4m77

Crystal structure of Lsm2-8 complex, space group I212121

Method: X-RAY DIFFRACTION
▼

1. Protein Identity and Related Structures Protein Identity & Related Structures

U6 snRNA-associated Sm-like protein LSm8

Saccharomyces cerevisiae

UniProt P47093

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 7 U6 snRNA-associated Sm-like protein LSm2 × 1 (P38203) U6 snRNA-associated Sm-like protein LSm3 × 1 (P57743) U6 snRNA-associated Sm-like protein LSm6 × 1 (Q06406) U6 snRNA-associated Sm-like protein LSm5 × 1 (P40089) U6 snRNA-associated Sm-like protein LSm7 × 1 (P53905) U6 snRNA-associated Sm-like protein LSm4 × 1 (P40070) Consistent with protein count
2 Protein heterocomplex Heteromer Protein 7 U6 snRNA-associated Sm-like protein LSm2 × 1 (P38203) U6 snRNA-associated Sm-like protein LSm3 × 1 (P57743) U6 snRNA-associated Sm-like protein LSm6 × 1 (Q06406) U6 snRNA-associated Sm-like protein LSm5 × 1 (P40089) U6 snRNA-associated Sm-like protein LSm7 × 1 (P53905) U6 snRNA-associated Sm-like protein LSm4 × 1 (P40070) Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name LSM8_YEAST
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–109; UniProt 1–109 Author chain H; PDBConstruct 1–109; UniProt 1–109

U6 snRNA-associated Sm-like protein LSm2

Saccharomyces cerevisiae

UniProt P38203

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 7 U6 snRNA-associated Sm-like protein LSm8 × 1 (P47093) U6 snRNA-associated Sm-like protein LSm3 × 1 (P57743) U6 snRNA-associated Sm-like protein LSm6 × 1 (Q06406) U6 snRNA-associated Sm-like protein LSm5 × 1 (P40089) U6 snRNA-associated Sm-like protein LSm7 × 1 (P53905) U6 snRNA-associated Sm-like protein LSm4 × 1 (P40070) Consistent with protein count
2 Protein heterocomplex Heteromer Protein 7 U6 snRNA-associated Sm-like protein LSm8 × 1 (P47093) U6 snRNA-associated Sm-like protein LSm3 × 1 (P57743) U6 snRNA-associated Sm-like protein LSm6 × 1 (Q06406) U6 snRNA-associated Sm-like protein LSm5 × 1 (P40089) U6 snRNA-associated Sm-like protein LSm7 × 1 (P53905) U6 snRNA-associated Sm-like protein LSm4 × 1 (P40070) Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name LSM2_YEAST
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 1–95; UniProt 1–95 Author chain I; PDBConstruct 1–95; UniProt 1–95

U6 snRNA-associated Sm-like protein LSm3

Saccharomyces cerevisiae

UniProt P57743

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 7 U6 snRNA-associated Sm-like protein LSm8 × 1 (P47093) U6 snRNA-associated Sm-like protein LSm2 × 1 (P38203) U6 snRNA-associated Sm-like protein LSm6 × 1 (Q06406) U6 snRNA-associated Sm-like protein LSm5 × 1 (P40089) U6 snRNA-associated Sm-like protein LSm7 × 1 (P53905) U6 snRNA-associated Sm-like protein LSm4 × 1 (P40070) Consistent with protein count
2 Protein heterocomplex Heteromer Protein 7 U6 snRNA-associated Sm-like protein LSm8 × 1 (P47093) U6 snRNA-associated Sm-like protein LSm2 × 1 (P38203) U6 snRNA-associated Sm-like protein LSm6 × 1 (Q06406) U6 snRNA-associated Sm-like protein LSm5 × 1 (P40089) U6 snRNA-associated Sm-like protein LSm7 × 1 (P53905) U6 snRNA-associated Sm-like protein LSm4 × 1 (P40070) Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name LSM3_YEAST
Isoform —
PDB entities 3
Chains and sequence ranges Author chain C; PDBConstruct 1–89; UniProt 1–89 Author chain J; PDBConstruct 1–89; UniProt 1–89

