SMTL ID : 5jpn.1

Structure of human complement C4 rebuilt using iMDFF

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.60 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 2 residues within 4Å: Chain A: N.207, S.209 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 2 residues within 4Å: Chain B: N.649, Q.666 No protein-ligand interaction detected (PLIP)

2 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.3: 2 residues within 4Å: Chain B: N.183, L.209 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN-MAN.4: 4 residues within 4Å: Chain B: N.712 Chain C: L.241, E.242, H.244 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.242

4 x PBM: TRIMETHYL LEAD ION(Non-covalent)

PBM.5: 1 residues within 4Å: Chain A: D.202 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.202 PBM.7: 1 residues within 4Å: Chain B: E.128 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:E.128, B:E.128 PBM.8: 1 residues within 4Å: Chain B: E.678 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:E.678, B:E.678 PBM.9: 1 residues within 4Å: Chain C: E.138 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:E.138, C:E.138

1 x A2G: 2-acetamido-2-deoxy-alpha-D-galactopyranose(Post Translational Modification)

A2G.6: 6 residues within 4Å: Chain B: M.539, A.540, A.542, E.544, P.564, T.565 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:M.539, B:A.542, B:E.544

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Croll, T.I. et al., Re-evaluation of low-resolution crystal structures via interactive molecular-dynamics flexible fitting (iMDFF): a case study in complement C4. Acta Crystallogr D Struct Biol (2016)

Release Date

2016-08-10

Peptides

Complement C4-A: A
Complement C4-A: B
Complement C4-A: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Complement C4-A

Complement C4-A

Complement C4-A

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