SMTL ID : 3r1h.1 (1 other biounit)

Crystal structure of the Class I ligase ribozyme-substrate preligation complex, C47U mutant, Ca2+ bound

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.15 Å

Oligo State

monomer

Ligands

1 x U- C- C- A- G- U- A: 5'-R(*UP*CP*CP*AP*GP*UP*A)-3'(Non-functional Binders)

U-C-C-A-G-U-A.1: 17 residues within 4Å: Chain B: G.1, U.13, A.14, C.15, U.16, G.17, G.18, A.19, U.20, A.22, U.23, A.25, A.26, A.27, G.28, A.29 Ligands: CA.12 No protein-ligand interaction detected (PLIP)

14 x CA: CALCIUM ION(Non-functional Binders)

CA.2: 2 residues within 4Å: Chain B: A.31, A.32 No protein-ligand interaction detected (PLIP) CA.3: 4 residues within 4Å: Chain B: C.79, A.80, G.81, U.115 No protein-ligand interaction detected (PLIP) CA.4: 4 residues within 4Å: Chain B: A.3, A.4, A.123, A.124 No protein-ligand interaction detected (PLIP) CA.5: 3 residues within 4Å: Chain B: G.46, U.47, G.83 No protein-ligand interaction detected (PLIP) CA.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) CA.7: 1 residues within 4Å: Chain B: C.113 No protein-ligand interaction detected (PLIP) CA.8: 2 residues within 4Å: Chain B: U.77, G.78 No protein-ligand interaction detected (PLIP) CA.9: 1 residues within 4Å: Chain B: G.74 No protein-ligand interaction detected (PLIP) CA.10: 1 residues within 4Å: Chain B: C.119 No protein-ligand interaction detected (PLIP) CA.11: 3 residues within 4Å: Chain B: G.1, G.2, A.9 No protein-ligand interaction detected (PLIP) CA.12: 4 residues within 4Å: Chain B: G.1, A.29, C.30 Ligands: U-C-C-A-G-U-A.1 No protein-ligand interaction detected (PLIP) CA.13: 2 residues within 4Å: Chain B: G.1, A.31 No protein-ligand interaction detected (PLIP) CA.14: 2 residues within 4Å: Chain B: A.107, C.108 No protein-ligand interaction detected (PLIP) CA.15: 1 residues within 4Å: Chain B: A.43 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shechner, D.M. et al., The structural basis of RNA-catalyzed RNA polymerization. Nat.Struct.Mol.Biol. (2011)

Release Date

2011-08-31

Peptides

U1 small nuclear ribonucleoprotein A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

U1 small nuclear ribonucleoprotein A

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