Citations in PubMed

Primary Citation PubMed: 19704023 Citations in PubMed

PDB ID Mentions in PubMed Central Article count: 10

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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Crystal structure of the complete integrin alphaVbeta3 ectodomain plus an alpha/beta transmembrane fragment.

(2009) J Cell Biol 186

PubMed: 19704023 | PubMedCentral: PMC2733745 | DOI: 10.1083/jcb.200905085

The atomic coordinates are deposited in the Protein Data Bank ( 3IJE ).

Publication Year: 2009

The effect of gentamicin-induced readthrough on a novel premature termination codon of CD18 leukocyte adhesion deficiency patients.

(2010) PLoS One 5

PubMed: 21103413 | PubMedCentral: PMC2982813 | DOI: 10.1371/journal.pone.0013659

A. A 3-D model of CD18 (blue) was built by homology modeling using ITGβ3 (CD61) structure as a template (red, PDB code 3ije).

Publication Year: 2010

Molecular dynamics simulations of forced unbending of integrin ?(v)??.

(2011) PLoS Comput Biol 7

PubMed: 21379327 | PubMedCentral: PMC3040657 | DOI: 10.1371/journal.pcbi.1001086

U2 is the recently released crystal structure of the unliganded integrin α V β 3 ectodomain plus a short α/β transmembrane fragment, where the EGF1 and EGF2 domains are... visible (PDB code 3IJE) [7] .

The homology model (red) and the crystal structure (blue, PDB code 3IJE) were aligned using Cα atoms of the β 3 subunit other than the EGF1 and EGF2 domains (left and middle) or using the Cα atoms of the EGF1 and EGF2 domains (right).

Wherever resolvable, the 1U8C structure is very close to the 3IJE structure.

Our homology model of the EGF1 and EGF2 domains are similar to those of the 3IJE structure in orientation and majority of the tertiary structures, with noticeable variations only in the loops and the linker between the two domains ( Fig.

Publication Year: 2011

Crystal structure of ?5?1 integrin ectodomain: atomic details of the fibronectin receptor.

(2012) J Cell Biol 197

PubMed: 22451694 | PubMedCentral: PMC3317794 | DOI: 10.1083/jcb.201111077

The similarity in the overall conformation can readily be appreciated upon structural superposition of the α5β1 headpiece onto the closed αvβ3 (3IJE, 1.92-Å roo... -mean-square deviation [RMSD] for 864 Cα atoms) and αIIbβ3 (3FCS, 1.52-Å RMSD for 820 Cα atoms; Fig. 1 C ).

Publication Year: 2012

Expressing the human proteome for affinity proteomics: optimising expression of soluble protein domains and in vivo biotinylation.

(2012) N Biotechnol 29

PubMed: 22027370 | PubMedCentral: PMC3383991 | DOI: 10.1016/j.nbt.2011.10.007

Periplasmic expression in E. coli [26] FAT3/Q8TDW7-3 11/24 ND Cadherin 32 (aa3443–3553); EGF_like (aa4016–4137) None ITGB5/ P18084 ND (weak) ND 55% identical to integrin beta-3 structu... e (PDB:3IJE), expressed as complex with ITGAV in insect or mammalian cells [27,28] For each target and vector, the number of constructs expressing soluble proteins is listed, out of the number of constructs tested.

Publication Year: 2012

Modeling and molecular dynamics of HPA-1a and -1b polymorphisms: effects on the structure of the ?3 subunit of the ?IIb?3 integrin.

(2012) PLoS One 7

PubMed: 23155369 | PubMedCentral: PMC3498292 | DOI: 10.1371/journal.pone.0047304

For this modeling step, structural templates were taken from the αIIbβ3 (PDB ID 3FCS) and the αvβ3 complexes (PDB ID 3IJE, 2.90 Å resolution) [15] .

Publication Year: 2012

High-resolution analysis and functional mapping of cleavage sites and substrate proteins of furin in the human proteome.

(2013) PLoS One 8

PubMed: 23335997 | PubMedCentral: PMC3545927 | DOI: 10.1371/journal.pone.0054290

In many other cases, for example in the structure of αV integrin protein discussed above, (PDB id: 3IJE), an entire loop Q869-G897 with the KR890-D cleavage site is missing in the solved cryst... l structure.

Publication Year: 2013

EM structure of the ectodomain of integrin CD11b/CD18 and localization of its ligand-binding site relative to the plasma membrane.

(2013) PLoS One 8

PubMed: 23469114 | PubMedCentral: PMC3585415 | DOI: 10.1371/journal.pone.0057951

C and D) the same views of the map as in A and B, shown as a transparent isosurface, but also displaying the αA-lacking αVβ3 ectodomain (pdb 3IJE) model as a ribbon diagram.

Publication Year: 2013

Molecular dynamics analysis of a novel ?3 Pro189Ser mutation in a patient with glanzmann thrombasthenia differentially affecting ?IIb?3 and ?v?3 expression.

(2013) PLoS One 8

PubMed: 24236036 | PubMedCentral: PMC3827234 | DOI: 10.1371/journal.pone.0078683

Molecular Dynamics Simulations For αIIbβ3 we started from the X-ray structure with PDB code 3NIG (resolution 2.25 Å) and for αvβ3 with PDB code 3IJE (resolution... 2.90 Å).

Publication Year: 2013

Structural basis for pure antagonism of integrin ?V?3 by a high-affinity form of fibronectin.

(2014) Nat Struct Mol Biol 21

PubMed: 24658351 | PubMedCentral: PMC4012256 | DOI: 10.1038/nsmb.2797

( c ) Left panel, βA domain from αVβ3-hFN10 (in pink) superimposed on that of αVβ3-wtFN10 (in light green) and on βA domain (in dark green) from unligan... ed αVβ3 (pdb 3ije) (right panel).

Data were indexed, integrated and scaled with HKL2000 program 40 for αVβ3-hFN10, αVβ3-hFN10B, and with iMosflm 41 for αVβ3-wtFN10, using the same R free set imported from pdb id 3ije structure factors.

Phases were determined by molecular replacement using PHASER 42 , with structures of unliganded αVβ3 ectodomain (pdb 3ije) and FN10 domain (pdb 1fnf) used as search models.

Publication Year: 2014