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Crystal structure of thermospermine synthase from Medicago truncatula and substrate discriminatory features of plant aminopropyltransferases

https://doi.org/10.1042/bcj20170900

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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UCSF Chimera—A visualization system for exploratory research and analysis

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PROMOTIF—A program to identify and analyze structural motifs in proteins

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Structure validation by Cα geometry: ϕ,ψ and Cβ deviation

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HingeProt: Automated prediction of hinges in protein structures

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The Polymerase Incomplete Primer Extension (PIPE) Method Applied to High-Throughput Cloning and Site-Directed Mutagenesis

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Spermine Promotes Acclimation to Osmotic Stress by Modifying Antioxidant, Abscisic Acid, and Jasmonic Acid Signals in Soybean

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The roles of polyamines during the lifespan of plants: from development to stress

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Exogenous application of free polyamines enhance salt tolerance of pistachio (Pistacia vera L.) seedlings

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Spermidine pretreatment enhances heat tolerance in rice seedlings through modulating antioxidative and glyoxalase systems

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Overexpression of PtADC confers enhanced dehydration and drought tolerance in transgenic tobacco and tomato: Effect on ROS elimination

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Modulation of cellular function by polyamines

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Cloning, expression, characterisation and three‐dimensional structure determination of Caenorhabditis elegans spermidine synthase

inferredcites →https://doi.org/10.1016/j.febslet.2007.05.074openalex-snapshot

Putative spermine synthases from Thalassiosira pseudonana and Arabidopsis thaliana synthesize thermospermine rather than spermine

inferredcites →https://doi.org/10.1016/j.jmb.2007.05.022openalex-snapshot

Inference of Macromolecular Assemblies from Crystalline State

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Crystal Structure of Plasmodium falciparum Spermidine Synthase in Complex with the Substrate Decarboxylated S-adenosylmethionine and the Potent Inhibitors 4MCHA and AdoDATO

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Crystal Structures and Enzymatic Properties of a Triamine/Agmatine Aminopropyltransferase from Thermus thermophilus

inferredcites →https://doi.org/10.1016/j.jsb.2009.12.024openalex-snapshot

The crystal structure of Escherichia coli spermidine synthase SpeE reveals a unique substrate-binding pocket

inferredcites →https://doi.org/10.1016/j.phytochem.2014.12.021openalex-snapshot

Deciphering the protective role of spermidine against saline–alkaline stress at physiological and proteomic levels in tomato

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Putrescine accumulation confers drought tolerance in transgenic Arabidopsis plants over-expressing the homologous Arginine decarboxylase 2 gene

inferredcites →https://doi.org/10.1016/j.plaphy.2010.02.008openalex-snapshot

Polyamine biosynthetic diversity in plants and algae

inferredcites →https://doi.org/10.1016/j.ymeth.2011.07.010openalex-snapshot

High-throughput protein purification and quality assessment for crystallization

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Restoring Low Resolution Structure of Biological Macromolecules from Solution Scattering Using Simulated Annealing

inferredcites →https://doi.org/10.1016/s0021-9258(20)79698-5openalex-snapshot

Mechanism of propylamine-transfer reactions. Kinetic and inhibition studies on spermidine synthase from Escherichia coli.

inferredcites →https://doi.org/10.1016/s0076-6879(03)74014-2openalex-snapshot

Macromolecular TLS Refinement in REFMAC at Moderate Resolutions

inferredcites →https://doi.org/10.1016/s0076-6879(97)76066-xopenalex-snapshot

[20] Processing of X-ray diffraction data collected in oscillation mode

inferredcites →https://doi.org/10.1021/bi602498kopenalex-snapshot

Structure and Mechanism of Spermidine Synthases

inferredcites →https://doi.org/10.1038/355472a0openalex-snapshot

Free R value: a novel statistical quantity for assessing the accuracy of crystal structures

inferredcites →https://doi.org/10.1038/nature10625openalex-snapshot

The Medicago genome provides insight into the evolution of rhizobial symbioses

inferredcites →https://doi.org/10.1038/nsb737openalex-snapshot

The crystal structure of spermidine synthase with a multisubstrate adduct inhibitor

inferredcites →https://doi.org/10.1042/bcj20160185openalex-snapshot

Biosynthesis of polyamines and polyamine-containing molecules

inferredcites →https://doi.org/10.1042/bcj20160823openalex-snapshot

Evolution of biosynthetic diversity

inferredcites →https://doi.org/10.1042/bj1870419openalex-snapshot

Studies of inhibition of rat spermidine synthase and spermine synthase

inferredcites →https://doi.org/10.1046/j.1365-313x.1997.12040863.xopenalex-snapshot

