Citrus Sinensis ID: 040130

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------
Protein Sequence
MGQTPSTAIDPSDRFNILSPAIVYNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccHHHHHHHHHHHHHccccEEEEEEccccHHHcHHHHHcccccccEEEEEEcccccccccHHHHHHHHccccccEEccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccEEcccEEEccccccccccccccccccccccHHHHHHHHHHccHHcHHHHHHHHHHHHHHccccccEccccccHHHHHHHHHHHHHcHHHHEEEEEcccccccccHHHHHHHHHccccccEEEcccccccccc
Coil and Loop (DISEMBL)
mgqtpstaidpsdrfnilspaivyndgvefsdeLDKArdftgdlpdDCLAYIFQFLgsgdrkrcSLVCKrwlrvdggsryrlSLNAQSEILsslpsvfsrfDSVTKLALrcdrksislddDALVLISLRCQKLTRlklrgcreitdh
Flexible Loop (DISEMBL)
mgqtpstaidpsdrfnILSPAIVYNDGVEFSDELDKARDFTGDLPDDCLAYIFQFlgsgdrkrcSLVCKRWLRVDGGSRYRLSLNAQSEilsslpsvfSRFDSVTKLalrcdrksisldddalVLISLrcqkltrlklrgcreitdh
Low Complexity Region (SEG)
MGQTPSTAIDPSDRFNILSPAIVYNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH
Disordered region (IsUnstruct)
**************FNILSPAIVYNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCR*****
Disordered Region (DISOPRED)
***************************************FTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREIT**
Disordered Region (DISEMBL)
********IDPSDRFNILSPAIVYNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH
Disordered Region (DISPRO)
*************RFNILSPAIVYND********DKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCRE****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGQTPSTAIDPSDRFNILSPAIVYNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	147	2.2.26 [Sep-21-2011]
Q9FE83	527	F-box protein SKIP2 OS=Ar	yes	no	0.979	0.273	0.64	4e-48
Q9SN10	522	F-box/LRR-repeat protein	no	no	0.972	0.273	0.604	3e-44
Q9C626	518	F-box protein At1g47056 O	no	no	0.734	0.208	0.666	2e-39
Q9S9X4	554	Putative F-box/LRR-repeat	no	no	0.965	0.256	0.520	4e-34

>sp|Q9FE83|SKIP2_ARATH F-box protein SKIP2 OS=Arabidopsis thaliana GN=SKIP2 PE=1 SV=1

 Score =  189 bits (480), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 96/150 (64%), Positives = 118/150 (78%), Gaps = 6/150 (4%)

Query: 1   MGQTPSTAIDPSDR---FNILSPAIVYN-DGVEFSDELDKARDFTGDLPDDCLAYIFQFL 56
           MGQ PS+  + + R     + SP IV   + +   + +D  RDFTGDLPD+CLA++FQFL
Sbjct: 1   MGQAPSSTAESNGRELDLRLWSPVIVAGGESMAVGNVVD--RDFTGDLPDECLAHVFQFL 58

Query: 57  GSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSI 116
           G+GDRKRCSLVCKRWL VDG SR+RLSL+A+ EI S L S+F+RFDSVTKLALRCDRKS+
Sbjct: 59  GAGDRKRCSLVCKRWLLVDGQSRHRLSLDAKDEISSFLTSMFNRFDSVTKLALRCDRKSV 118

Query: 117 SLDDDALVLISLRCQKLTRLKLRGCREITD 146
           SL D+AL +IS+RC  LTR+KLRGCREITD
Sbjct: 119 SLSDEALAMISVRCLNLTRVKLRGCREITD 148

Component of SCF(ASK-cullin-F-box) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9SN10|FBL16_ARATH F-box/LRR-repeat protein 16 OS=Arabidopsis thaliana GN=FBL16 PE=2 SV=1

 Score =  177 bits (448), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 90/149 (60%), Positives = 112/149 (75%), Gaps = 6/149 (4%)

Query: 1   MGQTPSTAIDPSDR---FNILSPAIVYNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLG 57
           MGQ PS+  +P+ R     + SP  +  + + F D      DFT +LPDDCLA+IFQFL 
Sbjct: 1   MGQAPSSPAEPNVRDTSLCLWSPEFLDCESIGFED---GDYDFTANLPDDCLAHIFQFLS 57

Query: 58  SGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSIS 117
           +GDRKRCSLV KRWL VDG +R+RLSL+A+SEIL  LP +F+RFDSVTKLALRCDR+S S
Sbjct: 58  AGDRKRCSLVSKRWLLVDGQNRHRLSLDAKSEILPFLPCIFNRFDSVTKLALRCDRRSFS 117

Query: 118 LDDDALVLISLRCQKLTRLKLRGCREITD 146
           L D+AL ++S+RC  L R+KLRGCREITD
Sbjct: 118 LSDEALFIVSIRCSNLIRVKLRGCREITD 146

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C626|FB37_ARATH F-box protein At1g47056 OS=Arabidopsis thaliana GN=At1g47056 PE=2 SV=1

 Score =  160 bits (406), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 72/108 (66%), Positives = 97/108 (89%)

Query: 39  DFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVF 98
           D+T  LPD+CLA +FQFL SG+RKRC+LVC+RW+ V+G +RYRLSL+A+S++++S+PS+F
Sbjct: 38  DYTSSLPDECLALVFQFLNSGNRKRCALVCRRWMIVEGQNRYRLSLHARSDLITSIPSLF 97

Query: 99  SRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD 146
           SRFDSVTKL+L+CDR+S+S+ D+ALV ISLRC+ L RLKLR CRE+TD
Sbjct: 98  SRFDSVTKLSLKCDRRSVSIGDEALVKISLRCRNLKRLKLRACRELTD 145

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S9X4|FBL8_ARATH Putative F-box/LRR-repeat protein 8 OS=Arabidopsis thaliana GN=FBL8 PE=4 SV=1

 Score =  143 bits (360), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 76/146 (52%), Positives = 102/146 (69%), Gaps = 4/146 (2%)

Query: 1   MGQTPSTAIDPSDRFNILSPAIVYNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGD 60
           MGQ+ S        F   SP  V  +  E +   D+  D+  +LPD+CL+ IFQ L   D
Sbjct: 38  MGQSTSKFRRSKTTFT--SP--VLPNLREQNSGADEPYDYISNLPDECLSLIFQSLTCAD 93

Query: 61  RKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDD 120
            KRCSLVC+RWL ++G  R+RLSL AQS+++S +PS+F+RFDSVTKL LR DR+S+ + D
Sbjct: 94  LKRCSLVCRRWLTIEGQCRHRLSLKAQSDLISVIPSLFTRFDSVTKLVLRSDRRSLGICD 153

Query: 121 DALVLISLRCQKLTRLKLRGCREITD 146
           +A V+IS+RC+ LTRLKLRGC EI+D
Sbjct: 154 NAFVMISVRCRNLTRLKLRGCPEISD 179

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	147
110740779	527	hypothetical protein [Arabidopsis thalia	0.979	0.273	0.64	3e-46
18425169	527	F-box protein SKIP2 [Arabidopsis thalian	0.979	0.273	0.64	3e-46
15810227	304	putative SKP1 interacting partner SKIP2	0.979	0.473	0.64	4e-46
297794261	534	hypothetical protein ARALYDRAFT_919984 [	0.993	0.273	0.615	6e-45
224084394	524	predicted protein [Populus trichocarpa]	0.979	0.274	0.614	4e-44
224094274	519	predicted protein [Populus trichocarpa]	0.952	0.269	0.621	1e-43
356565539	539	PREDICTED: F-box protein SKIP2-like [Gly	0.965	0.263	0.635	1e-43
18409012	522	F-box/LRR-repeat protein 16 [Arabidopsis	0.972	0.273	0.604	2e-42
356514260	532	PREDICTED: F-box protein SKIP2-like [Gly	0.931	0.257	0.605	3e-42
255567881	529	skip-2, putative [Ricinus communis] gi|2	0.986	0.274	0.605	1e-41

>gi|110740779|dbj|BAE98487.1| hypothetical protein [Arabidopsis thaliana]

 Score =  189 bits (480), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 96/150 (64%), Positives = 118/150 (78%), Gaps = 6/150 (4%)

Query: 1   MGQTPSTAIDPSDR---FNILSPAIVYN-DGVEFSDELDKARDFTGDLPDDCLAYIFQFL 56
           MGQ PS+  + + R     + SP IV   + +   + +D  RDFTGDLPD+CLA++FQFL
Sbjct: 1   MGQAPSSTAESNGRELDLRLWSPVIVAGGESMAVGNVVD--RDFTGDLPDECLAHVFQFL 58

Query: 57  GSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSI 116
           G+GDRKRCSLVCKRWL VDG SR+RLSL+A+ EI S L S+F+RFDSVTKLALRCDRKS+
Sbjct: 59  GAGDRKRCSLVCKRWLLVDGQSRHRLSLDAKDEISSFLTSMFNRFDSVTKLALRCDRKSV 118

Query: 117 SLDDDALVLISLRCQKLTRLKLRGCREITD 146
           SL D+AL +IS+RC  LTR+KLRGCREITD
Sbjct: 119 SLSDEALAMISVRCLNLTRVKLRGCREITD 148

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18425169|ref|NP_569047.1| F-box protein SKIP2 [Arabidopsis thaliana] gi|75272932|sp|Q9FE83.1|SKIP2_ARATH RecName: Full=F-box protein SKIP2; AltName: Full=SKP1-interacting partner 2 gi|10177612|dbj|BAB10959.1| unnamed protein product [Arabidopsis thaliana] gi|10716949|gb|AAG21977.1| SKP1 interacting partner 2 [Arabidopsis thaliana] gi|27311735|gb|AAO00833.1| SKP1 interacting partner 2 (SKIP2) [Arabidopsis thaliana] gi|31711938|gb|AAP68325.1| At5g67250 [Arabidopsis thaliana] gi|332010937|gb|AED98320.1| F-box protein SKIP2 [Arabidopsis thaliana]

 Score =  189 bits (480), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 96/150 (64%), Positives = 118/150 (78%), Gaps = 6/150 (4%)

Query: 1   MGQTPSTAIDPSDR---FNILSPAIVYN-DGVEFSDELDKARDFTGDLPDDCLAYIFQFL 56
           MGQ PS+  + + R     + SP IV   + +   + +D  RDFTGDLPD+CLA++FQFL
Sbjct: 1   MGQAPSSTAESNGRELDLRLWSPVIVAGGESMAVGNVVD--RDFTGDLPDECLAHVFQFL 58

Query: 57  GSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSI 116
           G+GDRKRCSLVCKRWL VDG SR+RLSL+A+ EI S L S+F+RFDSVTKLALRCDRKS+
Sbjct: 59  GAGDRKRCSLVCKRWLLVDGQSRHRLSLDAKDEISSFLTSMFNRFDSVTKLALRCDRKSV 118

Query: 117 SLDDDALVLISLRCQKLTRLKLRGCREITD 146
           SL D+AL +IS+RC  LTR+KLRGCREITD
Sbjct: 119 SLSDEALAMISVRCLNLTRVKLRGCREITD 148

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15810227|gb|AAL07231.1| putative SKP1 interacting partner SKIP2 [Arabidopsis thaliana]

 Score =  189 bits (480), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 96/150 (64%), Positives = 118/150 (78%), Gaps = 6/150 (4%)

Query: 1   MGQTPSTAIDPSDR---FNILSPAIVYN-DGVEFSDELDKARDFTGDLPDDCLAYIFQFL 56
           MGQ PS+  + + R     + SP IV   + +   + +D  RDFTGDLPD+CLA++FQFL
Sbjct: 1   MGQAPSSTAESNGRELDLRLWSPVIVAGGESMAVGNVVD--RDFTGDLPDECLAHVFQFL 58

Query: 57  GSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSI 116
           G+GDRKRCSLVCKRWL VDG SR+RLSL+A+ EI S L S+F+RFDSVTKLALRCDRKS+
Sbjct: 59  GAGDRKRCSLVCKRWLLVDGQSRHRLSLDAKDEISSFLTSMFNRFDSVTKLALRCDRKSV 118

Query: 117 SLDDDALVLISLRCQKLTRLKLRGCREITD 146
           SL D+AL +IS+RC  LTR+KLRGCREITD
Sbjct: 119 SLSDEALAMISVRCLNLTRVKLRGCREITD 148

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297794261|ref|XP_002865015.1| hypothetical protein ARALYDRAFT_919984 [Arabidopsis lyrata subsp. lyrata] gi|297310850|gb|EFH41274.1| hypothetical protein ARALYDRAFT_919984 [Arabidopsis lyrata subsp. lyrata]

 Score =  185 bits (469), Expect = 6e-45,   Method: Compositional matrix adjust.
 Identities = 93/151 (61%), Positives = 117/151 (77%), Gaps = 5/151 (3%)

Query: 1   MGQTPSTAIDPSDR---FNILSPAIVYN-DGVEFSDELD-KARDFTGDLPDDCLAYIFQF 55
           MGQ PS+  + + R     + SP IV   + +   + +  + RDFTGDLPD+CLA++FQF
Sbjct: 1   MGQAPSSTAESNGREIDLRLWSPVIVSGGESMALGNVVAVRDRDFTGDLPDECLAHVFQF 60

Query: 56  LGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKS 115
           LG+GDRKRCSLVCKRWL VDG +R+RLSL+A+ EI   L S+F+RFDSVTKLALRCDRKS
Sbjct: 61  LGAGDRKRCSLVCKRWLYVDGQNRHRLSLDAKDEIFPFLTSMFNRFDSVTKLALRCDRKS 120

Query: 116 ISLDDDALVLISLRCQKLTRLKLRGCREITD 146
           +SL D+AL +IS+RC  LTR+KLRGCREITD
Sbjct: 121 VSLSDEALAMISVRCLNLTRVKLRGCREITD 151

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224084394|ref|XP_002307282.1| predicted protein [Populus trichocarpa] gi|222856731|gb|EEE94278.1| predicted protein [Populus trichocarpa]

 Score =  182 bits (462), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 91/148 (61%), Positives = 117/148 (79%), Gaps = 4/148 (2%)

Query: 1   MGQTPSTAIDPSDRFNILSPAIVYNDGVEFSDELDKA--RDFTGDLPDDCLAYIFQFLGS 58
           MGQ+ ST     +RF  L+PA + ++  + +DE++    RD T D+PDDCLAYIFQ L +
Sbjct: 1   MGQSSSTTNYSINRF--LTPATILSESSDLADEINIGPLRDHTEDIPDDCLAYIFQLLKA 58

Query: 59  GDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISL 118
           GDRK  SLVCKRWLRVD  SR RLSL AQSEI+S +P++F+RFDSV KL+LRC RKS+SL
Sbjct: 59  GDRKSSSLVCKRWLRVDAQSRRRLSLIAQSEIISYVPTIFTRFDSVAKLSLRCGRKSVSL 118

Query: 119 DDDALVLISLRCQKLTRLKLRGCREITD 146
           +DDAL++IS+RC+ LTRLKLRGCRE+T+
Sbjct: 119 NDDALLMISIRCENLTRLKLRGCRELTE 146

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224094274|ref|XP_002310119.1| predicted protein [Populus trichocarpa] gi|222853022|gb|EEE90569.1| predicted protein [Populus trichocarpa]

 Score =  181 bits (458), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 92/148 (62%), Positives = 117/148 (79%), Gaps = 8/148 (5%)

Query: 1   MGQTPSTAIDPSDRFNILSPAIVYNDGVEFSDELDKA--RDFTGDLPDDCLAYIFQFLGS 58
           MGQ+ ST   P+++F ++SP     +  +F+DE+      DFT  +PDDCLA IFQ L +
Sbjct: 1   MGQSSSTVSYPTNQF-LISP-----EPSDFTDEIKNGPLTDFTEGIPDDCLACIFQLLNA 54

Query: 59  GDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISL 118
            DRKR SLVCKRWLRVDG SR RLSLNAQSEI S +PS+F+RFDSV KL+LRCDRKS+SL
Sbjct: 55  ADRKRSSLVCKRWLRVDGQSRRRLSLNAQSEITSYVPSIFTRFDSVAKLSLRCDRKSLSL 114

Query: 119 DDDALVLISLRCQKLTRLKLRGCREITD 146
           +DDAL++IS++C+ LTRLKLRGCRE+T+
Sbjct: 115 NDDALLMISIQCESLTRLKLRGCREVTE 142

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356565539|ref|XP_003550997.1| PREDICTED: F-box protein SKIP2-like [Glycine max]

 Score =  181 bits (458), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 94/148 (63%), Positives = 115/148 (77%), Gaps = 6/148 (4%)

Query: 1   MGQTPSTAIDPSDRFNILSPAIVYNDG-VEFSDE-LDKARDFTGDLPDDCLAYIFQFLGS 58
           MGQ PST +   D    LS   ++N G  +FSDE +   RD+T D+PD+CLA IFQFL S
Sbjct: 1   MGQAPSTPVSSPD----LSRREIFNTGHADFSDESIVGGRDYTADIPDECLAGIFQFLSS 56

