7Y0Y

Crystal structure of Pseudomonas aeruginosa PvrA (SeMet)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.09 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.203 
  • R-Value Observed: 0.206 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Regulatory and structural mechanisms of PvrA-mediated regulation of the PQS quorum-sensing system and PHA biosynthesis in Pseudomonas aeruginosa.

Pan, X.Liang, H.Zhao, X.Zhang, Q.Chen, L.Yue, Z.Yin, L.Jin, Y.Bai, F.Cheng, Z.Bartlam, M.Wu, W.

(2023) Nucleic Acids Res 51: 2691-2708

  • DOI: https://doi.org/10.1093/nar/gkad059
  • Primary Citation of Related Structures:  
    7Y0Y, 7Y0Z, 8HJB

  • PubMed Abstract: 

    Pseudomonas aeruginosa is capable of causing acute and chronic infections in various host tissues, which depends on its abilities to effectively utilize host-derived nutrients and produce protein virulence factors and toxic compounds. However, the regulatory mechanisms that direct metabolic intermediates towards production of toxic compounds are poorly understood. We previously identified a regulatory protein PvrA that controls genes involved in fatty acid catabolism by binding to palmitoyl-coenzyme A (CoA). In this study, transcriptomic analyses revealed that PvrA activates the Pseudomonas quinolone signal (PQS) synthesis genes, while suppressing genes for production of polyhydroxyalkanoates (PHAs). When palmitic acid was the sole carbon source, mutation of pvrA reduced production of pyocyanin and rhamnolipids due to defective PQS synthesis, but increased PHA production. We further solved the co-crystal structure of PvrA with palmitoyl-CoA and identified palmitoyl-CoA-binding residues. By using pvrA mutants, we verified the roles of the key palmitoyl-CoA-binding residues in gene regulation in response to palmitic acid. Since the PQS signal molecules, rhamnolipids and PHA synthesis pathways are interconnected by common metabolic intermediates, our results revealed a regulatory mechanism that directs carbon flux from carbon/energy storage to virulence factor production, which might be crucial for the pathogenesis.