U6 snRNA-associated Sm-like protein LSm6

Saccharomyces cerevisiae

UniProt Q06406

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 7 U6 snRNA-associated Sm-like protein LSm8 × 1 (P47093) U6 snRNA-associated Sm-like protein LSm2 × 1 (P38203) U6 snRNA-associated Sm-like protein LSm3 × 1 (P57743) U6 snRNA-associated Sm-like protein LSm5 × 1 (P40089) U6 snRNA-associated Sm-like protein LSm7 × 1 (P53905) U6 snRNA-associated Sm-like protein LSm4 × 1 (P40070) Consistent with protein count
2 Protein heterocomplex Heteromer Protein 7 U6 snRNA-associated Sm-like protein LSm8 × 1 (P47093) U6 snRNA-associated Sm-like protein LSm2 × 1 (P38203) U6 snRNA-associated Sm-like protein LSm3 × 1 (P57743) U6 snRNA-associated Sm-like protein LSm5 × 1 (P40089) U6 snRNA-associated Sm-like protein LSm7 × 1 (P53905) U6 snRNA-associated Sm-like protein LSm4 × 1 (P40070) Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name LSM6_YEAST
Isoform —
PDB entities 4
Chains and sequence ranges Author chain D; PDBConstruct 1–86; UniProt 1–86 Author chain K; PDBConstruct 1–86; UniProt 1–86

U6 snRNA-associated Sm-like protein LSm5

Saccharomyces cerevisiae

UniProt P40089

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 7 U6 snRNA-associated Sm-like protein LSm8 × 1 (P47093) U6 snRNA-associated Sm-like protein LSm2 × 1 (P38203) U6 snRNA-associated Sm-like protein LSm3 × 1 (P57743) U6 snRNA-associated Sm-like protein LSm6 × 1 (Q06406) U6 snRNA-associated Sm-like protein LSm7 × 1 (P53905) U6 snRNA-associated Sm-like protein LSm4 × 1 (P40070) Consistent with protein count
2 Protein heterocomplex Heteromer Protein 7 U6 snRNA-associated Sm-like protein LSm8 × 1 (P47093) U6 snRNA-associated Sm-like protein LSm2 × 1 (P38203) U6 snRNA-associated Sm-like protein LSm3 × 1 (P57743) U6 snRNA-associated Sm-like protein LSm6 × 1 (Q06406) U6 snRNA-associated Sm-like protein LSm7 × 1 (P53905) U6 snRNA-associated Sm-like protein LSm4 × 1 (P40070) Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name LSM5_YEAST
Isoform —
PDB entities 5
Chains and sequence ranges Author chain E; PDBConstruct 1–93; UniProt 1–93 Author chain L; PDBConstruct 1–93; UniProt 1–93

U6 snRNA-associated Sm-like protein LSm7

Saccharomyces cerevisiae

UniProt P53905

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 7 U6 snRNA-associated Sm-like protein LSm8 × 1 (P47093) U6 snRNA-associated Sm-like protein LSm2 × 1 (P38203) U6 snRNA-associated Sm-like protein LSm3 × 1 (P57743) U6 snRNA-associated Sm-like protein LSm6 × 1 (Q06406) U6 snRNA-associated Sm-like protein LSm5 × 1 (P40089) U6 snRNA-associated Sm-like protein LSm4 × 1 (P40070) Consistent with protein count
2 Protein heterocomplex Heteromer Protein 7 U6 snRNA-associated Sm-like protein LSm8 × 1 (P47093) U6 snRNA-associated Sm-like protein LSm2 × 1 (P38203) U6 snRNA-associated Sm-like protein LSm3 × 1 (P57743) U6 snRNA-associated Sm-like protein LSm6 × 1 (Q06406) U6 snRNA-associated Sm-like protein LSm5 × 1 (P40089) U6 snRNA-associated Sm-like protein LSm4 × 1 (P40070) Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name LSM7_YEAST
Isoform —
PDB entities 6
Chains and sequence ranges Author chain F; PDBConstruct 1–115; UniProt 1–115 Author chain M; PDBConstruct 1–115; UniProt 1–115