Query: 59  GDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISL 118
            DRK CS VC+RWLRVDG +R RLSLNA++ ++  +PS+FSRFDSVTKLALRCDRKS S+
Sbjct: 57  VDRKTCSAVCRRWLRVDGENRQRLSLNAKASLVDFVPSLFSRFDSVTKLALRCDRKSASV 116

Query: 119 DDDALVLISLRCQKLTRLKLRGCREITD 146
           +DDALVLISLRC+ L RLKLRGCRE+T+
Sbjct: 117 NDDALVLISLRCRNLVRLKLRGCREVTE 144

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18409012|ref|NP_566928.1| F-box/LRR-repeat protein 16 [Arabidopsis thaliana] gi|75266117|sp|Q9SN10.1|FBL16_ARATH RecName: Full=F-box/LRR-repeat protein 16 gi|6522929|emb|CAB62116.1| putative protein [Arabidopsis thaliana] gi|126352274|gb|ABO09882.1| At3g50080 [Arabidopsis thaliana] gi|332645103|gb|AEE78624.1| F-box/LRR-repeat protein 16 [Arabidopsis thaliana]

 Score =  177 bits (448), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 90/149 (60%), Positives = 112/149 (75%), Gaps = 6/149 (4%)

Query: 1   MGQTPSTAIDPSDR---FNILSPAIVYNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLG 57
           MGQ PS+  +P+ R     + SP  +  + + F D      DFT +LPDDCLA+IFQFL 
Sbjct: 1   MGQAPSSPAEPNVRDTSLCLWSPEFLDCESIGFED---GDYDFTANLPDDCLAHIFQFLS 57

Query: 58  SGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSIS 117
           +GDRKRCSLV KRWL VDG +R+RLSL+A+SEIL  LP +F+RFDSVTKLALRCDR+S S
Sbjct: 58  AGDRKRCSLVSKRWLLVDGQNRHRLSLDAKSEILPFLPCIFNRFDSVTKLALRCDRRSFS 117

Query: 118 LDDDALVLISLRCQKLTRLKLRGCREITD 146
           L D+AL ++S+RC  L R+KLRGCREITD
Sbjct: 118 LSDEALFIVSIRCSNLIRVKLRGCREITD 146

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356514260|ref|XP_003525824.1| PREDICTED: F-box protein SKIP2-like [Glycine max]

 Score =  176 bits (446), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 89/147 (60%), Positives = 111/147 (75%), Gaps = 10/147 (6%)

Query: 1   MGQTPSTAIDPSDRFNILSPAIVYNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGD 60
           MGQ PST +  +D        + + D   F+ +    RD+T D+PD+CLA IFQFL S D
Sbjct: 1   MGQAPSTPVSSTD--------LSHRD--IFTTDESIGRDYTADIPDECLAGIFQFLSSVD 50

Query: 61  RKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDD 120
           RK CS VC+RWLRVDG +R RLSLNA++ ++  +PS+FSRFDSVTKLALRCDRKS S++D
Sbjct: 51  RKTCSAVCRRWLRVDGENRQRLSLNAKASLVDFVPSLFSRFDSVTKLALRCDRKSTSVND 110

Query: 121 DALVLISLRCQKLTRLKLRGCREITDH 147
           DALVLISLRC+ L RLKLRGCRE+T+H
Sbjct: 111 DALVLISLRCRNLVRLKLRGCREVTEH 137

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255567881|ref|XP_002524918.1| skip-2, putative [Ricinus communis] gi|223535753|gb|EEF37415.1| skip-2, putative [Ricinus communis]

 Score =  174 bits (441), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 89/147 (60%), Positives = 113/147 (76%), Gaps = 2/147 (1%)

Query: 1   MGQTPSTAIDPSDRFNILSPAIVYNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGD 60
           MGQ+PSTA + S   N L P       +  ++++    D+T ++PD+CLAYIFQFL + D
Sbjct: 1   MGQSPSTA-NSSTTINRLLPLPPPPPIIS-AEKITCDVDYTDNIPDECLAYIFQFLSASD 58

Query: 61  RKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDD 120
           RK CS VC+RW  VDG SR+RLSL AQ+EI++ +P +F+RFDSVTKLALRCDRKSISL+D
Sbjct: 59  RKHCSYVCRRWYLVDGCSRHRLSLKAQTEIITYIPLLFTRFDSVTKLALRCDRKSISLND 118

Query: 121 DALVLISLRCQKLTRLKLRGCREITDH 147
           DA V+IS+RCQ L RLKLRGCREITD+
Sbjct: 119 DAFVMISIRCQNLERLKLRGCREITDN 145

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	147
TAIR|locus:2155578	527	SKIP2 "AT5G67250" [Arabidopsis	0.979	0.273	0.64	1.3e-45
TAIR|locus:2083143	522	VFB2 "AT3G50080" [Arabidopsis	0.972	0.273	0.617	1.5e-42
TAIR|locus:2825736	518	VFB1 "VIER F-box proteine 1" [	0.734	0.208	0.666	2.1e-38
TAIR|locus:2124372	554	VFB3 "AT4G07400" [Arabidopsis	0.761	0.202	0.598	2.7e-33
UNIPROTKB|Q5R3Z8	423	FBXL2 "F-box/LRR-repeat protei	0.755	0.262	0.317	2.3e-06
UNIPROTKB|A9SYG2	570	TIRB1 "TIR1-like auxin recepto	0.428	0.110	0.367	3.4e-06
UNIPROTKB|F1PWK1	422	FBXL2 "Uncharacterized protein	0.673	0.234	0.321	3.8e-06
UNIPROTKB|A6H779	423	FBXL2 "F-box/LRR-repeat protei	0.673	0.234	0.321	3.8e-06
UNIPROTKB|Q9UKC9	423	FBXL2 "F-box/LRR-repeat protei	0.673	0.234	0.321	3.8e-06
TAIR|locus:2079721	395	AT3G07550 "AT3G07550" [Arabido	0.374	0.139	0.413	4.1e-06

TAIR|locus:2155578 SKIP2 "AT5G67250" [Arabidopsis thaliana (taxid:3702)]

 Score = 479 (173.7 bits), Expect = 1.3e-45, P = 1.3e-45
 Identities = 96/150 (64%), Positives = 118/150 (78%)

Query:     1 MGQTPSTAIDPSDR---FNILSPAIVYN-DGVEFSDELDKARDFTGDLPDDCLAYIFQFL 56
             MGQ PS+  + + R     + SP IV   + +   + +D  RDFTGDLPD+CLA++FQFL
Sbjct:     1 MGQAPSSTAESNGRELDLRLWSPVIVAGGESMAVGNVVD--RDFTGDLPDECLAHVFQFL 58

Query:    57 GSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSI 116
             G+GDRKRCSLVCKRWL VDG SR+RLSL+A+ EI S L S+F+RFDSVTKLALRCDRKS+
Sbjct:    59 GAGDRKRCSLVCKRWLLVDGQSRHRLSLDAKDEISSFLTSMFNRFDSVTKLALRCDRKSV 118

Query:   117 SLDDDALVLISLRCQKLTRLKLRGCREITD 146
             SL D+AL +IS+RC  LTR+KLRGCREITD
Sbjct:   119 SLSDEALAMISVRCLNLTRVKLRGCREITD 148

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0005737 "cytoplasm" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2083143 VFB2 "AT3G50080" [Arabidopsis thaliana (taxid:3702)]

 Score = 450 (163.5 bits), Expect = 1.5e-42, P = 1.5e-42
 Identities = 92/149 (61%), Positives = 113/149 (75%)

Query:     1 MGQTPSTAIDPSDRFNIL---SPAIVYNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLG 57
             MGQ PS+  +P+ R   L   SP  +  + + F D  D   DFT +LPDDCLA+IFQFL 
Sbjct:     1 MGQAPSSPAEPNVRDTSLCLWSPEFLDCESIGFEDG-DY--DFTANLPDDCLAHIFQFLS 57

Query:    58 SGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSIS 117
             +GDRKRCSLV KRWL VDG +R+RLSL+A+SEIL  LP +F+RFDSVTKLALRCDR+S S
Sbjct:    58 AGDRKRCSLVSKRWLLVDGQNRHRLSLDAKSEILPFLPCIFNRFDSVTKLALRCDRRSFS 117

Query:   118 LDDDALVLISLRCQKLTRLKLRGCREITD 146
             L D+AL ++S+RC  L R+KLRGCREITD
Sbjct:   118 LSDEALFIVSIRCSNLIRVKLRGCREITD 146

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=TAS

GO:0005737 "cytoplasm" evidence=IDA

TAIR|locus:2825736 VFB1 "VIER F-box proteine 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 411 (149.7 bits), Expect = 2.1e-38, P = 2.1e-38
 Identities = 72/108 (66%), Positives = 97/108 (89%)

Query:    39 DFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVF 98
             D+T  LPD+CLA +FQFL SG+RKRC+LVC+RW+ V+G +RYRLSL+A+S++++S+PS+F
Sbjct:    38 DYTSSLPDECLALVFQFLNSGNRKRCALVCRRWMIVEGQNRYRLSLHARSDLITSIPSLF 97

Query:    99 SRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD 146
             SRFDSVTKL+L+CDR+S+S+ D+ALV ISLRC+ L RLKLR CRE+TD
Sbjct:    98 SRFDSVTKLSLKCDRRSVSIGDEALVKISLRCRNLKRLKLRACRELTD 145

GO:0005634 "nucleus" evidence=ISM

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

TAIR|locus:2124372 VFB3 "AT4G07400" [Arabidopsis thaliana (taxid:3702)]

 Score = 365 (133.5 bits), Expect = 2.7e-33, P = 2.7e-33
 Identities = 67/112 (59%), Positives = 90/112 (80%)

Query:    35 DKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSL 94
             D+  D+  +LPD+CL+ IFQ L   D KRCSLVC+RWL ++G  R+RLSL AQS+++S +
Sbjct:    68 DEPYDYISNLPDECLSLIFQSLTCADLKRCSLVCRRWLTIEGQCRHRLSLKAQSDLISVI 127

Query:    95 PSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD 146
             PS+F+RFDSVTKL LR DR+S+ + D+A V+IS+RC+ LTRLKLRGC EI+D
Sbjct:   128 PSLFTRFDSVTKLVLRSDRRSLGICDNAFVMISVRCRNLTRLKLRGCPEISD 179

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=TAS

UNIPROTKB|Q5R3Z8 FBXL2 "F-box/LRR-repeat protein 2" [Pongo abelii (taxid:9601)]

 Score = 117 (46.2 bits), Expect = 2.3e-06, P = 2.3e-06
 Identities = 39/123 (31%), Positives = 61/123 (49%)

Query:    30 FSDELDKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRW--LRVDGGSRYRLSL-NA 86
             FS+  D+ R     LP + L  IF FL      RC+ + K W  L +DG +  R+ L N 
Sbjct:     3 FSNN-DEGR-INKKLPKELLLRIFSFLDIVTLCRCAQISKAWNILALDGSNWQRIDLFNF 60

Query:    87 QSEILSSL-PSVFSRFDS-VTKLALR-CDRKSISLDDDALVLISLRCQKLTRLKLRGCRE 143
             Q+++   +  ++  R    + KL+LR C    I + D +L   +  C+ +  L L GC +
Sbjct:    61 QTDVEGRVVENISKRCGGFLRKLSLRGC----IGVGDSSLKTFAQNCRNIEHLNLNGCTK 116

Query:   144 ITD 146
             ITD
Sbjct:   117 ITD 119

GO:0016020 "membrane" evidence=ISS

UNIPROTKB|A9SYG2 TIRB1 "TIR1-like auxin receptor" [Physcomitrella patens subsp. patens (taxid:145481)]

 Score = 102 (41.0 bits), Expect = 3.4e-06, Sum P(2) = 3.4e-06
 Identities = 25/68 (36%), Positives = 37/68 (54%)

Query:    45 PDDCLAYIFQFL-GSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVF-SRFD 102
             PD+ L ++  FL G  DR   SLVCK W R +G SR  + +       +S P++   RF 
Sbjct:     6 PDEVLEHVLVFLTGHKDRNSVSLVCKAWCRAEGWSRRDVFIG---NCYASSPTILLRRFP 62

Query:   103 SVTKLALR 110
              +T LA++
Sbjct:    63 KLTSLAMK 70

GO:0000822 "inositol hexakisphosphate binding" evidence=ISS

GO:0009734 "auxin mediated signaling pathway" evidence=ISS

UNIPROTKB|F1PWK1 FBXL2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 115 (45.5 bits), Expect = 3.8e-06, P = 3.8e-06
 Identities = 35/109 (32%), Positives = 55/109 (50%)

Query:    44 LPDDCLAYIFQFLGSGDRKRCSLVCKRW--LRVDGGSRYRLSL-NAQSEILSSL-PSVFS 99
             LP + L  IF FL      RC+ + K W  L +DG +  R+ L N Q+++   +  ++  
Sbjct:    14 LPKELLLRIFSFLDIVTLCRCAQISKAWNILALDGSNWQRIDLFNFQTDVEGRVVENISK 73

Query:   100 RFDS-VTKLALR-CDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD 146
             R    + KL+LR C    I + D +L   +  C+ +  L L GC +ITD
Sbjct:    74 RCGGFLRKLSLRGC----IGVGDSSLKTFAQNCRNIEHLNLNGCTKITD 118

GO:0016020 "membrane" evidence=IEA

GO:0006513 "protein monoubiquitination" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

UNIPROTKB|A6H779 FBXL2 "F-box/LRR-repeat protein 2" [Bos taurus (taxid:9913)]

 Score = 115 (45.5 bits), Expect = 3.8e-06, P = 3.8e-06
 Identities = 35/109 (32%), Positives = 55/109 (50%)

Query:    44 LPDDCLAYIFQFLGSGDRKRCSLVCKRW--LRVDGGSRYRLSL-NAQSEILSSL-PSVFS 99
             LP + L  IF FL      RC+ + K W  L +DG +  R+ L N Q+++   +  ++  
Sbjct:    15 LPKELLLRIFSFLDIVTLCRCAQISKAWNILALDGSNWQRIDLFNFQTDVEGRVVENISK 74

Query:   100 RFDS-VTKLALR-CDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD 146
             R    + KL+LR C    I + D +L   +  C+ +  L L GC +ITD
Sbjct:    75 RCGGFLRKLSLRGC----IGVGDSSLKTFAQNCRNIEHLNLNGCTKITD 119

GO:0016020 "membrane" evidence=ISS

GO:0006513 "protein monoubiquitination" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0005516 "calmodulin binding" evidence=IEA

UNIPROTKB|Q9UKC9 FBXL2 "F-box/LRR-repeat protein 2" [Homo sapiens (taxid:9606)]

 Score = 115 (45.5 bits), Expect = 3.8e-06, P = 3.8e-06
 Identities = 35/109 (32%), Positives = 55/109 (50%)

Query:    44 LPDDCLAYIFQFLGSGDRKRCSLVCKRW--LRVDGGSRYRLSL-NAQSEILSSL-PSVFS 99
             LP + L  IF FL      RC+ + K W  L +DG +  R+ L N Q+++   +  ++  
Sbjct:    15 LPKELLLRIFSFLDIVTLCRCAQISKAWNILALDGSNWQRIDLFNFQTDVEGRVVENISK 74

Query:   100 RFDS-VTKLALR-CDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD 146
             R    + KL+LR C    I + D +L   +  C+ +  L L GC +ITD
Sbjct:    75 RCGGFLRKLSLRGC----IGVGDSSLKTFAQNCRNIEHLNLNGCTKITD 119

GO:0005516 "calmodulin binding" evidence=IEA

GO:0019048 "virus-host interaction" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0006513 "protein monoubiquitination" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0016020 "membrane" evidence=IDA

GO:0005737 "cytoplasm" evidence=TAS

GO:0006464 "cellular protein modification process" evidence=TAS

GO:0006508 "proteolysis" evidence=TAS

TAIR|locus:2079721 AT3G07550 "AT3G07550" [Arabidopsis thaliana (taxid:3702)]

 Score = 102 (41.0 bits), Expect = 4.1e-06, Sum P(2) = 4.1e-06
 Identities = 24/58 (41%), Positives = 30/58 (51%)

Query:    44 LPDDCLAYIFQFLGS-GDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSR 100
             LPDDCL++IFQ L S  D     L C RWL +   SR  L       +L+  PS  S+
Sbjct:    18 LPDDCLSFIFQRLDSVADHDSFGLTCHRWLNIQNISRRSLQFQCSFSVLN--PSSLSQ 73

