Short stretch sequence of a milk oligosaccharide transporter represents the phenotypic selection trajectory in infant gut microbiome
Sakanaka, M., Sato, M., Fushinobu, S., Katayama, T.To be published.
Experimental Data Snapshot
Starting Model: experimental
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wwPDB Validation   3D Report Full Report
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Extracellular solute-binding protein, family 1 | 411 | Bifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222 = DSM 20088 | Mutation(s): 0  Gene Names: Blon_2177 | ![]() | |
UniProt | |||||
Find proteins for B7GN82 (Bifidobacterium longum subsp. infantis (strain ATCC 15697 / DSM 20088 / JCM 1222 / NCTC 11817 / S12)) Explore B7GN82  Go to UniProtKB:  B7GN82 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | B7GN82 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 2 | |||||
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Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-beta-D-galactopyranose-(1-4)-beta-D-glucopyranose | E, F, G, H | 4 | N/A | ||
Glycosylation Resources | |||||
GlyTouCan:  G00049MO GlyCosmos:  G00049MO GlyGen:  G00049MO |
Ligands 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
SO4 Query on SO4 | I [auth A], J [auth B], K [auth B], L [auth C], M [auth D] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 39.138 | α = 97.41 |
b = 84.381 | β = 92.25 |
c = 106.688 | γ = 89.92 |
Software Name | Purpose |
---|---|
REFMAC | refinement |
PDB_EXTRACT | data extraction |
XDS | data reduction |
Aimless | data scaling |
MOLREP | phasing |
Funding Organization | Location | Grant Number |
---|---|---|
Japan Society for the Promotion of Science (JSPS) | 18K14379 | |
Japan Society for the Promotion of Science (JSPS) | 17K19231 | |
Japan Society for the Promotion of Science (JSPS) | 21H02116 |