5qy6.1 | SWISS-MODEL Template Library

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SMTL ID : 5qy6.1

PanDDA analysis group deposition -- Aar2/RNaseH in complex with fragment F2X-Entry C05a

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.51 Å

Oligo State

hetero-1-1-mer

Ligands

1 x SY7: 2-methoxy-4-[[(4~{S},5~{S})-2,4,5-tris(2-methoxypyridin-4-yl)imidazolidin-1-yl]methyl]pyridine(Non-covalent)

SY7.1:

8 residues within 4Å:

Chain A: H.56, M.154, V.155, L.156, F.157, N.158, S.204, Y.205

4 PLIP interactions:

4 interactions with chain A

Hydrophobic interactions: A:F.157, A:Y.205
Hydrogen bonds: A:L.156, A:L.156

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.2:	2 residues within 4Å: Chain A: A.39, T.40 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.40
SO4.3:	4 residues within 4Å: Chain A: F.12, K.53, S.168, S.169 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.169 Water bridges: A:Y.170, A:Y.170 Salt bridges: A:K.53

1 x PGR: R-1,2-PROPANEDIOL(Non-covalent)

PGR.4:

6 residues within 4Å:

Chain A: S.138, I.139, D.140, I.202, L.207, W.208

3 PLIP interactions:

3 interactions with chain A

Hydrogen bonds: A:D.140
Water bridges: A:K.141, A:L.207

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Wollenhaupt, J. et al., F2X-Universal and F2X-Entry: Structurally Diverse Compound Libraries for Crystallographic Fragment Screening. Structure (2020)

Release Date

2020-06-10

Peptides

Pre-mRNA-splicing factor 8: A
A1 cistron-splicing factor AAR2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

Pre-mRNA-splicing factor 8

A1 cistron-splicing factor AAR2

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