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=TAS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	SKIP2	SKIP2 (SKP1/ASK1 INTERACTING PROTEIN 2); ubiquitin-protein ligase; Encodes an SKP1 interacting partner (SKIP2).Encodes an F-box protein. Based on genetic analysis appears to be functionally redundant with VFB1,2, and 3. When expression of all 4 genes is reduced plants show defects in growth and reduced expression of auxin response genes. ; Component of SCF(ASK-cullin-F-box) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins (By similarity) (527 aa)
		(Arabidopsis thaliana)
Predicted Functional Partners:
	SKP1	SKP1 (S PHASE KINASE-ASSOCIATED PROTEIN 1); protein binding / ubiquitin-protein ligase; SKP1 is [...] (160 aa)					•		•		0.937
	ASK2	ASK2 (ARABIDOPSIS SKP1-LIKE 2); protein binding / ubiquitin-protein ligase; Similar to SKP1 in [...] (171 aa)					•				0.813
	ASK11	ASK11 (ARABIDOPSIS SKP1-LIKE 11); protein binding / ubiquitin-protein ligase; one of 20 SKP1 ho [...] (152 aa)					•				0.675
	SKIP4	SKIP4 (SKP1 INTERACTING PARTNER 4); Encodes an SKP1 interacting partner (SKIP4). (358 aa)							•		0.627
	SKIP6	SKIP6 (SKP1 interacting partner 6); ubiquitin-protein ligase; Encodes an SKP1 interacting partn [...] (372 aa)							•		0.627
	AT4G08670	protease inhibitor/seed storage/lipid transfer protein (LTP) family protein; protease inhibitor [...] (208 aa)							•		0.589
	AT2G31550	GDSL-motif lipase/hydrolase family protein; GDSL-motif lipase/hydrolase family protein; FUNCTIO [...] (219 aa)							•		0.577
	AT2G31540	GDSL-motif lipase/hydrolase family protein; GDSL-motif lipase/hydrolase family protein; FUNCTIO [...] (360 aa)							•		0.577
	SKIP5	SKIP5 (SKP1/ASK-INTERACTING PROTEIN 5); Encodes an SKP1 interacting partner (SKIP5). (274 aa)							•		0.575
	RPS25B	40S ribosomal protein S25 (RPS25E); 40S ribosomal protein S25 (RPS25E); FUNCTIONS IN- structura [...] (108 aa)							•		0.508

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	147
pfam12937	47	pfam12937, F-box-like, F-box-like	9e-06
pfam00646	48	pfam00646, F-box, F-box domain	2e-04
smart00256	41	smart00256, FBOX, A Receptor for Ubiquitination Ta	0.001

>gnl|CDD|221867 pfam12937, F-box-like, F-box-like

 Score = 40.2 bits (95), Expect = 9e-06
 Identities = 15/32 (46%), Positives = 20/32 (62%)

Query: 43 DLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRV 74
          DLPD+ L  IF +L   D  R +LVC+RW  +
Sbjct: 3  DLPDEILLQIFSYLDPRDLLRLALVCRRWREL 34

This is an F-box-like family. Length = 47

>gnl|CDD|201368 pfam00646, F-box, F-box domain

 Score = 36.4 bits (85), Expect = 2e-04
 Identities = 16/29 (55%), Positives = 16/29 (55%)

Query: 43 DLPDDCLAYIFQFLGSGDRKRCSLVCKRW 71
          DLPDD L  I   L   D  R SLV KRW
Sbjct: 5  DLPDDLLLEILSRLDPKDLLRLSLVSKRW 33

This domain is approximately 50 amino acids long, and is usually found in the N-terminal half of a variety of proteins. Two motifs that are commonly found associated with the F-box domain are the leucine rich repeats (LRRs; pfam00560 and pfam07723) and the WD repeat (pfam00400). 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. Length = 48

>gnl|CDD|197608 smart00256, FBOX, A Receptor for Ubiquitination Targets

 Score = 34.7 bits (81), Expect = 0.001
 Identities = 10/28 (35%), Positives = 13/28 (46%)

Query: 44 LPDDCLAYIFQFLGSGDRKRCSLVCKRW 71
          LPD+ L  I   L   D  R   V ++W
Sbjct: 1  LPDEILEEILSKLDPKDLLRLRKVSRKW 28

Length = 41

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	147
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	99.51
KOG4341	483	consensus F-box protein containing LRR [General fu	99.48
PF12937	47	F-box-like: F-box-like; PDB: 1P22_A 2OVP_B 2OVR_B	99.21
smart00256	41	FBOX A Receptor for Ubiquitination Targets.	98.63
PF00646	48	F-box: F-box domain; InterPro: IPR001810 The F-box	98.54
KOG4341	483	consensus F-box protein containing LRR [General fu	98.17
KOG1947	482	consensus Leucine rich repeat proteins, some prote	98.02
KOG0281	499	consensus Beta-TrCP (transducin repeats containing	97.42
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.42
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	97.35
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	97.31
KOG2997	366	consensus F-box protein FBX9 [General function pre	97.21
KOG3864	221	consensus Uncharacterized conserved protein [Funct	97.14
PLN03215	373	ascorbic acid mannose pathway regulator 1; Provisi	96.35
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	96.25
KOG3864	221	consensus Uncharacterized conserved protein [Funct	95.21
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	94.96
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	94.36
KOG0274	537	consensus Cdc4 and related F-box and WD-40 protein	94.24
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	92.96
PF13013	109	F-box-like_2: F-box-like domain	91.88
smart00368	28	LRR_RI Leucine rich repeat, ribonuclease inhibitor	89.73
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	89.48
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	88.52
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	85.78
KOG3926	332	consensus F-box proteins [Amino acid transport and	85.65
KOG2982	418	consensus Uncharacterized conserved protein [Funct	84.34
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	84.08
PF09372	97	PRANC: PRANC domain; InterPro: IPR018272 This pres	83.5

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=99.51  E-value=2.3e-14  Score=116.89  Aligned_cols=111  Identities=26%  Similarity=0.413  Sum_probs=83.9

Q ss_pred             ccCCCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeeeccchh---hh-------------------
Q 040130           35 DKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLSLNAQS---EI-------------------   90 (147)
Q Consensus        35 ~~~~~~~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~--~~~~~~l~l~~~~---~~-------------------   90 (147)
                      .++.. ++.|||||++.||+.|..+++.+++.|||+||+++  ..+|+.+|+....   +.                   
T Consensus        93 npgv~-~~slpDEill~IFs~L~kk~LL~~~~VC~Rfyr~~~de~lW~~lDl~~r~i~p~~l~~l~~rgV~v~Rlar~~~  171 (419)
T KOG2120|consen   93 NPGVS-WDSLPDEILLGIFSCLCKKELLKVSGVCKRFYRLASDESLWQTLDLTGRNIHPDVLGRLLSRGVIVFRLARSFM  171 (419)
T ss_pred             CCCCC-cccCCHHHHHHHHHhccHHHHHHHHHHHHHHhhccccccceeeeccCCCccChhHHHHHHhCCeEEEEcchhhh
Confidence            45556 67899999999999999999999999999999986  5899998875321   00                   


Q ss_pred             -h--------------------------hchHHHhhcCccceeecee----------c-----------cCCCCcccHHH
Q 040130           91 -L--------------------------SSLPSVFSRFDSVTKLALR----------C-----------DRKSISLDDDA  122 (147)
Q Consensus        91 -~--------------------------~~l~~l~~r~~~L~~L~L~----------c-----------~~~c~~itD~~  122 (147)
                       .                          ..+..+++.|.+|+.|+|.          |           +.+|.++|..+
T Consensus       172 ~~prlae~~~~frsRlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~  251 (419)
T KOG2120|consen  172 DQPRLAEHFSPFRSRLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENA  251 (419)
T ss_pred             cCchhhhhhhhhhhhhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhH
Confidence             0                          0122244445444444443          1           12789999999


Q ss_pred             HHHHHHhCCCCcEEeccCCCCCCC
Q 040130          123 LVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus       123 L~~la~~cp~L~~L~L~~C~~vtD  146 (147)
                      +..+...|..|++|||++|..++|
T Consensus       252 ~~ll~~scs~L~~LNlsWc~l~~~  275 (419)
T KOG2120|consen  252 LQLLLSSCSRLDELNLSWCFLFTE  275 (419)
T ss_pred             HHHHHHhhhhHhhcCchHhhccch
Confidence            999999999999999999988776

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=99.48  E-value=2.4e-14  Score=120.36  Aligned_cols=101  Identities=26%  Similarity=0.478  Sum_probs=77.2

Q ss_pred             CCCHHHHHHHHHhCChHHHHHHhhhcccccc--cCCCcceeeeccch-hhh-hhch------------------------
Q 040130           43 DLPDDCLAYIFQFLGSGDRKRCSLVCKRWLR--VDGGSRYRLSLNAQ-SEI-LSSL------------------------   94 (147)
Q Consensus        43 ~LP~elL~~If~~L~~~dl~~~s~VCk~W~~--~~~~~~~~l~l~~~-~~~-~~~l------------------------   94 (147)
                      .||.|++++||++|+.+.++++++||+.|+.  +++.+|+++++... .++ ...+                        
T Consensus        74 ~LPpEl~lkvFS~LDtksl~r~a~~c~~~n~~AlD~~~~q~idL~t~~rDv~g~VV~~~~~Rcgg~lk~LSlrG~r~v~~  153 (483)
T KOG4341|consen   74 SLPPELLLKVFSMLDTKSLCRAAQCCTMWNKLALDGSCWQHIDLFTFQRDVDGGVVENMISRCGGFLKELSLRGCRAVGD  153 (483)
T ss_pred             cCCHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhhccccceeeehhcchhcCCCcceehHhhhhccccccccccccccCCc
Confidence            6999999999999999999999999999966  45899999998533 222 1223                        


Q ss_pred             ---HHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 040130           95 ---PSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        95 ---~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD  146 (147)
                         ..+...|+|+++|++.   +|..|||+.+..+++.|++|+.|+|..|..+||
T Consensus       154 sslrt~~~~CpnIehL~l~---gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~  205 (483)
T KOG4341|consen  154 SSLRTFASNCPNIEHLALY---GCKKITDSSLLSLARYCRKLRHLNLHSCSSITD  205 (483)
T ss_pred             chhhHHhhhCCchhhhhhh---cceeccHHHHHHHHHhcchhhhhhhcccchhHH
Confidence               3344455555555555   677888888888888888888888888877775

>PF12937 F-box-like: F-box-like; PDB: 1P22_A 2OVP_B 2OVR_B 2OVQ_B 1FS1_A 1FS2_C 1FQV_I 1LDK_E 2AST_B 2ASS_B

Probab=99.21  E-value=2.8e-12  Score=77.05  Aligned_cols=44  Identities=43%  Similarity=0.741  Sum_probs=36.5

Q ss_pred             CCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeeec
Q 040130           41 TGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLSL   84 (147)
Q Consensus        41 ~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~--~~~~~~l~l   84 (147)
                      +..||+|++.+||+||+.+|+.++++|||+|+.++  ..+|+++.+
T Consensus         1 i~~LP~Eil~~If~~L~~~dl~~~~~vcr~w~~~~~~~~lW~~~~~   46 (47)
T PF12937_consen    1 ISSLPDEILLEIFSYLDPRDLLRLSLVCRRWRRIANDNSLWRRLCL   46 (47)
T ss_dssp             CCCS-HHHHHHHHTTS-HHHHHHHTTSSHHHHHHHTCCCHHHHHC-
T ss_pred             ChHhHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHCChhhhhhhcc
Confidence            45799999999999999999999999999999875  478887654

>smart00256 FBOX A Receptor for Ubiquitination Targets

Probab=98.63  E-value=1.5e-08  Score=58.09  Aligned_cols=32  Identities=34%  Similarity=0.478  Sum_probs=30.5

Q ss_pred             CCHHHHHHHHHhCChHHHHHHhhhcccccccC
Q 040130           44 LPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD   75 (147)
Q Consensus        44 LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~   75 (147)
                      ||+|++.+||.+|+..|+.++++|||+|+.+.
T Consensus         1 lP~~ll~~I~~~l~~~d~~~~~~vc~~~~~~~   32 (41)
T smart00256        1 LPDEILEEILSKLPPKDLLRLRKVSRRWRSLI   32 (41)
T ss_pred             CCHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence            79999999999999999999999999998865

>PF00646 F-box: F-box domain; InterPro: IPR001810 The F-box domain was first described as a sequence motif found in cyclin-F that interacts with the protein SKP1 [, ]

Probab=98.54  E-value=1.5e-08  Score=60.53  Aligned_cols=35  Identities=43%  Similarity=0.661  Sum_probs=29.1

Q ss_pred             CCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC
Q 040130           41 TGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD   75 (147)
Q Consensus        41 ~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~   75 (147)
                      +.+||+|++.+||+||+..|+.++++|||+|+++.
T Consensus         3 ~~~LP~~il~~Il~~l~~~~~~~l~~vsk~~~~~~   37 (48)
T PF00646_consen    3 LSDLPDEILQEILSYLDPKDLLRLSLVSKRWRSLV   37 (48)
T ss_dssp             HHHS-HHHHHHHHHTS-HHHHHHHCTT-HHHHHHH
T ss_pred             HHHCCHHHHHHHHHHCcHHHHHHHHHHhhHHHHHH
Confidence            34699999999999999999999999999998765

This relatively conserved structural motif is present in numerous proteins and serves as a link between a target protein and a ubiquitin-conjugating enzyme. The SCF complex (e.g., Skp1-Cullin-F-box) plays a similar role as an E3 ligase in the ubiquitin protein degradation pathway [, ]. Different F-box proteins as a part of SCF complex recruit particular substrates for ubiquitination through specific protein-protein interaction domains. Many mammalian F-box domains contain leucine-rich or WD-40 repeats (IPR001680 from INTERPRO). However, several F-box proteins either have other previously described domains such as Sec7 domain found in FBS protein or do not contain defined protein-protein interaction domains or motifs.; GO: 0005515 protein binding; PDB: 2E32_A 2E31_A 3V7D_B 1NEX_B 3MKS_D 3L2O_B.

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=98.17  E-value=5.6e-07  Score=76.38  Aligned_cols=62  Identities=31%  Similarity=0.403  Sum_probs=47.2

Q ss_pred             eeccchhhhh-hchHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 040130           82 LSLNAQSEIL-SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        82 l~l~~~~~~~-~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD  146 (147)
                      +.+..+..++ ..+..+.+.|++|+.|+|.   +|..|||..|+.+++.|++|++||+++|.++++
T Consensus       169 L~l~gc~~iTd~s~~sla~~C~~l~~l~L~---~c~~iT~~~Lk~la~gC~kL~~lNlSwc~qi~~  231 (483)
T KOG4341|consen  169 LALYGCKKITDSSLLSLARYCRKLRHLNLH---SCSSITDVSLKYLAEGCRKLKYLNLSWCPQISG  231 (483)
T ss_pred             hhhhcceeccHHHHHHHHHhcchhhhhhhc---ccchhHHHHHHHHHHhhhhHHHhhhccCchhhc
Confidence            3333343333 3466778888888888888   788888888888888888888888888888875

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=98.02  E-value=6.3e-06  Score=68.90  Aligned_cols=53  Identities=36%  Similarity=0.607  Sum_probs=46.7

Q ss_pred             hchHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCCC
Q 040130           92 SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH  147 (147)
Q Consensus        92 ~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD~  147 (147)
                      ..+..+..+|++|++|.+.   +|..+||+++..+++.|++|++|+|++|..++|+
T Consensus       259 ~~l~~l~~~c~~L~~L~l~---~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d~  311 (482)
T KOG1947|consen  259 IGLSALASRCPNLETLSLS---NCSNLTDEGLVSIAERCPSLRELDLSGCHGLTDS  311 (482)
T ss_pred             hhHHHHHhhCCCcceEccC---CCCccchhHHHHHHHhcCcccEEeeecCccchHH
Confidence            3577788889999999987   7888999999999999999999999999998763

>KOG0281 consensus Beta-TrCP (transducin repeats containing)/Slimb proteins [Function unknown]

Probab=97.42  E-value=2.6e-05  Score=65.10  Aligned_cols=45  Identities=40%  Similarity=0.658  Sum_probs=39.9

Q ss_pred             CCCCCCCC----HHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceee
Q 040130           38 RDFTGDLP----DDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRL   82 (147)
Q Consensus        38 ~~~~~~LP----~elL~~If~~L~~~dl~~~s~VCk~W~~~~--~~~~~~l   82 (147)
                      +|++..||    +++-+.||+||+..+|++|.+|||.|+++.  +.+|+++
T Consensus        72 rDFi~~lP~~gl~hi~e~ilsyld~~sLc~celv~k~W~r~l~dg~~WKkL  122 (499)
T KOG0281|consen   72 RDFITALPEQGLDHIAENILSYLDALSLCACELVCKEWKRVLSDGMLWKKL  122 (499)
T ss_pred             HHHHHhcccccHHHHHHHHHHhcchhhhhHHHHHHHHHHHHhccchHHHHH
Confidence            58888999    999999999999999999999999998864  5677765

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=97.42  E-value=0.00017  Score=60.27  Aligned_cols=51  Identities=27%  Similarity=0.408  Sum_probs=45.7

Q ss_pred             hHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCCC
Q 040130           94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH  147 (147)
Q Consensus        94 l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD~  147 (147)
                      ...+...|.+|++|+|+   .|..++|.++..++..|++|++|.+.+|..+||+
T Consensus       235 ~~~~~~~~~~L~~l~l~---~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~  285 (482)
T KOG1947|consen  235 LLLLLSICRKLKSLDLS---GCGLVTDIGLSALASRCPNLETLSLSNCSNLTDE  285 (482)
T ss_pred             hhhhhhhcCCcCccchh---hhhccCchhHHHHHhhCCCcceEccCCCCccchh
Confidence            34477888999999999   6777999999999999999999999999999874

