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SMTL ID : 7q0u.1

Lysozyme soaked with V(IV)OSO4 and bipy

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.19 Å

Oligo State

monomer

Ligands

1 x 0BP: 2,2'-bipyridine(Non-covalent)

0BP.1:

8 residues within 4Å:

Chain A: E.35, N.46, D.52, Q.57, V.109
Ligands: V.2, O.3, CL.5

No protein-ligand interaction detected (PLIP)

1 x V: VANADIUM ION(Non-covalent)

V.2:	4 residues within 4Å: Chain A: N.46, D.52 Ligands: 0BP.1, O.3 No protein-ligand interaction detected (PLIP)

1 x O: OXYGEN ATOM(Non-covalent)

O.3:	4 residues within 4Å: Chain A: N.46, D.52 Ligands: 0BP.1, V.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.46 Water bridges: A:Q.57

5 x CL: CHLORIDE ION(Non-functional Binders)

CL.4:	5 residues within 4Å: Chain A: N.65, G.67, R.68, T.69, S.72 Ligand excluded by PLIP
CL.5:	2 residues within 4Å: Chain A: N.44 Ligands: 0BP.1 Ligand excluded by PLIP
CL.6:	1 residues within 4Å: Chain A: Y.23 Ligand excluded by PLIP
CL.7:	2 residues within 4Å: Chain A: A.42, N.44 Ligand excluded by PLIP
CL.8:	2 residues within 4Å: Chain A: N.65, N.74 Ligand excluded by PLIP

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

NA.9:

5 residues within 4Å:

Chain A: S.60, C.64, N.65, S.72, R.73

2 PLIP interactions:

2 interactions with chain A

Hydrogen bonds: A:S.72, A:S.72

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.10:

8 residues within 4Å:

Chain A: L.56, Q.57, I.58, N.59, W.63, I.98, A.107, W.108

4 PLIP interactions:

4 interactions with chain A

Hydrophobic interactions: A:I.98, A:A.107
Hydrogen bonds: A:N.59, A:W.63

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Santos, M.F.A. et al., Binding of V IV O 2+ , V IV OL, V IV OL 2 and V V O 2 L Moieties to Proteins: X-ray/Theoretical Characterization and Biological Implications. Chemistry (2022)

