Evidence map›Paper›PMID 23197659›Full record

ArticleNucleic acids research2013

CDD: conserved domains and protein three-dimensional structure.

Aron Marchler-Bauer, Chanjuan Zheng, Farideh Chitsaz, Myra K Derbyshire, Lewis Y Geer, Renata C Geer, Noreen R Gonzales, Marc Gwadz, David I Hurwitz, Christopher J Lanczycki and 8 more

Abstract read
In one paragraph

Article in Nucleic acids research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 473 papers.

0numbers the graph read from it
0cells of the map it votes in
473citing 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

473 citing papers in PubMed.

  1. Article
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  10. Journal of microbiology and biotechnology · 2025
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  15. Bacterial peptide deformylase inhibitors induce prophages in competitors.bioRxiv : the preprint server for biology · 2025
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  20. Comparative Genomic Analysis of the Poaceae Cytokinin Response RegulatorInternational journal of molecular sciences · 2025
    Article

413 more citing papers are in PubMed but not listed here.

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

18 authors.

Aron Marchler-BauerNational Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bldg. 38 A, Room 8N805, 8600 Rockville Pike, Bethesda, MD 20894, USA. bauer@ncbi.nlm.nih.gov
Chanjuan Zheng
Farideh Chitsaz
Myra K Derbyshire
Lewis Y Geer
Renata C Geer
Noreen R Gonzales
Marc Gwadz
David I Hurwitz
Christopher J Lanczycki
Fu Lu
Shennan Lu
Gabriele H Marchler
James S Song
Narmada Thanki
Roxanne A Yamashita
Dachuan Zhang
Stephen H Bryant

Funding

Structural Biology Information ResourcesZIALM000046 · NLM · NATIONAL LIBRARY OF MEDICINE · PI BRYANT, STEPHEN H · 2009 to 2017
$45.4M
Intramural NIH HHS
6 · The paper itself

Abstract

CDD, the Conserved Domain Database, is part of NCBI's Entrez query and retrieval system and is also accessible via http://www.ncbi.nlm.nih.gov/Structure/cdd/cdd.shtml. CDD provides annotation of protein sequences with the location of conserved domain footprints and functional sites inferred from these footprints. Pre-computed annotation is available via Entrez, and interactive search services accept single protein or nucleotide queries, as well as batch submissions of protein query sequences, utilizing RPS-BLAST to rapidly identify putative matches. CDD incorporates several protein domain and full-length protein model collections, and maintains an active curation effort that aims at providing fine grained classifications for major and well-characterized protein domain families, as supported by available protein three-dimensional (3D) structure and the published literature. To this date, the majority of protein 3D structures are represented by models tracked by CDD, and CDD curators are characterizing novel families that emerge from protein structure determination efforts.

Indexed as

Databases, ProteinProtein ConformationProtein Structure, TertiaryAmino Acid SequenceConserved SequenceInternetModels, MolecularMolecular Sequence AnnotationProteinsSequence Analysis, ProteinProteins

Identifiers

PMID23197659
PMCPMC3531192

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
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.