>smart00367 LRR_CC Leucine-rich repeat - CC (cysteine-containing) subfamily

Probab=97.35  E-value=0.00019  Score=37.63  Aligned_cols=25  Identities=16%  Similarity=0.306  Sum_probs=20.0

Q ss_pred             CccceeeceeccCCCCcccHHHHHHHHH
Q 040130          101 FDSVTKLALRCDRKSISLDDDALVLISL  128 (147)
Q Consensus       101 ~~~L~~L~L~c~~~c~~itD~~L~~la~  128 (147)
                      |++|++|+|+   +|..|||.++..|++
T Consensus         1 c~~L~~L~l~---~C~~itD~gl~~l~~   25 (26)
T smart00367        1 CPNLRELDLS---GCTNITDEGLQALAK   25 (26)
T ss_pred             CCCCCEeCCC---CCCCcCHHHHHHHhc
Confidence            5678888888   788888888888875

>smart00367 LRR_CC Leucine-rich repeat - CC (cysteine-containing) subfamily

Probab=97.31  E-value=0.0001  Score=38.63  Aligned_cols=18  Identities=50%  Similarity=1.018  Sum_probs=16.9

Q ss_pred             CCCCcEEeccCCCCCCCC
Q 040130          130 CQKLTRLKLRGCREITDH  147 (147)
Q Consensus       130 cp~L~~L~L~~C~~vtD~  147 (147)
                      |++|++|+|++|.+|||+
T Consensus         1 c~~L~~L~l~~C~~itD~   18 (26)
T smart00367        1 CPNLRELDLSGCTNITDE   18 (26)
T ss_pred             CCCCCEeCCCCCCCcCHH
Confidence            899999999999999984

>KOG2997 consensus F-box protein FBX9 [General function prediction only]

Probab=97.21  E-value=0.00017  Score=59.49  Aligned_cols=57  Identities=21%  Similarity=0.314  Sum_probs=41.3

Q ss_pred             CCCCCCCcccc--cCCCCCCCCCHHHHHHHHHh-----CChHHHHHHhhhcccccccC--CCccee
Q 040130           25 NDGVEFSDELD--KARDFTGDLPDDCLAYIFQF-----LGSGDRKRCSLVCKRWLRVD--GGSRYR   81 (147)
Q Consensus        25 ~~~~~~~~~~~--~~~~~~~~LP~elL~~If~~-----L~~~dl~~~s~VCk~W~~~~--~~~~~~   81 (147)
                      +++.-+-|..+  +....|..||+|||+.||..     |+.+++.+++.|||.|+..+  ..+|+.
T Consensus        89 ~~tLt~qe~v~~qp~~~~~~~LPdEvLm~I~~~vv~~~~d~rsL~~~s~vCr~F~~~~R~~~lwR~  154 (366)
T KOG2997|consen   89 QQTLTFQESVLCQPELISISVLPDEVLMRIFRWVVSSLLDLRSLEQLSLVCRGFYKCARDPELWRL  154 (366)
T ss_pred             ccccccccccccchhhhhhhhCCHHHHHHHHHHHHhhhcchhhHHHhHhhHHHHHHHHcChHHHHH
Confidence            44433344433  55566779999999999986     45689999999999998765  355553

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.14  E-value=0.00046  Score=53.92  Aligned_cols=46  Identities=30%  Similarity=0.425  Sum_probs=41.4

Q ss_pred             hhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 040130           98 FSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        98 ~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD  146 (147)
                      +..++.|+.|.+.   +|.++.|.+|.-|+...|+|+.|+|++|..|||
T Consensus       121 L~~l~~i~~l~l~---~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~  166 (221)
T KOG3864|consen  121 LRDLRSIKSLSLA---NCKYFDDWCLERLGGLAPSLQDLDLSGCPRITD  166 (221)
T ss_pred             Hhccchhhhheec---cccchhhHHHHHhcccccchheeeccCCCeech
Confidence            4556788888888   899999999999999999999999999999997

>PLN03215 ascorbic acid mannose pathway regulator 1; Provisional

Probab=96.35  E-value=0.0024  Score=53.99  Aligned_cols=36  Identities=25%  Similarity=0.372  Sum_probs=32.0

Q ss_pred             CCCCCHHHHHHHHHhCC-hHHHHHHhhhcccccccCC
Q 040130           41 TGDLPDDCLAYIFQFLG-SGDRKRCSLVCKRWLRVDG   76 (147)
Q Consensus        41 ~~~LP~elL~~If~~L~-~~dl~~~s~VCk~W~~~~~   76 (147)
                      +.+||+|+|..|.++|+ ..|+.+.+.||+.|+.+..
T Consensus         4 Ws~Lp~dll~~i~~~l~~~~d~~~~~~vC~sWr~a~~   40 (373)
T PLN03215          4 WSTLPEELLHMIAGRLFSNVELKRFRSICRSWRSSVS   40 (373)
T ss_pred             hhhCCHHHHHHHHhhCCcHHHHHHHHhhhhhHHHhcc
Confidence            34699999999999996 7899999999999998664

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=96.25  E-value=0.0022  Score=53.27  Aligned_cols=47  Identities=26%  Similarity=0.408  Sum_probs=26.2

Q ss_pred             hHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCC
Q 040130           94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREI  144 (147)
Q Consensus        94 l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~v  144 (147)
                      +..+.+||++|.+|||+   .|..++|..+.++-+ ++.|++|.|+.|..+
T Consensus       305 ~~tL~~rcp~l~~LDLS---D~v~l~~~~~~~~~k-f~~L~~lSlsRCY~i  351 (419)
T KOG2120|consen  305 LSTLVRRCPNLVHLDLS---DSVMLKNDCFQEFFK-FNYLQHLSLSRCYDI  351 (419)
T ss_pred             HHHHHHhCCceeeeccc---cccccCchHHHHHHh-cchheeeehhhhcCC
Confidence            34455666666666666   455566633333333 666666666666554

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.21  E-value=0.0089  Score=46.83  Aligned_cols=47  Identities=21%  Similarity=0.192  Sum_probs=39.5

Q ss_pred             hHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCC
Q 040130           94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREI  144 (147)
Q Consensus        94 l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~v  144 (147)
                      +.++..-+++|+.|+|+   +|..|||.+|..|.+ .++|+.|.|.+=..|
T Consensus       143 L~~l~~~~~~L~~L~ls---gC~rIT~~GL~~L~~-lknLr~L~l~~l~~v  189 (221)
T KOG3864|consen  143 LERLGGLAPSLQDLDLS---GCPRITDGGLACLLK-LKNLRRLHLYDLPYV  189 (221)
T ss_pred             HHHhcccccchheeecc---CCCeechhHHHHHHH-hhhhHHHHhcCchhh
Confidence            55566667999999999   899999999999988 899999988764433

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=94.96  E-value=0.016  Score=34.05  Aligned_cols=38  Identities=24%  Similarity=0.270  Sum_probs=27.0

Q ss_pred             ccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 040130          102 DSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus       102 ~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD  146 (147)
                      ++|++|+|+    ...|++  +......|++|+.|+|+++ +++|
T Consensus         1 ~~L~~L~l~----~N~i~~--l~~~l~~l~~L~~L~l~~N-~i~~   38 (44)
T PF12799_consen    1 KNLEELDLS----NNQITD--LPPELSNLPNLETLNLSNN-PISD   38 (44)
T ss_dssp             TT-SEEEET----SSS-SS--HGGHGTTCTTSSEEEETSS-CCSB
T ss_pred             CcceEEEcc----CCCCcc--cCchHhCCCCCCEEEecCC-CCCC
Confidence            478899998    556774  4453457999999999998 5664

...

>PF13516 LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RIZ_A 3RGX_A 1DFJ_I 2BNH_A 3VQ1_A 3VQ2_A 2Z64_A 2OMX_A

Probab=94.36  E-value=0.037  Score=27.97  Aligned_cols=24  Identities=13%  Similarity=0.181  Sum_probs=17.0

Q ss_pred             CccceeeceeccCCCCcccHHHHHHHHH
Q 040130          101 FDSVTKLALRCDRKSISLDDDALVLISL  128 (147)
Q Consensus       101 ~~~L~~L~L~c~~~c~~itD~~L~~la~  128 (147)
                      +++|++|+|+    ...|+|+++..|++
T Consensus         1 ~~~L~~L~l~----~n~i~~~g~~~l~~   24 (24)
T PF13516_consen    1 NPNLETLDLS----NNQITDEGASALAN   24 (24)
T ss_dssp             -TT-SEEE-T----SSBEHHHHHHHHHH
T ss_pred             CCCCCEEEcc----CCcCCHHHHHHhCC
Confidence            4688999998    45599999998874

...

>KOG0274 consensus Cdc4 and related F-box and WD-40 proteins [General function prediction only]

Probab=94.24  E-value=0.015  Score=51.28  Aligned_cols=40  Identities=30%  Similarity=0.520  Sum_probs=36.8

Q ss_pred             cCCCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC
Q 040130           36 KARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD   75 (147)
Q Consensus        36 ~~~~~~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~   75 (147)
                      ..++++..||.|+..+||.||+.++++.+++||+.|+.+.
T Consensus       103 ~~~dfi~~lp~el~~~il~~Ld~~~l~~~~~v~~~w~~~~  142 (537)
T KOG0274|consen  103 GQRDFLSLLPSELSLHILSFLDGRDLLAVRQVCRNWNKLL  142 (537)
T ss_pred             cccchhhcccchhcccccccCCHHHhhhhhhhcchhhhhh
Confidence            4578888999999999999999999999999999998865

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=92.96  E-value=0.17  Score=40.11  Aligned_cols=41  Identities=20%  Similarity=0.197  Sum_probs=23.8

Q ss_pred             HhhcCccceeeceeccCCCCcccHHHHHHHHHhC----CCCcEEeccCC
Q 040130           97 VFSRFDSVTKLALRCDRKSISLDDDALVLISLRC----QKLTRLKLRGC  141 (147)
Q Consensus        97 l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~c----p~L~~L~L~~C  141 (147)
                      ....+++|++|+++    ...++|.++..++..+    +.|++|++++|
T Consensus       216 ~~~~~~~L~~L~ls----~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n  260 (319)
T cd00116         216 TLASLKSLEVLNLG----DNNLTDAGAAALASALLSPNISLLTLSLSCN  260 (319)
T ss_pred             HhcccCCCCEEecC----CCcCchHHHHHHHHHHhccCCCceEEEccCC
Confidence            34445556666665    2346666666666554    46666666665

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).

>PF13013 F-box-like_2: F-box-like domain

Probab=91.88  E-value=0.16  Score=35.89  Aligned_cols=29  Identities=28%  Similarity=0.337  Sum_probs=26.7

Q ss_pred             CCCCCHHHHHHHHHhCChHHHHHHhhhcc
Q 040130           41 TGDLPDDCLAYIFQFLGSGDRKRCSLVCK   69 (147)
Q Consensus        41 ~~~LP~elL~~If~~L~~~dl~~~s~VCk   69 (147)
                      +.+||+||+..||.+.+..++......|+
T Consensus        22 l~DLP~ELl~~I~~~C~~~~l~~l~~~~~   50 (109)
T PF13013_consen   22 LLDLPWELLQLIFDYCNDPILLALSRTCR   50 (109)
T ss_pred             hhhChHHHHHHHHhhcCcHHHHHHHHHHH
Confidence            66799999999999999999988888888

>smart00368 LRR_RI Leucine rich repeat, ribonuclease inhibitor type

Probab=89.73  E-value=0.43  Score=25.11  Aligned_cols=25  Identities=20%  Similarity=0.223  Sum_probs=21.5

Q ss_pred             ccceeeceeccCCCCcccHHHHHHHHHhC
Q 040130          102 DSVTKLALRCDRKSISLDDDALVLISLRC  130 (147)
Q Consensus       102 ~~L~~L~L~c~~~c~~itD~~L~~la~~c  130 (147)
                      ++|++|+|+    .+.++|++...|++..
T Consensus         2 ~~L~~LdL~----~N~i~~~G~~~L~~~L   26 (28)
T smart00368        2 PSLRELDLS----NNKLGDEGARALAEAL   26 (28)
T ss_pred             CccCEEECC----CCCCCHHHHHHHHHHh
Confidence            578999998    7889999999998754

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=89.48  E-value=0.44  Score=43.52  Aligned_cols=49  Identities=16%  Similarity=0.269  Sum_probs=39.9

Q ss_pred             hchHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCC
Q 040130           92 SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREIT  145 (147)
Q Consensus        92 ~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vt  145 (147)
                      .+...+...+|+|++|.++    ...+.+..+..+-..+|||..|+++++ +++
T Consensus       138 ~W~~kig~~LPsL~sL~i~----~~~~~~~dF~~lc~sFpNL~sLDIS~T-nI~  186 (699)
T KOG3665|consen  138 GWPKKIGTMLPSLRSLVIS----GRQFDNDDFSQLCASFPNLRSLDISGT-NIS  186 (699)
T ss_pred             cHHHHHhhhCcccceEEec----CceecchhHHHHhhccCccceeecCCC-Ccc
Confidence            4567788889999999998    556666668889999999999999996 444

>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D

Probab=88.52  E-value=0.36  Score=22.60  Aligned_cols=14  Identities=36%  Similarity=0.503  Sum_probs=8.8

Q ss_pred             CCCcEEeccCCCCCC
Q 040130          131 QKLTRLKLRGCREIT  145 (147)
Q Consensus       131 p~L~~L~L~~C~~vt  145 (147)
                      ++|+.|+|++|. ++
T Consensus         1 ~~L~~L~l~~n~-L~   14 (17)
T PF13504_consen    1 PNLRTLDLSNNR-LT   14 (17)
T ss_dssp             TT-SEEEETSS---S
T ss_pred             CccCEEECCCCC-CC
Confidence            578888988885 54

...

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=85.78  E-value=1.2  Score=35.28  Aligned_cols=38  Identities=18%  Similarity=0.160  Sum_probs=21.0

Q ss_pred             cCccceeeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCC
Q 040130          100 RFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGC  141 (147)
Q Consensus       100 r~~~L~~L~L~c~~~c~~itD~~L~~la~---~cp~L~~L~L~~C  141 (147)
                      .+++|++|+|+    ...+++.++..++.   .+++|++|++++|
T Consensus       191 ~~~~L~~L~L~----~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n  231 (319)
T cd00116         191 ANCNLEVLDLN----NNGLTDEGASALAETLASLKSLEVLNLGDN  231 (319)
T ss_pred             hCCCCCEEecc----CCccChHHHHHHHHHhcccCCCCEEecCCC
Confidence            33466666665    23455555444433   4556777777665

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).

>KOG3926 consensus F-box proteins [Amino acid transport and metabolism]

Probab=85.65  E-value=0.27  Score=40.20  Aligned_cols=54  Identities=15%  Similarity=0.239  Sum_probs=39.3

Q ss_pred             CCCCcccccCCCCCCCCCHHHHHHHHHhCC-hHHHHHHhhhcccccccC--CCcceee
Q 040130           28 VEFSDELDKARDFTGDLPDDCLAYIFQFLG-SGDRKRCSLVCKRWLRVD--GGSRYRL   82 (147)
Q Consensus        28 ~~~~~~~~~~~~~~~~LP~elL~~If~~L~-~~dl~~~s~VCk~W~~~~--~~~~~~l   82 (147)
                      +.+++..+.+.... +||.|++..|+..|+ ..|+.++++|-...+.+.  ..+|+.+
T Consensus       190 iqi~~~~~~~ltl~-dLP~e~vl~Il~rlsDh~dL~s~aqa~etl~~l~~e~~iWkkL  246 (332)
T KOG3926|consen  190 IQITEPDPAGLTLH-DLPLECVLNILLRLSDHRDLESLAQAWETLAKLSEERRIWKKL  246 (332)
T ss_pred             hcccCCCcCCCCcc-cchHHHHHHHHHHccCcchHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            34444445455555 599999999999997 799999999977765543  4566655

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.34  E-value=0.9  Score=38.11  Aligned_cols=47  Identities=23%  Similarity=0.282  Sum_probs=36.9

Q ss_pred             hHHHhhcCccceeeceeccCCCCcccH-HHHHHHHHhCCCCcEEeccCCCCCC
Q 040130           94 LPSVFSRFDSVTKLALRCDRKSISLDD-DALVLISLRCQKLTRLKLRGCREIT  145 (147)
Q Consensus        94 l~~l~~r~~~L~~L~L~c~~~c~~itD-~~L~~la~~cp~L~~L~L~~C~~vt  145 (147)
                      +..+...+..+++|||.    .+.|+| +.+.+|.++.|+|+.||| +|..++
T Consensus        63 ~~~~~~~~~~v~elDL~----~N~iSdWseI~~ile~lP~l~~LNl-s~N~L~  110 (418)
T KOG2982|consen   63 VMLFGSSVTDVKELDLT----GNLISDWSEIGAILEQLPALTTLNL-SCNSLS  110 (418)
T ss_pred             HHHHHHHhhhhhhhhcc----cchhccHHHHHHHHhcCccceEeec-cCCcCC
Confidence            55667778888899987    778888 788888899999999998 455543

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=84.08  E-value=0.074  Score=32.64  Aligned_cols=42  Identities=19%  Similarity=0.138  Sum_probs=28.5

Q ss_pred             HHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCC
Q 040130           96 SVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCR  142 (147)
Q Consensus        96 ~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~  142 (147)
                      ..+..+++|+.|+|+    ...++.-.- .....+++|++|++++|.
T Consensus        19 ~~f~~l~~L~~L~l~----~N~l~~i~~-~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen   19 DSFSNLPNLETLDLS----NNNLTSIPP-DAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTTTTGTTESEEEET----SSSESEEET-TTTTTSTTESEEEETSSS
T ss_pred             HHHcCCCCCCEeEcc----CCccCccCH-HHHcCCCCCCEEeCcCCc
Confidence            355677999999998    333431111 124579999999999873

...

