(Q33294961)

English

The RAGNYA fold: a novel fold with multiple topological variants found in functionally diverse nucleic acid, nucleotide and peptide-binding proteins

scientific article

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scholarly article

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

The RAGNYA fold: a novel fold with multiple topological variants found in functionally diverse nucleic acid, nucleotide and peptide-binding proteins (English)

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

protein folding

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object named as

L Aravind

2

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author name string

S Balaji

1

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

language of work or name

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publication date

21 August 2007

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

number of pages

14

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based on heuristic

inferred from page(s)

Nucleic Acids Research

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

35

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

17

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

5658-5671

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

Structural basis for the bifunctionality of the U5 snRNP 52K protein (CD2BP2)

1 reference

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21 June 2018

Ribonucleome analysis identified enzyme genes responsible for wybutosine synthesis

1 reference

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21 June 2018

Common evolutionary origin of swapped-hairpin and double-psi beta barrels

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2034487

21 June 2018

Human enhancer of rudimentary is a molecular partner of PDIP46/SKAR, a protein interacting with DNA polymerase delta and S6K1 and regulating cell growth

1 reference

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21 June 2018

Biosynthesis of wybutosine, a hyper-modified nucleoside in eukaryotic phenylalanine tRNA

1 reference

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21 June 2018

1 reference

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21 June 2018

BioGRID: a general repository for interaction datasets

1 reference

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21 June 2018

GYF domain proteomics reveals interaction sites in known and novel target proteins

1 reference

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21 June 2018

Functional similarities between phage lambda Orf and Escherichia coli RecFOR in initiation of genetic exchange

1 reference

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Origin and evolution of the archaeo-eukaryotic primase superfamily and related palm-domain proteins: structural insights and new members

1 reference

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Identification of novel restriction endonuclease-like fold families among hypothetical proteins

1 reference

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21 June 2018

AbrB-like transcription factors assume a swapped hairpin fold that is evolutionarily related to double-psi beta barrels

1 reference

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21 June 2018

The human U5 snRNP 52K protein (CD2BP2) interacts with U5-102K (hPrp6), a U4/U6.U5 tri-snRNP bridging protein, but dissociates upon tri-snRNP formation

1 reference

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21 June 2018

The many faces of the helix-turn-helix domain: transcription regulation and beyond

1 reference

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21 June 2018

Structure of the conserved transcriptional repressor enhancer of rudimentary homolog

1 reference

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21 June 2018

Crystal structure of PH0010 from Pyrococcus horikoshii, which is highly homologous to human AMMECR 1C-terminal region.

1 reference

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21 June 2018

The SHS2 module is a common structural theme in functionally diverse protein groups, like Rpb7p, FtsA, GyrI, and MTH1598/TM1083 superfamilies.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2034487

21 June 2018

Evolution of bacterial RNA polymerase: implications for large-scale bacterial phylogeny, domain accretion, and horizontal gene transfer

1 reference

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21 June 2018

The emergence of catalytic and structural diversity within the beta-clip fold

1 reference

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21 June 2018

MUSCLE: multiple sequence alignment with high accuracy and high throughput

1 reference

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21 June 2018

Size selective recognition of siRNA by an RNA silencing suppressor

1 reference

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21 June 2018

Recognition of small interfering RNA by a viral suppressor of RNA silencing

1 reference

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21 June 2018

The structure of Escherichia coli RusA endonuclease reveals a new Holliday junction DNA binding fold

1 reference

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21 June 2018

Evolutionary connection between the catalytic subunits of DNA-dependent RNA polymerases and eukaryotic RNA-dependent RNA polymerases and the origin of RNA polymerases

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2034487

21 June 2018

Emergence of diverse biochemical activities in evolutionarily conserved structural scaffolds of proteins

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2034487

21 June 2018

The PRC-barrel: a widespread, conserved domain shared by photosynthetic reaction center subunits and proteins of RNA metabolism.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2034487

21 June 2018

Dynamic interaction of CD2 with the GYF and the SH3 domain of compartmentalized effector molecules

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2034487

21 June 2018

Monophyly of class I aminoacyl tRNA synthetase, USPA, ETFP, photolyase, and PP-ATPase nucleotide-binding domains: implications for protein evolution in the RNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2034487

21 June 2018

TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2034487

21 June 2018

Comparative genomics and evolution of proteins involved in RNA metabolism

1 reference

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21 June 2018

Cocrystal structure of a tRNA Psi55 pseudouridine synthase: nucleotide flipping by an RNA-modifying enzyme

1 reference

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21 June 2018

ERH (enhancer of rudimentary homologue), a conserved factor identical between frog and human, is a transcriptional repressor

