Similarity searches are performed with RPS-BLAST (BLAST 2.2.x NCBI, Altschul et al., 1997, Nucleic Acids Res. 25:3389-3402) Submit your sequence and select the CDD DataBase you want to match.
>r_klactI1459 gi|1174645|sp|P46070|TF3B_KLULA Transcription factor IIIB 70 kDa subunit (TFIIIB) (B-related factor) (BRF1) MASTLQVSSRKCKNCGSTDFVRDISNTTNELICKVCGLVTEENSIVSEVTFGEASNGAAVIQGAFVSANQAHPTFMSHSG QNALMSRETTLNNARRKLKAVSYALNIPEYVTDAAFQWYRLALSNNFVQGRKSQNVIAACLYIACRKERTHHMLIDFSSR LQVSVYSIGATFLKLAKKLQIVKLPLADPSLFIQHFAEKLELGDKKIKVIRDAVKLAQTMSRDWMYEGRRPAGIAGACLL LACRMNNLRRTHSEIVAISHVAEETLQQRLNEFKNTTSAKLSVKEFRDDETEVNEGERSAESKPPSFDKNRLKEKKIKDS LDTKEMLETSEEAVSRNPILTQVLGAQELSSKEVLYYLKKLSERRKAEFSRIKATHGIDGEDLHKTEKDKKRSLDEIDGY SLEKDPYRPRNLHLLPTTASLLSKVSDHPENLDDVDDAELDSHLLDEEASKLKERIWIDINGDYLIEQESKRLKQEADLA SGNTSLRKKRSKRTNRNQSSASIVKVQVDGLPLDVSVDDADAVDVVAAGGVKNLLQKTTFSKKINYDAINGLFGQK
Display full alignements in /Graphics Before submission you must select at least one Conserved Domain DataBase . Pairwise Master-slave with identities Master-slave no identities Flat master-slave Flat master-slave, no identities Master-slave no identities & blunt ends Flat master-slave, no identities & blunt ends Output Alignment: (options not available with blastx and tblastx)
Expect value (E)
[Real]
Query sequence type
Protein Nucleic
Filter query sequence (DUST with blastn, SEG with others)
True False
X dropoff value for gapped alignment (in bits)
[Integer]
Number of one-line descriptions (V)
Number of alignments to show (B)
DataBase administrator