>PF09372 PRANC: PRANC domain; InterPro: IPR018272 This presumed domain is found at the C terminus of a variety of Pox virus proteins

Probab=83.50  E-value=1.3  Score=29.92  Aligned_cols=27  Identities=22%  Similarity=0.342  Sum_probs=22.9

Q ss_pred             CCCCCCCCHHHHHHHHHhCChHHHHHH
Q 040130           38 RDFTGDLPDDCLAYIFQFLGSGDRKRC   64 (147)
Q Consensus        38 ~~~~~~LP~elL~~If~~L~~~dl~~~   64 (147)
                      ...|..||.|+...|+++|+..|+...
T Consensus        69 ~~~w~~LP~EIk~~Il~~L~~~dL~~l   95 (97)
T PF09372_consen   69 NNYWNILPIEIKYKILEYLSNKDLKKL   95 (97)
T ss_pred             CCchhhCCHHHHHHHHHcCCHHHHHHH
Confidence            356678999999999999999998753

The PRANC (Pox proteins Repeats of ANkyrin, C-terminal) domain is also found on its own in some proteins []. The function of this domain is unknown, but it appears to be related to the F-box domain and may play a similar role.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	147
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	1e-20
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	1e-18
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	2e-12
1fs1_A	53	SKP2 F-BOX, cyclin A/CDK2-associated P19; F-BOX, L	1e-07
2e31_A	297	FBS1, F-box only protein 2; ubiquitin, SCF, ubiqui	3e-06
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	5e-06

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 85.7 bits (212), Expect = 1e-20
 Identities = 28/146 (19%), Positives = 48/146 (32%), Gaps = 38/146 (26%)

Query: 38  RDFTGDLPDDCLAYIFQFLGSG-DRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPS 96
           +      P++ L ++F F+    DR   SLVCK W  ++   R ++ +     +  S  +
Sbjct: 3   KRIALSFPEEVLEHVFSFIQLDKDRNSVSLVCKSWYEIERWCRRKVFIGNCYAV--SPAT 60

Query: 97  VFSRFDSVTKLALRCDR-----------------------------------KSISLDDD 121
           V  RF  V  + L+                                      K + + DD
Sbjct: 61  VIRRFPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMVVTDD 120

Query: 122 ALVLISLRCQKLTRLKLRGCREITDH 147
            L LI+   +    L L  C   +  
Sbjct: 121 CLELIAKSFKNFKVLVLSSCEGFSTD 146

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 80.4 bits (198), Expect = 1e-18
 Identities = 26/141 (18%), Positives = 44/141 (31%), Gaps = 39/141 (27%)

Query: 43  DLPDDCLAYIFQFLGS-GDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRF 101
              DD +  +  ++    DR   SLVC+RW ++D  +R  +++        +   +  RF
Sbjct: 15  ATVDDVIEQVMTYITDPKDRDSASLVCRRWFKIDSETREHVTMALCYTA--TPDRLSRRF 72

Query: 102 DSVTKLALRCDRKSISL------------------------------------DDDALVL 125
            ++  L L+   ++                                       D D   L
Sbjct: 73  PNLRSLKLKGKPRAAMFNLIPENWGGYVTPWVTEISNNLRQLKSVHFRRMIVSDLDLDRL 132

Query: 126 ISLRCQKLTRLKLRGCREITD 146
              R   L  LKL  C   T 
Sbjct: 133 AKARADDLETLKLDKCSGFTT 153

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 62.2 bits (151), Expect = 2e-12
 Identities = 33/134 (24%), Positives = 49/134 (36%), Gaps = 24/134 (17%)

Query: 35  DKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSL 94
           +        LPD+ L  IF  L   +  + S VCKRW R+        +L+   +  +  
Sbjct: 3   NFPGVSWDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQTLDLTGK--NLH 60

Query: 95  PSVFSRFDSVTKLALRCDRKSIS---------------------LDDDALVLISLRCQKL 133
           P V  R  S   +A RC R  +                      ++   L  I  +C KL
Sbjct: 61  PDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKL 120

Query: 134 TRLKLRGCREITDH 147
             L L G R ++D 
Sbjct: 121 QNLSLEGLR-LSDP 133

>1fs1_A SKP2 F-BOX, cyclin A/CDK2-associated P19; F-BOX, LRR, leucine-rich repeat, SCF, ubiquitin, ubiquitin protein ligase; 1.80A {Homo sapiens} SCOP: a.158.1.1 PDB: 1ldk_E Length = 53

 Score = 44.9 bits (107), Expect = 1e-07
 Identities = 14/32 (43%), Positives = 18/32 (56%)

Query: 43 DLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRV 74
           LPD+ L  IF  L   +  + S VCKRW R+
Sbjct: 11 SLPDELLLGIFSCLCLPELLKVSGVCKRWYRL 42

>2e31_A FBS1, F-box only protein 2; ubiquitin, SCF, ubiquitin ligase, FBS1; 2.40A {Mus musculus} PDB: 2e32_A Length = 297

 Score = 44.5 bits (104), Expect = 3e-06
 Identities = 11/39 (28%), Positives = 20/39 (51%), Gaps = 1/39 (2%)

Query: 37 ARDFTGDLPDDCLAYIFQFLGSGDR-KRCSLVCKRWLRV 74
          A ++  +LP+  L  +   L + +  + C LVC RW  +
Sbjct: 47 AVEYLAELPEPLLLRVLAELPATELVQACRLVCLRWKEL 85

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens} Length = 312

 Score = 43.6 bits (102), Expect = 5e-06
 Identities = 9/32 (28%), Positives = 10/32 (31%)

Query: 43 DLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRV 74
           LP D   YI  FL   D  +       W   
Sbjct: 7  RLPIDVQLYILSFLSPHDLCQLGSTNHYWNET 38

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	147
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.54
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.52
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.41
1fs1_A	53	SKP2 F-BOX, cyclin A/CDK2-associated P19; F-BOX, L	99.26
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.66
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.62
2e31_A	297	FBS1, F-box only protein 2; ubiquitin, SCF, ubiqui	98.5
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	98.43
2ovr_B	445	FBW7, F-BOX/WD repeat protein 7, F-box PROT; WD40	98.32
1p22_A	435	F-BOX/WD-repeat protein 1A; ubiquitination, degrad	98.32
3v7d_B	464	Cell division control protein 4; WD 40 domain, pho	98.3
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	97.36
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	97.18
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	97.06
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	95.18
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	95.08
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	94.77
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	93.72
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	93.53
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	93.49
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	92.55
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	92.53
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	92.24
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	92.0
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	91.72
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	89.48
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	89.44
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	89.03
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	87.2
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	86.6
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	85.95
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	83.48
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	81.18

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.54  E-value=2.6e-15  Score=127.04  Aligned_cols=103  Identities=22%  Similarity=0.481  Sum_probs=65.7

Q ss_pred             CCCCCCCCHHHHHHHHHhCC-hHHHHHHhhhcccccccCCCcceeeeccchhhh--------------------------
Q 040130           38 RDFTGDLPDDCLAYIFQFLG-SGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEI--------------------------   90 (147)
Q Consensus        38 ~~~~~~LP~elL~~If~~L~-~~dl~~~s~VCk~W~~~~~~~~~~l~l~~~~~~--------------------------   90 (147)
                      .|.++.||+|++.+||+||+ .+|+.++++|||+|+.+....|+.+++..++..                          
T Consensus         3 ~d~~~~LPdevL~~If~~L~~~~d~~~~s~vck~W~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~~~~~   82 (594)
T 2p1m_B            3 KRIALSFPEEVLEHVFSFIQLDKDRNSVSLVCKSWYEIERWCRRKVFIGNCYAVSPATVIRRFPKVRSVELKGKPHFADF   82 (594)
T ss_dssp             -------CHHHHHHHHHTCCCHHHHHHHHTSCHHHHHHHHHHCCEEEESSTTSSCHHHHHHHCTTCCEEEEECSCGGGGG
T ss_pred             ccchhhCCHHHHHHHHhhcCCchhHHHHHHHHHHHHHhhhhhceEEeeccccccCHHHHHhhCCCceEEeccCCCchhhc
Confidence            36788999999999999999 999999999999999886555555555432111                          


Q ss_pred             -----------hhchHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCC
Q 040130           91 -----------LSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREI  144 (147)
Q Consensus        91 -----------~~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~v  144 (147)
                                 .+.+..+..++++|++|+|+    ...+++..+..+++.|++|++|+|++|..+
T Consensus        83 ~l~~~~~~~~~~~~l~~l~~~~~~L~~L~L~----~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~  143 (594)
T 2p1m_B           83 NLVPDGWGGYVYPWIEAMSSSYTWLEEIRLK----RMVVTDDCLELIAKSFKNFKVLVLSSCEGF  143 (594)
T ss_dssp             TCSCTTSCCBCHHHHHHHHHHCTTCCEEEEE----SCBCCHHHHHHHHHHCTTCCEEEEESCEEE
T ss_pred             ccccccccchhhHHHHHHHHhCCCCCeEEee----CcEEcHHHHHHHHHhCCCCcEEeCCCcCCC
Confidence                       01234455666777777776    223666666666666666666666666443

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.52  E-value=1e-14  Score=115.68  Aligned_cols=49  Identities=33%  Similarity=0.416  Sum_probs=42.6

Q ss_pred             CCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeeeccc
Q 040130           38 RDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLSLNA   86 (147)
Q Consensus        38 ~~~~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~--~~~~~~l~l~~   86 (147)
                      ...++.||+|++.+||+||+..|+.++++|||+|+.+.  +.+|+.++++.
T Consensus         6 ~~~~~~LP~eil~~If~~L~~~d~~~~~~vc~~W~~~~~~~~~~~~l~l~~   56 (336)
T 2ast_B            6 GVSWDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQTLDLTG   56 (336)
T ss_dssp             -CCSSSSCHHHHHHHHTTSCHHHHHHTTSSCHHHHHHHTCSTTSSEEECTT
T ss_pred             cCChhhCCHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhcCchhheeecccc
Confidence            34457899999999999999999999999999999874  67899988864

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.41  E-value=6.2e-14  Score=118.74  Aligned_cols=66  Identities=24%  Similarity=0.549  Sum_probs=45.6

Q ss_pred             CCCHHHHHHHHHhC-ChHHHHHHhhhcccccccCCCcceeeeccchhhhhhchHHHhhcCccceeecee
Q 040130           43 DLPDDCLAYIFQFL-GSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALR  110 (147)
Q Consensus        43 ~LP~elL~~If~~L-~~~dl~~~s~VCk~W~~~~~~~~~~l~l~~~~~~~~~l~~l~~r~~~L~~L~L~  110 (147)
                      .||+|+|.+||+|| +.+|+.++++|||+|+.+....|+.+.+..++..  ....+..+|++|++|+|+
T Consensus        15 ~LPdeil~~I~~~L~~~~d~~~~s~vck~W~~~~~~~~~~l~~~~~~~~--~~~~~~~~~~~L~~L~L~   81 (592)
T 3ogk_B           15 ATVDDVIEQVMTYITDPKDRDSASLVCRRWFKIDSETREHVTMALCYTA--TPDRLSRRFPNLRSLKLK   81 (592)
T ss_dssp             CCGGGTHHHHHTTCCCHHHHHHHTTSCHHHHHHHHHHCCEEEESCGGGS--CHHHHHHHCTTCSEEEEE
T ss_pred             CCCHHHHHHHHHhcCCHHHHHHHHHHhHHHHHhhhccccEEEEeecccc--ChHHHHHhCCCCeEEEec
Confidence            79999999999999 7999999999999999886544555554433221  123344444444444443

>1fs1_A SKP2 F-BOX, cyclin A/CDK2-associated P19; F-BOX, LRR, leucine-rich repeat, SCF, ubiquitin, ubiquitin protein ligase; 1.80A {Homo sapiens} SCOP: a.158.1.1 PDB: 1ldk_E

Probab=99.26  E-value=1.1e-12  Score=79.63  Aligned_cols=46  Identities=33%  Similarity=0.407  Sum_probs=36.1

Q ss_pred             CCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeee
Q 040130           38 RDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLS   83 (147)
Q Consensus        38 ~~~~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~--~~~~~~l~   83 (147)
                      ...+..||+|++.+||+||+.+|+.++++|||+|+.+.  ..+|+.++
T Consensus         6 ~~~~~~LP~eil~~I~~~L~~~dl~~~~~Vck~w~~~~~~~~lW~~ld   53 (53)
T 1fs1_A            6 GVSWDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQTLD   53 (53)
T ss_dssp             ---CCSSCHHHHHHHHTTSCGGGHHHHHTTCHHHHHHHTCGGGC----
T ss_pred             CCCHHHCCHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCChHHHHhcC
Confidence            44577899999999999999999999999999999875  46888764

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.66  E-value=1.9e-08  Score=75.45  Aligned_cols=63  Identities=13%  Similarity=0.156  Sum_probs=52.3

Q ss_pred             eeeeccchhhhhh-chHHHhhc---CccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 040130           80 YRLSLNAQSEILS-SLPSVFSR---FDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        80 ~~l~l~~~~~~~~-~l~~l~~r---~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD  146 (147)
                      +.++++.|..+++ .+..+...   +++|++|+|+   +|..|||+++..|+ .|++|++|+|++|.++||
T Consensus        88 ~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls---~C~~ITD~Gl~~L~-~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A           88 EKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEII---SCGNVTDKGIIALH-HFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             CEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEE---SCTTCCHHHHHHGG-GCTTCCEEEEESCTTCCC
T ss_pred             CEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcC---CCCcCCHHHHHHHh-cCCCCCEEECCCCCCCCc
Confidence            6788888877653 46666652   5689999999   79999999999998 589999999999999998

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.62  E-value=8.9e-09  Score=77.22  Aligned_cols=63  Identities=17%  Similarity=0.310  Sum_probs=52.2

Q ss_pred             eeeeccchhhhh-hchHHHhhcCccceeeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCCCCCCCC
Q 040130           80 YRLSLNAQSEIL-SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGCREITDH  147 (147)
Q Consensus        80 ~~l~l~~~~~~~-~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~---~cp~L~~L~L~~C~~vtD~  147 (147)
                      +.++++.+. ++ ..+..+ ..|++|++|+|+   +|..|||+++..|+.   .|++|++|+|++|.+|||+
T Consensus        64 ~~LDLs~~~-Itd~GL~~L-~~~~~L~~L~L~---~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~  130 (176)
T 3e4g_A           64 QAIDATDSC-IMSIGFDHM-EGLQYVEKIRLC---KCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDK  130 (176)
T ss_dssp             EEEEEESCC-CCGGGGGGG-TTCSCCCEEEEE---SCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHH
T ss_pred             eEEeCcCCC-ccHHHHHHh-cCCCCCCEEEeC---CCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHH
Confidence            566777664 33 345554 689999999999   899999999999998   4889999999999999984

>2e31_A FBS1, F-box only protein 2; ubiquitin, SCF, ubiquitin ligase, FBS1; 2.40A {Mus musculus} PDB: 2e32_A

Probab=98.50  E-value=1.7e-08  Score=81.40  Aligned_cols=45  Identities=22%  Similarity=0.424  Sum_probs=38.2

Q ss_pred             CCCCCCCCHHHHHHHHHhCChHHHH-HHhhhcccccccCC--Ccceee
Q 040130           38 RDFTGDLPDDCLAYIFQFLGSGDRK-RCSLVCKRWLRVDG--GSRYRL   82 (147)
Q Consensus        38 ~~~~~~LP~elL~~If~~L~~~dl~-~~s~VCk~W~~~~~--~~~~~l   82 (147)
                      ...+..||+|+|.+||.+|+.++|+ +|++|||+|+.++.  .+|+..
T Consensus        48 ~~~~~~LP~ell~~Il~~Lp~~~L~~r~~~VCk~Wr~l~~~~~~w~~~   95 (297)
T 2e31_A           48 VEYLAELPEPLLLRVLAELPATELVQACRLVCLRWKELVDGAPLWLLK   95 (297)
T ss_dssp             CCCTTSSCHHHHHHHHHTSCHHHHHHTGGGTCHHHHHHHTSHHHHHHH
T ss_pred             ccChhhCCHHHHHHHHHcCCHHHHHHHHHHHhHHHHHHhcChHHHHHH
Confidence            3567789999999999999999999 99999999998753  456543

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=98.43  E-value=1.7e-08  Score=81.62  Aligned_cols=46  Identities=22%  Similarity=0.175  Sum_probs=39.8

