Evidence map›Paper›PMID 19477421›Full record

ArticleChemistry & biology2009

Alternative epimerization in C(7)N-aminocyclitol biosynthesis is catalyzed by ValD, a large protein of the vicinal oxygen chelate superfamily.

Hui Xu, Yirong Zhang, Jongtae Yang, Taifo Mahmud, Linquan Bai, Zixin Deng

Abstract read
In one paragraph

Article in Chemistry & biology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
–field-weighted citation impact
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

11 citing papers in PubMed.

  1. NonglycosidicSynthetic and systems biotechnology · 2025
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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.

Hui XuShanghai Jiao Tong University, China.
Yirong Zhang
Jongtae Yang
Taifo Mahmud
Linquan Bai
Zixin Deng

Funding

BIOSYNTHESIS APPROACH TO NOVEL BIOACTIVE AMINOCYCLITOLSR01AI061528 · NIAID · OREGON STATE UNIVERSITY · PI MAHMUD, TAIFO · 2004 to 2010
$1.5M
NIAID NIH HHS R01 AI061528
6 · The paper itself

Abstract

Gene valD, encodes a large vicinal oxygen chelate (VOC) superfamily protein, has been identified in the validamycin biosynthetic gene cluster. Inactivation of valD significantly reduced validamycin A production, which was fully restored with the full-length valD and partially restored with either N-terminal or C-terminal half by complementation. Heterologously expressed ValD catalyzed the epimerization of 2-epi-5-epi-valiolone to 5-epi-valiolone. This metalloenzyme is a homodimer with a metal ion-binding ratio of 0.73 mol/mole protein toward Fe(2+), Mn(2+), Ni(2+), and Zn(2+). Individual and combined site-directed mutations of eight putative active site residues revealed that the N-terminal H44/E107 and the C-terminal H315/E366 are more critical for the activity than the internal H130, E183, H229, and E291. Our data have established ValD as one of the largest proteins of the VOC superfamily, catalyzing an alternative epimerization for C(7)N-aminocyclitol biosynthesis.

Indexed as

Amino Acid SequenceBacterial ProteinsBiocatalysisInositolMetalloproteinsMolecular Sequence DataMultigene FamilyMutagenesis, Site-DirectedMutant ProteinsSequence Homology, Amino AcidStereoisomerismStreptomyces5-epi-(6-(2)H2)valioloneBacterial ProteinsInositolMetalloproteinsMutant Proteinsvalidamycins

Identifiers

PMID19477421
PMCPMC2737586

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Registered trials

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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.