1 reference

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21 June 2018

Crystal structure of a DinB family error-prone DNA polymerase from Sulfolobus solfataricus

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2034487

21 June 2018

Crystal structure of a Y-family DNA polymerase in action: a mechanism for error-prone and lesion-bypass replication

1 reference

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21 June 2018

Crystal structure of a DinB lesion bypass DNA polymerase catalytic fragment reveals a classic polymerase catalytic domain

1 reference

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21 June 2018

Structure of the catalytic core of S. cerevisiae DNA polymerase eta: implications for translesion DNA synthesis

1 reference

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21 June 2018

The Y-family of DNA polymerases

1 reference

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21 June 2018

The kink-turn: a new RNA secondary structure motif

1 reference

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21 June 2018

SURVEY AND SUMMARY: holliday junction resolvases and related nucleases: identification of new families, phyletic distribution and evolutionary trajectories

1 reference

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21 June 2018

DaliLite workbench for protein structure comparison

1 reference

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21 June 2018

T-Coffee: A novel method for fast and accurate multiple sequence alignment

1 reference

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21 June 2018

Two tricks in one bundle: helix-turn-helix gains enzymatic activity

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2034487

21 June 2018

Identification and characterization of mouse orthologs of the AMMECR1 and FACL4 genes deleted in AMME syndrome: orthology of Xq22.3 and MmuXF1-F3.

1 reference

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21 June 2018

The three-dimensional structure of the HRDC domain and implications for the Werner and Bloom syndrome proteins

1 reference

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21 June 2018

N-ethylmaleimide-sensitive fusion protein (NSF) and CDC48 confirmed as members of the double-psi beta-barrel aspartate decarboxylase/formate dehydrogenase family

1 reference

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21 June 2018

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1 reference

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21 June 2018

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1 reference

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21 June 2018

The GYF domain is a novel structural fold that is involved in lymphoid signaling through proline-rich sequences

1 reference

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21 June 2018

A six-stranded double-psi beta barrel is shared by several protein superfamilies.

1 reference

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21 June 2018

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21 June 2018

JPred: a consensus secondary structure prediction server

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21 June 2018

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1 reference

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21 June 2018

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1 reference

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21 June 2018

Two "unrelated" families of ATP-dependent enzymes share extensive structural similarities about their cofactor binding sites

1 reference

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21 June 2018

SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling

1 reference

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21 June 2018

A diverse superfamily of enzymes with ATP-dependent carboxylate-amine/thiol ligase activity

1 reference

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21 June 2018

SEALS: a system for easy analysis of lots of sequences.

1 reference

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21 June 2018

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

1 reference

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21 June 2018

The putative cell cycle gene, enhancer of rudimentary, encodes a highly conserved protein found in plants and animals

1 reference

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The solution structure of the S1 RNA binding domain: a member of an ancient nucleic acid-binding fold

1 reference

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21 June 2018

A pseudo-michaelis quaternary complex in the reverse reaction of a ligase: structure of Escherichia coli B glutathione synthetase complexed with ADP, glutathione, and sulfate at 2.0 A resolution

1 reference

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21 June 2018

Inferring phylogenies from protein sequences by parsimony, distance, and likelihood methods

1 reference

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21 June 2018

The helix-hairpin-helix DNA-binding motif: a structural basis for non-sequence-specific recognition of DNA.

1 reference

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1 reference

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1 reference

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Protein structure comparison by alignment of distance matrices

1 reference

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Three-dimensional structure of the 67K N-terminal fragment of E. coli DNA topoisomerase I

1 reference

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21 June 2018

Enhancer of rudimentaryp1, e(r)p1, a highly conserved enhancer of the rudimentary gene

1 reference

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21 June 2018

SCOP: a structural classification of proteins database for the investigation of sequences and structures

1 reference

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21 June 2018

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1 reference

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21 June 2018

Basic local alignment search tool

1 reference

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1 reference

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21 June 2018

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1 reference

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21 June 2018

X-ray structure of nucleoside diphosphate kinase

1 reference

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21 June 2018

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1 reference

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21 January 2018

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1 reference

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21 January 2018

On the maximum likelihood method in molecular phylogenetics

1 reference

https://pubmed.ncbi.nlm.nih.gov/17715145

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Gene products encoded in the ninR region of phage lambda participate in Red-mediated recombination

1 reference

https://pubmed.ncbi.nlm.nih.gov/17715145

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1093/NAR/GKM558

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

PMC publication ID

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

PubMed publication ID

1 reference

Europe PubMed Central

PubMed publication ID

25 July 2017

ResearchGate publication ID

0 references

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