ACL5: an Arabidopsis gene required for internodal elongation after flowering

inferredcites →https://doi.org/10.1046/j.1365-313x.2001.01100.xopenalex-snapshot

Arabidopsis polyamine biosynthesis: absence of ornithine decarboxylase and the mechanism of arginine decarboxylase activity

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A fluorimetric method for the estimation of G + C mol% content in microorganisms by thermal denaturation temperature

inferredcites →https://doi.org/10.1073/pnas.0306974101openalex-snapshot

Modulation of the polyamine biosynthetic pathway in transgenic rice confers tolerance to drought stress

inferredcites →https://doi.org/10.1074/jbc.m413332200openalex-snapshot

N1-Aminopropylagmatine, a New Polyamine Produced as a Key Intermediate in Polyamine Biosynthesis of an Extreme Thermophile, Thermus thermophilus

inferredcites →https://doi.org/10.1074/jbc.m710323200openalex-snapshot

Crystal Structure of Human Spermine Synthase

inferredcites →https://doi.org/10.1093/emboj/19.16.4248openalex-snapshot

ACAULIS5, an Arabidopsis gene required for stem elongation, encodes a spermine synthase

inferredcites →https://doi.org/10.1093/jxb/erl018openalex-snapshot

Polyamine biosynthesis of apple callus under salt stress: importance of the arginine decarboxylase pathway in stress response

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Polyamines cause plasma membrane depolarization, activate Ca2+-, and modulate H+-ATPase pump activity in pea roots

inferredcites →https://doi.org/10.1093/molbev/msw054openalex-snapshot

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

inferredcites →https://doi.org/10.1093/nar/22.22.4673openalex-snapshot

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

inferredcites →https://doi.org/10.1093/nar/gkh340openalex-snapshot

MUSCLE: multiple sequence alignment with high accuracy and high throughput

inferredcites →https://doi.org/10.1093/nar/gkt940openalex-snapshot

PDBsum additions

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InterPro in 2017—beyond protein family and domain annotations

inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040454openalex-snapshot

The neighbor-joining method: a new method for reconstructing phylogenetic trees.

inferredcites →https://doi.org/10.1093/pcp/pcn109openalex-snapshot

Thermospermine is Required for Stem Elongation in Arabidopsis thaliana

inferredcites →https://doi.org/10.1093/pcp/pcs019openalex-snapshot

Thermospermine is Not a Minor Polyamine in the Plant Kingdom

inferredcites →https://doi.org/10.1101/gr.849004openalex-snapshot

WebLogo: A Sequence Logo Generator: Figure 1

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Automated matching of high- and low-resolution structural models

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Uniqueness of ab initio shape determination in small-angle scattering

inferredcites →https://doi.org/10.1107/s0021889803012779openalex-snapshot

PRIMUS: a Windows PC-based system for small-angle scattering data analysis

inferredcites →https://doi.org/10.1107/s0021889807021206openalex-snapshot

Phaser crystallographic software

inferredcites →https://doi.org/10.1107/s0021889809000338openalex-snapshot

DAMMIF , a program for rapid ab-initio shape determination in small-angle scattering

inferredcites →https://doi.org/10.1107/s0021889812007662openalex-snapshot

New developments in the ATSAS program package for small-angle scattering data analysis

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Determination of the regularization parameter in indirect-transform methods using perceptual criteria

inferredcites →https://doi.org/10.1107/s0021889892009944openalex-snapshot

PROCHECK: a program to check the stereochemical quality of protein structures

inferredcites →https://doi.org/10.1107/s0907444900014736openalex-snapshot

Use of TLS parameters to model anisotropic displacements in macromolecular refinement

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Iterative model building, structure refinement and density modification with thePHENIX AutoBuildwizard

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MolProbity : all-atom structure validation for macromolecular crystallography

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XDS

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Features and development of Coot

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Overview of the CCP 4 suite and current developments

inferredcites →https://doi.org/10.1107/s0907444911001314openalex-snapshot

REFMAC 5 for the refinement of macromolecular crystal structures

inferredcites →https://doi.org/10.1107/s0909049504016760openalex-snapshot

The BioCAT undulator beamline 18ID: a facility for biological non-crystalline diffraction and X-ray absorption spectroscopy at the Advanced Photon Source

inferredcites →https://doi.org/10.1111/febs.14262openalex-snapshot

Active site geometry of a novel aminopropyltransferase for biosynthesis of hyperthermophile‐specific branched‐chain polyamine

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Silicon‐mediated changes in polyamines participate in silicon‐induced salt tolerance in S orghum bicolor L .

