A series of PDB related databases for everyday needs (Q24613221)

7

0 references

Gert Vriend

8

0 references

Robbie P. Joosten

object named as

Robbie P Joosten

1

0 references

Maarten Hekkelman

object named as

Maarten L Hekkelman

4

0 references

Rob Hooft

5

object named as

Rob W W Hooft

0 references

author name string

Tim A H te Beek

2

0 references

Elmar Krieger

3

0 references

Reinhard Schneider

Creative Commons Attribution-NonCommercial 2.5 Generic

6

0 references

language of work or name

English

0 references

publication date

January 2011

0 references

published in

Nucleic Acids Research

0 references

volume

39

0 references

issue

Database issue

0 references

page(s)

D411-9

0 references

copyright license

start time

14 November 2016

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

Fast and efficient searching of biological data resources--using EB-eye

1 reference

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The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

MRS: a fast and compact retrieval system for biological data

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

7 April 2017

The Protein Data Bank

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Crystal structure of an octameric RuvA-Holliday junction complex

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Crystal structure of vancomycin

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Crystallographic and biochemical investigation of the lead(II)-catalyzed hydrolysis of yeast phenylalanine tRNA

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

The use of molecular-replacement phases for the refinement of the human rhinovirus 14 structure

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Refinement of macromolecular structures by the maximum-likelihood method

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Use of TLS parameters to model anisotropic displacements in macromolecular refinement

7 April 2017

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

7 April 2017

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

CATH--a hierarchic classification of protein domain structures

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Errors in protein structures

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

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

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Solvent content of protein crystals

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

WHAT IF: a molecular modeling and drug design program

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

The Protein Data Bank: a computer-based archival file for macromolecular structures

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Announcing the worldwide Protein Data Bank

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Increasing the precision of comparative models with YASARA NOVA-a self-parameterizing force field

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

The universal protein resource (UniProt)

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

PISCES: a protein sequence culling server

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Database of homology-derived protein structures and the structural meaning of sequence alignment

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

PDB_REDO: automated re-refinement of X-ray structure models in the PDB.

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

iFC²: an integrated web-server for improved prediction of protein structural class, fold type, and secondary structure content

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

WIWS: a protein structure bioinformatics Web service collection

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Improving protein secondary structure prediction using a simple k-mer model

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Prediction of protein structural classes for low-homology sequences based on predicted secondary structure

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Water structure of a hydrophobic protein at atomic resolution: Pentagon rings of water molecules in crystals of crambin

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

PDB-REPRDB: a database of representative protein chains from the Protein Data Bank (PDB) in 2003.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

PDB-REPRDB: a database of representative protein chains from the Protein Data Bank (PDB)

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

The HSSP database of protein structure-sequence alignments and family profiles

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

PDB-REPRDB: a database of representative protein chains in PDB (Protein Data Bank).

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Objectively judging the quality of a protein structure from a Ramachandran plot

27 September 2017

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

27 September 2017

https://api.crossref.org/works/10.1093%2FNAR%2FGKQ1105

Positioning hydrogen atoms by optimizing hydrogen-bond networks in protein structures

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

SRS: information retrieval system for molecular biology data banks

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Enlarged representative set of protein structures

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

The HSSP database of protein structure-sequence alignments.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

Selection of representative protein data sets

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

PDBselect 1992-2009 and PDBfilter-select

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

PDB Improvement Starts with Data Deposition

30 May 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKQ1105

Protein secondary structure prediction using modular reciprocal bidirectional recurrent neural networks.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKQ1105

Protein Secondary Structure Prediction

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKQ1105

Accurate bond and angle parameters for X-ray protein structure refinement

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKQ1105

New parameters for the refinement of nucleic acid-containing structures

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKQ1105

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKQ1105

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

The PDBFINDER database: a summary of PDB, DSSP and HSSP information with added value

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3013697

The HSSP database of protein structure-sequence alignments

28 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21071423

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The HSSP database of protein structure-sequence alignments

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21071423

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/NAR/GKQ1105

1 reference

journals/nar/JoostenBKHHSSV11

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

1 reference

PubMed publication ID

21071423

1 reference