Citrus Sinensis ID: 038746

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------
Protein Sequence
MGQTPSTAIDPSDRFNILSPAIVSNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccEEcccHHHHHHcccccEEEEEEEcccccccHHHHHcccccccEEEEEEccccccccHHHHHHHHHccccccEEEcccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccEEccccEEccccccccccccccccccccccHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccEEEccccHHHHHHHHHHHHHcccccEEEEEcccccccccHHHHHHHHHccccccEEEcccccccccc
Coil and Loop (DISEMBL)
mgqtpstaidpsdrfnilspaivsndgvefsdeLDKArdftgdlpdDCLAYIFQFLgsgdrkrcSLVCKrwlrvdggsryrlSLNAQSEILsslpsvfsrfDSVTKLALrcdrksislddDALVLISLRCQKLTRlklrgcreitdh
Flexible Loop (DISEMBL)
mgqtpstaidpsdrfnILSPAIVSNDGVEFSDELDKARDFTGDLPDDCLAYIFQFlgsgdrkrcSLVCKRWLRVDGGSRYRLSLNAQSEilsslpsvfSRFDSVTKLalrcdrksisldddalVLISLrcqkltrlklrgcreitdh
Low Complexity Region (SEG)
MGQTPSTAIDPSDRFNILSPAIVSNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH
Disordered region (IsUnstruct)
***************NILSPAIVSNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCR*****
Disordered Region (DISOPRED)
***************************************FTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREIT**
Disordered Region (DISEMBL)
********IDPSDRFNILSPAIVSNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH
Disordered Region (DISPRO)
*************RFNILSPAIVSND****SDELDKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCRE****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGQTPSTAIDPSDRFNILSPAIVSNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH
Positional Conservation
no confident homologs detected

---

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	3e-48
Q9SN10	522	F-box/LRR-repeat protein	no	no	0.972	0.273	0.604	1e-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	0.761	0.202	0.598	4e-34
Q9UJT9	491	F-box/LRR-repeat protein	yes	no	0.823	0.246	0.234	0.0008

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

 Score =  190 bits (482), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 96/150 (64%), Positives = 119/150 (79%), Gaps = 6/150 (4%)

Query: 1   MGQTPSTAIDPSDR---FNILSPAIVSN-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 (450), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 90/149 (60%), Positives = 112/149 (75%), Gaps = 6/149 (4%)

Query: 1   MGQTPSTAIDPSDR---FNILSPAIVSNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLG 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 = 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

Arabidopsis thaliana (taxid: 3702)

>sp|Q9UJT9|FBXL7_HUMAN F-box/LRR-repeat protein 7 OS=Homo sapiens GN=FBXL7 PE=2 SV=1

 Score = 42.7 bits (99), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 33/141 (23%), Positives = 57/141 (40%), Gaps = 20/141 (14%)

Query: 20  PAIVSNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVDGGSR 79
           P  +++  +  +    K +     LPD  +  IF FL +    RC+ VC+RW  +    R
Sbjct: 93  PTRLTHPLIRLASRPQKEQASIDRLPDHSMVQIFSFLPTNQLCRCARVCRRWYNLAWDPR 152

Query: 80  YRLSLNAQSEILS--------------SLPSVFSRFDSVTKLALRCDRKSISLDDDALVL 125
              ++    E ++                P+V    ++VT    R       L D  L  
Sbjct: 153 LWRTIRLTGETINVDRALKVLTRRLCQDTPNVCLMLETVTVSGCR------RLTDRGLYT 206

Query: 126 ISLRCQKLTRLKLRGCREITD 146
           I+  C +L RL++ GC  I++
Sbjct: 207 IAQCCPELRRLEVSGCYNISN 227

Substrate recognition component of a (SKP1-CUL1-F-box protein) E3 ubiquitin-protein ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of AURKA during mitosis, causing mitotic arrest.

Homo sapiens (taxid: 9606)

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	2e-46
18425169	527	F-box protein SKIP2 [Arabidopsis thalian	0.979	0.273	0.64	2e-46
15810227	304	putative SKP1 interacting partner SKIP2	0.979	0.473	0.64	2e-46
297794261	534	hypothetical protein ARALYDRAFT_919984 [	0.993	0.273	0.622	2e-45
224084394	524	predicted protein [Populus trichocarpa]	0.979	0.274	0.614	7e-44
224094274	519	predicted protein [Populus trichocarpa]	0.952	0.269	0.614	8e-44
18409012	522	F-box/LRR-repeat protein 16 [Arabidopsis	0.972	0.273	0.604	9e-43
356565539	539	PREDICTED: F-box protein SKIP2-like [Gly	0.965	0.263	0.635	9e-43
356514260	532	PREDICTED: F-box protein SKIP2-like [Gly	0.931	0.257	0.612	2e-42
255567881	529	skip-2, putative [Ricinus communis] gi|2	0.986	0.274	0.605	9e-42

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

 Score =  190 bits (482), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 96/150 (64%), Positives = 119/150 (79%), Gaps = 6/150 (4%)

Query: 1   MGQTPSTAIDPSDR---FNILSPAIVSN-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 =  190 bits (482), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 96/150 (64%), Positives = 119/150 (79%), Gaps = 6/150 (4%)

Query: 1   MGQTPSTAIDPSDR---FNILSPAIVSN-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 (481), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 96/150 (64%), Positives = 119/150 (79%), Gaps = 6/150 (4%)

Query: 1   MGQTPSTAIDPSDR---FNILSPAIVSN-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 =  187 bits (474), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 94/151 (62%), Positives = 118/151 (78%), Gaps = 5/151 (3%)

Query: 1   MGQTPSTAIDPSDR---FNILSPAIVSN-DGVEFSDELD-KARDFTGDLPDDCLAYIFQF 55
           MGQ PS+  + + R     + SP IVS  + +   + +  + 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 =  181 bits (460), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 91/148 (61%), Positives = 117/148 (79%), Gaps = 4/148 (2%)

Query: 1   MGQTPSTAIDPSDRFNILSPAIVSNDGVEFSDELDKA--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 (459), Expect = 8e-44,   Method: Compositional matrix adjust.
 Identities = 91/148 (61%), Positives = 116/148 (78%), Gaps = 8/148 (5%)

Query: 1   MGQTPSTAIDPSDRFNILSPAIVSNDGVEFSDELDKA--RDFTGDLPDDCLAYIFQFLGS 58
           MGQ+ ST   P+++F      ++S +  +F+DE+      DFT  +PDDCLA IFQ L +
Sbjct: 1   MGQSSSTVSYPTNQF------LISPEPSDFTDEIKNGPLTDFTEGIPDDCLACIFQLLNA 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|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 (450), Expect = 9e-43,   Method: Compositional matrix adjust.
 Identities = 90/149 (60%), Positives = 112/149 (75%), Gaps = 6/149 (4%)

Query: 1   MGQTPSTAIDPSDR---FNILSPAIVSNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLG 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|356565539|ref|XP_003550997.1| PREDICTED: F-box protein SKIP2-like [Glycine max]

 Score =  177 bits (450), Expect = 9e-43,   Method: Compositional matrix adjust.
 Identities = 94/148 (63%), Positives = 114/148 (77%), Gaps = 6/148 (4%)

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

 Score =  176 bits (447), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 90/147 (61%), Positives = 112/147 (76%), Gaps = 10/147 (6%)

Query: 1   MGQTPSTAIDPSDRFNILSPAIVSNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGD 60
           MGQ PST +  +D         +S+  +  +DE    RD+T D+PD+CLA IFQFL S D
Sbjct: 1   MGQAPSTPVSSTD---------LSHRDIFTTDE-SIGRDYTADIPDECLAGIFQFLSSVD 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 (442), Expect = 9e-42,   Method: Compositional matrix adjust.
 Identities = 89/147 (60%), Positives = 113/147 (76%), Gaps = 2/147 (1%)

