Help : pathway with protein structures

EC Number

Enzyme Commission number (http://www.chem.qmul.ac.uk/iubmb/enzyme/).

Locus tag

Locus tag is the unique identifier for a gene in each genome. These ID numbers are used by the international sequence collaboration (DDBJ/EMBL/GenBank). Examples are listed below with its organism name.

• TTHA1234, TTHB123, TTHC123; Thermus thermophilus HB8
• TM1234; Thermotoga maritima MSB8
• GK1234; Geobacillus kaustophilus HTA426
• Syto1234; Symbiobacterium toebii
• JW1234; Escherichia coli K-12
• APE1234; Aeropyrum pernix K1
• PH1234; Pyrococcus horikoshii OT3
• ST1234; Sulfolobus tokodaii strain7
• aq_1234; Aquifex aeolicus VF5

BLAST Hit PDB

PDB ID code for which amino acid sequence has a significant homology to the query sequence using NCBI BLAST sequence analysis (blastp).

Hit evalue

BLAST e-value of the best hit. "Blank" means that the e-value is less than 0.001 and there is no significant hit of its query sequence.

Match Index

(identity * overlap) / (query_length)^2, which is a matching index between a query and its best hit of BLAST analysis. When Match Index equal to 1.00 (i.e. BLAST e-value equal to 0.0), the structure of the query itself has been determined.

Structure

"OK" indicates that the structure of Thermus thermophilus protein has already been solved, and "HOM" indicates that the structure of the homologous protein not from Thermus thermophilus has been solved.