Citations in PubMed

Primary Citation PubMed: 10747009 Citations in PubMed

PDB ID Mentions in PubMed Central Article count: 4

Citations in PubMed

This linkout lists citations, indexed by PubMed, to the Primary Citation for this PDB ID.

PDB ID Mentions in PubMed Central

Data mentions are occurrences of PDB IDs in the full text articles from the PubMedCentral Open Access Subset of currently about 1 million articles. For each article, the sentences containing the PDB ID are listed. Article titles can be filtered by keywords and sorted by year.

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Structural insights into the substrate tunnel of Saccharomyces cerevisiae carbonic anhydrase Nce103.

(2009) BMC Struct Biol 9

PubMed: 19852838 | PubMedCentral: PMC2775743 | DOI: 10.1186/1472-6807-9-67

The structure of Nce103ΔN13 resembles that of other plant type β-class CAs ( P. sativum , PDB code: 1ekj [ 11 ]; P. purpureum , PDB code: 1ddz [ 12 ]; E. coli , PDB codes: 1i6p [ 3 ] a... d 1t75 ; H. influenzae , PDB code: 2a8c [ 5 ]; M. tuberculosis Rv3588c, PDB codes: 1ym3 [ 13 ] and 2a5v [ 14 ], C. neoformans , PDB codes: 2w3n and 2w3q [ 15 ]).

Comparison between the active sites of Nce103 and β-CAs from other species The crystal structure of Nce103 was superimposed on three β-CA homologs from P. sativum (PSCA; PDB code: 1ekj ), E. coli (ECCA; PDB code: 2esf ) and C. neoformans (Can2; PDB code: 2w3n ), giving a root mean squared deviation (RMSD) of 1.58 Å, 1.96 Å and 1.95 Å, respectively, for 197 Cα-atoms.

Publication Year: 2009

FragKB: structural and literature annotation resource of conserved peptide fragments and residues.

(2010) PLoS One 5

PubMed: 20305778 | PubMedCentral: PMC2841175 | DOI: 10.1371/journal.pone.0009679

Carbonic anhydrase from P. sativum (PDB: 1EKJ); the fragment includes the conserved Gln 61; this residue is regarded as catalytic in homologous proteins.

Publication Year: 2010

Structural studies of ?-carbonic anhydrase from the green alga Coccomyxa: inhibitor complexes with anions and acetazolamide.

(2011) PLoS One 6

PubMed: 22162771 | PubMedCentral: PMC3230598 | DOI: 10.1371/journal.pone.0028458

Previously determined structures of β-CAs are available from six different organisms including higher plants: Pisum sativum (pea) ( Ps -CA, pdb code 1EKJ, [11] ); microalgae P. purpureum ( Pp ... CA, pdb code 1DDZ, [6] ); bacteria including E. coli ( Ec -CA, pdb code 1I6P [12] ), Mycobacterium tuberculosis ( Mt -CA, pdb code 1YLK [13] ) and Haemophilus influenzae ( Hi -CA, pdb code 2A8D [14] ); the chemoautotroph Halothiobacillus neapolitanus (pdb code 2FGY [15] ), and the “cab”-type β-CA from the thermophilic archaeon Methanobacteriumthermoautotrophicum (pdb code 1G5C [16] ).

The Co -CA-AZM structure was solved by molecular replacement (MR) using the program CNS [52] and the Ps -CA structure, pdb code 1EKJ [11] asa search model.

Publication Year: 2011

Beta carbonic anhydrases: novel targets for pesticides and anti-parasitic agents in agriculture and livestock husbandry.

(2014) Parasit Vectors 7

PubMed: 25174433 | PubMedCentral: PMC4162934 | DOI: 10.1186/1756-3305-7-403

Two residues in PDB model 1EKJ (β-CA from Pisum sativum ) appear considerably smaller than their complements in the Ancylostoma caninum -based homology model, and those residues can be conside... ed to be only partially exposed (Figure  4 , indicated by yellow colour in the alignment).

The structural availability of the epitope in the PDB model 1EKJ (β-CA from Pisum sativum ) and the homology model based on the β-CA sequence from Ancylostoma caninum was studied by preparing the molecular surface with VMD, using a probe radius of 1.4 Å.

An alignment containing PDB 1EKJ and the corresponding sequence from Ancylostoma caninum predicted β-CA is shown.

(A) Cartoon presentation of β-CA from Pisum sativum (PDB 1EKJ).

Results for three out of these four searches revealed that PDB structure 1EKJ (β-CA from Pisum sativum ) possessed the most similar sequence, while PDB id 2A5V (β-CA from Mycobacterium tuberculosis ) was found to be the most similar to C4LXK3 ( Entamoeba histolytica ).

(C) Aligned homology models of β-CAs from Ancylostoma caninum (green), Ascaris suum (blue), and Trichinella spiralis (orange) are shown with PDB 1EKJ (gray).

Homology modelling was performed according to multiple sequence alignment containing FC551456 ( Ancylostoma caninum ), F1LE18 ( Ascaris suum ), E5SH53 ( Trichinella spiralis ), and PDB 1EKJ by using the Modeller program (version 9.13) [ 57 ] with PDB model 1EKJ (β-CA from Pisum sativum ) as a template.

To study the molecular availability of the predicted main antigenic epitope, surface exposure of the homology model created from PDB model 1EKJ (β-CA from Pisum sativum ) and the homology model based on the β-CA sequence from Ancylostoma caninum were studied by visualizing the molecular surface (Figure  4 ).

Publication Year: 2014