Query: 1   MGQTPSTAIDPSDRFNILSPAIVSNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGD 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	6.2e-46
TAIR|locus:2083143	522	VFB2 "AT3G50080" [Arabidopsis	0.972	0.273	0.617	7.3e-43
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	0.965	0.256	0.513	2.1e-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 = 482 (174.7 bits), Expect = 6.2e-46, P = 6.2e-46
 Identities = 96/150 (64%), Positives = 119/150 (79%)

Query:     1 MGQTPSTAIDPSDR---FNILSPAIVSN-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 = 453 (164.5 bits), Expect = 7.3e-43, P = 7.3e-43
 Identities = 92/149 (61%), Positives = 113/149 (75%)

Query:     1 MGQTPSTAIDPSDRFNIL---SPAIVSNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLG 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 = 366 (133.9 bits), Expect = 2.1e-33, P = 2.1e-33
 Identities = 75/146 (51%), Positives = 103/146 (70%)

Query:     1 MGQTPSTAIDPSDRFNILSPAIVSNDGVEFSDELDKARDFTGDLPDDCLAYIFQFLGSGD 60
             MGQ  ST+     +    SP + +    E +   D+  D+  +LPD+CL+ IFQ L   D
Sbjct:    38 MGQ--STSKFRRSKTTFTSPVLPNLR--EQNSGADEPYDYISNLPDECLSLIFQSLTCAD 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

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	1e-05
pfam00646	48	pfam00646, F-box, F-box domain	3e-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 = 1e-05
 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 = 3e-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 = 34.3 bits (80), 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	99.56
KOG4341	483	consensus F-box protein containing LRR [General fu	99.49
PF12937	47	F-box-like: F-box-like; PDB: 1P22_A 2OVP_B 2OVR_B	99.31
smart00256	41	FBOX A Receptor for Ubiquitination Targets.	98.77
PF00646	48	F-box: F-box domain; InterPro: IPR001810 The F-box	98.53
KOG4341	483	consensus F-box protein containing LRR [General fu	98.24
KOG1947	482	consensus Leucine rich repeat proteins, some prote	98.06
KOG2997	366	consensus F-box protein FBX9 [General function pre	97.82
KOG0281	499	consensus Beta-TrCP (transducin repeats containing	97.73
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.57
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	97.47
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	97.38
KOG3864	221	consensus Uncharacterized conserved protein [Funct	97.2
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	96.46
PLN03215	373	ascorbic acid mannose pathway regulator 1; Provisi	96.3
KOG3864	221	consensus Uncharacterized conserved protein [Funct	96.23
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	95.66
KOG0274	537	consensus Cdc4 and related F-box and WD-40 protein	94.85
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	94.66
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	94.44
PF13013	109	F-box-like_2: F-box-like domain	93.25
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	92.88
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	91.81
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	91.05
KOG3926	332	consensus F-box proteins [Amino acid transport and	88.42
smart00368	28	LRR_RI Leucine rich repeat, ribonuclease inhibitor	88.3
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	85.89
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	85.34
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	84.2
PF09372	97	PRANC: PRANC domain; InterPro: IPR018272 This pres	83.92

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

Probab=99.56  E-value=3.8e-15  Score=121.10  Aligned_cols=111  Identities=25%  Similarity=0.407  Sum_probs=79.3

Q ss_pred             ccCCCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeeeccchh---h----h---------------
Q 038746           35 DKARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLSLNAQS---E----I---------------   90 (147)
Q Consensus        35 ~~~~~~~~~LP~elL~~Ifs~L~~~dl~~~s~VCk~W~~~~--~~lw~~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 66799999999999999999999999999999987  6899999875321   0    0               


Q ss_pred             -hh--------------------------chHHHhhcCcccceecee----------c-----------cCCCCcccHHH
Q 038746           91 -LS--------------------------SLPSVFSRFDSVTKLALR----------C-----------DRKSISLDDDA  122 (147)
Q Consensus        91 -~~--------------------------~l~~l~~r~~~L~~L~L~----------c-----------~r~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             00                          111122333333222222          0           11688899999


Q ss_pred             HHHHHHhCCCCcEEeccCCCCCCC
Q 038746          123 LVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus       123 L~~ia~~Cp~L~~L~L~~C~~iTD  146 (147)
                      +..+...|..|.+|||++|.-.+|
T Consensus       252 ~~ll~~scs~L~~LNlsWc~l~~~  275 (419)
T KOG2120|consen  252 LQLLLSSCSRLDELNLSWCFLFTE  275 (419)
T ss_pred             HHHHHHhhhhHhhcCchHhhccch
Confidence            999999999999999999976665

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

Probab=99.49  E-value=1.7e-14  Score=120.95  Aligned_cols=101  Identities=29%  Similarity=0.504  Sum_probs=80.0

Q ss_pred             CCCHHHHHHHHHhCChHHHHHHhhhccccccc--CCCcceeeeccchh-hh----------------------------h
Q 038746           43 DLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRV--DGGSRYRLSLNAQS-EI----------------------------L   91 (147)
Q Consensus        43 ~LP~elL~~Ifs~L~~~dl~~~s~VCk~W~~~--~~~lw~~l~l~~~~-~~----------------------------~   91 (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            69999999999999999999999999999764  48999999874321 11                            1


Q ss_pred             hchHHHhhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746           92 SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        92 ~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD  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            2344556666777777776   688888888888888888888888888888876

>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=99.31  E-value=3.7e-13  Score=80.74  Aligned_cols=44  Identities=43%  Similarity=0.741  Sum_probs=37.1

Q ss_pred             CCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeeec
Q 038746           41 TGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLSL   84 (147)
Q Consensus        41 ~~~LP~elL~~Ifs~L~~~dl~~~s~VCk~W~~~~--~~lw~~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            46799999999999999999999999999999976  578987764

>smart00256 FBOX A Receptor for Ubiquitination Targets

Probab=98.77  E-value=3.3e-09  Score=60.78  Aligned_cols=37  Identities=30%  Similarity=0.408  Sum_probs=33.0

Q ss_pred             CCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcce
Q 038746           44 LPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRY   80 (147)
Q Consensus        44 LP~elL~~Ifs~L~~~dl~~~s~VCk~W~~~~--~~lw~   80 (147)
                      ||+|++.+||.+|+..|+.++++|||+|+.+.  ...|+
T Consensus         1 lP~~ll~~I~~~l~~~d~~~~~~vc~~~~~~~~~~~~~~   39 (41)
T smart00256        1 LPDEILEEILSKLPPKDLLRLRKVSRRWRSLIDSHDFWF   39 (41)
T ss_pred             CCHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcChhhhh
Confidence            79999999999999999999999999998875  35554

>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=98.53  E-value=3.7e-08  Score=58.67  Aligned_cols=35  Identities=43%  Similarity=0.661  Sum_probs=29.2

Q ss_pred             CCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC
Q 038746           41 TGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD   75 (147)
Q Consensus        41 ~~~LP~elL~~Ifs~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=98.24  E-value=3.5e-07  Score=77.43  Aligned_cols=51  Identities=29%  Similarity=0.412  Sum_probs=39.7

Q ss_pred             chHHHhhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746           93 SLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        93 ~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD  146 (147)
                      .+..+.+.|++|++|+|.   +|..|||..|+.++++||+|++||+++|.+|++
T Consensus       181 s~~sla~~C~~l~~l~L~---~c~~iT~~~Lk~la~gC~kL~~lNlSwc~qi~~  231 (483)
T KOG4341|consen  181 SLLSLARYCRKLRHLNLH---SCSSITDVSLKYLAEGCRKLKYLNLSWCPQISG  231 (483)
T ss_pred             HHHHHHHhcchhhhhhhc---ccchhHHHHHHHHHHhhhhHHHhhhccCchhhc
Confidence            355677777888888887   677888888888888888888888888877765

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

Probab=98.06  E-value=5.5e-06  Score=69.20  Aligned_cols=53  Identities=36%  Similarity=0.607  Sum_probs=46.3

