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1rzr

crystal structure of transcriptional regulator-phosphoprotein-DNA complex

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

Glucose-resistance amylase regulator

Bacillus megaterium

UniProt P46828

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 4 DNA 2 5'-D(*CP*TP*GP*AP*AP*AP*GP*CP*GP*CP*TP*AP*AP*CP*AP*G)-3' × 1 5'-D(*CP*TP*GP*TP*TP*AP*GP*CP*GP*CP*TP*TP*TP*CP*AP*G)-3' × 1 Phosphocarrier protein HPr × 2 （O69250） SULFATE ION × 5 water × 6 Consistent with all polymers
2 Protein–DNA Heteromer Protein 4 DNA 2 5'-D(*CP*TP*GP*AP*AP*AP*GP*CP*GP*CP*TP*AP*AP*CP*AP*G)-3' × 1 5'-D(*CP*TP*GP*TP*TP*AP*GP*CP*GP*CP*TP*TP*TP*CP*AP*G)-3' × 1 Phosphocarrier protein HPr × 2 （O69250） SULFATE ION × 2 MAGNESIUM ION × 2 water × 6 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
2hsg

1 assemblies

Homodimer
1sxg 1sxg 1sxg 1sxh 1sxi 1sxi 1sxi 1sxi 1sxi 1sxi 2jcg

11 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1rzr 1rzr 1zvv 1zvv 2nzu 2nzv 2oen

7 assemblies

View Construct and Data Evidence
UniProt name CCPA_BACME
Isoform —
PDB entities 3, 4
Chains and sequence ranges Author chain A； PDBConstruct 1–332； UniProt 1–332 Author chain C； PDBConstruct 1–332； UniProt 1–332 Author chain G； PDBConstruct 1–332； UniProt 1–332 Author chain D； PDBConstruct 1–332； UniProt 1–332

Phosphocarrier protein HPr

Bacillus megaterium

UniProt O69250

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 4 DNA 2 5'-D(*CP*TP*GP*AP*AP*AP*GP*CP*GP*CP*TP*AP*AP*CP*AP*G)-3' × 1 5'-D(*CP*TP*GP*TP*TP*AP*GP*CP*GP*CP*TP*TP*TP*CP*AP*G)-3' × 1 Glucose-resistance amylase regulator × 2 （P46828） SULFATE ION × 5 water × 6 Consistent with all polymers
2 Protein–DNA Heteromer Protein 4 DNA 2 5'-D(*CP*TP*GP*AP*AP*AP*GP*CP*GP*CP*TP*AP*AP*CP*AP*G)-3' × 1 5'-D(*CP*TP*GP*TP*TP*AP*GP*CP*GP*CP*TP*TP*TP*CP*AP*G)-3' × 1 Glucose-resistance amylase regulator × 1 （P46828） Glucose-resistance amylase regulator × 1 （P46828） SULFATE ION × 2 MAGNESIUM ION × 2 water × 6 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1rzr 1rzr 2nzu 2nzv 2oen

5 assemblies

View Construct and Data Evidence
UniProt name PTHP_BACME
Isoform —
PDB entities 5
Chains and sequence ranges Author chain L； PDBConstruct 1–88； UniProt 1–88 Author chain S； PDBConstruct 1–88； UniProt 1–88 Author chain T； PDBConstruct 1–88； UniProt 1–88 Author chain Y； PDBConstruct 1–88； UniProt 1–88

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_id1rzr
Deposition date deposition_date2003-12-27
Structure title titlecrystal structure of transcriptional regulator-phosphoprotein-DNA complex
Keywords keywordsprotein-DNA complex, phospho-protein, transcription-transport protein-DNA COMPLEX; transcription/transport protein/DNA
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.

1rzr__assembly_1__model_1

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

Download this curve (.dat)

1rzr__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.

1rzr__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）31.32 Å
Rg (electron density)29.95 Å
Total Rg30.48 Å
Atom count7061
Residues848
Excluded volume123880 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1rzr__assembly_1__model_1 hexameric （6） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1rzr__assembly_2__model_1 hexameric （6） 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 (8)

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6. Fold Classification (SCOP + CATH) 28 domains

SCOP 2.08 (12 domains)

