Citations in PubMed

Primary Citation PubMed: 22992047 Citations in PubMed

PDB ID Mentions in PubMed Central Article count: 1

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.

  • 3 per page
  • 5 per page
  • 10 per page
  • view all
  • Publication Year
  • Ascending
  • Descending

The substrate/product-binding modes of a novel GH120 ?-xylosidase (XylC) from Thermoanaerobacterium saccharolyticum JW/SL-YS485.

(2012) Biochem J 448

PubMed: 22992047 | PubMedCentral: PMC3507262 | DOI: 10.1042/BJ20121359

The atomic co-ordinates and structural factors for the wild-type Thermoanaerobacterium saccharolyticum JW/SL-YS485 XylC in complex with Tris (code 3VST), xylobiose (code 3VSU) and xylose (code 3VSV) h... ve been deposited in the RCSB PDB.

Parameter XylC–Tris (PDB code 3VST) XylC–xylobiose (PDB code 3VSU) XylC–xylose (PDB code 3VSV) Data collection  Wavelength (Å) 1.00 1.00 1.00  Resolution (Å) 25–1.75 (1.81–1.75) 25–2.05 (2.12–2.05) 25–1.48 (1.53–1.48)  Space group P 2 1  Unit cell    a / b / c (Å) 88.64/202.24/99.92 88.68/202.31/100.40 88.78/201.95/100.11   β ( o ) 99.186 99.141 99.177  Number of reflections   Measured 1471142 (145181) 902385 (68612) 2097975 (200889)   Unique 346368 (34567) 212277 (19059) 574432 (57397)  Completeness (%) 99.8 (99.9) 98.2 (88.4) 100.0 (100.0)   R merge (%) 6.2 (37.5) 14.0 (49.0) 7.1 (49.6)  Mean I /σ( I ) 19.1 (2.5) 8.5 (1.6) 20.9 (3.3)  Multiplicity 4.2 (4.2) 4.3 (3.6) 3.7 (3.5) Refinement  Number of reflections used 332107 (30562) 197345 (14891) 548128 (49577)   R work (%) 15.1 (21.6) 15.3 (24.0) 15.0 (21.7)   R f ree (%) 17.6 (23.7) 19.4 (27.6) 16.8 (22.8)  Geometry deviations   Bond lengths (Å) 0.015 0.015 0.015   Bond angles ( o ) 1.77 1.78 1.74  Number of atoms/mean B -values (Å 2 )   Protein atoms 20588/16.6 20588/17.3 20588/13.7   Tris atoms 32/13.6 – –   Xylose atoms – – 350/34.1   Xylobiose atoms – 76/38.3 –   Water molecules 3164/32.9 2518/32.8 3614/34.0  Ramachandran plot (%)   Most favoured 86.9 86.2 87.4   Additionally allowed 12.7 13.4 12.3   Disallowed 0.4 0.4 0.4 Mutant production and specific activity measurement Site-directed mutagenesis was performed by inverse PCR and circulation of PCR products using the wild-type xylosidase gene in the expression plasmid pHsh- xylC [ 4 ].

Publication Year: 2012