Q ss_pred             CCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeeec
Q 040130           39 DFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLSL   84 (147)
Q Consensus        39 ~~~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~--~~~~~~l~l   84 (147)
                      ..++.||+||+++||+||+++|++++++|||.|+.++  ..+|+.+-.
T Consensus         3 ~~l~~LP~ei~l~IlsfL~p~DL~~l~~vcr~Wr~la~D~~LWr~~l~   50 (312)
T 3l2o_B            3 STLTRLPIDVQLYILSFLSPHDLCQLGSTNHYWNETVRDPILWRYFLL   50 (312)
T ss_dssp             CHHHHSCHHHHHHHHHTSCHHHHHHHHTTCHHHHHHHTCHHHHHHHHH
T ss_pred             chhHhCCHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhccchHHHHHHh
Confidence            3567899999999999999999999999999999875  467876543

>2ovr_B FBW7, F-BOX/WD repeat protein 7, F-box PROT; WD40 domains, double phosphorylation, transcription-C complex; HET: TPO; 2.50A {Homo sapiens} SCOP: a.158.1.1 b.69.4.1 PDB: 2ovp_B* 2ovq_B*

Probab=98.32  E-value=8.7e-08  Score=77.75  Aligned_cols=47  Identities=23%  Similarity=0.425  Sum_probs=40.9

Q ss_pred             CCCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeee
Q 040130           37 ARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLS   83 (147)
Q Consensus        37 ~~~~~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~--~~~~~~l~   83 (147)
                      ..|.++.||+|++.+||+||+.+|++++++|||+|+.++  ..+|+++-
T Consensus        15 ~~d~~~~lp~e~~~~i~~~l~~~~l~~~~~v~~~~~~~~~~~~~w~~~~   63 (445)
T 2ovr_B           15 QRDFISLLPKELALYVLSFLEPKDLLQAAQTCRYWRILAEDNLLWREKC   63 (445)
T ss_dssp             CCSTTTSSCHHHHHHHHTTSCHHHHHHHTTSCHHHHHHHTCSHHHHHHH
T ss_pred             cCChhHHCCHHHHHHHHHhCCHHHHHHHHHHhHHHHhhcCchhHhhhhe
Confidence            468899999999999999999999999999999998875  34676543

>1p22_A F-BOX/WD-repeat protein 1A; ubiquitination, degradation, signaling protein; HET: SEP; 2.95A {Homo sapiens} SCOP: a.158.1.1 b.69.4.1

Probab=98.32  E-value=3.1e-08  Score=80.45  Aligned_cols=47  Identities=34%  Similarity=0.564  Sum_probs=41.5

Q ss_pred             CCCCCCCCCHH----HHHHHHHhCChHHHHHHhhhcccccccC--CCcceeee
Q 040130           37 ARDFTGDLPDD----CLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLS   83 (147)
Q Consensus        37 ~~~~~~~LP~e----lL~~If~~L~~~dl~~~s~VCk~W~~~~--~~~~~~l~   83 (147)
                      ..|.+..||+|    ++.+||+||+.++|+++++|||+|+.++  ..+|+++-
T Consensus         7 ~~d~~~~lp~e~~~~~~~~i~~~l~~~~l~~~~~v~~~w~~~~~~~~~w~~~~   59 (435)
T 1p22_A            7 QRDFITALPARGLDHIAENILSYLDAKSLCAAELVCKEWYRVTSDGMLWKKLI   59 (435)
T ss_dssp             CCCHHHHTGGGTCHHHHHHHHTTCCHHHHHHHHHHCHHHHHHHHHTTHHHHHH
T ss_pred             hcChHHHCCcchHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcChHHHHHHH
Confidence            35778889999    9999999999999999999999999875  67888763

>3v7d_B Cell division control protein 4; WD 40 domain, phospho-peptide complex, E3 ubiquitin ligase, cell cycle, phospho binding protein, phosphorylation; HET: SEP; 2.31A {Saccharomyces cerevisiae} PDB: 1nex_B* 3mks_B*

Probab=98.30  E-value=9.6e-08  Score=77.47  Aligned_cols=48  Identities=23%  Similarity=0.299  Sum_probs=41.9

Q ss_pred             CCCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC---CCcceeeec
Q 040130           37 ARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD---GGSRYRLSL   84 (147)
Q Consensus        37 ~~~~~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~---~~~~~~l~l   84 (147)
                      ..|++..||+|++.+||+||+.++|+++++|||+|+.++   ..+|+++.+
T Consensus        11 ~~d~~~~lp~~~~~~i~~~l~~~~l~~~~~v~~~w~~~~~~~~~~w~~~~~   61 (464)
T 3v7d_B           11 KRDLITSLPFEISLKIFNYLQFEDIINSLGVSQNWNKIIRKSTSLWKKLLI   61 (464)
T ss_dssp             CCCHHHHSCHHHHHHHHTTSCHHHHHHHHTTCHHHHHHHTTCHHHHHHHHH
T ss_pred             ccCChHHCCHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHh
Confidence            467888999999999999999999999999999998864   368887654

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=97.36  E-value=0.00052  Score=57.63  Aligned_cols=63  Identities=17%  Similarity=0.158  Sum_probs=49.1

Q ss_pred             eeeeccchhhhhhchHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCCC
Q 040130           80 YRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH  147 (147)
Q Consensus        80 ~~l~l~~~~~~~~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD~  147 (147)
                      +.++++.+.--...+..+...+++|++|+|+   +|. +++.++..++..|++|++|+|++|. +|++
T Consensus       466 ~~L~L~~n~l~~~~~~~~~~~~~~L~~L~l~---~n~-l~~~~~~~~~~~l~~L~~L~ls~n~-it~~  528 (592)
T 3ogk_B          466 RWMLLGYVGESDEGLMEFSRGCPNLQKLEMR---GCC-FSERAIAAAVTKLPSLRYLWVQGYR-ASMT  528 (592)
T ss_dssp             CEEEECSCCSSHHHHHHHHTCCTTCCEEEEE---SCC-CBHHHHHHHHHHCSSCCEEEEESCB-CCTT
T ss_pred             eEeeccCCCCCHHHHHHHHhcCcccCeeecc---CCC-CcHHHHHHHHHhcCccCeeECcCCc-CCHH
Confidence            5666665431122466777889999999999   566 8999999999999999999999997 7763

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=97.18  E-value=0.0011  Score=51.70  Aligned_cols=50  Identities=20%  Similarity=0.352  Sum_probs=31.8

Q ss_pred             hHHHhhcCc-cceeeceeccCCCC-cccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 040130           94 LPSVFSRFD-SVTKLALRCDRKSI-SLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        94 l~~l~~r~~-~L~~L~L~c~~~c~-~itD~~L~~la~~cp~L~~L~L~~C~~vtD  146 (147)
                      +..++..++ +|++|+|+   +|. .++|.++..+...|++|++|+|++|..+++
T Consensus       186 ~~~~~~~l~~~L~~L~l~---~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~  237 (336)
T 2ast_B          186 VQVAVAHVSETITQLNLS---GYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKN  237 (336)
T ss_dssp             HHHHHHHSCTTCCEEECC---SCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCG
T ss_pred             HHHHHHhcccCCCEEEeC---CCcccCCHHHHHHHHhhCCCCCEEeCCCCCcCCH
Confidence            444555666 66666666   443 566666666666677777777777765553

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=97.06  E-value=0.00065  Score=56.95  Aligned_cols=60  Identities=22%  Similarity=0.314  Sum_probs=47.1

Q ss_pred             eeeeccchhhhhhchHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCC
Q 040130           80 YRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCR  142 (147)
Q Consensus        80 ~~l~l~~~~~~~~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~  142 (147)
                      +.+++..+.-....+..+...|++|++|+|+   +|..+++.++..++..|++|++|+|++|.
T Consensus       108 ~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~---~~~~~~~~~l~~~~~~~~~L~~L~L~~~~  167 (594)
T 2p1m_B          108 EEIRLKRMVVTDDCLELIAKSFKNFKVLVLS---SCEGFSTDGLAAIAATCRNLKELDLRESD  167 (594)
T ss_dssp             CEEEEESCBCCHHHHHHHHHHCTTCCEEEEE---SCEEEEHHHHHHHHHHCTTCCEEECTTCE
T ss_pred             CeEEeeCcEEcHHHHHHHHHhCCCCcEEeCC---CcCCCCHHHHHHHHHhCCCCCEEeCcCCc
Confidence            5566665432123355666679999999999   68789999999999999999999999986

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=95.18  E-value=0.02  Score=46.42  Aligned_cols=46  Identities=24%  Similarity=0.229  Sum_probs=30.1

Q ss_pred             HHHhhcCccceeeceeccCCCCcccHHHHHHHHH----hCCCCcEEeccCCCCCC
Q 040130           95 PSVFSRFDSVTKLALRCDRKSISLDDDALVLISL----RCQKLTRLKLRGCREIT  145 (147)
Q Consensus        95 ~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~----~cp~L~~L~L~~C~~vt  145 (147)
                      ..+...+.+|++|+|+    ...+++.+...++.    .+++|++|+|++| +++
T Consensus       119 ~~l~~~L~~L~~L~Ls----~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n-~l~  168 (372)
T 3un9_A          119 RTLLPVFLRARKLGLQ----LNSLGPEACKDLRDLLLHDQCQITTLRLSNN-PLT  168 (372)
T ss_dssp             HHTHHHHHTEEEEECC----SSCCCHHHHHHHHHHHHSTTCCCCEEECCSS-CCH
T ss_pred             HHHHHHHHhccHhhcC----CCCCCHHHHHHHHHHHHhcCCccceeeCCCC-CCC
Confidence            3344445567777776    44677877777765    3577888888887 344

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=95.08  E-value=0.035  Score=40.37  Aligned_cols=62  Identities=15%  Similarity=0.141  Sum_probs=43.6

Q ss_pred             eeeeccchhhhh----hchHHHhhcCccceeeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCCCCCCC
Q 040130           80 YRLSLNAQSEIL----SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGCREITD  146 (147)
Q Consensus        80 ~~l~l~~~~~~~----~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~---~cp~L~~L~L~~C~~vtD  146 (147)
                      +.+++.....+.    ..+...+..+.+|++|+|+    ...|+|++...|++   ..+.|++|+|++| +++|
T Consensus        39 ~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls----~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N-~i~~  107 (185)
T 1io0_A           39 EEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIV----GTRSNDPVAFALAEMLKVNNTLKSLNVESN-FISG  107 (185)
T ss_dssp             CEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECT----TSCCCHHHHHHHHHHHHHCSSCCEEECCSS-CCCH
T ss_pred             CEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECc----CCCCChHHHHHHHHHHHhCCCcCEEECcCC-cCCH
Confidence            567776541221    2345555667889999998    56799998877765   5678999999887 5554

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=94.77  E-value=0.022  Score=46.34  Aligned_cols=42  Identities=12%  Similarity=0.202  Sum_probs=35.3

Q ss_pred             cCccceeeceeccCCCCcccHHHHHHHH---HhCCCCcEEeccCCCCCCC
Q 040130          100 RFDSVTKLALRCDRKSISLDDDALVLIS---LRCQKLTRLKLRGCREITD  146 (147)
Q Consensus       100 r~~~L~~L~L~c~~~c~~itD~~L~~la---~~cp~L~~L~L~~C~~vtD  146 (147)
                      .+++|++|+|+    +..++|.+...++   +++++|+.|+|++| .++|
T Consensus       277 ~~~~L~~LdLs----~n~L~d~G~~~L~~~L~~l~~L~~L~L~~n-~i~d  321 (362)
T 2ra8_A          277 ILPQLETMDIS----AGVLTDEGARLLLDHVDKIKHLKFINMKYN-YLSD  321 (362)
T ss_dssp             SGGGCSEEECC----SSCCBHHHHHHHHTTHHHHTTCSEEECCSB-BCCH
T ss_pred             cCCCCCEEECC----CCCCChHHHHHHHhhcccCCcceEEECCCC-cCCH
Confidence            46899999998    6779999988887   46899999999988 5765

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=93.72  E-value=0.11  Score=37.75  Aligned_cols=63  Identities=10%  Similarity=0.179  Sum_probs=44.9

Q ss_pred             eeeeccchhhh---hhchHHHhhcCccceeeceeccCCCCcccHHHHHHHHH---hCCCCcEEecc-CCCCCCC
Q 040130           80 YRLSLNAQSEI---LSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLR-GCREITD  146 (147)
Q Consensus        80 ~~l~l~~~~~~---~~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~---~cp~L~~L~L~-~C~~vtD  146 (147)
                      +.++++...--   ...+...+....+|++|+|+    ...|+|++...|++   .++.|++|+|+ ...+++|
T Consensus        68 ~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~----~N~i~~~g~~~l~~~L~~n~~L~~L~L~~~~N~i~~  137 (185)
T 1io0_A           68 KKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVE----SNFISGSGILALVEALQSNTSLIELRIDNQSQPLGN  137 (185)
T ss_dssp             CEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECC----SSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCH
T ss_pred             CEEECcCCCCChHHHHHHHHHHHhCCCcCEEECc----CCcCCHHHHHHHHHHHHhCCCceEEEecCCCCCCCH
Confidence            56777654211   12355556677899999998    67899999999886   46789999994 2346654

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=93.53  E-value=0.023  Score=46.04  Aligned_cols=39  Identities=18%  Similarity=0.160  Sum_probs=28.0

Q ss_pred             cCccceeeceeccCCCCcccHHHHHHHH---HhCCCCcEEeccCCC
Q 040130          100 RFDSVTKLALRCDRKSISLDDDALVLIS---LRCQKLTRLKLRGCR  142 (147)
Q Consensus       100 r~~~L~~L~L~c~~~c~~itD~~L~~la---~~cp~L~~L~L~~C~  142 (147)
                      .+.+|++|+|+    .+.|++.+...++   ..+++|++|+|++|.
T Consensus       153 ~~~~L~~L~Ls----~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~  194 (372)
T 3un9_A          153 DQCQITTLRLS----NNPLTAAGVAVLMEGLAGNTSVTHLSLLHTG  194 (372)
T ss_dssp             TTCCCCEEECC----SSCCHHHHHHHHHHHHHTCSSCCEEECTTSS
T ss_pred             cCCccceeeCC----CCCCChHHHHHHHHHHhcCCCcCEEeCCCCC
Confidence            45778888887    4467777777665   467788888888763

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=93.49  E-value=0.18  Score=40.68  Aligned_cols=36  Identities=22%  Similarity=0.262  Sum_probs=19.7

Q ss_pred             cceeeceeccCCCCcccHHHHHHHH---HhCCCCcEEeccCCC
Q 040130          103 SVTKLALRCDRKSISLDDDALVLIS---LRCQKLTRLKLRGCR  142 (147)
Q Consensus       103 ~L~~L~L~c~~~c~~itD~~L~~la---~~cp~L~~L~L~~C~  142 (147)
                      +|++|+|+    ...+++.++..+.   ..+++|++|+|++|.
T Consensus        86 ~L~~L~L~----~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~  124 (461)
T 1z7x_W           86 KIQKLSLQ----NCCLTGAGCGVLSSTLRTLPTLQELHLSDNL  124 (461)
T ss_dssp             CCCEEECT----TSCCBGGGHHHHHHHTTSCTTCCEEECCSSB
T ss_pred             ceeEEEcc----CCCCCHHHHHHHHHHHccCCceeEEECCCCc
Confidence            56666666    3345554433333   356666666666653

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=92.55  E-value=0.13  Score=41.46  Aligned_cols=41  Identities=24%  Similarity=0.323  Sum_probs=20.7

Q ss_pred             HhhcCccceeeceeccCCCCcccHHHHHHHHH----hCCCCcEEeccCC
Q 040130           97 VFSRFDSVTKLALRCDRKSISLDDDALVLISL----RCQKLTRLKLRGC  141 (147)
Q Consensus        97 l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~----~cp~L~~L~L~~C  141 (147)
                      .+..+++|++|+|+    ...+++.++..++.    .+++|++|+|++|
T Consensus       222 ~l~~~~~L~~L~Ls----~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n  266 (461)
T 1z7x_W          222 IVASKASLRELALG----SNKLGDVGMAELCPGLLHPSSRLRTLWIWEC  266 (461)
T ss_dssp             HHHHCTTCCEEECC----SSBCHHHHHHHHHHHHTSTTCCCCEEECTTS
T ss_pred             HHHhCCCccEEecc----CCcCChHHHHHHHHHHhcCCCCceEEECcCC
Confidence            33445555555555    23455555544443    2455555555554

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=92.53  E-value=0.1  Score=39.26  Aligned_cols=47  Identities=15%  Similarity=0.138  Sum_probs=29.3

Q ss_pred             hHHHhhcCccceeeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCCCCCC
Q 040130           94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGCREIT  145 (147)
Q Consensus        94 l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~---~cp~L~~L~L~~C~~vt  145 (147)
                      +...+.....|++|+|+    ...|+|++...||+   .-..|++|+|++. .++
T Consensus        62 la~aL~~N~~L~~L~L~----~n~igd~ga~alA~aL~~N~tL~~L~L~~N-~Ig  111 (197)
T 1pgv_A           62 LIEAACNSKHIEKFSLA----NTAISDSEARGLIELIETSPSLRVLNVESN-FLT  111 (197)
T ss_dssp             HHHHHTTCSCCCEEECT----TSCCBHHHHTTHHHHHHHCSSCCEEECCSS-BCC
T ss_pred             HHHHHhhCCCcCEEEcc----CCCCChHHHHHHHHHHhcCCccCeEecCCC-cCC
Confidence            44444556677777776    45677776666664   4556777777664 344

