Citations in PubMed

Primary Citation PubMed: 2821276 Citations in PubMed

PDB ID Mentions in PubMed Central Article count: 6

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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MUSTANG-MR structural sieving server: applications in protein structural analysis and crystallography.

(2010) PLoS One 5

PubMed: 20386610 | PubMedCentral: PMC2850368 | DOI: 10.1371/journal.pone.0010048

Eukaryotic proteases (3EST, 1TON, 3RP2, 5CHA) are in blue, prokaryotic (1SGT, 2SGA, 3SGB, 2ALP) in red.

SCOP Family Name and species PDB ID Trypsin-like serine proteases Eukaryotic Proteases Porcine pancreatic elastase ( sus scrofa ) 3EST Tonin ( rattus rattus ) 1TON Mast cell protease II ( rattus rattus ) 3RP2 α-Chymotrypsin A ( bos taurus ) 5CHA Prokaryotic Proteases Trypsin ( streptomyces griseus ) 1SGT Protease I ( Achromobacter lyticus ) 1ARB Proteinase B ( Streptomyces griseus ) 3SGB α-Lytic protease ( Lysobacter enzymogenes ) 2ALP Altogether this demonstrates that the functional residues of different families can be found within the best-conserved “cores”, and underlines the value of the “sieving” approach to substructure identification.

Publication Year: 2010


Analysis of binding properties and specificity through identification of the interface forming residues (IFR) for serine proteases in silico docked to different inhibitors.

(2010) BMC Struct Biol 10

PubMed: 20961427 | PubMedCentral: PMC2974730 | DOI: 10.1186/1472-6807-10-36

Table 1 List of all PDB files containing serine protease structures used for structural alignment 01- 1LTO 02- 2FPZ 03- 1NN6 04- 3RP2 05- 1K2I 06- 1EQ9 07- 1GCT 08- 1PYT 09- 1ELT 10- 1M9U 11- 1HNE 12-... 1GVK 13- 1BRU 14- 1AGJ 15- 1QTF 16- 1HPG 17- 2O8L 18- 1P3C 19- 2PKA 20- 1GVZ 21- 1LO6 22- 1TON 23- 2FOM 24- 2FP7 25- 1DY9 26- 2SGA 27- 1SGP 28- 1PQ7 29- 1TRN 30- 1HJ9 31- 1HJ8 32- 2F91 33- 1H4W 34- 2A31 35- 1A0J 36- 1OS8 37- 1OP0 38- 1BQY 39- 1C5L 40- 1VR1 41- 2PUX 42- 1H8D 43- 1ETR 44- 1ARB 45- 1Y8T 46- 2SFA 47- 1SOT 48- 2H5C 49- 1NPM 50- 1EP5 51- 1FIW 52- 1DLE 53- 1T32 54- 2BZ6 55- 1BIO 56- 1EUF 57- 1EKB 58- 1IAU 59- 2HLC 60- 1Q3X 61- 1EAX 62- 1FUJ 63- 1MBM 64- 1FON 65- 1RTF 66- 1C5Y 67- 1A7S 68 - 1FY8 69 - 1AZZ 70 - 1CHO The last three PDB IDs (underlined) contain a description of the native complexes of: anionic trypsinogen with BPTI , collagenase with Ecotin and alpha-chymotrypsin with Ovomucoid , respectively.

Publication Year: 2010


Natural and synthetic inhibitors of kallikrein-related peptidases (KLKs).

(2010) Biochimie 92

PubMed: 20615447 | PubMedCentral: PMC3014083 | DOI: 10.1016/j.biochi.2010.06.022

KLK pro apo Inhibitor Ion Small molecule Polypeptide KLK1 1SPJ [311] 1HIA [263] hirustasin pKLK1 2KAI [312] BPTI 2PKA [247] benzamidine rKLK2 (tonin) 1TON [145] Zn 2+ KLK3 2ZCH [134] 2ZCK [134] Mu-KGI... SQY- * eKLK 1GVZ [136] Zn 2+ [136] ** KLK4 2BDH [137] Zn 2+ p-aminobenzamidine KLK5 2PSX [144] Ac-LLR- (leupeptin) 2PSY [144] Zn 2+ Ac-LLR- (leupeptin) KLK6 1GVL [313] 1L2E [246] benzamidine KLK7 3BSQ [314] 2QXG [147] AAF-CMK 2QXH [147] Suc-AAPF-CMK 2QXJ [147] Cu 2+ Suc-AAPF-CMK KLK8 *** [315] Zn 2+ Ac-LLR- (leupeptin) mKLK8 1NPM [316] mKLK13 1AO5 [317] KLK b3 1SGF [295] Zn 2+ Table 5 Disease matrix for human kallikrein-related peptidases.

Publication Year: 2010


Macromolecular complexes in crystals and solutions.

(2011) Acta Crystallogr D Biol Crystallogr 67

PubMed: 21460456 | PubMedCentral: PMC3069753 | DOI: 10.1107/S0907444911007232

For example, Fig. 7 ▶ presents a homodimeric complex predicted by PISA for PDB entry 1ton .

Re-examination of 1ton in PISA with the Zn ions removed from the entry shows a considerable decrease in the dissociation free energy to  kcal mol −1 .

Figure 7 A stable dimeric complex predicted by PISA for PDB entry 1ton (tonin).

Publication Year: 2011


Designing hydrolytic zinc metalloenzymes.

(2014) Biochemistry 53

PubMed: 24506795 | PubMedCentral: PMC3985962 | DOI: 10.1021/bi4016617

193 (d) Serine protease tonin (PDB entry 1TON), in which Zn(II) binding inhibits activity.

Publication Year: 2014


Structure-Function Analyses of Human Kallikrein-related Peptidase 2 Establish the 99-Loop as Master Regulator of Activity.

(2014) J Biol Chem 289

PubMed: 25326387 | PubMedCentral: PMC4256358 | DOI: 10.1074/jbc.M114.598201

The central eight residues of the rKlk1c2 99-loop (PDB ID 1ton ) are disordered, and the remainder of the loop seems markedly distorted, as two of its residues participate in Zn 2+ binding.

In Silico Analyses and Data Visualization KLK2-BEN and KLK2-PPACK were compared with the following structures (PDB IDs are in parentheses): the classical human kallikreins KLK1 ( 1spj ) ( 23 ) and KLK3 ( 2zch , 3qum ) ( 24 , 25 ); the new human kallikreins KLK4 ( 2bdh ) ( 46 ), KLK5 ( 2psx ) ( 47 ), KLK6 ( 1l2e , 3vfe ) ( 48 , 49 ), pro-KLK6 ( 1gvl ) ( 50 ), KLK7 ( 2qxg , 3bsq ) ( 51 , 52 ), and KLK8 4 ; porcine pKLK1 ( 2pka , 2kai , 1hia ) ( 7 , 53 , 54 ); rat rKlk1c2 ( 1ton ) ( 55 ); equine eKLK3 ( 1gvz ) ( 56 ); mouse mKlk1b4 ( 1sgf ) ( 57 ) mKlk1b26 ( 1ao5 ) ( 58 ), and mKlk8 ( 1npm ) ( 59 ); bovine trypsin ( 1ce5 ) ( 60 ) and chymotrypsin A ( 1yph ).

Publication Year: 2014