SMTL ID : 3bo4.1

A relaxed active site following exon ligation by a group I intron

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.33 Å

Oligo State

monomer

Ligands

1 x C- A- DT- A- C- G- G- C- C: DNA/RNA (5'-R(*CP*A)-D(P*DU)-R(P*AP*CP*GP*GP*CP*C)-3')(Non-functional Binders)

C-A-DT-A-C-G-G-C-C.1: 21 residues within 4Å: Chain A: G.1, G.2, C.3, C.4, G.5, U.6, G.7, U.8, G.9, C.10, G.34, G.35, A.56, C.57, A.83, A.84, A.174, A.175, G.176 Chain B: G.16 Ligands: MG.13 No protein-ligand interaction detected (PLIP)

12 x MG: MAGNESIUM ION(Non-functional Binders)

MG.2: 4 residues within 4Å: Chain A: C.85, G.176, G.177, A.179 No protein-ligand interaction detected (PLIP) MG.3: 4 residues within 4Å: Chain A: A.84, G.135, A.179 Chain B: G.16 No protein-ligand interaction detected (PLIP) MG.4: 3 residues within 4Å: Chain A: U.180, A.181 Chain B: G.16 No protein-ligand interaction detected (PLIP) MG.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.9: 3 residues within 4Å: Chain A: G.50, G.132, U.133 No protein-ligand interaction detected (PLIP) MG.10: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.11: 1 residues within 4Å: Chain A: A.55 No protein-ligand interaction detected (PLIP) MG.12: 4 residues within 4Å: Chain A: U.131, G.177, C.178 Ligands: K.6 No protein-ligand interaction detected (PLIP) MG.13: 4 residues within 4Å: Chain A: G.34, G.35, A.36 Ligands: C-A-DT-A-C-G-G-C-C.1 No protein-ligand interaction detected (PLIP) MG.14: 3 residues within 4Å: Chain A: A.45, U.47, U.140 No protein-ligand interaction detected (PLIP) MG.15: 1 residues within 4Å: Chain A: C.71 No protein-ligand interaction detected (PLIP) MG.17: 2 residues within 4Å: Chain A: G.188, G.189 No protein-ligand interaction detected (PLIP)

6 x K: POTASSIUM ION(Non-functional Binders)

K.5: 4 residues within 4Å: Chain A: A.156, A.157, G.158, G.159 No protein-ligand interaction detected (PLIP) K.6: 7 residues within 4Å: Chain A: U.131, G.132, U.133, A.134, G.177, C.178 Ligands: MG.12 No protein-ligand interaction detected (PLIP) K.7: 1 residues within 4Å: Chain A: G.21 No protein-ligand interaction detected (PLIP) K.16: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) K.18: 2 residues within 4Å: Chain A: G.130, U.131 No protein-ligand interaction detected (PLIP) K.19: 2 residues within 4Å: Chain A: A.168, G.170 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lipchock, S.V. et al., A relaxed active site after exon ligation by the group I intron. Proc.Natl.Acad.Sci.Usa (2008)

Release Date

2008-04-01

Peptides

U1 small nuclear ribonucleoprotein A: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

U1 small nuclear ribonucleoprotein A

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