Q ss_pred             hchHHHhhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCCC
Q 038746           92 SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH  147 (147)
Q Consensus        92 ~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD~  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            3477788889999999987   6777999999999999999999999999988763

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

Probab=97.82  E-value=8.4e-06  Score=66.94  Aligned_cols=61  Identities=20%  Similarity=0.266  Sum_probs=44.7

Q ss_pred             cCCCCCCCCcccc--cCCCCCCCCCHHHHHHHHHh-----CChHHHHHHhhhcccccccC--CCcceeee
Q 038746           23 VSNDGVEFSDELD--KARDFTGDLPDDCLAYIFQF-----LGSGDRKRCSLVCKRWLRVD--GGSRYRLS   83 (147)
Q Consensus        23 ~~~~~~~~~~~~~--~~~~~~~~LP~elL~~Ifs~-----L~~~dl~~~s~VCk~W~~~~--~~lw~~l~   83 (147)
                      ..|+..-+-|..+  +...+|..||||+|..||.+     |+.++|.+++.|||.|+..+  +.+|+.-.
T Consensus        87 ~f~~tLt~qe~v~~qp~~~~~~~LPdEvLm~I~~~vv~~~~d~rsL~~~s~vCr~F~~~~R~~~lwR~aC  156 (366)
T KOG2997|consen   87 YFQQTLTFQESVLCQPELISISVLPDEVLMRIFRWVVSSLLDLRSLEQLSLVCRGFYKCARDPELWRLAC  156 (366)
T ss_pred             ccccccccccccccchhhhhhhhCCHHHHHHHHHHHHhhhcchhhHHHhHhhHHHHHHHHcChHHHHHHH
Confidence            3455544455433  55666789999999999986     45689999999999998865  56666443

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

Probab=97.73  E-value=5.5e-06  Score=68.89  Aligned_cols=47  Identities=38%  Similarity=0.598  Sum_probs=41.6

Q ss_pred             CCCCCCCC----HHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeeec
Q 038746           38 RDFTGDLP----DDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLSL   84 (147)
Q Consensus        38 ~~~~~~LP----~elL~~Ifs~L~~~dl~~~s~VCk~W~~~~--~~lw~~l~l   84 (147)
                      +|+++.||    +++-+.||+||+..+|++|.+|||+|+++.  +.+|+++-.
T Consensus        72 rDFi~~lP~~gl~hi~e~ilsyld~~sLc~celv~k~W~r~l~dg~~WKkLie  124 (499)
T KOG0281|consen   72 RDFITALPEQGLDHIAENILSYLDALSLCACELVCKEWKRVLSDGMLWKKLIE  124 (499)
T ss_pred             HHHHHhcccccHHHHHHHHHHhcchhhhhHHHHHHHHHHHHhccchHHHHHHH
Confidence            58888999    999999999999999999999999998865  677877643

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

Probab=97.57  E-value=8.6e-05  Score=62.01  Aligned_cols=50  Identities=26%  Similarity=0.390  Sum_probs=45.1

Q ss_pred             HHHhhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCCC
Q 038746           95 PSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH  147 (147)
Q Consensus        95 ~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD~  147 (147)
                      ..+...|.+|++|+|+   .|..++|.++..++..|++|++|++.+|..+||+
T Consensus       236 ~~~~~~~~~L~~l~l~---~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~  285 (482)
T KOG1947|consen  236 LLLLSICRKLKSLDLS---GCGLVTDIGLSALASRCPNLETLSLSNCSNLTDE  285 (482)
T ss_pred             hhhhhhcCCcCccchh---hhhccCchhHHHHHhhCCCcceEccCCCCccchh
Confidence            3477888999999999   6777999999999999999999999999989874

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

Probab=97.47  E-value=5.1e-05  Score=39.75  Aligned_cols=18  Identities=50%  Similarity=1.018  Sum_probs=16.7

Q ss_pred             CCCCcEEeccCCCCCCCC
Q 038746          130 CQKLTRLKLRGCREITDH  147 (147)
Q Consensus       130 Cp~L~~L~L~~C~~iTD~  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

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

Probab=97.38  E-value=0.00017  Score=37.73  Aligned_cols=25  Identities=16%  Similarity=0.306  Sum_probs=23.2

Q ss_pred             CcccceeceeccCCCCcccHHHHHHHHH
Q 038746          101 FDSVTKLALRCDRKSISLDDDALVLISL  128 (147)
Q Consensus       101 ~~~L~~L~L~c~r~c~~ItD~~L~~ia~  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            6899999999   799999999999986

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.20  E-value=0.00019  Score=55.84  Aligned_cols=46  Identities=30%  Similarity=0.425  Sum_probs=41.0

Q ss_pred             hhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746           98 FSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        98 ~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD  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            3456778888888   799999999999999999999999999999998

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

Probab=96.46  E-value=0.0023  Score=52.96  Aligned_cols=49  Identities=24%  Similarity=0.419  Sum_probs=33.7

Q ss_pred             chHHHhhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCC
Q 038746           93 SLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREIT  145 (147)
Q Consensus        93 ~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iT  145 (147)
                      .+..+.+|||+|.+|||+   .|..++|..+.++- .++.|++|.|+.|..|-
T Consensus       304 h~~tL~~rcp~l~~LDLS---D~v~l~~~~~~~~~-kf~~L~~lSlsRCY~i~  352 (419)
T KOG2120|consen  304 HLSTLVRRCPNLVHLDLS---DSVMLKNDCFQEFF-KFNYLQHLSLSRCYDII  352 (419)
T ss_pred             HHHHHHHhCCceeeeccc---cccccCchHHHHHH-hcchheeeehhhhcCCC
Confidence            355677778888888887   57777774444443 47778888888887653

>PLN03215 ascorbic acid mannose pathway regulator 1; Provisional

Probab=96.30  E-value=0.0029  Score=53.37  Aligned_cols=35  Identities=26%  Similarity=0.415  Sum_probs=31.4

Q ss_pred             CCCCHHHHHHHHHhCC-hHHHHHHhhhcccccccCC
Q 038746           42 GDLPDDCLAYIFQFLG-SGDRKRCSLVCKRWLRVDG   76 (147)
Q Consensus        42 ~~LP~elL~~Ifs~L~-~~dl~~~s~VCk~W~~~~~   76 (147)
                      .+||+|+|..|.++|+ ..|+.+.+.||+.|+.+.+
T Consensus         5 s~Lp~dll~~i~~~l~~~~d~~~~~~vC~sWr~a~~   40 (373)
T PLN03215          5 STLPEELLHMIAGRLFSNVELKRFRSICRSWRSSVS   40 (373)
T ss_pred             hhCCHHHHHHHHhhCCcHHHHHHHHhhhhhHHHhcc
Confidence            3599999999999996 6899999999999998654

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.23  E-value=0.002  Score=50.22  Aligned_cols=47  Identities=21%  Similarity=0.192  Sum_probs=39.6

Q ss_pred             hHHHhhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCC
Q 038746           94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREI  144 (147)
Q Consensus        94 l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~i  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   899999999999987 999999998765433

>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=95.66  E-value=0.0073  Score=35.44  Aligned_cols=38  Identities=24%  Similarity=0.270  Sum_probs=27.5

Q ss_pred             cccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746          102 DSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus       102 ~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD  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            478999998    566775  4453457999999999998 6775

...

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

Probab=94.85  E-value=0.0093  Score=52.55  Aligned_cols=40  Identities=30%  Similarity=0.520  Sum_probs=36.8

Q ss_pred             cCCCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC
Q 038746           36 KARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD   75 (147)
Q Consensus        36 ~~~~~~~~LP~elL~~Ifs~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            4478888999999999999999999999999999998876

>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=94.66  E-value=0.03  Score=28.26  Aligned_cols=24  Identities=13%  Similarity=0.181  Sum_probs=16.7

Q ss_pred             CcccceeceeccCCCCcccHHHHHHHHH
Q 038746          101 FDSVTKLALRCDRKSISLDDDALVLISL  128 (147)
Q Consensus       101 ~~~L~~L~L~c~r~c~~ItD~~L~~ia~  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            4678899998    45599999988874

...

