Crystal structure of Domain of Unknown Function with a Cupin Fold (YP_752209.1) from SHEWANELLA FRIGIDIMARINA NCIMB 400 at 2.05 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
Experimental Data Snapshot
wwPDB Validation   3D Report Full Report
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Cupin 2, conserved barrel domain protein | 102 | Shewanella frigidimarina NCIMB 400 | Mutation(s): 0  Gene Names: YP_752209.1, Sfri_3543 | ||
UniProt | |||||
Find proteins for Q07X94 (Shewanella frigidimarina (strain NCIMB 400)) Explore Q07X94  Go to UniProtKB:  Q07X94 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q07X94 | ||||
Sequence AnnotationsExpand | |||||
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Ligands 3 Unique | |||||
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ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
GOL Query on GOL | N [auth D], Q [auth E] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N | |||
NI Query on NI | F [auth A], H [auth B], J [auth C], L [auth D], O [auth E] | NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N | |||
UNL Query on UNL | G [auth A], I [auth B], K [auth C], M [auth D], P [auth E] | Unknown ligand VEQPNABPJHWNSG-UHFFFAOYSA-N |
Modified Residues 1 Unique | |||||
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ID | Chains | Type | Formula | 2D Diagram | Parent |
MSE Query on MSE | A, B, C, D, E | L-PEPTIDE LINKING | C5 H11 N O2 Se | MET |
Length ( Å ) | Angle ( ˚ ) |
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a = 56.92 | α = 90 |
b = 95.14 | β = 90 |
c = 237.37 | γ = 90 |
Software Name | Purpose |
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REFMAC | refinement |
PHENIX | refinement |
SHELX | phasing |
MolProbity | model building |
XSCALE | data scaling |
PDB_EXTRACT | data extraction |
XDS | data reduction |
SHELXD | phasing |
autoSHARP | phasing |