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Bovine prothrombin fragment 1 in complex with calcium ion

Analyse Bovine prothrombin fragment 1 in complex with calcium ion in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1NL1
Type: protein
Length: 147 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Prothrombin
EC: 3.4.21.5
UniProt: P00735
Ligands: NAG, CA

Structure

x-ray diffraction · 1 distinct chain · 26% helix, 10% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Prothrombin (EC 3.4.21.5)	protein	147	26% helix, 10% strand	P00735

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 3 copies · chains A
CA · Calcium ion · metal · 7 copies · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Modifications

Observed in the structure: 10 modified, 5 disulfide, 2 glycan (carboxylation, disulfide, N-glycosylation).

Compared structures

1NL1 · Bovine prothrombin fragment 1 in complex with calcium ion · the same entry in another collection · chain A against A, TM-score 1.00
P00735 · AlphaFold monomer V2.0 prediction for prothrombin (P00735) · a predicted model of the same protein · chain A against A, TM-score 0.97

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt P00735
Elsewhere: RCSB PDB 1NL1 · PDBe 1NL1 · UniProt P00735

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