Evaluation and classification of RING-finger domains encoded by the Arabidopsis genome

Table 2 Conventional and novel motif signatures used to identify RING domains in this study

InterPro, RING-HC	C3HC4 long: C-X₂-C-X_9,39-C-X_1,3-H-X_2,3-C-X₂-C-X_4,48-C-X₂-C and short: C-X-H-X-[LIVMFY]-C-X₂-C-[LIVMYA]
InterPro, RING-HC	C3H2C3 long: C-X₂-C-X_9,39-C-X_1,3-H-X_2,3-H-X₂-C-X_4,48-C-X₂-C and short: C-X-H-X-[LIVMFY]-H-X₂-C-[LIVMYA]
Stringent 1	[CT]-X₂-C-X_9,39-[CT]-X_1,3-H-X_2,3-[CH]-X₂-C-X_2,46-[KRCHDESTQNGPLVIMA]-X-C-X₂-[CD]
Stringent 2	[CT]-X₂-C-X_9,39-[CT]-X_1,3-H-X_1,2-[WFYLVIMAST]-[CH]-X₂-C-[WFYLVIMAST]-X_1,45-[KRCHDESTQNGPLVIMA]-X-C-X₂-[CD]
Stringent 3	[CT]-X₂-C-X_9,39-[CT]-X_1,3-H-X_1,2-[WFYLVIMAST]-[CH]-X₂-C-[WFYLVIMA]-X_1,45-[KRCHDESTQNGPLVIMA]-X-C-X₂-[CD]
Stringent 4	[CT]-X₂-C-X_9,39-[CT]-X_1,3-H-X_1,2-[WFYLVIMAST]-[CH]-X₂-C-[WFYLVIMA]-X_1,45-[KRCHDESTQNGP]-X-C-X₂-[CD]

Domain signatures used to identify RING domains in the Arabidopsis proteome. The signatures used by the InterPro package as well as the novel patterns defined by us (Stringent 1-Stringent 4) on the basis of recent structural results are given. Metal ligands are in bold. For details see text.

ISSN: 1474-760X