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Dual Biosynthesis Pathway for Longer-Chain Polyamines in the Hyperthermophilic Archaeon Thermococcus kodakarensis

inferredcites →https://doi.org/10.1371/journal.pone.0046907openalex-snapshot

Aminopropyltransferases Involved in Polyamine Biosynthesis Localize Preferentially in the Nucleus of Plant Cells

inferredcites →https://doi.org/10.14601/phytopathol_mediterr-14998u1.29openalex-snapshot

BIOEDIT: A USER-FRIENDLY BIOLOGICAL SEQUENCE ALIGNMENT EDITOR AND ANALYSIS PROGRAM FOR WINDOWS 95/98/ NT

inferredcites →https://doi.org/10.3389/fpls.2014.00095openalex-snapshot

Physiological and molecular implications of plant polyamine metabolism during biotic interactions

inferredcites →https://doi.org/10.3389/fpls.2014.00154openalex-snapshot

Polyamines control of cation transport across plant membranes: implications for ion homeostasis and abiotic stress signaling

inferredcites →https://doi.org/10.3389/fpls.2014.00175openalex-snapshot

Polyamines and abiotic stress in plants: a complex relationship1

inferredcites →https://doi.org/10.3389/fpls.2015.00827openalex-snapshot

Polyamines function in stress tolerance: from synthesis to regulation

inferredcites →https://doi.org/10.3389/fpls.2016.00350openalex-snapshot

Structural Investigations of N-carbamoylputrescine Amidohydrolase from Medicago truncatula: Insights into the Ultimate Step of Putrescine Biosynthesis in Plants

inferredcites →https://doi.org/10.4161/psb.5.1.10291openalex-snapshot

Polyamines and abiotic stress tolerance in plants

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.2139/ssrn.4670676openalex-extracted

Rational Engineering of Homospermidine Synthase for Enhanced Catalytic Efficiency Toward Spermidine Synthesis

inferred← citeshttps://doi.org/10.1002/ejoc.202000322openalex-snapshot

Chemical Synthesis and Biological Effect on Xylem Formation of Xylemin and Its Analogues

inferred← citeshttps://doi.org/10.1007/s00726-026-03533-1openalex-snapshot

Dual functions of thermospermine in plant growth and stress responses

inferred← citeshttps://doi.org/10.1007/s10811-026-03913-wopenalex-snapshot

Comprehensive qualitative and quantitative analysis of three main polyamines in Pyropia spp. (Rhodophyta): method establishment, optimization and validation

inferred← citeshttps://doi.org/10.1016/j.ijbiomac.2020.02.100openalex-snapshot

S-adenosylmethionine synthases in plants: Structural characterization of type I and II isoenzymes from Arabidopsis thaliana and Medicago truncatula

inferred← citeshttps://doi.org/10.1016/j.jbc.2024.107281openalex-snapshot

Functional identification of bacterial spermine, thermospermine, norspermine, norspermidine, spermidine, and N1-aminopropylagmatine synthases

inferred← citeshttps://doi.org/10.1016/j.scitotenv.2018.06.168openalex-snapshot

Differential expression of proteins in the leaves and roots of cadmium-stressed Microsorum pteropus, a novel potential aquatic cadmium hyperaccumulator

inferred← citeshttps://doi.org/10.1016/j.synbio.2024.04.012openalex-snapshot

Rational engineering of homospermidine synthase for enhanced catalytic efficiency toward spermidine synthesis

inferred← citeshttps://doi.org/10.1111/nph.19733openalex-snapshot

ACL5 acquired strict thermospermine synthesis activity during the emergence of vascular plants

inferred← citeshttps://doi.org/10.1146/annurev-arplant-070623-110056openalex-snapshot

Polyamines: Their Role in Plant Development and Stress

inferred← citeshttps://doi.org/10.1271/kagakutoseibutsu.59.290openalex-snapshot

Metabolism and Function of Plant Polyamines: One of the Most Versatile Compounds in Plant Cells

inferred← citeshttps://doi.org/10.3389/fpls.2018.00876openalex-snapshot

Structural Analysis of Phosphoserine Aminotransferase (Isoform 1) From Arabidopsis thaliana– the Enzyme Involved in the Phosphorylated Pathway of Serine Biosynthesis

inferred← citeshttps://doi.org/10.3389/fpls.2019.00320openalex-snapshot

Structural Study of Agmatine Iminohydrolase From Medicago truncatula, the Second Enzyme of the Agmatine Route of Putrescine Biosynthesis in Plants

inferred← citeshttps://doi.org/10.3389/fpls.2019.00555openalex-snapshot

Spermidine Synthase (SPDS) Undergoes Concerted Structural Rearrangements Upon Ligand Binding – A Case Study of the Two SPDS Isoforms From Arabidopsis thaliana

inferred← citeshttps://doi.org/10.3389/fpls.2019.00663openalex-snapshot

Conservation of Thermospermine Synthase Activity in Vascular and Non-vascular Plants

inferred← citeshttps://doi.org/10.3390/md17010001openalex-snapshot

Polyamines in Microalgae: Something Borrowed, Something New

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