U6 snRNA-associated Sm-like protein LSm4

Saccharomyces cerevisiae

UniProt P40070

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 7 U6 snRNA-associated Sm-like protein LSm8 × 1 (P47093) U6 snRNA-associated Sm-like protein LSm2 × 1 (P38203) U6 snRNA-associated Sm-like protein LSm3 × 1 (P57743) U6 snRNA-associated Sm-like protein LSm6 × 1 (Q06406) U6 snRNA-associated Sm-like protein LSm5 × 1 (P40089) U6 snRNA-associated Sm-like protein LSm7 × 1 (P53905) Consistent with protein count
2 Protein heterocomplex Heteromer Protein 7 U6 snRNA-associated Sm-like protein LSm8 × 1 (P47093) U6 snRNA-associated Sm-like protein LSm2 × 1 (P38203) U6 snRNA-associated Sm-like protein LSm3 × 1 (P57743) U6 snRNA-associated Sm-like protein LSm6 × 1 (Q06406) U6 snRNA-associated Sm-like protein LSm5 × 1 (P40089) U6 snRNA-associated Sm-like protein LSm7 × 1 (P53905) Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name LSM4_YEAST
Isoform —
PDB entities 7
Chains and sequence ranges Author chain G; PDBConstruct 1–93; UniProt 1–93 Author chain N; PDBConstruct 1–93; UniProt 1–93

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.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id4m77
Deposition date deposition_date2013-08-12
Structure title titleCrystal structure of Lsm2-8 complex, space group I212121
Keywords keywordsSm Like protein, RNA splicing, STRUCTURAL PROTEIN; STRUCTURAL PROTEIN
Experimental Method methodX-RAY DIFFRACTION
▼

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.

4m77__assembly_1__model_1

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

Download this curve (.dat)

4m77__assembly_1__model_1 | I(q)

10-2 10-1 105 106 107 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

4m77__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)26.07 Å
Rg (electron density)24.79 Å
Total Rg25.70 Å
Atom count4116
Residues523
Excluded volume74340 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 4m77__assembly_1__model_1 heptameric (7) Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 4m77__assembly_2__model_1 heptameric (7) Success 4.1.3-1-20251215 (887e7ef) View Download
▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (7)

▼

6. Fold Classification (SCOP + CATH) 26 domains

SCOP 2.08 (12 domains)

Domain ID domain_idd4m77b_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.0 — automated matches
Domain ID domain_idd4m77c_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.0 — automated matches
Domain ID domain_idd4m77d_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.0 — automated matches
Domain ID domain_idd4m77e_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.0 — automated matches
Domain ID domain_idd4m77f_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.0 — automated matches
Domain ID domain_idd4m77g_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.0 — automated matches
Domain ID domain_idd4m77i_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.0 — automated matches
Domain ID domain_idd4m77j_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.0 — automated matches
Domain ID domain_idd4m77k_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.0 — automated matches
Domain ID domain_idd4m77l_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.0 — automated matches
Domain ID domain_idd4m77m_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.0 — automated matches
Domain ID domain_idd4m77n_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.0 — automated matches

CATH v4.4 (14 domains)

Domain ID domain_id4m77A00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id4m77B00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id4m77C00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id4m77D00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id4m77E00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id4m77F00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id4m77G00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id4m77H00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id4m77I00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id4m77J00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id4m77K00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id4m77L00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id4m77M00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id4m77N00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
▶

7. Citations (1)