  • Organizational Affiliation

    State Key Laboratory of Medicinal Chemical Biology, Key Laboratory of Molecular Microbiology and Technology of the Ministry of Education, Department of Microbiology, College of Life Sciences, Nankai University, Tianjin 300071, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
TetR family transcriptional regulator
A, B
212Pseudomonas aeruginosa PA14Mutation(s): 0 
Gene Names: 
icaRacrR5ALP65_03124CAZ10_04505CGU42_03525DT376_07795E4V10_02875E5D53_14345E5Z62_27065E5Z63_21855ECC04_004205GNQ48_10480GUL26_15740I5R60_12040IPC111_05370IPC112_03820IPC113_08970IPC114_03665IPC115_09445IPC116_12905IPC117_01270IPC118_17205IPC119_01270IPC120_08585IPC121_23995IPC122_26595IPC123_13615IPC124_02210IPC125_02280IPC126_02280IPC127_05520IPC128_06500IPC1295_02635IPC129_03385IPC1306_00820IPC1307_00820IPC1308_01765IPC1309_01210IPC130_08705IPC1310_20400IPC1311_11055IPC1312_02745IPC1313_02755IPC1314_15055IPC1315_11085IPC1316_09415IPC1317_01215IPC1318_08785IPC1319_16990IPC1320_09215IPC1321_10825IPC1322_14910IPC1323_13890IPC1324_14335IPC1325_12685IPC1326_14415IPC1327_16075IPC1328_07000IPC1329_01215IPC1330_16860IPC1331_06735IPC1332_10900IPC1333_03260IPC1334_14490IPC1335_10585IPC1336_15040IPC1337_11350IPC1338_07490IPC1339_12735IPC133_10855IPC1340_11790IPC1341_07510IPC1343_06380IPC1345_02745IPC1346_05675IPC1347_08485IPC1348_02755IPC135_13200IPC137_03780IPC139_12105IPC140_07630IPC141_12315IPC142_09710IPC143_09875IPC144_01055IPC145_06115IPC146_01055IPC1474_02190IPC1476_02860IPC1477_06410IPC1478_01690IPC1479_15185IPC147_12070IPC1480_15440IPC1481_17805IPC1482_05515IPC1485_13825IPC1486_09235IPC1487_00765IPC1488_16575IPC1489_12290IPC148_02075IPC1490_02470IPC1491_06190IPC1492_03585IPC1494_03000IPC1495_01665IPC1496_14865IPC1498_10560IPC1499_14860IPC149_01055IPC1500_06750IPC1501_01215IPC1502_04040IPC1503_01000IPC1504_01010IPC1505_13480IPC1506_19460IPC1507_05060IPC1508_10550IPC1509_14550IPC150_14460IPC1510_04225IPC1511_01525IPC1512_05030IPC1513_22270IPC1514_18185IPC1515_18905IPC1516_01320IPC1517_01215IPC1518_08030IPC1519_12340IPC151_11775IPC1521_13560IPC1522_02390IPC1523_03605IPC152_09635IPC153_04910IPC154_07450IPC155_07400IPC156_02990IPC157_08570IPC1583_10080IPC1584_12220IPC1585_11335IPC1586_07330IPC1587_13810IPC1588_10025IPC1589_02490IPC158_07390IPC1590_14970IPC1591_08460IPC1592_11095IPC1593_06830IPC1594_02990IPC1595_05665IPC1596_09440IPC1597_09495IPC1598_01980IPC1599_03005IPC159_07400IPC1600_16790IPC1601_10780IPC1602_17245IPC1603_14770IPC1604_01745IPC1605_05455IPC1606_04825IPC161_09520IPC162_09880IPC163_03825IPC164_08560IPC165_03825IPC166_05525IPC167_03825IPC168_20130IPC169_03825IPC170_08560IPC171_16450IPC172_15260IPC173_20475IPC174_05820IPC175_12970IPC176_11725IPC177_13080IPC178_01215IPC179_15480IPC180_10155IPC181_09045IPC182_05375IPC183_01060IPC184_02640IPC26_07870IPC27_04050IPC29_17535IPC30_01380IPC31_02185IPC32_00905IPC33_21820IPC34_13495IPC35_15445IPC36_13480IPC37_01140IPC38_16530IPC40_08710IPC41_10575IPC43_07930IPC44_14575IPC45_08060IPC46_02025IPC47_11200IPC48_15175IPC49_11615IPC50_04955IPC51_01915IPC54_02210IPC55_06500IPC56_01915IPC574_11290IPC575_06730IPC576_12370IPC577_07725IPC578_12535IPC579_11730IPC57_03340IPC580_07720IPC582_13065IPC584_08355IPC586_12520IPC589_07695IPC58_10915IPC596_01285IPC597_08195IPC598_11110IPC599_01285IPC59_19445IPC600_01285IPC601_01280IPC602_01290IPC603_06120IPC604_07295IPC605_06295IPC606_06290IPC607_14040IPC608_02370IPC609_06890IPC60_16485IPC610_02370IPC611_13025IPC612_10375IPC613_14130IPC614_05225IPC615_06015IPC616_11575IPC618_14040IPC61_02375IPC620_19310IPC621_07445IPC622_01280IPC623_18790IPC624_15950IPC625_01405IPC627_01290IPC629_01405IPC630_01280IPC632_13255IPC633_07865IPC634_11935IPC64_06515IPC65_26010IPC66_09965IPC67_22660IPC68_12530IPC70_06620IPC71_07610IPC72_11155IPC73_14695IPC74_10485IPC75_09820IPC76_12790IPC77_07455IPC78_07465NCTC13621_02839PA52Ts2_4326PAMH19_2113

UniProt
Find proteins for A0A0H2ZBS8 (Pseudomonas aeruginosa (strain UCBPP-PA14))
Explore A0A0H2ZBS8 
Go to UniProtKB:  A0A0H2ZBS8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0H2ZBS8
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.09 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.203 
  • R-Value Observed: 0.206 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 93.026α = 90
b = 97.609β = 90
c = 105.443γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
AutoSolphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31870053
Ministry of Science and Technology (MoST, China)China2020YFC1807000

Revision History  (Full details and data files)

  • Version 1.0: 2023-02-08
    Type: Initial release
  • Version 1.1: 2023-08-02
    Changes: Database references