal domain
Domain ID domain_idd1rble2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.9 — RuBisCO, large subunit, small (N-terminal) domain
Family Family familyd.58.9.1 — Ribulose 1,5-bisphosphate carboxylase-oxygenase
Domain ID domain_idd1rblf1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.14 — RuBisCo, C-terminal domain
Family Family familyc.1.14.1 — RuBisCo, large subunit, C-terminal domain
Domain ID domain_idd1rblf2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.9 — RuBisCO, large subunit, small (N-terminal) domain
Family Family familyd.58.9.1 — Ribulose 1,5-bisphosphate carboxylase-oxygenase
Domain ID domain_idd1rblg1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.14 — RuBisCo, C-terminal domain
Family Family familyc.1.14.1 — RuBisCo, large subunit, C-terminal domain
Domain ID domain_idd1rblg2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.9 — RuBisCO, large subunit, small (N-terminal) domain
Family Family familyd.58.9.1 — Ribulose 1,5-bisphosphate carboxylase-oxygenase
Domain ID domain_idd1rblh1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.14 — RuBisCo, C-terminal domain
Family Family familyc.1.14.1 — RuBisCo, large subunit, C-terminal domain
Domain ID domain_idd1rblh2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.9 — RuBisCO, large subunit, small (N-terminal) domain
Family Family familyd.58.9.1 — Ribulose 1,5-bisphosphate carboxylase-oxygenase
Domain ID domain_idd1rbli_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.73 — RuBisCO, small subunit
Superfamily Superfamily superfamilyd.73.1 — RuBisCO, small subunit
Family Family familyd.73.1.1 — RuBisCO, small subunit
Domain ID domain_idd1rblj_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.73 — RuBisCO, small subunit
Superfamily Superfamily superfamilyd.73.1 — RuBisCO, small subunit
Family Family familyd.73.1.1 — RuBisCO, small subunit
Domain ID domain_idd1rblk_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.73 — RuBisCO, small subunit
Superfamily Superfamily superfamilyd.73.1 — RuBisCO, small subunit
Family Family familyd.73.1.1 — RuBisCO, small subunit
Domain ID domain_idd1rbll_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.73 — RuBisCO, small subunit
Superfamily Superfamily superfamilyd.73.1 — RuBisCO, small subunit
Family Family familyd.73.1.1 — RuBisCO, small subunit
Domain ID domain_idd1rblm_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.73 — RuBisCO, small subunit
Superfamily Superfamily superfamilyd.73.1 — RuBisCO, small subunit
Family Family familyd.73.1.1 — RuBisCO, small subunit
Domain ID domain_idd1rbln_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.73 — RuBisCO, small subunit
Superfamily Superfamily superfamilyd.73.1 — RuBisCO, small subunit
Family Family familyd.73.1.1 — RuBisCO, small subunit
Domain ID domain_idd1rblo_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.73 — RuBisCO, small subunit
Superfamily Superfamily superfamilyd.73.1 — RuBisCO, small subunit
Family Family familyd.73.1.1 — RuBisCO, small subunit
Domain ID domain_idd1rblp_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.73 — RuBisCO, small subunit
Superfamily Superfamily superfamilyd.73.1 — RuBisCO, small subunit
Family Family familyd.73.1.1 — RuBisCO, small subunit

CATH v4.4 (24 domains)

Domain ID domain_id1rblA01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily150 — RuBisCO large subunit, N-terminal domain
Domain ID domain_id1rblA02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily110 — Ribulose bisphosphate carboxylase, large subunit, C-terminal domain
Domain ID domain_id1rblB01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily150 — RuBisCO large subunit, N-terminal domain
Domain ID domain_id1rblB02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily110 — Ribulose bisphosphate carboxylase, large subunit, C-terminal domain
Domain ID domain_id1rblC01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily150 — RuBisCO large subunit, N-terminal domain
Domain ID domain_id1rblC02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily110 — Ribulose bisphosphate carboxylase, large subunit, C-terminal domain
Domain ID domain_id1rblD01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily150 — RuBisCO large subunit, N-terminal domain
Domain ID domain_id1rblD02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily110 — Ribulose bisphosphate carboxylase, large subunit, C-terminal domain
Domain ID domain_id1rblE01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily150 — RuBisCO large subunit, N-terminal domain
Domain ID domain_id1rblE02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily110 — Ribulose bisphosphate carboxylase, large subunit, C-terminal domain
Domain ID domain_id1rblF01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily150 — RuBisCO large subunit, N-terminal domain
Domain ID domain_id1rblF02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily110 — Ribulose bisphosphate carboxylase, large subunit, C-terminal domain
Domain ID domain_id1rblG01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily150 — RuBisCO large subunit, N-terminal domain
Domain ID domain_id1rblG02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily110 — Ribulose bisphosphate carboxylase, large subunit, C-terminal domain
Domain ID domain_id1rblH01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily150 — RuBisCO large subunit, N-terminal domain
Domain ID domain_id1rblH02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily110 — Ribulose bisphosphate carboxylase, large subunit, C-terminal domain
Domain ID domain_id1rblI00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology190 — Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase
Homologous superfamily homologous superfamily10 — Ribulose bisphosphate carboxylase, small subunit
Domain ID domain_id1rblJ00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology190 — Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase
Homologous superfamily homologous superfamily10 — Ribulose bisphosphate carboxylase, small subunit
Domain ID domain_id1rblK00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology190 — Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase
Homologous superfamily homologous superfamily10 — Ribulose bisphosphate carboxylase, small subunit
Domain ID domain_id1rblL00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology190 — Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase
Homologous superfamily homologous superfamily10 — Ribulose bisphosphate carboxylase, small subunit
Domain ID domain_id1rblM00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology190 — Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase
Homologous superfamily homologous superfamily10 — Ribulose bisphosphate carboxylase, small subunit
Domain ID domain_id1rblN00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology190 — Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase
Homologous superfamily homologous superfamily10 — Ribulose bisphosphate carboxylase, small subunit
Domain ID domain_id1rblO00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology190 — Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase
Homologous superfamily homologous superfamily10 — Ribulose bisphosphate carboxylase, small subunit
Domain ID domain_id1rblP00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology190 — Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase
Homologous superfamily homologous superfamily10 — Ribulose bisphosphate carboxylase, small subunit
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7. Citations (2)