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=92.24  E-value=0.072  Score=38.52  Aligned_cols=42  Identities=29%  Similarity=0.317  Sum_probs=26.6

Q ss_pred             cCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 040130          100 RFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus       100 r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD  146 (147)
                      .+++|+.|+|+    ...+++.....+. .+++|++|+|++|..+++
T Consensus       110 ~l~~L~~L~Ls----~n~i~~~~~~~l~-~l~~L~~L~L~~n~~i~~  151 (197)
T 4ezg_A          110 GLTSLTLLDIS----HSAHDDSILTKIN-TLPKVNSIDLSYNGAITD  151 (197)
T ss_dssp             TCTTCCEEECC----SSBCBGGGHHHHT-TCSSCCEEECCSCTBCCC
T ss_pred             CCCCCCEEEec----CCccCcHhHHHHh-hCCCCCEEEccCCCCccc
Confidence            34556666665    4456665555554 478888888888764543

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=92.00  E-value=0.23  Score=39.43  Aligned_cols=13  Identities=31%  Similarity=0.575  Sum_probs=6.1

Q ss_pred             hCCCCcEEeccCC
Q 040130          129 RCQKLTRLKLRGC  141 (147)
Q Consensus       129 ~cp~L~~L~L~~C  141 (147)
                      .+++|++|+|++|
T Consensus       242 ~~~~L~~L~L~~n  254 (386)
T 2ca6_A          242 SWPNLRELGLNDC  254 (386)
T ss_dssp             GCTTCCEEECTTC
T ss_pred             cCCCcCEEECCCC
Confidence            3444455555444

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=91.72  E-value=0.26  Score=39.12  Aligned_cols=41  Identities=15%  Similarity=0.162  Sum_probs=22.0

Q ss_pred             HhhcCccceeeceeccCCCCcccHHHHHHHHHh-----CCCCcEEeccCC
Q 040130           97 VFSRFDSVTKLALRCDRKSISLDDDALVLISLR-----CQKLTRLKLRGC  141 (147)
Q Consensus        97 l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~-----cp~L~~L~L~~C  141 (147)
                      .+..+++|++|+|+    ...+++.+...++..     +++|++|+|++|
T Consensus       239 ~l~~~~~L~~L~L~----~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n  284 (386)
T 2ca6_A          239 ALKSWPNLRELGLN----DCLLSARGAAAVVDAFSKLENIGLQTLRLQYN  284 (386)
T ss_dssp             HGGGCTTCCEEECT----TCCCCHHHHHHHHHHHHTCSSCCCCEEECCSS
T ss_pred             HHccCCCcCEEECC----CCCCchhhHHHHHHHHhhccCCCeEEEECcCC
Confidence            34445555566555    334555555554442     556666666655

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=89.48  E-value=0.21  Score=34.10  Aligned_cols=44  Identities=20%  Similarity=0.278  Sum_probs=26.9

Q ss_pred             hHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCC
Q 040130           94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGC  141 (147)
Q Consensus        94 l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C  141 (147)
                      +......+++|+.|+|+    ...+++-........+++|++|+|++|
T Consensus        80 ~~~~~~~l~~L~~L~ls----~N~i~~~~~~~~~~~l~~L~~L~l~~N  123 (149)
T 2je0_A           80 LEVLAEKCPNLTHLNLS----GNKIKDLSTIEPLKKLENLKSLDLFNC  123 (149)
T ss_dssp             THHHHHHCTTCCEEECT----TSCCCSHHHHGGGGGCTTCCEEECTTC
T ss_pred             HHHHhhhCCCCCEEECC----CCcCCChHHHHHHhhCCCCCEEeCcCC
Confidence            55556667777777776    344555332233445777777777776

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=89.44  E-value=0.65  Score=34.75  Aligned_cols=60  Identities=17%  Similarity=0.102  Sum_probs=45.0

Q ss_pred             ceeeeccchhh---hhhchHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhCC---CCcEEeccCCC
Q 040130           79 RYRLSLNAQSE---ILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQ---KLTRLKLRGCR  142 (147)
Q Consensus        79 ~~~l~l~~~~~---~~~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp---~L~~L~L~~C~  142 (147)
                      .+.+++....-   ....+...+.....|++|+|+    ...|+|++...|++...   .|++|+|+++.
T Consensus        72 L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~----~N~Ig~~Ga~ala~aL~~N~tL~~L~L~n~~  137 (197)
T 1pgv_A           72 IEKFSLANTAISDSEARGLIELIETSPSLRVLNVE----SNFLTPELLARLLRSTLVTQSIVEFKADNQR  137 (197)
T ss_dssp             CCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECC----SSBCCHHHHHHHHHHTTTTCCCSEEECCCCS
T ss_pred             cCEEEccCCCCChHHHHHHHHHHhcCCccCeEecC----CCcCCHHHHHHHHHHHhhCCceeEEECCCCc
Confidence            35677755421   124567777788999999998    78899999999998654   49999998764

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=89.03  E-value=0.17  Score=35.37  Aligned_cols=43  Identities=26%  Similarity=0.307  Sum_probs=24.3

Q ss_pred             hHHHhhcCccceeeceeccCCCCcccHH-HHHHHHHhCCCCcEEeccCC
Q 040130           94 LPSVFSRFDSVTKLALRCDRKSISLDDD-ALVLISLRCQKLTRLKLRGC  141 (147)
Q Consensus        94 l~~l~~r~~~L~~L~L~c~~~c~~itD~-~L~~la~~cp~L~~L~L~~C  141 (147)
                      +..+...+++|+.|+|+    ...+++- .+.. ...+++|+.|+|++|
T Consensus        87 ~~~~~~~l~~L~~L~Ls----~N~l~~~~~~~~-l~~l~~L~~L~l~~N  130 (168)
T 2ell_A           87 LDMLAEKLPNLTHLNLS----GNKLKDISTLEP-LKKLECLKSLDLFNC  130 (168)
T ss_dssp             CCHHHHHCTTCCEEECB----SSSCCSSGGGGG-GSSCSCCCEEECCSS
T ss_pred             HHHHHhhCCCCCEEecc----CCccCcchhHHH-HhcCCCCCEEEeeCC
Confidence            44555566777777776    3344442 1122 234677777777765

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=87.20  E-value=0.45  Score=37.55  Aligned_cols=59  Identities=20%  Similarity=0.076  Sum_probs=33.2

Q ss_pred             eeeeccchhhh---hhchHHHhhcC-ccceeeceeccCCCCcccHHHHH---HHHHhC-CCCcEEeccCCC
Q 040130           80 YRLSLNAQSEI---LSSLPSVFSRF-DSVTKLALRCDRKSISLDDDALV---LISLRC-QKLTRLKLRGCR  142 (147)
Q Consensus        80 ~~l~l~~~~~~---~~~l~~l~~r~-~~L~~L~L~c~~~c~~itD~~L~---~la~~c-p~L~~L~L~~C~  142 (147)
                      +.++++...--   ...+..+.... ++|++|+|+    ...+++.+..   .....+ ++|++|+|++|.
T Consensus        54 ~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls----~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~  120 (362)
T 3goz_A           54 TSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLS----GNFLSYKSSDELVKTLAAIPFTITVLDLGWND  120 (362)
T ss_dssp             CEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECC----SSCGGGSCHHHHHHHHHTSCTTCCEEECCSSC
T ss_pred             eEEECcCCCCCHHHHHHHHHHHhccCCCccEEECc----CCcCChHHHHHHHHHHHhCCCCccEEECcCCc
Confidence            55666544211   12233344444 888888887    3345554433   333445 788888888874

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=86.60  E-value=0.42  Score=38.61  Aligned_cols=42  Identities=14%  Similarity=0.204  Sum_probs=28.8

Q ss_pred             cCccceeeceeccCCCCcccHHHHHHHHH--hCCCCcEEeccCCCCCCC
Q 040130          100 RFDSVTKLALRCDRKSISLDDDALVLISL--RCQKLTRLKLRGCREITD  146 (147)
Q Consensus       100 r~~~L~~L~L~c~~~c~~itD~~L~~la~--~cp~L~~L~L~~C~~vtD  146 (147)
                      .|++|+.|+|+    ...++|.+...++.  .+|+|++|+|+.+ .++|
T Consensus       250 ~~p~Lr~L~L~----~~~i~~~~~~~la~a~~~~~L~~LdLs~n-~L~d  293 (362)
T 2ra8_A          250 RFPNLKWLGIV----DAEEQNVVVEMFLESDILPQLETMDISAG-VLTD  293 (362)
T ss_dssp             TCTTCCEEEEE----SCTTHHHHHHHHHHCSSGGGCSEEECCSS-CCBH
T ss_pred             CCCCcCEEeCC----CCCCchHHHHHHHhCccCCCCCEEECCCC-CCCh
Confidence            46677777776    34577777777775  5788999998654 5554

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=85.95  E-value=0.4  Score=32.67  Aligned_cols=43  Identities=26%  Similarity=0.522  Sum_probs=30.7

Q ss_pred             HhhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCC
Q 040130           97 VFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREIT  145 (147)
Q Consensus        97 l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vt  145 (147)
                      .+..+++|+.|+|+    ...+++. +..+...+++|++|+|++|. ++
T Consensus        59 ~~~~l~~L~~L~Ls----~n~i~~~-~~~~~~~l~~L~~L~ls~N~-i~  101 (149)
T 2je0_A           59 NLPKLNKLKKLELS----DNRVSGG-LEVLAEKCPNLTHLNLSGNK-IK  101 (149)
T ss_dssp             TCCCCTTCCEEECC----SSCCCSC-THHHHHHCTTCCEEECTTSC-CC
T ss_pred             hhhcCCCCCEEECC----CCcccch-HHHHhhhCCCCCEEECCCCc-CC
Confidence            34567889999998    3445542 45566679999999999874 44

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=83.48  E-value=0.86  Score=35.89  Aligned_cols=17  Identities=12%  Similarity=-0.115  Sum_probs=10.1

Q ss_pred             CCCCCHHHHHHHHHhCC
Q 040130           41 TGDLPDDCLAYIFQFLG   57 (147)
Q Consensus        41 ~~~LP~elL~~If~~L~   57 (147)
                      +...+.+.+...|+.++
T Consensus        34 l~~~~~~~l~~~l~~~~   50 (362)
T 3goz_A           34 LYSISTVELIQAFANTP   50 (362)
T ss_dssp             GGGSCHHHHHHHHHTCC
T ss_pred             CChHHHHHHHHHHHhCC
Confidence            44566666666666443

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=81.18  E-value=0.78  Score=35.74  Aligned_cols=40  Identities=23%  Similarity=0.279  Sum_probs=26.3

Q ss_pred             HhhcCccceeeceeccCCCCcccH-HHHHHHHHhCCCCcEEeccC
Q 040130           97 VFSRFDSVTKLALRCDRKSISLDD-DALVLISLRCQKLTRLKLRG  140 (147)
Q Consensus        97 l~~r~~~L~~L~L~c~~~c~~itD-~~L~~la~~cp~L~~L~L~~  140 (147)
                      +...+++|++|+|+    .+.|+. .++..+...+++|+.|+|++
T Consensus       165 ~~~~l~~L~~L~Ls----~N~l~~l~~l~~~~~~l~~L~~L~Ls~  205 (267)
T 3rw6_A          165 IEENIPELLSLNLS----NNRLYRLDDMSSIVQKAPNLKILNLSG  205 (267)
T ss_dssp             HHHHCTTCCEEECT----TSCCCCCGGGTTHHHHSTTCCEEECTT
T ss_pred             HHhhCCCCCEEECC----CCCCCCCccchhHHhhCCCCCEEECCC
Confidence            33567888888887    444543 23444556788888888876

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	147
d1nexb1	100	a.158.1.1 (B:270-369) Cdc4 F-box and linker domain	3e-07
d1fs1a1	41	a.158.1.1 (A:109-149) Skp2 {Human (Homo sapiens) [	9e-07
d2ovrb1	102	a.158.1.1 (B:2263-2364) F-box/WD repeat-containing	8e-06
d1p22a1	118	a.158.1.1 (A:135-252) F-box/WD-repeat protein 1 (b	2e-05

>d1nexb1 a.158.1.1 (B:270-369) Cdc4 F-box and linker domains {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 100

class: All alpha proteins
fold: F-box domain
superfamily: F-box domain
family: F-box domain
domain: Cdc4 F-box and linker domains
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 43.9 bits (103), Expect = 3e-07
 Identities = 10/37 (27%), Positives = 15/37 (40%)

Query: 38 RDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRV 74
          RD    LP +    IF +L   D      V + W ++
Sbjct: 3  RDLITSLPFEISLKIFNYLQFEDIINSLGVSQNWNKI 39

>d1fs1a1 a.158.1.1 (A:109-149) Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 41

class: All alpha proteins
fold: F-box domain
superfamily: F-box domain
family: F-box domain
domain: Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.2 bits (97), Expect = 9e-07
 Identities = 14/32 (43%), Positives = 18/32 (56%)

Query: 43 DLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRV 74
           LPD+ L  IF  L   +  + S VCKRW R+
Sbjct: 3  SLPDELLLGIFSCLCLPELLKVSGVCKRWYRL 34

>d2ovrb1 a.158.1.1 (B:2263-2364) F-box/WD repeat-containing protein 7, FBXW7 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: All alpha proteins
fold: F-box domain
superfamily: F-box domain
family: F-box domain
domain: F-box/WD repeat-containing protein 7, FBXW7
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.1 bits (93), Expect = 8e-06
 Identities = 11/37 (29%), Positives = 17/37 (45%)

Query: 38 RDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRV 74
          RDF   LP +   Y+  FL   D  + +  C+ W  +
Sbjct: 16 RDFISLLPKELALYVLSFLEPKDLLQAAQTCRYWRIL 52

>d1p22a1 a.158.1.1 (A:135-252) F-box/WD-repeat protein 1 (beta-TRCP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 118

class: All alpha proteins
fold: F-box domain
superfamily: F-box domain
family: F-box domain
domain: F-box/WD-repeat protein 1 (beta-TRCP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.0 bits (90), Expect = 2e-05
 Identities = 15/41 (36%), Positives = 17/41 (41%), Gaps = 4/41 (9%)

Query: 38 RDFTGDLP----DDCLAYIFQFLGSGDRKRCSLVCKRWLRV 74
          RDF   LP    D     I  +L +       LVCK W RV
Sbjct: 8  RDFITALPARGLDHIAENILSYLDAKSLCAAELVCKEWYRV 48

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	147
d1fs1a1	41	Skp2 {Human (Homo sapiens) [TaxId: 9606]}	99.29
d1nexb1	100	Cdc4 F-box and linker domains {Baker's yeast (Sacc	99.07
d2ovrb1	102	F-box/WD repeat-containing protein 7, FBXW7 {Human	99.01
d1p22a1	118	F-box/WD-repeat protein 1 (beta-TRCP1) {Human (Hom	98.77
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	98.46
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	98.03
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.65
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	96.29
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	95.96
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.58
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	94.91
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	92.55
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	92.25
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	90.13
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	90.09
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	89.03
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	80.72

>d1fs1a1 a.158.1.1 (A:109-149) Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: F-box domain
superfamily: F-box domain
family: F-box domain
domain: Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.29  E-value=2.7e-13  Score=77.49  Aligned_cols=35  Identities=40%  Similarity=0.612  Sum_probs=32.5

Q ss_pred             CCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC
Q 040130           41 TGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD   75 (147)
Q Consensus        41 ~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~   75 (147)
                      ++.||+|++.+||+||+.+|+.++++|||+|++++
T Consensus         1 f~~LP~eil~~If~~L~~~dl~~~~~Vcr~w~~l~   35 (41)
T d1fs1a1           1 WDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLA   35 (41)
T ss_dssp             CCSSCHHHHHHHHTTSCGGGHHHHHTTCHHHHHHH
T ss_pred             CCcCCHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence            46799999999999999999999999999998764

>d1nexb1 a.158.1.1 (B:270-369) Cdc4 F-box and linker domains {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: F-box domain
superfamily: F-box domain
family: F-box domain
domain: Cdc4 F-box and linker domains
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.07  E-value=2.2e-12  Score=86.36  Aligned_cols=49  Identities=22%  Similarity=0.302  Sum_probs=42.7

Q ss_pred             CCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC---CCcceeeeccc
Q 040130           38 RDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD---GGSRYRLSLNA   86 (147)
Q Consensus        38 ~~~~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~---~~~~~~l~l~~   86 (147)
                      .|.+..||+||+.+||+||+.+|+++|++|||+|+.++   ..+|+++.+..
T Consensus         3 ~D~~~~LP~Ell~~I~s~Ld~~dL~~~s~Vcr~W~~~~~~d~~LWr~l~~~~   54 (100)
T d1nexb1           3 RDLITSLPFEISLKIFNYLQFEDIINSLGVSQNWNKIIRKSTSLWKKLLISE   54 (100)
T ss_dssp             CCHHHHSCHHHHHHHHTTSCHHHHHHHTTTCHHHHHHHHTCSHHHHHHHHHT
T ss_pred             CCchhhCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHc
Confidence            47788999999999999999999999999999999853   46899886543

