A Computational Framework for Proteome-Wide Pursuit and Prediction of Metalloproteins using ICP-MS and MS/MS Data

BMC Bioinformatics

Table 3 Manually Evaluated Molybdenum Protein Candidates

Cluster	ORF	Annotation	Crystal structure homolog	Metal in structure	IPM Metal
1	PF0009	ThiF family protein	1JWB	Zn
1	PF0187	Putative cofactor synthesis protein			Fe,Mo,W
1	PF0668	YjgF-like protein	2DYY
1	PF1718	Wyosine base formation, Radical SAM	2YX0		Fe
1	PF1766	Cell division transporter FtsY	3DMD
2	PF1956	Fructose-1,6-bisphosphate aldolase class I	1OJX
3	PF1828	Protein of unknown function DUF1621
3	PF1886	Carbohydrate/purine kinase
4	PF0098	NAD+ synthase	2E18
4	PF0236	Phosphoribosyl pyrophosphokinase	1U9Y		Mg
4	PF1401	Peptidyl-prolyl cis-trans isomerase	1IX5
4	PF1675	Asp/Glu/hydantoin racemase	2ZSK
4	PF1731	Signal recognition particle 54	3DM5
5	PF1538	Amidohydrolase 1	1P1M	Ni
7	PF0523	Protein of unknown function DUF509	1ZD0	Mg
7	PF1222	Protein of unknown function DUF217
8	*PF1587*	*Protein of unknown function DUF89*	2G8L
9	PF0212	DNA polymerase, family B	2JGU	Mn
9	PF0306	Translation factor, SUA5 type
9	PF0463	Phosphoglycolate phosphatase

Cluster number refers to hierarchical clustering with dynamic hybrid partitioning, see Figure 4 for explanation and supplementary tables 1-8 in Additional File 9 for complete cluster tables. Crystal structures obtained from PDB with sequence similarity >50%. ORF numbers in bold have been previously characterized in P. furiosus, those in italics were characterized by metal-targeted purification.

ISSN: 1471-2105