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

Probab=94.44  E-value=0.065  Score=42.47  Aligned_cols=44  Identities=23%  Similarity=0.253  Sum_probs=25.8

Q ss_pred             HhhcCcccceeceeccCCCCcccHHHHHHHHHhC----CCCcEEeccCCCCCC
Q 038746           97 VFSRFDSVTKLALRCDRKSISLDDDALVLISLRC----QKLTRLKLRGCREIT  145 (147)
Q Consensus        97 l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~C----p~L~~L~L~~C~~iT  145 (147)
                      ....+++|+.|+++    ...++|.++..++..+    +.|++|++++| .++
T Consensus       216 ~~~~~~~L~~L~ls----~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n-~i~  263 (319)
T cd00116         216 TLASLKSLEVLNLG----DNNLTDAGAAALASALLSPNISLLTLSLSCN-DIT  263 (319)
T ss_pred             HhcccCCCCEEecC----CCcCchHHHHHHHHHHhccCCCceEEEccCC-CCC
Confidence            34445566666665    3346666666666554    56677776666 444

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=93.25  E-value=0.076  Score=37.37  Aligned_cols=29  Identities=28%  Similarity=0.337  Sum_probs=26.9

Q ss_pred             CCCCCHHHHHHHHHhCChHHHHHHhhhcc
Q 038746           41 TGDLPDDCLAYIFQFLGSGDRKRCSLVCK   69 (147)
Q Consensus        41 ~~~LP~elL~~Ifs~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            66799999999999999999998888888

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

Probab=92.88  E-value=0.19  Score=39.81  Aligned_cols=43  Identities=21%  Similarity=0.227  Sum_probs=27.1

Q ss_pred             hcCcccceeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCCCCCCC
Q 038746           99 SRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGCREITD  146 (147)
Q Consensus        99 ~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~---~Cp~L~~L~L~~C~~iTD  146 (147)
                      ..+++|++|+|+    ...+++.++..++.   .+++|++|+|++| .++|
T Consensus       190 ~~~~~L~~L~L~----~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n-~l~~  235 (319)
T cd00116         190 KANCNLEVLDLN----NNGLTDEGASALAETLASLKSLEVLNLGDN-NLTD  235 (319)
T ss_pred             HhCCCCCEEecc----CCccChHHHHHHHHHhcccCCCCEEecCCC-cCch
Confidence            344577777776    33566666555443   5667888888876 4554

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).

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

Probab=91.81  E-value=0.2  Score=45.57  Aligned_cols=50  Identities=16%  Similarity=0.278  Sum_probs=39.9

Q ss_pred             hchHHHhhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746           92 SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        92 ~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD  146 (147)
                      .....+...+|+|++|.++    ...+.++.+..+-..+|||..||++++ +|++
T Consensus       138 ~W~~kig~~LPsL~sL~i~----~~~~~~~dF~~lc~sFpNL~sLDIS~T-nI~n  187 (699)
T KOG3665|consen  138 GWPKKIGTMLPSLRSLVIS----GRQFDNDDFSQLCASFPNLRSLDISGT-NISN  187 (699)
T ss_pred             cHHHHHhhhCcccceEEec----CceecchhHHHHhhccCccceeecCCC-CccC
Confidence            4466778889999999998    555555558888889999999999997 5664

>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=91.05  E-value=0.17  Score=23.63  Aligned_cols=14  Identities=36%  Similarity=0.503  Sum_probs=9.3

Q ss_pred             CCCcEEeccCCCCCC
Q 038746          131 QKLTRLKLRGCREIT  145 (147)
Q Consensus       131 p~L~~L~L~~C~~iT  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            579999999985 65

...

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

Probab=88.42  E-value=0.15  Score=41.47  Aligned_cols=55  Identities=13%  Similarity=0.207  Sum_probs=41.1

Q ss_pred             CCCCcccccCCCCCCCCCHHHHHHHHHhCC-hHHHHHHhhhcccccccC--CCcceeee
Q 038746           28 VEFSDELDKARDFTGDLPDDCLAYIFQFLG-SGDRKRCSLVCKRWLRVD--GGSRYRLS   83 (147)
Q Consensus        28 ~~~~~~~~~~~~~~~~LP~elL~~Ifs~L~-~~dl~~~s~VCk~W~~~~--~~lw~~l~   83 (147)
                      +++++..+.+....+ ||.|++..|+..|+ ..|+.+.++|=...+.+.  ..+|+++.
T Consensus       190 iqi~~~~~~~ltl~d-LP~e~vl~Il~rlsDh~dL~s~aqa~etl~~l~~e~~iWkkLc  247 (332)
T KOG3926|consen  190 IQITEPDPAGLTLHD-LPLECVLNILLRLSDHRDLESLAQAWETLAKLSEERRIWKKLC  247 (332)
T ss_pred             hcccCCCcCCCCccc-chHHHHHHHHHHccCcchHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            445555555556565 99999999999998 799999999976666554  46777763

>smart00368 LRR_RI Leucine rich repeat, ribonuclease inhibitor type

Probab=88.30  E-value=0.65  Score=24.35  Aligned_cols=25  Identities=20%  Similarity=0.223  Sum_probs=21.1

Q ss_pred             cccceeceeccCCCCcccHHHHHHHHHhC
Q 038746          102 DSVTKLALRCDRKSISLDDDALVLISLRC  130 (147)
Q Consensus       102 ~~L~~L~L~c~r~c~~ItD~~L~~ia~~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    7789999999998754

>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=85.89  E-value=0.055  Score=33.14  Aligned_cols=42  Identities=19%  Similarity=0.138  Sum_probs=28.5

Q ss_pred             HHhhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCC
Q 038746           96 SVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCR  142 (147)
Q Consensus        96 ~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~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            345678999999998    333331111 123579999999999873

...

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=85.34  E-value=0.42  Score=38.52  Aligned_cols=36  Identities=22%  Similarity=0.290  Sum_probs=20.0

Q ss_pred             cccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccC
Q 038746          102 DSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRG  140 (147)
Q Consensus       102 ~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~  140 (147)
                      ++|+.|.+++   ...--..+|..++..||+|++|+|++
T Consensus        65 p~LkkL~lsd---n~~~~~~~l~vl~e~~P~l~~l~ls~  100 (260)
T KOG2739|consen   65 PKLKKLELSD---NYRRVSGGLEVLAEKAPNLKVLNLSG  100 (260)
T ss_pred             chhhhhcccC---CcccccccceehhhhCCceeEEeecC
Confidence            5666666663   11112345566666666666666665

>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=84.20  E-value=0.38  Score=23.75  Aligned_cols=13  Identities=38%  Similarity=0.570  Sum_probs=10.4

Q ss_pred             CCcEEeccCCCCCC
Q 038746          132 KLTRLKLRGCREIT  145 (147)
Q Consensus       132 ~L~~L~L~~C~~iT  145 (147)
                      +|++|+|++| ++|
T Consensus         1 ~L~~Ldls~n-~l~   13 (22)
T PF00560_consen    1 NLEYLDLSGN-NLT   13 (22)
T ss_dssp             TESEEEETSS-EES
T ss_pred             CccEEECCCC-cCE
Confidence            5889999998 665

LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....

