Table 3 Predominant Pfam domains within the chromosome 12 predicted rice proteome. All non-TE related proteins were searched using the Hmmpfam program and Pfam domains above the trusted cutoff were parsed out. Only the top 20 Pfam domains are listed.
Pfam accession | Numbers of matched proteins | Pfam common name |
|---|---|---|
PF00069 | 74 | Protein kinase domain |
PF00560 | 60 | Leucine Rich Repeat |
PF00646 | 51 | F-box domain |
PF00931 | 49 | NB-ARC domain |
PF00098 | 28 | Zinc knuckle |
PF01535 | 28 | PPR repeat |
PF03578 | 27 | HGWP repeat |
PF00097 | 25 | Zinc finger, C3HC4 type (RING finger) |
PF05699 | 22 | hAT family dimerisation domain |
PF00036 | 18 | EF hand |
PF00249 | 16 | Myb-like DNA-binding domain |
PF00067 | 14 | Cytochrome P450 |
PF00076 | 13 | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) |
PF00004 | 11 | ATPase, AAA family |
PF00010 | 11 | Helix-loop-helix DNA-binding domain |
PF00400 | 11 | WD domain, G-beta repeat |
PF02892 | 11 | BED zinc finger |
PF06654 | 11 | Protein of unknown function (DUF1165) |
PF07197 | 11 | Protein of unknown function (DUF1409) |
PF00023 | 10 | Ankyrin repeat |