>d2ovrb1 a.158.1.1 (B:2263-2364) F-box/WD repeat-containing protein 7, FBXW7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: F-box domain
superfamily: F-box domain
family: F-box domain
domain: F-box/WD repeat-containing protein 7, FBXW7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.01  E-value=2.1e-11  Score=81.23  Aligned_cols=46  Identities=24%  Similarity=0.436  Sum_probs=41.1

Q ss_pred             CCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeee
Q 040130           38 RDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLS   83 (147)
Q Consensus        38 ~~~~~~LP~elL~~If~~L~~~dl~~~s~VCk~W~~~~--~~~~~~l~   83 (147)
                      .|.+..||+||+.+||+||+..|++++++|||+|+.+.  ..+|+.+-
T Consensus        16 ~D~i~~LP~Eil~~Ils~Ld~~dL~~~~~vcr~w~~l~~~~~lW~~~~   63 (102)
T d2ovrb1          16 RDFISLLPKELALYVLSFLEPKDLLQAAQTCRYWRILAEDNLLWREKC   63 (102)
T ss_dssp             CSTTTSSCHHHHHHHHTTSCHHHHHHHTTSCHHHHHHHTCSHHHHHHH
T ss_pred             cCChhhCCHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCHHHHHHHH
Confidence            68899999999999999999999999999999999865  45787654

>d1p22a1 a.158.1.1 (A:135-252) F-box/WD-repeat protein 1 (beta-TRCP1) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: F-box domain
superfamily: F-box domain
family: F-box domain
domain: F-box/WD-repeat protein 1 (beta-TRCP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.77  E-value=2e-10  Score=78.54  Aligned_cols=48  Identities=35%  Similarity=0.576  Sum_probs=41.1

Q ss_pred             CCCCCCCC----HHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeeecc
Q 040130           38 RDFTGDLP----DDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLSLN   85 (147)
Q Consensus        38 ~~~~~~LP----~elL~~If~~L~~~dl~~~s~VCk~W~~~~--~~~~~~l~l~   85 (147)
                      .|.+..||    +||+++||+|||.+|++++++|||+|+.++  ..+|+++...
T Consensus         8 ~D~i~~LP~~l~~EI~~~Ils~Ld~~dL~~~s~Vck~W~~l~~d~~lWk~~~~~   61 (118)
T d1p22a1           8 RDFITALPARGLDHIAENILSYLDAKSLCAAELVCKEWYRVTSDGMLWKKLIER   61 (118)
T ss_dssp             CCHHHHTGGGTCHHHHHHHHTTCCHHHHHHHHHHCHHHHHHHHHTTHHHHHHHH
T ss_pred             ccHHHHCCCCChHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCHHHHHHHHHh
Confidence            45666777    599999999999999999999999999975  6889877544

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.46  E-value=1.1e-07  Score=72.82  Aligned_cols=44  Identities=23%  Similarity=0.409  Sum_probs=32.6

Q ss_pred             cCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 040130          100 RFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus       100 r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD  146 (147)
                      ++++|++|+|+   +|..++|+++..+++.|++|++|+|++|.+++|
T Consensus        93 ~~~~L~~L~Ls---~c~~itd~~l~~l~~~~~~L~~L~ls~c~~~~~  136 (284)
T d2astb2          93 KNSNLVRLNLS---GCSGFSEFALQTLLSSCSRLDELNLSWCFDFTE  136 (284)
T ss_dssp             TCTTCSEEECT---TCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCH
T ss_pred             cCCCCcCcccc---ccccccccccchhhHHHHhcccccccccccccc
Confidence            34455555554   677888888888888888888888888887775

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.03  E-value=6.5e-06  Score=62.64  Aligned_cols=32  Identities=22%  Similarity=0.388  Sum_probs=25.5

Q ss_pred             CcccHHHHHHHHHhCCCCcEEeccCCCCCCCC
Q 040130          116 ISLDDDALVLISLRCQKLTRLKLRGCREITDH  147 (147)
Q Consensus       116 ~~itD~~L~~la~~cp~L~~L~L~~C~~vtD~  147 (147)
                      ..++|.++..++.+||+|++|+|++|..+||+
T Consensus       160 ~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~  191 (284)
T d2astb2         160 KNLQKSDLSTLVRRCPNLVHLDLSDSVMLKND  191 (284)
T ss_dssp             GGSCHHHHHHHHHHCTTCSEEECTTCTTCCGG
T ss_pred             cccccccccccccccccccccccccccCCCch
Confidence            45788888888888888888888888888763

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=96.65  E-value=0.00089  Score=46.34  Aligned_cols=43  Identities=12%  Similarity=0.135  Sum_probs=28.1

Q ss_pred             HHHhhcCccceeeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCC
Q 040130           95 PSVFSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGC  141 (147)
Q Consensus        95 ~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~---~cp~L~~L~L~~C  141 (147)
                      ...+..+++|++|+|+    ...++++++..|++   ..+.|+.|++.+|
T Consensus        39 ~~al~~n~~L~~L~Ls----~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~   84 (166)
T d1io0a_          39 AEALKTNTYVKKFSIV----GTRSNDPVAFALAEMLKVNNTLKSLNVESN   84 (166)
T ss_dssp             HHHHTTCCSCCEEECT----TSCCCHHHHHHHHHHHHHCSSCCEEECCSS
T ss_pred             HHHHhcCCccCeeecc----CCcccHHHHHHHHHHHhhcccchhhhhccc
Confidence            3334456777777777    34677776666654   5667777777766

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.29  E-value=0.0043  Score=47.44  Aligned_cols=48  Identities=25%  Similarity=0.349  Sum_probs=25.8

Q ss_pred             hHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhC----CCCcEEeccCCCCCCC
Q 040130           94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRC----QKLTRLKLRGCREITD  146 (147)
Q Consensus        94 l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~c----p~L~~L~L~~C~~vtD  146 (147)
                      +...++.+++|++|+|+    ...|+|+++..+++..    .+|++|+|++| ++||
T Consensus        47 l~~~L~~~~~L~~LdLs----~N~i~~~~~~~l~~~l~~~~~~L~~L~L~~n-~it~   98 (460)
T d1z7xw1          47 ISSALRVNPALAELNLR----SNELGDVGVHCVLQGLQTPSCKIQKLSLQNC-CLTG   98 (460)
T ss_dssp             HHHHHHTCTTCCEEECT----TCCCHHHHHHHHHHTTCSTTCCCCEEECTTS-CCBG
T ss_pred             HHHHHhcCCCCCEEECc----CCcCChHHHHHHHHHHhcCCCCCCEEECCCC-Cccc
Confidence            33444555666666665    3346666666665532    34666666665 3443

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.96  E-value=0.0046  Score=47.26  Aligned_cols=62  Identities=18%  Similarity=0.191  Sum_probs=45.9

Q ss_pred             eeeeccchhhhhhchHHHhhcCccceeeceeccCCCCcccHHHHHHHH---HhCCCCcEEeccCCCCCCC
Q 040130           80 YRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLIS---LRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        80 ~~l~l~~~~~~~~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la---~~cp~L~~L~L~~C~~vtD  146 (147)
                      +.++++.-.--...+..++..+.+++.|+|+   +| +|+|+++..|+   +.+++|++|+|+++ +++|
T Consensus         5 ~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~---~~-~i~~~~~~~l~~~L~~~~~L~~LdLs~N-~i~~   69 (460)
T d1z7xw1           5 QSLDIQCEELSDARWAELLPLLQQCQVVRLD---DC-GLTEARCKDISSALRVNPALAELNLRSN-ELGD   69 (460)
T ss_dssp             EEEEEESCCCCHHHHHHHHHHHTTCSEEEEE---SS-CCCHHHHHHHHHHHHTCTTCCEEECTTC-CCHH
T ss_pred             CEEEeeCCcCChHHHHHHHHhCCCCCEEEeC---CC-CCCHHHHHHHHHHHhcCCCCCEEECcCC-cCCh
Confidence            4566643211123456778888999999999   45 69999988887   68999999999986 5654

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=95.58  E-value=0.0094  Score=41.19  Aligned_cols=62  Identities=15%  Similarity=0.154  Sum_probs=43.5

Q ss_pred             eeeeccchhhhh----hchHHHhhcCccceeeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCCCCCCC
Q 040130           80 YRLSLNAQSEIL----SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGCREITD  146 (147)
Q Consensus        80 ~~l~l~~~~~~~----~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~---~cp~L~~L~L~~C~~vtD  146 (147)
                      +.+++.....+.    ..+...+....+|++|+|+    ...++|++...+++   .++.|++|+|++| .+++
T Consensus        18 ~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls----~n~l~~~~~~~la~~L~~n~~L~~L~L~~n-~i~~   86 (167)
T d1pgva_          18 KEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLA----NTAISDSEARGLIELIETSPSLRVLNVESN-FLTP   86 (167)
T ss_dssp             CEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECT----TSCCBHHHHTTHHHHHHHCSSCCEEECCSS-BCCH
T ss_pred             cEEEeCCCCCCCHHHHHHHHHHHhhCCccceeecc----ccccchhHHHHHhhhhhhcccccceeeehh-hcch
Confidence            567776432222    2344455667889999998    45789988877764   5888999999998 5654

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=94.91  E-value=0.0092  Score=41.24  Aligned_cols=59  Identities=19%  Similarity=0.142  Sum_probs=43.8

Q ss_pred             eeeeccchhh---hhhchHHHhhcCccceeeceeccCCCCcccHHHHHHHHHhC---CCCcEEeccCCC
Q 040130           80 YRLSLNAQSE---ILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRC---QKLTRLKLRGCR  142 (147)
Q Consensus        80 ~~l~l~~~~~---~~~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~c---p~L~~L~L~~C~  142 (147)
                      +.++++.+.-   ....+...+...+.|++|+|+    ...++++++..|++..   +.|++|+|+++.
T Consensus        47 ~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~----~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n~  111 (167)
T d1pgva_          47 EKFSLANTAISDSEARGLIELIETSPSLRVLNVE----SNFLTPELLARLLRSTLVTQSIVEFKADNQR  111 (167)
T ss_dssp             CEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECC----SSBCCHHHHHHHHHHTTTTCCCSEEECCCCS
T ss_pred             ceeeccccccchhHHHHHhhhhhhcccccceeee----hhhcchHHHHHHHHHHHhCCcCCEEECCCCc
Confidence            5677765421   123466667788999999998    4579999999988744   569999998863

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=92.55  E-value=0.047  Score=40.94  Aligned_cols=39  Identities=15%  Similarity=0.232  Sum_probs=19.7

Q ss_pred             hcCccceeeceeccCCCCcccHHHHHHHH---HhCCCCcEEeccCC
Q 040130           99 SRFDSVTKLALRCDRKSISLDDDALVLIS---LRCQKLTRLKLRGC  141 (147)
Q Consensus        99 ~r~~~L~~L~L~c~~~c~~itD~~L~~la---~~cp~L~~L~L~~C  141 (147)
                      ..+++|+.|+|+    ...+++.+...++   ..|++|++|+|++|
T Consensus       212 ~~~~~L~~L~Ls----~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n  253 (344)
T d2ca6a1         212 AYCQELKVLDLQ----DNTFTHLGSSALAIALKSWPNLRELGLNDC  253 (344)
T ss_dssp             GGCTTCCEEECC----SSCCHHHHHHHHHHHGGGCTTCCEEECTTC
T ss_pred             cchhhhcccccc----cccccccccccccccccccccchhhhhhcC
Confidence            344555555555    3345555544444   24555555555555

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=92.25  E-value=0.14  Score=34.47  Aligned_cols=63  Identities=10%  Similarity=0.191  Sum_probs=44.6

Q ss_pred             eeeeccchh---hhhhchHHHhhcCccceeeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCCC-CCCC
Q 040130           80 YRLSLNAQS---EILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGCR-EITD  146 (147)
Q Consensus        80 ~~l~l~~~~---~~~~~l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~---~cp~L~~L~L~~C~-~vtD  146 (147)
                      +.++++.+.   .....+...+....++++|+++    ...++++++..|++   .++.|+.+.|..|. +++|
T Consensus        49 ~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~----~~~~~~~g~~~l~~~l~~~~~L~~l~L~l~~n~i~~  118 (166)
T d1io0a_          49 KKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVE----SNFISGSGILALVEALQSNTSLIELRIDNQSQPLGN  118 (166)
T ss_dssp             CEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECC----SSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCH
T ss_pred             CeeeccCCcccHHHHHHHHHHHhhcccchhhhhc----cccccchhHHHHHHHHHhCccccEEeeccCCCcCcH
Confidence            567776542   1123455566677899999998    66789999988885   66789988887664 5544

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=90.13  E-value=0.14  Score=38.13  Aligned_cols=44  Identities=16%  Similarity=0.170  Sum_probs=21.4

Q ss_pred             hHHHhhcCccceeeceeccCCCCcccHHHHHHHHHh-----CCCCcEEeccCC
Q 040130           94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLR-----CQKLTRLKLRGC  141 (147)
Q Consensus        94 l~~l~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~-----cp~L~~L~L~~C  141 (147)
                      +...+..+++|++|+|+    ...|++.++..+++.     .+.|++|+|+++
T Consensus       235 L~~~l~~~~~L~~L~Ls----~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N  283 (344)
T d2ca6a1         235 LAIALKSWPNLRELGLN----DCLLSARGAAAVVDAFSKLENIGLQTLRLQYN  283 (344)
T ss_dssp             HHHHGGGCTTCCEEECT----TCCCCHHHHHHHHHHHHTCSSCCCCEEECCSS
T ss_pred             ccccccccccchhhhhh----cCccCchhhHHHHHHhhhccCCCCCEEECCCC
Confidence            33444556666666665    223555554444432     123555555443

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.09  E-value=0.042  Score=37.48  Aligned_cols=44  Identities=23%  Similarity=0.250  Sum_probs=30.1

Q ss_pred             hHHHhhcCccceeeceeccCCCCcccH-HHHHHHHHhCCCCcEEeccCC
Q 040130           94 LPSVFSRFDSVTKLALRCDRKSISLDD-DALVLISLRCQKLTRLKLRGC  141 (147)
Q Consensus        94 l~~l~~r~~~L~~L~L~c~~~c~~itD-~~L~~la~~cp~L~~L~L~~C  141 (147)
                      +..+...+++|++|+|+    ...|++ ..+......|++|+.|+|++.
T Consensus        57 l~~~~~~~~~L~~L~Ls----~N~i~~l~~~~~~~~~l~~L~~L~Ls~N  101 (162)
T d1koha1          57 LRIIEENIPELLSLNLS----NNRLYRLDDMSSIVQKAPNLKILNLSGN  101 (162)
T ss_dssp             HHHHHHHCTTCCCCCCC----SSCCCCCSGGGTHHHHSTTCCCCCCTTS
T ss_pred             hHHHHHhCCCCCEeeCC----CccccCCchhHHHHhhCCcccccccccC
Confidence            44556678888888887    455654 244455667888888888873

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=89.03  E-value=0.052  Score=38.36  Aligned_cols=41  Identities=17%  Similarity=0.301  Sum_probs=28.2

Q ss_pred             hhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 040130           98 FSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        98 ~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD  146 (147)
                      +..+++|++|+|+    +..+++  +.. ...+++|++|+|++| ++++
T Consensus       169 l~~l~~L~~L~Ls----~n~l~~--l~~-l~~l~~L~~L~Ls~N-~lt~  209 (227)
T d1h6ua2         169 LANLSKLTTLKAD----DNKISD--ISP-LASLPNLIEVHLKNN-QISD  209 (227)
T ss_dssp             GTTCTTCCEEECC----SSCCCC--CGG-GGGCTTCCEEECTTS-CCCB
T ss_pred             hcccccceecccC----CCccCC--Chh-hcCCCCCCEEECcCC-cCCC
Confidence            3567888888888    334554  222 246899999999998 5664

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=80.72  E-value=0.24  Score=36.67  Aligned_cols=41  Identities=15%  Similarity=0.268  Sum_probs=27.1

Q ss_pred             hhcCccceeeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 040130           98 FSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        98 ~~r~~~L~~L~L~c~~~c~~itD~~L~~la~~cp~L~~L~L~~C~~vtD  146 (147)
                      +..+++|++|+|+   ++ .+++  +..+ ..|++|++|+|+++ ++++
T Consensus       325 l~~l~~L~~L~L~---~n-~l~~--l~~l-~~l~~L~~L~l~~N-~l~~  365 (384)
T d2omza2         325 VSSLTKLQRLFFA---NN-KVSD--VSSL-ANLTNINWLSAGHN-QISD  365 (384)
T ss_dssp             GGGCTTCCEEECC---SS-CCCC--CGGG-GGCTTCCEEECCSS-CCCB
T ss_pred             cccCCCCCEEECC---CC-CCCC--ChhH-cCCCCCCEEECCCC-cCCC
Confidence            4567888888887   33 5553  2233 35888999998776 5553