8BLP

Human Urea Transporter UT-B/UT1 in Complex with Inhibitor UTBinh-14


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural characterization of human urea transporters UT-A and UT-B and their inhibition.

Chi, G.Dietz, L.Tang, H.Snee, M.Scacioc, A.Wang, D.Mckinley, G.Mukhopadhyay, S.M.M.Pike, A.C.W.Chalk, R.Burgess-Brown, N.A.Timmermans, J.P.van Putte, W.Robinson, C.V.Durr, K.L.

(2023) Sci Adv 9: eadg8229-eadg8229

  • DOI: https://doi.org/10.1126/sciadv.adg8229
  • Primary Citation of Related Structures:  
    8BLO, 8BLP

  • PubMed Abstract: 

    In this study, we present the structures of human urea transporters UT-A and UT-B to characterize them at molecular level and to detail the mechanism of UT-B inhibition by its selective inhibitor, UTB inh -14. High-resolution structures of both transporters establish the structural basis for the inhibitor's selectivity to UT-B, and the identification of multiple binding sites for the inhibitor will aid with the development of drug lead molecules targeting both transporters. Our study also discovers phospholipids associating with the urea transporters by combining structural observations, native MS, and lipidomics analysis. These insights improve our understanding of urea transporter function at a molecular level and provide a blueprint for a structure-guided design of therapeutics targeting these transporters.


  • Organizational Affiliation

    Structural Genomics Consortium, Nuffield Department of Medicine, University of Oxford, Roosevelt Drive, Oxford OX3 7DQ, UK.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Urea transporter 1
A, B, C
367Homo sapiensMutation(s): 1 
Gene Names: SLC14A1HUT11JKRACH1UT1UTE
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for Q13336 (Homo sapiens)
Explore Q13336 
Go to UniProtKB:  Q13336
PHAROS:  Q13336
GTEx:  ENSG00000141469 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13336
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PTY
Query on PTY

Download Ideal Coordinates CCD File 
BA [auth B]
D [auth A]
DB [auth C]
HA [auth B]
J [auth A]
BA [auth B],
D [auth A],
DB [auth C],
HA [auth B],
J [auth A],
XA [auth C]
PHOSPHATIDYLETHANOLAMINE
C40 H80 N O8 P
NJGIRBISCGPRPF-KXQOOQHDSA-N
LMT
Query on LMT

Download Ideal Coordinates CCD File 
AA [auth B]
AB [auth C]
BB [auth C]
CA [auth B]
CB [auth C]
AA [auth B],
AB [auth C],
BB [auth C],
CA [auth B],
CB [auth C],
DA [auth B],
E [auth A],
EA [auth B],
EB [auth C],
F [auth A],
FA [auth B],
FB [auth C],
G [auth A],
GA [auth B],
GB [auth C],
H [auth A],
HB [auth C],
I [auth A],
IA [auth B],
IB [auth C],
JA [auth B],
JB [auth C],
K [auth A],
KA [auth B],
KB [auth C],
L [auth A],
LA [auth B],
LB [auth C],
M [auth A],
MA [auth B],
MB [auth C],
N [auth A],
NA [auth B],
NB [auth C],
O [auth A],
OA [auth B],
OB [auth C],
P [auth A],
PA [auth B],
Q [auth A],
QA [auth B],
R [auth A],
RA [auth B],
S [auth A],
SA [auth B],
T [auth A],
U [auth A],
WA [auth C],
Y [auth A],
YA [auth C],
ZA [auth C]
DODECYL-BETA-D-MALTOSIDE
C24 H46 O11
NLEBIOOXCVAHBD-QKMCSOCLSA-N
Y01
Query on Y01

Download Ideal Coordinates CCD File 
VA [auth C],
X [auth A],
Z [auth B]
CHOLESTEROL HEMISUCCINATE
C31 H50 O4
WLNARFZDISHUGS-MIXBDBMTSA-N
5D3 (Subject of Investigation/LOI)
Query on 5D3

Download Ideal Coordinates CCD File 
PB [auth C]
QB [auth C]
TA [auth B]
UA [auth B]
V [auth A]
PB [auth C],
QB [auth C],
TA [auth B],
UA [auth B],
V [auth A],
W [auth A]
10-(4-ethylphenyl)sulfonyl-~{N}-(thiophen-2-ylmethyl)-5-thia-1,8,11,12-tetrazatricyclo[7.3.0.0^{2,6}]dodeca-2(6),3,7,9,11-pentaen-7-amine
C20 H17 N5 O2 S3
UYFZCWXRMHSLTC-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC
MODEL REFINEMENTPHENIX
MODEL REFINEMENTCoot

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Wellcome TrustUnited Kingdom106169/Z//14/Z

Revision History  (Full details and data files)

  • Version 1.0: 2023-10-04
    Type: Initial release
  • Version 1.1: 2023-10-11
    Changes: Database references, Source and taxonomy