Release Date

2022-05-25

Peptides

Lysozyme: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

Lysozyme

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7beb.1 | 7bec.1 | 7bhk.1 | 7bhl.1 | 7bhm.1 | 7bhn.1 | 7bmo.1 | 7bmp.1 | 7bmq.1 | 7bmr.1 | 7bms.1 | 7bmt.1 | 7br5.1 | 7c09.1 | 7cdk.1 | 7cdm.1 | 7cdn.1 | 7cdo.1 | 7cdp.1 | 7cdq.1 | 7cdr.1 | 7cds.1 | 7cdt.1 | 7cdu.1 | 7cqo.1 | 7d0w.1 | 7deq.1 | 7der.1 | 7dln.1 | 7f26.1 | 7fcu.1 | 7fcw.1 | 7fg8.1 | 7fgu.1 | 7fgv.1 | 7jmu.1 | 7jmu.2 | 7kh5.1 | 7knk.1 | 7l84.1 | 7llp.1 | 7ln8.1 | 7ln9.1 | 7loq.1 | 7lor.1 | 7lp6.1 | 7lpl.1 | 7lpm.1 | 7lyz.1 | 7mrp.1 | 7njf.1 | 7nkf.1 | 7ol5.1 | 7ol6.1 | 7ol7.1 | 7ol8.1 | 7pnh.1 | 7q04.1 | 7q05.1 | 7q06.1 | 7q0t.1 | 7q0v.1 | 7qnp.1 | 7qq1.1 | 7r1q.1 | 7rxy.1 | 7rxy.2 | 7ryd.1 | 7ryd.2 | 7ryk.1 | 7ryk.2 | 7rz0.1 | 7rz1.1 | 7rz2.1 | 7s27.1 | 7s28.1 | 7s29.1 | 7s2a.1 | 7s2b.1 | 7s2c.1 | 7s2d.1 | 7s2e.1 | 7s2f.1 | 7s2g.1 | 7s2q.1 | 7s2u.1 | 7s2v.1 | 7s2w.1 | 7s30.1 | 7s31.1 | 7s32.1 | 7s33.1 | 7s34.1 | 7s35.1 | 7s4w.1 | 7skw.1 | 7tum.1 | 7uly.1 | 7vei.1 | 7vgo.1 | 7vgp.1 | 7vgp.2 | 7wbd.1 | 7wbe.1 | 7wbf.1 | 7wkr.1 | 7wuc.1 | 7wxs.1 | 7z6j.1 | 7zu6.1 | 8a9d.1 | 8a9e.1 | 8a9r.1 | 8aaz.1 | 8aj3.1 | 8aj4.1 | 8aj5.1 | 8b3l.1 | 8b3t.1 | 8b3u.1 | 8b3v.1 | 8bov.1 | 8boy.1 | 8bph.1 | 8bpj.1 | 8bpu.1 | 8bqm.1 | 8bqp.1 | 8bqq.1 | 8bqr.1 | 8bqt.1 | 8c39.1 | 8cl5.1 | 8cl6.1 | 8cpc.1 | 8cvu.1 | 8cvv.1 | 8cvw.1 | 8cw0.1 | 8cw1.1 | 8cw3.1 | 8cw5.1 | 8cw6.1 | 8cw7.1 | 8cw8.1 | 8cwb.1 | 8cwc.1 | 8cwd.1 | 8cwe.1 | 8cwf.1 | 8cwg.1 | 8cwh.1 | 8d5s.1 | 8d5t.1 | 8d5u.1 | 8d5w.1 | 8d5x.1 | 8d5z.1 | 8d60.1 | 8d61.1 | 8d62.1 | 8d69.1 | 8d6b.1 | 8d6i.1 | 8d75.1 | 8d77.1 | 8d7a.1 | 8d7b.1 | 8d7c.1 | 8d7d.1 | 8d7j.1 | 8d7l.1 | 8d7q.1 | 8d7s.1 | 8d8a.1 | 8d8b.1 | 8d8c.1 | 8d8d.1 | 8d8e.1 | 8d8f.1 | 8d8g.1 | 8d8h.1 | 8dct.1 | 8dcu.1 | 8dcv.1 | 8dcw.1 | 8dyz.1 | 8dz7.1 | 8ezo.1 | 8ezp.1 | 8ezu.1 | 8ezx.1 | 8f00.1 | 8f0b.1 | 8f28.1 | 8f2g.1 | 8fp6.1 | 8fp7.1 | 8fp8.1 | 8fpb.1 | 8fpd.1 | 8fpm.1 | 8fpn.1 | 8fpp.1 | 8fpr.1 | 8fpu.1 | 8fry.1 | 8fs0.1 | 8fs9.1 | 8fsa.1 | 8fsc.1 | 8fsf.1 | 8fsg.1 | 8fsh.1 | 8fsm.1 | 8fsn.1 | 8fst.1 | 8fsu.1 | 8fsv.1 | 8fsw.1 | 8fsx.1 | 8fsy.1 | 8ft0.1 | 8ft1.1 | 8ft2.1 | 8ft3.1 | 8gmv.1 | 8gmw.1 | 8gq1.1 | 8h3w.1 | 8h8t.1 | 8h8u.1 | 8h8v.1 | 8h8w.1 | 8jqv.1 | 8k8m.1 | 8lyz.1 | 8om8.1 | 8oms.1 | 8omt.1 | 8p1a.1 | 8p1b.1 | 8p1c.1 | 8p1d.1 | 8pft.1 | 8pfu.1 | 8pfv.1 | 8pfw.1 | 8pfx.1 | 8pfy.1 | 8ph5.1 | 8ph6.1 | 8ph7.1 | 8ph8.1 | 8pte.1 | 8pyo.1 | 8pyp.1 | 8pyq.1 | 8qcu.1 | 8qv8.1 | 8rge.1 | 8rlf.1 | 8rlh.1 | 8rnv.1 | 8rnw.1 | 8rnx.1 | 8rny.1 | 8rpm.1 | 8rt2.1 | 8rt3.1 | 8rus.1 | 8s2v.1 | 8scy.1 | 8sil.1 | 8w6k.1 | 8wdi.1 | 8wzf.1 | 8wzg.1 | 8wzr.1 | 8wzt.1 | 8wzv.1 | 8y1r.1 | 8y9w.1 | 8ya1.1 | 8ya4.1 | 8ybg.1 | 8ybh.1 | 9b7c.1 | 9b7e.1 | 9b7f.1 | 9enz.1 | 9eo2.1 | 9ex0.1 | 9ex1.1 | 9ex2.1 | 9gcv.1 | 9ghx.1 | 9lyz.1

Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
Spacefill
Outline
Fog

Background

Transparent

Resolution

Low
Medium
High
Extreme

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