F-box domain superfamily; This short domain is commonly found at the N-terminus of various proteins, and typically co-occurs with one or more other conserved domains or motifs, such as leucine rich repeats, WD40 repeats, kelch, tub, spry, and others. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression. One of the best researched roles of F-box proteins is their participation in SCF (Skp1-Cul1-F-box protein), a multi-protein complex that functions as a ubiquitin E3 ligase, where the role of the F-box protein is to recruit target substrates. Gene families containing the F-box are found greatly expanded in narrow taxonomic lineages, such as flowering plants and nematodes. In this hierarchical classification, many of the subfamilies are named according to their domain architectures.

                        10        20        30
                ....*....|....*....|....*....|....*..
gi 18413178  10 WDELIPDALGLIFSHLPLQEVLTVVPrVCKAWNRAVT 46
Cdd:cd22158   1 WDCLPPDLLELIFSHLPLHDILICRS-VCKFWNRLTT 36

F-box domain found in Arabidopsis thaliana F-box protein FBW2 (AtFBW2) and similar proteins; AtFBW2, also called SKP1-interacting partner 18 (SKIP18), is an F-box protein that contains four tandem WD-40 repeats. It is a component of SCF (SPK1/ASK-cullin-F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins. It interacts with CUL1, CUL2 and SPK1B/ASK2. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.

                        10        20        30
                ....*....|....*....|....*....|....*..
gi 18413178  10 WDELIPDALGLIFSHLPLQEVLTVVPrVCKAWNRAVT 46
Cdd:cd22158   1 WDCLPPDLLELIFSHLPLHDILICRS-VCKFWNRLTT 36

F-box-like; This is an F-box-like family.

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 18413178    10 WDELIPDALGLIFSHLPLQEVLTVVpRVCKAWNRAVTGPYCWQEID 55
Cdd:pfam12937   1 LSSLPDEILLQIFSYLDPKDLLRLA-LVCRRWRELASDDSLWRRLC 45

F-box domain found in Arabidopsis thaliana F-box protein FBW2 (AtFBW2) and similar proteins; AtFBW2, also called SKP1-interacting partner 18 (SKIP18), is an F-box protein that contains four tandem WD-40 repeats. It is a component of SCF (SPK1/ASK-cullin-F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins. It interacts with CUL1, CUL2 and SPK1B/ASK2. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.

                        10        20        30
                ....*....|....*....|....*....|....*..
gi 18413178  10 WDELIPDALGLIFSHLPLQEVLTVVPrVCKAWNRAVT 46
Cdd:cd22158   1 WDCLPPDLLELIFSHLPLHDILICRS-VCKFWNRLTT 36

F-box domain found in Arabidopsis thaliana SKP1-interacting partner 19 (AtSKIP19) and similar proteins; AtSKIP19, also called F-box protein SKIP19, or F-box/LRR-repeat protein 20 (FBL20), is a component of SCF (SPK1/ASK-cullin-F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins. It interacts with CUL1 and SPK1B/ASK2. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.

                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 18413178  10 WDELIPDALGLIFSHLPLQEVLTVVPRVCKAWNRAVTGPYCWQEID 55
Cdd:cd22164   2 WLDLPDDLTASILSRLGAIDILTNAQKVCKLWRRICKDPSMWRVID 47

Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18413178  67 DHLDRMLEMLIPRsagsLRKLSVT--GLRNDSIFSF--IAQHAGSLKTLKVPRSGLTNSGVVNVAEKL---SSLTFLDLS 139
Cdd:cd00116 126 RLLAKGLKDLPPA----LEKLVLGrnRLEGASCEALakALRANRDLKELNLANNGIGDAGIRALAEGLkanCNLEVLDLN 201

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18413178 140 YCCkIGPEAIQAIG---KHCKSLREfcrnmhpLDVASVVSHDDEAYAIANTMP----KLKRLEIAYHRVSTEGVLKILSC 212
Cdd:cd00116 202 NNG-LTDEGASALAetlASLKSLEV-------LNLGDNNLTDAGAAALASALLspniSLLTLSLSCNDITDDGAKDLAEV 273

                       170       180
                ....*....|....*....|....*..
gi 18413178 213 C---VFLEFLELRGcwdvqldNKFFKE 236
Cdd:cd00116 274 LaekESLLELDLRG-------NKFGEE 293

F-box domain found in F-box/LRR-repeat protein 1 (FBXL1) and similar proteins; FBXL1, also called S-phase kinase-associated protein 2, cyclin-A/CDK2-associated protein p45, F-box protein Skp2, or p45skp2, is the substrate-recognition component of an SCF (SKP1-CUL1-F-box protein) E3 ubiquitin-protein ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins involved in cell cycle progression, signal transduction and transcription. It specifically recognizes phosphorylated CDKN1B/p27kip and is involved in regulation of G1/S transition. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.

                        10        20        30
                ....*....|....*....|....*....|....*
gi 18413178  10 WDELiPDALGL-IFSHLPLQEVLTvVPRVCKAWNR 43
Cdd:cd22114   1 WDSL-PDELLLgIFSCLCLPDLLK-VSQVCKRWYR 33

Leucine-rich repeat domain of FBXL3 and related proteins; F-box/LRR-repeat proteins are part of Skp1-Cul1-F-box-protein (SCF) ubiquitin ligase complexes. They contain an F-Box, which binds to the core complex component SKP and a leucine-rich repeat (LRR) domain which gives substrate binding specificity. FBXL3 (F-box and leucine rich repeat protein 3) and FBXL21 have been shown to bind CRY1 repressors and are involved in regulation of circadian clock.

                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 18413178 104 HAGSLKTLKVPRSGLTNSGVVNVAEKLS-SLTFLDLSYCCKIGPEAIQAIGKHCKSLREFCRNMHPL 169
Cdd:cd23951  92 HSSSLSSLAIDDTPVDDPSLQTLASSSSdTLELLKMKSCPRVSPRGILAVADHCQHLRELSLNYHLL 158

DNA polymerase III subunit delta'; Validated

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 18413178   25 LPLQEVLTVVPRVCKAWNRAVTGPYCWQEIDIELWSNRFHQSdhldrmleMLIPRSAGS 83
Cdd:PRK05917 240 LPLEKVLSIIERAVQALDNSSSAPSCLEWVALQLWSLKNRQQ--------MLIRNRRGS 290