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

Probab=83.92  E-value=1.2  Score=30.09  Aligned_cols=26  Identities=23%  Similarity=0.351  Sum_probs=22.7

Q ss_pred             CCCCCCCHHHHHHHHHhCChHHHHHH
Q 038746           39 DFTGDLPDDCLAYIFQFLGSGDRKRC   64 (147)
Q Consensus        39 ~~~~~LP~elL~~Ifs~L~~~dl~~~   64 (147)
                      ..+..||.|+...|+++|+..||...
T Consensus        70 ~~w~~LP~EIk~~Il~~L~~~dL~~l   95 (97)
T PF09372_consen   70 NYWNILPIEIKYKILEYLSNKDLKKL   95 (97)
T ss_pred             CchhhCCHHHHHHHHHcCCHHHHHHH
Confidence            56778999999999999999998753

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	3e-20
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	2e-18
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	3e-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	6e-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 = 84.6 bits (209), Expect = 3e-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 = 79.6 bits (196), Expect = 2e-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 = 61.8 bits (150), Expect = 3e-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 = 6e-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
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.57
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.57
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.45
1fs1_A	53	SKP2 F-BOX, cyclin A/CDK2-associated P19; F-BOX, L	99.35
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.72
2e31_A	297	FBS1, F-box only protein 2; ubiquitin, SCF, ubiqui	98.69
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.65
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	98.62
3v7d_B	464	Cell division control protein 4; WD 40 domain, pho	98.52
1p22_A	435	F-BOX/WD-repeat protein 1A; ubiquitination, degrad	98.48
2ovr_B	445	FBW7, F-BOX/WD repeat protein 7, F-box PROT; WD40	98.46
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	97.46
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	97.31
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	97.2
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	96.25
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	95.71
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	95.48
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	95.09
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	95.05
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	94.02
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	93.96
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	93.7
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	93.25
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	93.19
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	92.82
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	91.48
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	90.91
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	90.64
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	90.55
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	90.11
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	89.73
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	89.6
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	87.98
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	86.31
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	83.17
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	81.99
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	81.18

>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=99.57  E-value=1.5e-15  Score=120.32  Aligned_cols=104  Identities=28%  Similarity=0.444  Sum_probs=72.1

Q ss_pred             CCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeeeccchhh------------h-------------
Q 038746           38 RDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLSLNAQSE------------I-------------   90 (147)
Q Consensus        38 ~~~~~~LP~elL~~Ifs~L~~~dl~~~s~VCk~W~~~~--~~lw~~l~l~~~~~------------~-------------   90 (147)
                      ...++.||+|++.+||+||+.+|+.++++|||+|+.+.  +.+|+++++....-            +             
T Consensus         6 ~~~~~~LP~eil~~If~~L~~~d~~~~~~vc~~W~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~~~l~~L~l~~n~l~~~   85 (336)
T 2ast_B            6 GVSWDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQTLDLTGKNLHPDVTGRLLSQGVIAFRCPRSFMDQP   85 (336)
T ss_dssp             -CCSSSSCHHHHHHHHTTSCHHHHHHTTSSCHHHHHHHTCSTTSSEEECTTCBCCHHHHHHHHHTTCSEEECTTCEECSC
T ss_pred             cCChhhCCHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhcCchhheeeccccccCCHHHHHhhhhccceEEEcCCcccccc
Confidence            34467899999999999999999999999999999875  68899998864310            0             


Q ss_pred             --------------------h-hchHHHhhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746           91 --------------------L-SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        91 --------------------~-~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD  146 (147)
                                          . ..+..+..++++|++|+|+    ...+++.....++. |++|++|+|++|..+++
T Consensus        86 ~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~----~~~l~~~~~~~l~~-~~~L~~L~L~~~~~l~~  157 (336)
T 2ast_B           86 LAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLE----GLRLSDPIVNTLAK-NSNLVRLNLSGCSGFSE  157 (336)
T ss_dssp             CCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECT----TCBCCHHHHHHHTT-CTTCSEEECTTCBSCCH
T ss_pred             chhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCc----CcccCHHHHHHHhc-CCCCCEEECCCCCCCCH
Confidence                                0 0133445555666666665    23466666666654 67777777777655553

>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=99.57  E-value=8.5e-16  Score=129.89  Aligned_cols=104  Identities=22%  Similarity=0.481  Sum_probs=66.0

Q ss_pred             CCCCCCCCHHHHHHHHHhCC-hHHHHHHhhhcccccccCCCcceeeeccchhhh--------------------------
Q 038746           38 RDFTGDLPDDCLAYIFQFLG-SGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEI--------------------------   90 (147)
Q Consensus        38 ~~~~~~LP~elL~~Ifs~L~-~~dl~~~s~VCk~W~~~~~~lw~~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 999999999999999886555665555432110                          


Q ss_pred             -----------hhchHHHhhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCC
Q 038746           91 -----------LSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREIT  145 (147)
Q Consensus        91 -----------~~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iT  145 (147)
                                 ...+..+..++++|++|+|+    ...+++..+..+++.|++|++|+|++|..++
T Consensus        83 ~l~~~~~~~~~~~~l~~l~~~~~~L~~L~L~----~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~  144 (594)
T 2p1m_B           83 NLVPDGWGGYVYPWIEAMSSSYTWLEEIRLK----RMVVTDDCLELIAKSFKNFKVLVLSSCEGFS  144 (594)
T ss_dssp             TCSCTTSCCBCHHHHHHHHHHCTTCCEEEEE----SCBCCHHHHHHHHHHCTTCCEEEEESCEEEE
T ss_pred             ccccccccchhhHHHHHHHHhCCCCCeEEee----CcEEcHHHHHHHHHhCCCCcEEeCCCcCCCC
Confidence                       01134455566777777776    2336666666666666666666666664443

>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=99.45  E-value=2.5e-14  Score=121.03  Aligned_cols=66  Identities=24%  Similarity=0.549  Sum_probs=45.7

Q ss_pred             CCCHHHHHHHHHhC-ChHHHHHHhhhcccccccCCCcceeeeccchhhhhhchHHHhhcCcccceecee
Q 038746           43 DLPDDCLAYIFQFL-GSGDRKRCSLVCKRWLRVDGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALR  110 (147)
Q Consensus        43 ~LP~elL~~Ifs~L-~~~dl~~~s~VCk~W~~~~~~lw~~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            69999999999999 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=99.35  E-value=1.7e-13  Score=83.13  Aligned_cols=46  Identities=33%  Similarity=0.407  Sum_probs=36.5

Q ss_pred             CCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeee
Q 038746           38 RDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLS   83 (147)
Q Consensus        38 ~~~~~~LP~elL~~Ifs~L~~~dl~~~s~VCk~W~~~~--~~lw~~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            45677899999999999999999999999999999875  57898764

>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=98.72  E-value=1.1e-08  Score=76.64  Aligned_cols=63  Identities=13%  Similarity=0.156  Sum_probs=52.2

Q ss_pred             eeeeccchhhhhh-chHHHhhc---CcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746           80 YRLSLNAQSEILS-SLPSVFSR---FDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        80 ~~l~l~~~~~~~~-~l~~l~~r---~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD  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            7888888876653 45556552   5789999999   79999999999998 599999999999999998

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

Probab=98.69  E-value=2.4e-09  Score=86.16  Aligned_cols=45  Identities=22%  Similarity=0.427  Sum_probs=39.0

Q ss_pred             CCCCCCCCHHHHHHHHHhCChHHHH-HHhhhcccccccC--CCcceee
Q 038746           38 RDFTGDLPDDCLAYIFQFLGSGDRK-RCSLVCKRWLRVD--GGSRYRL   82 (147)
Q Consensus        38 ~~~~~~LP~elL~~Ifs~L~~~dl~-~~s~VCk~W~~~~--~~lw~~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 9999999999875  4666654

>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=98.65  E-value=6.4e-09  Score=77.85  Aligned_cols=63  Identities=17%  Similarity=0.310  Sum_probs=51.3

Q ss_pred             eeeeccchhhhh-hchHHHhhcCcccceeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCCCCCCCC
Q 038746           80 YRLSLNAQSEIL-SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGCREITDH  147 (147)
Q Consensus        80 ~~l~l~~~~~~~-~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~---~Cp~L~~L~L~~C~~iTD~  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            566666654 33 234444 689999999999   799999999999997   4889999999999999984

>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=98.62  E-value=1.8e-09  Score=86.95  Aligned_cols=46  Identities=22%  Similarity=0.175  Sum_probs=40.6

