Citations in PubMed

Primary Citation PubMed: 16307917 Citations in PubMed

PDB ID Mentions in PubMed Central Article count: 5

Citations in PubMed

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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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TPRpred: a tool for prediction of TPR-, PPR- and SEL1-like repeats from protein sequences.

(2007) BMC Bioinformatics 8

PubMed: 17199898 | PubMedCentral: PMC1774580 | DOI: 10.1186/1471-2105-8-2

Table 2 The comparison of the results obtained from the web-servers using known structures PDB-ID Name Repeat Type Actual Repeats TPRpred Pfam SMART REP Structures used in profile generation by TPRpre... 1A17 Protein phosphatase 5 TPR 3 3 3 3 0 1KT1 Fkbp51 TPR 3 3 2 2 3 1ELR Hop(TPR2a domain) TPR 3 3 3 3 3 1IHG Cyclophilin 40 TPR 3 3 3 3 3 1ELW Hop (TPR1 domain) TPR 3 3 3 3 3 1HH8 P67phox TPR 3 3 3 3 3 1FCH * PEX5 (Human) TPR 7 7 4 4 6 1HXI Pex5 (Trypanosoma) TPR 3 3 3 3 3 1KLX Hcpb SEL1 3 3 3 3 3 1OUV Hcpc 1 † +6 ‡ 7 1 † +6 ‡ 1 † +6 ‡ 7 ‡ 7 † Total 38 38 34 33 27 % of total 100% 89% 86% 71% Structures not used in profile generation by TPRpred 1P5Q Fkbp52 TPR 3 3 3 3 3 2C2L CHIP TPR 3 3 3 3 3 1XNF * Nlpi TPR 4 4 3 3 3 1W3B * GlcNAc transferase TPR 10 10 9 9 9 1TJC * Collagen Hydroxylase TPR 2 2 1 1 0 1HZ4 MalT TPR 8 8 0 0 0 1NZN Fis1 TPR 2 1 0 0 0 1ZU2 Tom20(Plant) TPR 2 2 0 0 0 1ZBP VPA1032 TPR 1 1 0 0 0 Total 35 34 19 19 18 % of total 97% 54% 54% 51% * Structures shown in Figure 3 † TPR ‡ SEL1-like repeat See also Figure 3.

Publication Year: 2007


Interactions between the quality control ubiquitin ligase CHIP and ubiquitin conjugating enzymes.

(2008) BMC Struct Biol 8

PubMed: 18485199 | PubMedCentral: PMC2396629 | DOI: 10.1186/1472-6807-8-26

Model of the CHIP:UbcH5a complex, CHIP, built by superimposing the U-box dimer and one UbcH5a molecule from the structure shown in panel A onto the crystal structure of murine CHIP, PDB:2C2L [22].

Publication Year: 2008


Extent of structural asymmetry in homodimeric proteins: prevalence and relevance.

(2012) PLoS One 7

PubMed: 22629324 | PubMedCentral: PMC3358323 | DOI: 10.1371/journal.pone.0036688

PDB code Molecule GloA_Sc IntA_Sc1 IntA_Sc2 Interface area (Å 2 ) Stability assessment using PISA Interface array formation Biological relevance 2c2l Carboxy terminus of Hsp70-interacting prot... in (CHIP)+C-terminal peptide of Hsp70 8.29 0.11 0.20 3830 CHIP homodimer is stable on its own No – the dimer is symmetric in one part of the interface Asymmetry at the interface coupled with the modified orientation of one the domains abolishes one of the two equivalent binding sites for ubiquitin conjugating enzyme.

Homologs with 3D structure from the same SCOP functional domain Homologs with 3D structure from the same SCOP family 2c2l Carboxy terminus of Hsp70-interacting protein (CHIP)+C-terminal peptide of Hsp70 22 Interface is more symmetric than rest of structure (2 parts – symmetric+asymmetric).

Carboxy terminus of Hsp70-interacting protein (CHIP) (GloA_Sc – 8.29; PDB - 2c2l) c).

Publication Year: 2012


Genes encoding Cher-TPR fusion proteins are predominantly found in gene clusters encoding chemosensory pathways with alternative cellular functions.

(2012) PLoS One 7

PubMed: 23029255 | PubMedCentral: PMC3447774 | DOI: 10.1371/journal.pone.0045810

For reference, the three dimensional structure of the TPR domain of pdb entry 2C2L is shown below.

Publication Year: 2012


Identifying tandem Ankyrin repeats in protein structures.

(2014) BMC Bioinformatics 15

PubMed: 25547411 | PubMedCentral: PMC4307672 | DOI: 10.1186/s12859-014-0440-9

(a) - (d) 3-D structure: (a) 2C2L: chain A (TPR) (b) 3SL9: chain A (ARM) (c) 1D0B: chain A (LRR) (d) 1U6D: chain X (KELCH).

Publication Year: 2014