7T1W

Crystal structure of human Fab A194-01 in complex with its synthetic tetrasaccharide Ara4 epitope (BSI110886)

PDB DOI: https://doi.org/10.2210/pdb7T1W/pdb

Classification: IMMUNE SYSTEM
Organism(s): Homo sapiens
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2021-12-02 Released: 2022-12-07
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free: 0.218
R-Value Work: 0.168
R-Value Observed: 0.169

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Crystal structure of human Fab A194-01 in complex with its synthetic tetrasaccharide Ara4 epitope (BSI110886)

Abendroth, J., Dranow, D.M., Pinter, A., Choudhary, A., Honnen, W.J., Lowary, T., Horanyi, P.S., Lorimer, D.D., Edwards, T.E.

To be published.

Macromolecule Content

Total Structure Weight: 242.91 kDa
Atom Count: 17,570
Modelled Residue Count: 2,146
Deposited Residue Count: 2,205
Unique protein chains: 2

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab A194-01 heavy chain	A [auth H], C [auth H2], E [auth H3], G [auth H4], I [auth H5]	228	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab A194-01 light chain	B [auth L], D [auth L2], F [auth L3], H [auth L4], J [auth L5]	213	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

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Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-arabinofuranose-(1-2)-alpha-D-arabinofuranose-(1-5)-alpha-D-arabinofuranose-(1-5)-alpha-D-arabinofuranose	K [auth A], L [auth B], M [auth C], N [auth D], O [auth E]	4	N/A	N/A	Interactions Focus chain K [auth A] Focus chain L [auth B] Focus chain M [auth C] Focus chain N [auth D] Focus chain O [auth E] Interactions & Density Focus chain K [auth A] Focus chain L [auth B] Focus chain M [auth C] Focus chain N [auth D] Focus chain O [auth E]
Glycosylation Resources
GlyTouCan: G04816FL GlyCosmos: G04816FL

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CIT Query on CIT Download Ideal Coordinates CCD File SDF format, chain AA [auth L4] MOL2 format, chain AA [auth L4]	AA [auth L4]	CITRIC ACID C₆ H₈ O₇ KRKNYBCHXYNGOX-UHFFFAOYSA-N		Interactions Focus chain AA [auth L4] Interactions & Density Focus chain AA [auth L4]
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain BA [auth L4] SDF format, chain CA [auth H5] SDF format, chain P [auth H] SDF format, chain Q [auth H] SDF format, chain R [auth L] SDF format, chain S [auth H2] SDF format, chain T [auth H2] SDF format, chain U [auth H3] SDF format, chain V [auth H3] SDF format, chain W [auth L3] SDF format, chain X [auth L3] SDF format, chain Y [auth H4] SDF format, chain Z [auth H4] MOL2 format, chain BA [auth L4] MOL2 format, chain CA [auth H5] MOL2 format, chain P [auth H] MOL2 format, chain Q [auth H] MOL2 format, chain R [auth L] MOL2 format, chain S [auth H2] MOL2 format, chain T [auth H2] MOL2 format, chain U [auth H3] MOL2 format, chain V [auth H3] MOL2 format, chain W [auth L3] MOL2 format, chain X [auth L3] MOL2 format, chain Y [auth H4] MOL2 format, chain Z [auth H4]	BA [auth L4] CA [auth H5] P [auth H] Q [auth H] R [auth L] BA [auth L4], CA [auth H5], P [auth H], Q [auth H], R [auth L], S [auth H2], T [auth H2], U [auth H3], V [auth H3], W [auth L3], X [auth L3], Y [auth H4], Z [auth H4]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain BA [auth L4] Focus chain CA [auth H5] Focus chain P [auth H] Focus chain Q [auth H] Focus chain R [auth L] Focus chain S [auth H2] Focus chain T [auth H2] Focus chain U [auth H3] Focus chain V [auth H3] Focus chain W [auth L3] Focus chain X [auth L3] Focus chain Y [auth H4] Focus chain Z [auth H4] Interactions & Density Focus chain BA [auth L4] Focus chain CA [auth H5] Focus chain P [auth H] Focus chain Q [auth H] Focus chain R [auth L] Focus chain S [auth H2] Focus chain T [auth H2] Focus chain U [auth H3] Focus chain V [auth H3] Focus chain W [auth L3] Focus chain X [auth L3] Focus chain Y [auth H4] Focus chain Z [auth H4]