Crystallization Contaminants

A list of crystallization contaminants deposited in PDB that we (plan to) use for quick screening.

The initial version of the list is taken from Table 1 of E. Niedzialkowska et al., Protein Science, 25, 720 (2016). We are grateful to the authors for compiling the neat table. Previously, the usually referred to resource was this summary from ccp4bb.

Anything that can be added here? Like in the original paper, PDB IDs should be selected to represent distinct conformational states of the given protein.

Affinity, solubility, anti-aggregation tags

• Maltose-binding protein (MBP) - 1LLS, 1MPB, 3PUW, 3SEU, 4KYC
• Glutathione-S-transferase (GST) - 4ECB
• Thioredoxin (Trx) - 1F6M, 2AJQ, 2H73, 4HU9, 4X43
• N-Utilization substance (NusA) - 1U9L, 1WCN, 2KWP, 4MTN
• Small ubiquitin related modifier 1 (SUMO1) - 2UYZ, 1Z5S, 4WJQ, 2IO2
• Haloalkane dehalogenase - 4E46

E. coli native proteins

• Metal-binding lipocalin (YodA) - 1OEJ, 4TNN
• Carbonic anhydrase (YadF) - 2ESF
• Ferric uptake regulator (Fur) - 2FU4
• cAMP-regulatory protein (CRP) - 1CGP, 2CGP, 2GZW, 3FWE, 3HIF, 3N4M, 3QOP, 4FT8, 4HZF, 4I0A, 4I0B, 4N9H, 4N9I
• Glucosamine-6-phosphate synthase (GlmS) - 4AMV, 1JXA, 3OOJ, 2J6H
• Glycogen synthase (GlgA) - 2QZS
• Component 1 of the 2-oxoglutarate dehydrogenase complex (ODO1) - 2JGD
• Component E2 of dihydrolipoamide succinyltransferase (ODO2) - 1C4T
• Formyl transferase (YfbG, ArnA) - 1U9J, 1YRW, 1Z7E, 2BLN, 4WKG
• Cu/Zn-superoxide dismutase (Cu/Zn-SODM) - 1ESO
• Chloramphenicol-O-acetyl transferase (CAT) - 1Q23
• Host factor-I protein (Hfq) - 3VU3
• Porin (OmpF) - TBD
• GroEL Chaperonin (GROEL) - 1GRL

Proteases

• Tobacco etch virus (TEV) - 1LVM
• Rhinovirus 3C protease - 1CQQ
• SUMO protease C-terminal domain - 2HL9
• Enterokinase - 1EKB
• Trypsin - 3UY9
• Chymotrypsin - 1GGD
• Thrombin (active form) - 3SQE, 1MH0, 4H6T
• Thermolysin - 4D9W
• Proteinase K - 3DVS
• Pepsin - 5PEP
• Neutrophil elastase - 5ABW
• LysN Peptidyl-Lys metalloendopeptidase - 1GE7
• Lysyl endopeptidase - 4NSY
• Factor Xa - 1KIG

Exogenous proteins

• Lysozyme - 4TWS, 4PRQ, 1AKI
• DNase protein - 2A40

SIMBAD proteins

• Phosphate-Binding Protein from Stenotrophomonas maltophilia - 5JK4