Q ss_pred             CCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeeec
Q 038746           39 DFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLSL   84 (147)
Q Consensus        39 ~~~~~LP~elL~~Ifs~L~~~dl~~~s~VCk~W~~~~--~~lw~~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            3467899999999999999999999999999999976  578887644

>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=98.52  E-value=4.6e-09  Score=85.23  Aligned_cols=49  Identities=22%  Similarity=0.299  Sum_probs=42.8

Q ss_pred             CCCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC---CCcceeeecc
Q 038746           37 ARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD---GGSRYRLSLN   85 (147)
Q Consensus        37 ~~~~~~~LP~elL~~Ifs~L~~~dl~~~s~VCk~W~~~~---~~lw~~l~l~   85 (147)
                      .+|.+..||+|++.+||+||+.++|+++++|||+|+.++   +.+|+.+.+.
T Consensus        11 ~~d~~~~lp~~~~~~i~~~l~~~~l~~~~~v~~~w~~~~~~~~~~w~~~~~~   62 (464)
T 3v7d_B           11 KRDLITSLPFEISLKIFNYLQFEDIINSLGVSQNWNKIIRKSTSLWKKLLIS   62 (464)
T ss_dssp             CCCHHHHSCHHHHHHHHTTSCHHHHHHHHTTCHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccCChHHCCHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHhc
Confidence            467888999999999999999999999999999999864   4689877643

>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=98.48  E-value=7.4e-09  Score=84.08  Aligned_cols=48  Identities=33%  Similarity=0.533  Sum_probs=42.7

Q ss_pred             CCCCCCCCCHH----HHHHHHHhCChHHHHHHhhhcccccccC--CCcceeeec
Q 038746           37 ARDFTGDLPDD----CLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLSL   84 (147)
Q Consensus        37 ~~~~~~~LP~e----lL~~Ifs~L~~~dl~~~s~VCk~W~~~~--~~lw~~l~l   84 (147)
                      ..|.+..||+|    ++.+||+||+.++|.++++|||+|+.++  ..+|+.+-.
T Consensus         7 ~~d~~~~lp~e~~~~~~~~i~~~l~~~~l~~~~~v~~~w~~~~~~~~~w~~~~~   60 (435)
T 1p22_A            7 QRDFITALPARGLDHIAENILSYLDAKSLCAAELVCKEWYRVTSDGMLWKKLIE   60 (435)
T ss_dssp             CCCHHHHTGGGTCHHHHHHHHTTCCHHHHHHHHHHCHHHHHHHHHTTHHHHHHH
T ss_pred             hcChHHHCCcchHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcChHHHHHHHH
Confidence            36788899999    9999999999999999999999999876  788987743

>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=98.46  E-value=2.3e-08  Score=81.09  Aligned_cols=47  Identities=23%  Similarity=0.425  Sum_probs=41.7

Q ss_pred             CCCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeee
Q 038746           37 ARDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLS   83 (147)
Q Consensus        37 ~~~~~~~LP~elL~~Ifs~L~~~dl~~~s~VCk~W~~~~--~~lw~~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            468899999999999999999999999999999999876  45787654

>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=97.46  E-value=0.00034  Score=58.70  Aligned_cols=63  Identities=17%  Similarity=0.158  Sum_probs=48.6

Q ss_pred             eeeeccchhhhhhchHHHhhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCCC
Q 038746           80 YRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITDH  147 (147)
Q Consensus        80 ~~l~l~~~~~~~~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD~  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            5666654421112466677888999999999   565 8999999999999999999999996 8863

>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=97.31  E-value=0.00066  Score=52.97  Aligned_cols=50  Identities=20%  Similarity=0.352  Sum_probs=32.8

Q ss_pred             hHHHhhcCc-ccceeceeccCCCC-cccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746           94 LPSVFSRFD-SVTKLALRCDRKSI-SLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        94 l~~l~~r~~-~L~~L~L~c~r~c~-~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD  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            445556666 77777776   344 567777766666777777777777755554

>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=97.20  E-value=0.0004  Score=58.22  Aligned_cols=63  Identities=22%  Similarity=0.340  Sum_probs=48.2

Q ss_pred             eeeeccchhhhhhchHHHhhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746           80 YRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        80 ~~l~l~~~~~~~~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD  146 (147)
                      +.+++..+.-....+..+...|++|++|+|+   +|..+++.++..++..|++|++|+|++|. ++|
T Consensus       108 ~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~---~~~~~~~~~l~~~~~~~~~L~~L~L~~~~-i~~  170 (594)
T 2p1m_B          108 EEIRLKRMVVTDDCLELIAKSFKNFKVLVLS---SCEGFSTDGLAAIAATCRNLKELDLRESD-VDD  170 (594)
T ss_dssp             CEEEEESCBCCHHHHHHHHHHCTTCCEEEEE---SCEEEEHHHHHHHHHHCTTCCEEECTTCE-EEC
T ss_pred             CeEEeeCcEEcHHHHHHHHHhCCCCcEEeCC---CcCCCCHHHHHHHHHhCCCCCEEeCcCCc-cCC
Confidence            5666665431123355566679999999999   67789999999999999999999999985 443

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

Probab=96.25  E-value=0.0045  Score=45.18  Aligned_cols=62  Identities=15%  Similarity=0.141  Sum_probs=44.1

Q ss_pred             eeeeccchhhhh----hchHHHhhcCcccceeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCCCCCCC
Q 038746           80 YRLSLNAQSEIL----SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGCREITD  146 (147)
Q Consensus        80 ~~l~l~~~~~~~----~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~---~Cp~L~~L~L~~C~~iTD  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            667776541221    2345555667889999998    56799998887764   4678999999987 5765

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

Probab=95.71  E-value=0.01  Score=48.16  Aligned_cols=46  Identities=24%  Similarity=0.233  Sum_probs=30.2

Q ss_pred             HHhhcCcccceeceeccCCCCcccHHHHHHHHH----hCCCCcEEeccCCCCCCC
Q 038746           96 SVFSRFDSVTKLALRCDRKSISLDDDALVLISL----RCQKLTRLKLRGCREITD  146 (147)
Q Consensus        96 ~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~----~Cp~L~~L~L~~C~~iTD  146 (147)
                      .+...+.+|++|+|+    ...++|.+...++.    .+++|++|+|++| .|++
T Consensus       120 ~l~~~L~~L~~L~Ls----~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n-~l~~  169 (372)
T 3un9_A          120 TLLPVFLRARKLGLQ----LNSLGPEACKDLRDLLLHDQCQITTLRLSNN-PLTA  169 (372)
T ss_dssp             HTHHHHHTEEEEECC----SSCCCHHHHHHHHHHHHSTTCCCCEEECCSS-CCHH
T ss_pred             HHHHHHHhccHhhcC----CCCCCHHHHHHHHHHHHhcCCccceeeCCCC-CCCh
Confidence            344444567777776    45677877777764    3577888888887 4553

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

Probab=95.48  E-value=0.015  Score=42.32  Aligned_cols=62  Identities=10%  Similarity=0.209  Sum_probs=45.0

Q ss_pred             eeeeccchhh---hhhchHHHhhcCcccceeceeccCCCCcccHHHHHHHHH---hCCCCcEEec--cCCCCCCC
Q 038746           80 YRLSLNAQSE---ILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKL--RGCREITD  146 (147)
Q Consensus        80 ~~l~l~~~~~---~~~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~---~Cp~L~~L~L--~~C~~iTD  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----SNFISGSGILALVEALQSNTSLIELRIDNQSQ-PLGN  137 (185)
T ss_dssp             CEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECC----SSCCCHHHHHHHHHGGGGCSSCCEEECCCCSS-CCCH
T ss_pred             CEEECcCCCCChHHHHHHHHHHHhCCCcCEEECc----CCcCCHHHHHHHHHHHHhCCCceEEEecCCCC-CCCH
Confidence            5677765421   112355556677899999998    67899999999886   4678999999  554 6765

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

Probab=95.09  E-value=0.016  Score=47.07  Aligned_cols=42  Identities=12%  Similarity=0.202  Sum_probs=35.6

