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SMTL ID : 6xwd.1

14-3-3 sigma bound to canonical mono-phosphorylated aminopeptidase N (APN, CD13) binding motif

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

2 x LYS- ASN- ALA- ASN- SEP- SER- PRO- VAL: Amino peptidase N 38-46(Non-covalent)

LYS-ASN-ALA-ASN-SEP-SER-PRO-VAL.1:

18 residues within 4Å:

Chain A: N.47, S.50, K.54, R.61, R.65, K.127, R.134, Y.135, G.176, L.179, N.180, V.183, E.187, I.224, L.227, D.230, N.231, W.235

23 PLIP interactions:

23 interactions with chain A

Hydrophobic interactions: A:I.224, A:W.235
Hydrogen bonds: A:S.50, A:S.50, A:R.65, A:R.65, A:Y.135, A:N.180, A:N.180, A:N.231, A:N.231, A:N.231
Water bridges: A:K.54, A:R.61, A:R.61, A:R.61, A:R.61, A:K.127, A:D.230, A:D.230
Salt bridges: A:R.61, A:K.127, A:R.134

LYS-ASN-ALA-ASN-SEP-SER-PRO-VAL.7:

18 residues within 4Å:

Chain B: N.47, S.50, K.54, R.61, R.65, K.127, R.134, Y.135, G.176, L.179, N.180, V.183, E.187, I.224, L.227, D.230, N.231, W.235

20 PLIP interactions:

20 interactions with chain B

Hydrophobic interactions: B:I.224, B:W.235
Hydrogen bonds: B:S.50, B:R.65, B:R.65, B:N.180, B:N.180, B:E.187, B:N.231, B:N.231, B:N.231
Water bridges: B:K.54, B:R.61, B:R.61, B:R.61, B:R.61, B:K.127
Salt bridges: B:R.61, B:K.127, B:R.134

4 x NA: SODIUM ION(Non-functional Binders)

NA.2:	3 residues within 4Å: Chain A: K.82, E.85 Chain B: Q.13 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.13, B:Q.13
NA.3:	1 residues within 4Å: Chain A: E.166 No protein-ligand interaction detected (PLIP)
NA.8:	3 residues within 4Å: Chain A: Q.13 Chain B: K.82, E.85 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.13, A:Q.13
NA.9:	1 residues within 4Å: Chain B: E.166 No protein-ligand interaction detected (PLIP)

2 x CA: CALCIUM ION(Non-covalent)

CA.4:	4 residues within 4Å: Chain A: E.88, Y.89, K.92 Chain B: K.14 No protein-ligand interaction detected (PLIP)
CA.10:	4 residues within 4Å: Chain A: K.14 Chain B: E.88, Y.89, K.92 No protein-ligand interaction detected (PLIP)

4 x MG: MAGNESIUM ION(Non-covalent)

MG.5:	3 residues within 4Å: Chain A: E.40, E.115, G.117 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.40, A:E.40, A:E.115, H₂O.2, H₂O.10
MG.6:	1 residues within 4Å: Chain A: E.7 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.7, H₂O.3, H₂O.10, H₂O.12
MG.11:	3 residues within 4Å: Chain B: E.40, E.115, G.117 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.40, B:E.40, B:E.115, H₂O.18, H₂O.26
MG.12:	1 residues within 4Å: Chain B: E.7 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.7, H₂O.19, H₂O.27, H₂O.28

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Kiehstaller, S. et al., MMP activation-associated aminopeptidase N reveals a bivalent 14-3-3 binding motif. J.Biol.Chem. (2020)

Release Date

2020-11-04

Peptides

14-3-3 protein sigma: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

14-3-3 protein sigma

Toggle Identical (AB)

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