Evidence map›Paper›PMID 28506671›Full record

ArticleJournal of molecular graphics & modelling2017

Modeling of flux, binding and substitution of urea molecules in the urea transporter dvUT.

Hai-Tian Zhang, Zhe Wang, Tao Yu, Jian-Ping Sang, Xian-Wu Zou, Xiaoqin Zou

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Journal of molecular graphics & modelling, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
0.1field-weighted citation impact, top 50% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

4 citing papers in PubMed, 5 citations in OpenAlex.

  1. Protein Structures of Urea Transporters.Sub-cellular biochemistry · 2025
    Review
  2. Transport Characteristics of Urea Transporters.Sub-cellular biochemistry · 2025
    Review
  3. Article
  4. Urea-aromatic interactions in biology.Biophysical reviews · 2020
    Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors at 3 institutions in 2 countries.

Hai-Tian ZhangDepartment of Physics, Wuhan University, Wuhan 430072, China.
Zhe WangDepartment of Physics, Wuhan University, Wuhan 430072, China; Department of Physics and Department of Medical Imaging, Jianghan University, Wuhan 430056, China.
Tao YuDepartment of Physics, Wuhan University, Wuhan 430072, China; Department of Physics and Department of Medical Imaging, Jianghan University, Wuhan 430056, China.
Jian-Ping SangDepartment of Physics, Wuhan University, Wuhan 430072, China; Department of Physics and Department of Medical Imaging, Jianghan University, Wuhan 430056, China. Electronic address: jianping.sang@gmail.com.
Xian-Wu ZouDepartment of Physics, Wuhan University, Wuhan 430072, China.
Xiaoqin ZouDalton Cardiovascular Research Center, Department of Physics and Astronomy, Department of Biochemistry and Informatics Institute, University of Missouri, Columbia, MO 65211, United States. Electronic address: zoux@missouri.edu.
Jianghan University · CNWuhan University · CNUniversity of Missouri · US

Funding

Database and software development for protein-nucleic acid structure predicationR01GM109980 · NIGMS · UNIVERSITY OF MISSOURI-COLUMBIA · PI ZOU, XIAOQIN · 2015 to 2019
$1.5M
NIGMS NIH HHS R01 GM109980
6 · The paper itself

Abstract

Urea transporters (UTs) are transmembrane proteins that transport urea molecules across cell membranes and play a crucial role in urea excretion and water balance. Modeling the functional characteristics of UTs helps us understand how their structures accomplish the functions at the atomic level, and facilitates future therapeutic design targeting the UTs. This study was based on the crystal structure of Desulfovibrio vulgaris urea transporter (dvUT). To model the binding behavior of urea molecules in dvUT, we constructed a cooperative binding model. To model the substitution of urea by the urea analogue N,N'-dimethylurea (DMU) in dvUT, we calculated the occupation probability of DMU along the urea pore and the ratio of the occupation probabilities of DMU at the external (S

Indexed as

Models, MolecularMolecular ConformationMonte Carlo MethodBinding SitesMembrane Transport ProteinsMolecular Dynamics SimulationProtein BindingSolutionsUreaUrea TransportersMembrane Transport ProteinsSolutionsUreaUrea TransportersMembrane proteinsMolecular dynamics simulationsMolecular modelingMonte Carlo methodsUrea transporter

Identifiers

PMID28506671
PMCPMC5685562
OpenAlexW2609180006

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.