Q ss_pred             cCcccceeceeccCCCCcccHHHHHHHH---HhCCCCcEEeccCCCCCCC
Q 038746          100 RFDSVTKLALRCDRKSISLDDDALVLIS---LRCQKLTRLKLRGCREITD  146 (147)
Q Consensus       100 r~~~L~~L~L~c~r~c~~ItD~~L~~ia---~~Cp~L~~L~L~~C~~iTD  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    6679999988887   45899999999988 5876

>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=95.05  E-value=0.051  Score=43.86  Aligned_cols=35  Identities=23%  Similarity=0.290  Sum_probs=17.7

Q ss_pred             ccceeceeccCCCCcccHHHHHHHH---HhCCCCcEEeccCC
Q 038746          103 SVTKLALRCDRKSISLDDDALVLIS---LRCQKLTRLKLRGC  141 (147)
Q Consensus       103 ~L~~L~L~c~r~c~~ItD~~L~~ia---~~Cp~L~~L~L~~C  141 (147)
                      +|++|+|+    ...+++.+...+.   ..+++|++|+|++|
T Consensus        86 ~L~~L~L~----~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n  123 (461)
T 1z7x_W           86 KIQKLSLQ----NCCLTGAGCGVLSSTLRTLPTLQELHLSDN  123 (461)
T ss_dssp             CCCEEECT----TSCCBGGGHHHHHHHTTSCTTCCEEECCSS
T ss_pred             ceeEEEcc----CCCCCHHHHHHHHHHHccCCceeEEECCCC
Confidence            46666665    3345554433332   34556666666655

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

Probab=94.02  E-value=0.068  Score=43.19  Aligned_cols=40  Identities=30%  Similarity=0.380  Sum_probs=19.1

Q ss_pred             hhcCcccceeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCC
Q 038746           98 FSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGC  141 (147)
Q Consensus        98 ~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~---~Cp~L~~L~L~~C  141 (147)
                      ...+++|++|+|+    ...|+|.++..++.   .+++|++|+|++|
T Consensus       179 L~~~~~L~~L~Ls----~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N  221 (372)
T 3un9_A          179 LAGNTSVTHLSLL----HTGLGDEGLELLAAQLDRNRQLQELNVAYN  221 (372)
T ss_dssp             HHTCSSCCEEECT----TSSCHHHHHHHHHHHGGGCSCCCEEECCSS
T ss_pred             HhcCCCcCEEeCC----CCCCCcHHHHHHHHHHhcCCCcCeEECCCC
Confidence            3445566666665    33344444444432   2344555555444

>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=93.96  E-value=0.069  Score=42.48  Aligned_cols=12  Identities=25%  Similarity=0.152  Sum_probs=5.2

Q ss_pred             CCCCcEEeccCC
Q 038746          130 CQKLTRLKLRGC  141 (147)
Q Consensus       130 Cp~L~~L~L~~C  141 (147)
                      +++|++|+|++|
T Consensus       273 ~~~L~~L~L~~n  284 (386)
T 2ca6_A          273 NIGLQTLRLQYN  284 (386)
T ss_dssp             SCCCCEEECCSS
T ss_pred             CCCeEEEECcCC
Confidence            344444444443

>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=93.70  E-value=0.068  Score=43.09  Aligned_cols=42  Identities=24%  Similarity=0.319  Sum_probs=21.7

Q ss_pred             HHhhcCcccceeceeccCCCCcccHHHHHHHHH----hCCCCcEEeccCC
Q 038746           96 SVFSRFDSVTKLALRCDRKSISLDDDALVLISL----RCQKLTRLKLRGC  141 (147)
Q Consensus        96 ~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~----~Cp~L~~L~L~~C  141 (147)
                      .....+++|++|+|+    ...+++.++..++.    .+++|++|+|++|
T Consensus       221 ~~l~~~~~L~~L~Ls----~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n  266 (461)
T 1z7x_W          221 GIVASKASLRELALG----SNKLGDVGMAELCPGLLHPSSRLRTLWIWEC  266 (461)
T ss_dssp             HHHHHCTTCCEEECC----SSBCHHHHHHHHHHHHTSTTCCCCEEECTTS
T ss_pred             HHHHhCCCccEEecc----CCcCChHHHHHHHHHHhcCCCCceEEECcCC
Confidence            333445556666665    23455555555443    2455555555555

>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=93.25  E-value=0.043  Score=39.68  Aligned_cols=42  Identities=29%  Similarity=0.317  Sum_probs=26.6

Q ss_pred             cCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746          100 RFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus       100 r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD  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            44566666665    4456665555554 477888888887754554

>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=93.19  E-value=0.071  Score=40.00  Aligned_cols=48  Identities=15%  Similarity=0.130  Sum_probs=29.6

Q ss_pred             hHHHhhcCcccceeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCCCCCCC
Q 038746           94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGCREITD  146 (147)
Q Consensus        94 l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~---~Cp~L~~L~L~~C~~iTD  146 (147)
                      +.........|+.|+|+    ...|+|.+-..||+   .-..|++|+|+++ .|+|
T Consensus        62 la~aL~~N~~L~~L~L~----~n~igd~ga~alA~aL~~N~tL~~L~L~~N-~Ig~  112 (197)
T 1pgv_A           62 LIEAACNSKHIEKFSLA----NTAISDSEARGLIELIETSPSLRVLNVESN-FLTP  112 (197)
T ss_dssp             HHHHHTTCSCCCEEECT----TSCCBHHHHTTHHHHHHHCSSCCEEECCSS-BCCH
T ss_pred             HHHHHhhCCCcCEEEcc----CCCCChHHHHHHHHHHhcCCccCeEecCCC-cCCH
Confidence            44444455667777776    55677776666553   4556777777664 4554

>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=92.82  E-value=0.16  Score=40.35  Aligned_cols=37  Identities=16%  Similarity=0.251  Sum_probs=16.0

Q ss_pred             CcccceeceeccCCCCcccHHHHHHHH---HhCCCCcEEeccCC
Q 038746          101 FDSVTKLALRCDRKSISLDDDALVLIS---LRCQKLTRLKLRGC  141 (147)
Q Consensus       101 ~~~L~~L~L~c~r~c~~ItD~~L~~ia---~~Cp~L~~L~L~~C  141 (147)
                      +++|+.|+|+    ...+++.+...++   ..+++|++|+|++|
T Consensus       215 ~~~L~~L~Ls----~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n  254 (386)
T 2ca6_A          215 CQELKVLDLQ----DNTFTHLGSSALAIALKSWPNLRELGLNDC  254 (386)
T ss_dssp             CTTCCEEECC----SSCCHHHHHHHHHHHGGGCTTCCEEECTTC
T ss_pred             CCCccEEECc----CCCCCcHHHHHHHHHHccCCCcCEEECCCC
Confidence            3444444444    2334444433333   23444555555544

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

Probab=91.48  E-value=0.12  Score=40.89  Aligned_cols=62  Identities=19%  Similarity=0.109  Sum_probs=34.1

Q ss_pred             eeeeccchhhh---hhchHHHhhcC-cccceeceeccCCCCcccHHHHHHHH---HhC-CCCcEEeccCCCCCCC
Q 038746           80 YRLSLNAQSEI---LSSLPSVFSRF-DSVTKLALRCDRKSISLDDDALVLIS---LRC-QKLTRLKLRGCREITD  146 (147)
Q Consensus        80 ~~l~l~~~~~~---~~~l~~l~~r~-~~L~~L~L~c~r~c~~ItD~~L~~ia---~~C-p~L~~L~L~~C~~iTD  146 (147)
                      +.++++...--   ...+..+.... ++|++|+|+    ...+++.+...++   ..+ ++|++|+|++|. +++
T Consensus        54 ~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls----~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-l~~  123 (362)
T 3goz_A           54 TSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLS----GNFLSYKSSDELVKTLAAIPFTITVLDLGWND-FSS  123 (362)
T ss_dssp             CEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECC----SSCGGGSCHHHHHHHHHTSCTTCCEEECCSSC-GGG
T ss_pred             eEEECcCCCCCHHHHHHHHHHHhccCCCccEEECc----CCcCChHHHHHHHHHHHhCCCCccEEECcCCc-CCc
Confidence            55666543211   12233333443 788888887    3445554444333   344 788888888873 543

