6FAK
Human afamin orthorhombic crystal form by controlled hydration
- PDB DOI: https://doi.org/10.2210/pdb6FAK/pdb
- Classification: TRANSPORT PROTEIN
- Organism(s): Homo sapiens
- Expression System: Spodoptera frugiperda
- Mutation(s): No 
- Deposited: 2017-12-15 Released: 2019-01-02 
- Funding Organization(s): Austrian Science Fund
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.219 
- R-Value Work: 0.177 
- R-Value Observed: 0.179 
This is version 2.2 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Afamin | 586 | Homo sapiens | Mutation(s): 0  Gene Names: AFM, ALB2, ALBA | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P43652 (Homo sapiens) Explore P43652  Go to UniProtKB:  P43652 | |||||
PHAROS:  P43652 GTEx:  ENSG00000079557  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P43652 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 10 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
P6G Query on P6G | H [auth A], I [auth A] | HEXAETHYLENE GLYCOL C12 H26 O7 IIRDTKBZINWQAW-UHFFFAOYSA-N | |||
PG6 Query on PG6 | R [auth A] | 1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]-ETHOXY}-ETHANE C12 H26 O6 DMDPGPKXQDIQQG-UHFFFAOYSA-N | |||
NAG Query on NAG | C [auth A], D [auth A] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
PG4 Query on PG4 | J [auth A], K [auth A] | TETRAETHYLENE GLYCOL C8 H18 O5 UWHCKJMYHZGTIT-UHFFFAOYSA-N | |||
PGE Query on PGE | L [auth A], M [auth A] | TRIETHYLENE GLYCOL C6 H14 O4 ZIBGPFATKBEMQZ-UHFFFAOYSA-N | |||
PEG Query on PEG | N [auth A], O [auth A], P [auth A], Q [auth A] | DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N | |||
EDO Query on EDO | S [auth A], T [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N | |||
ACT Query on ACT | G [auth A] | ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M | |||
CL Query on CL | E [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M | |||
NA Query on NA | F [auth A] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.219 
- R-Value Work: 0.177 
- R-Value Observed: 0.179 
- Space Group: P 21 21 2
- Diffraction Data: https://doi.org/10.15151/ESRF-DC-142915526
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 109.773 | α = 90 |
b = 113.325 | β = 90 |
c = 48.796 | γ = 90 |
Software Name | Purpose |
---|---|
REFMAC | refinement |
autoPROC | data collection |
EDNA | data collection |
XSCALE | data scaling |
pointless | data scaling |
BALBES | phasing |
ARP/wARP | model building |
XDS | data reduction |
Entry History & Funding Information
Deposition Data
- Released Date: 2019-01-02  Deposition Author(s): Rupp, B., Naschberger, A., Bowler, M.W.
Funding Organization | Location | Grant Number |
---|---|---|
Austrian Science Fund | Austria | P28395-B26 |
Revision History (Full details and data files)
- Version 1.0: 2019-01-02
Type: Initial release - Version 1.1: 2019-01-30
Changes: Data collection, Database references, Structure summary - Version 1.2: 2019-12-25
Changes: Database references - Version 1.3: 2020-07-08
Changes: Data collection - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Refinement description, Structure summary - Version 2.1: 2023-05-31
Changes: Database references, Structure summary - Version 2.2: 2024-02-07
Changes: Data collection, Refinement description