Domain ID domain_idd1rzra1
Class classa — All alpha proteins
Fold Fold folda.35 — lambda repressor-like DNA-binding domains
Superfamily Superfamily superfamilya.35.1 — lambda repressor-like DNA-binding domains
Family Family familya.35.1.5 — GalR/LacI-like bacterial regulator
Domain ID domain_idd1rzra2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.93 — Periplasmic binding protein-like I
Superfamily Superfamily superfamilyc.93.1 — Periplasmic binding protein-like I
Family Family familyc.93.1.1 — L-arabinose binding protein-like
Domain ID domain_idd1rzrc1
Class classa — All alpha proteins
Fold Fold folda.35 — lambda repressor-like DNA-binding domains
Superfamily Superfamily superfamilya.35.1 — lambda repressor-like DNA-binding domains
Family Family familya.35.1.5 — GalR/LacI-like bacterial regulator
Domain ID domain_idd1rzrc2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.93 — Periplasmic binding protein-like I
Superfamily Superfamily superfamilyc.93.1 — Periplasmic binding protein-like I
Family Family familyc.93.1.1 — L-arabinose binding protein-like
Domain ID domain_idd1rzrd1
Class classa — All alpha proteins
Fold Fold folda.35 — lambda repressor-like DNA-binding domains
Superfamily Superfamily superfamilya.35.1 — lambda repressor-like DNA-binding domains
Family Family familya.35.1.5 — GalR/LacI-like bacterial regulator
Domain ID domain_idd1rzrd2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.93 — Periplasmic binding protein-like I
Superfamily Superfamily superfamilyc.93.1 — Periplasmic binding protein-like I
Family Family familyc.93.1.1 — L-arabinose binding protein-like
Domain ID domain_idd1rzrg1
Class classa — All alpha proteins
Fold Fold folda.35 — lambda repressor-like DNA-binding domains
Superfamily Superfamily superfamilya.35.1 — lambda repressor-like DNA-binding domains
Family Family familya.35.1.5 — GalR/LacI-like bacterial regulator
Domain ID domain_idd1rzrg2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.93 — Periplasmic binding protein-like I
Superfamily Superfamily superfamilyc.93.1 — Periplasmic binding protein-like I
Family Family familyc.93.1.1 — L-arabinose binding protein-like
Domain ID domain_idd1rzrl_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.94 — HPr-like
Superfamily Superfamily superfamilyd.94.1 — HPr-like
Family Family familyd.94.1.1 — HPr-like
Domain ID domain_idd1rzrs_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.94 — HPr-like
Superfamily Superfamily superfamilyd.94.1 — HPr-like
Family Family familyd.94.1.1 — HPr-like
Domain ID domain_idd1rzrt_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.94 — HPr-like
Superfamily Superfamily superfamilyd.94.1 — HPr-like
Family Family familyd.94.1.1 — HPr-like
Domain ID domain_idd1rzry_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.94 — HPr-like
Superfamily Superfamily superfamilyd.94.1 — HPr-like
Family Family familyd.94.1.1 — HPr-like

CATH v4.4 (16 domains)

Domain ID domain_id1rzrA01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology260 — 434 Repressor (Amino-terminal Domain)
Homologous superfamily homologous superfamily40 — lambda repressor-like DNA-binding domains
Domain ID domain_id1rzrA02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2300 — Response regulator
Domain ID domain_id1rzrA03
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2300 — Response regulator
Domain ID domain_id1rzrC01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology260 — 434 Repressor (Amino-terminal Domain)
Homologous superfamily homologous superfamily40 — lambda repressor-like DNA-binding domains
Domain ID domain_id1rzrC02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2300 — Response regulator
Domain ID domain_id1rzrC03
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2300 — Response regulator
Domain ID domain_id1rzrD01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology260 — 434 Repressor (Amino-terminal Domain)
Homologous superfamily homologous superfamily40 — lambda repressor-like DNA-binding domains
Domain ID domain_id1rzrD02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2300 — Response regulator
Domain ID domain_id1rzrD03
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2300 — Response regulator
Domain ID domain_id1rzrG01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology260 — 434 Repressor (Amino-terminal Domain)
Homologous superfamily homologous superfamily40 — lambda repressor-like DNA-binding domains
Domain ID domain_id1rzrG02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2300 — Response regulator
Domain ID domain_id1rzrG03
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2300 — Response regulator
Domain ID domain_id1rzrL00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1340 — Histidine-containing Protein; Chain: A;
Homologous superfamily homologous superfamily10 — HPr-like
Domain ID domain_id1rzrS00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1340 — Histidine-containing Protein; Chain: A;
Homologous superfamily homologous superfamily10 — HPr-like
Domain ID domain_id1rzrT00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1340 — Histidine-containing Protein; Chain: A;
Homologous superfamily homologous superfamily10 — HPr-like
Domain ID domain_id1rzrY00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1340 — Histidine-containing Protein; Chain: A;
Homologous superfamily homologous superfamily10 — HPr-like
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7. Citations (1)