>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=90.91  E-value=0.095  Score=36.62  Aligned_cols=43  Identities=26%  Similarity=0.345  Sum_probs=25.6

Q ss_pred             hHHHhhcCcccceeceeccCCCCcccHH-HHHHHHHhCCCCcEEeccCC
Q 038746           94 LPSVFSRFDSVTKLALRCDRKSISLDDD-ALVLISLRCQKLTRLKLRGC  141 (147)
Q Consensus        94 l~~l~~r~~~L~~L~L~c~r~c~~ItD~-~L~~ia~~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----GNKLKDISTLEPL-KKLECLKSLDLFNC  130 (168)
T ss_dssp             CCHHHHHCTTCCEEECB----SSSCCSSGGGGGG-SSCSCCCEEECCSS
T ss_pred             HHHHHhhCCCCCEEecc----CCccCcchhHHHH-hcCCCCCEEEeeCC
Confidence            44555667777777777    3345442 11222 35777777777776

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

Probab=90.64  E-value=0.15  Score=34.85  Aligned_cols=60  Identities=22%  Similarity=0.320  Sum_probs=38.9

Q ss_pred             eeeeccchhhhhhchHHHhhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCC
Q 038746           80 YRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREIT  145 (147)
Q Consensus        80 ~~l~l~~~~~~~~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iT  145 (147)
                      +.++++... +...++.....+++|+.|+|+    ...+++-........+++|++|+|++| .++
T Consensus        67 ~~L~Ls~n~-i~~~~~~~~~~l~~L~~L~ls----~N~i~~~~~~~~~~~l~~L~~L~l~~N-~l~  126 (149)
T 2je0_A           67 KKLELSDNR-VSGGLEVLAEKCPNLTHLNLS----GNKIKDLSTIEPLKKLENLKSLDLFNC-EVT  126 (149)
T ss_dssp             CEEECCSSC-CCSCTHHHHHHCTTCCEEECT----TSCCCSHHHHGGGGGCTTCCEEECTTC-GGG
T ss_pred             CEEECCCCc-ccchHHHHhhhCCCCCEEECC----CCcCCChHHHHHHhhCCCCCEEeCcCC-ccc
Confidence            455554432 223366667778999999998    455766433233456999999999988 444

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

Probab=90.55  E-value=0.15  Score=34.80  Aligned_cols=38  Identities=13%  Similarity=0.059  Sum_probs=20.3

Q ss_pred             hhcCcccceeceeccCCCCcccHHHH--HHHHHhCCCCcEEecc
Q 038746           98 FSRFDSVTKLALRCDRKSISLDDDAL--VLISLRCQKLTRLKLR  139 (147)
Q Consensus        98 ~~r~~~L~~L~L~c~r~c~~ItD~~L--~~ia~~Cp~L~~L~L~  139 (147)
                      ...+++|+.|+|+    ...+++..-  ..+...+++|+.|+++
T Consensus       109 ~~~l~~L~~L~l~----~N~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A          109 LKKLENLKSLDLF----NCEVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             GGGCTTCCEEECT----TCGGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             HhhCCCCCEEeCc----CCcccchHHHHHHHHHHCCCcccccCC
Confidence            4556667777776    223443221  1234456777777665

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

Probab=90.11  E-value=0.18  Score=40.75  Aligned_cols=42  Identities=14%  Similarity=0.204  Sum_probs=28.1

Q ss_pred             cCcccceeceeccCCCCcccHHHHHHHHH--hCCCCcEEeccCCCCCCC
Q 038746          100 RFDSVTKLALRCDRKSISLDDDALVLISL--RCQKLTRLKLRGCREITD  146 (147)
Q Consensus       100 r~~~L~~L~L~c~r~c~~ItD~~L~~ia~--~Cp~L~~L~L~~C~~iTD  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            35666666665    34567777667775  5778888888654 5654

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

Probab=89.73  E-value=0.21  Score=39.44  Aligned_cols=19  Identities=11%  Similarity=-0.118  Sum_probs=11.1

Q ss_pred             CCCCCCCHHHHHHHHHhCC
Q 038746           39 DFTGDLPDDCLAYIFQFLG   57 (147)
Q Consensus        39 ~~~~~LP~elL~~Ifs~L~   57 (147)
                      ..+...+.+.+...|+.++
T Consensus        32 n~l~~~~~~~l~~~l~~~~   50 (362)
T 3goz_A           32 NNLYSISTVELIQAFANTP   50 (362)
T ss_dssp             SCGGGSCHHHHHHHHHTCC
T ss_pred             CCCChHHHHHHHHHHHhCC
Confidence            3345566666666666444

>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=89.60  E-value=0.44  Score=35.63  Aligned_cols=60  Identities=17%  Similarity=0.102  Sum_probs=43.8

Q ss_pred             ceeeeccchhh---hhhchHHHhhcCcccceeceeccCCCCcccHHHHHHHHHhCC---CCcEEeccCCC
Q 038746           79 RYRLSLNAQSE---ILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQ---KLTRLKLRGCR  142 (147)
Q Consensus        79 w~~l~l~~~~~---~~~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~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            36677654421   124566777778899999998    77899999999987543   59999998763

>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=87.98  E-value=0.31  Score=35.00  Aligned_cols=45  Identities=13%  Similarity=0.099  Sum_probs=30.5

Q ss_pred             HHHhhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746           95 PSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        95 ~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD  146 (147)
                      ......+++|+.|+|+   ++..+++-.   ....+++|++|+|++| ++++
T Consensus       129 ~~~l~~l~~L~~L~L~---~n~~i~~~~---~l~~l~~L~~L~l~~n-~i~~  173 (197)
T 4ezg_A          129 LTKINTLPKVNSIDLS---YNGAITDIM---PLKTLPELKSLNIQFD-GVHD  173 (197)
T ss_dssp             HHHHTTCSSCCEEECC---SCTBCCCCG---GGGGCSSCCEEECTTB-CCCC
T ss_pred             HHHHhhCCCCCEEEcc---CCCCccccH---hhcCCCCCCEEECCCC-CCcC
Confidence            4455678899999998   444355432   2346888999999887 4554

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=86.31  E-value=0.56  Score=36.27  Aligned_cols=42  Identities=26%  Similarity=0.354  Sum_probs=26.1

Q ss_pred             hcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746           99 SRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        99 ~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD  146 (147)
                      ..+++|+.|+|+    ...+++.....+. .+++|++|+|++|. +++
T Consensus       284 ~~l~~L~~L~L~----~n~l~~~~~~~l~-~l~~L~~L~L~~n~-l~~  325 (347)
T 4fmz_A          284 NNLSQLNSLFLN----NNQLGNEDMEVIG-GLTNLTTLFLSQNH-ITD  325 (347)
T ss_dssp             GGCTTCSEEECC----SSCCCGGGHHHHH-TCTTCSEEECCSSS-CCC
T ss_pred             cCCCCCCEEECc----CCcCCCcChhHhh-ccccCCEEEccCCc-ccc
Confidence            445666666666    3345555544444 47888888888873 543

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=83.17  E-value=1.3  Score=34.01  Aligned_cols=38  Identities=18%  Similarity=0.311  Sum_probs=22.8

Q ss_pred             cCcccceeceeccCCCCccc--HHHHHHHHHhCCCCcEEeccCC
Q 038746          100 RFDSVTKLALRCDRKSISLD--DDALVLISLRCQKLTRLKLRGC  141 (147)
Q Consensus       100 r~~~L~~L~L~c~r~c~~It--D~~L~~ia~~Cp~L~~L~L~~C  141 (147)
                      .+++|+.|+|+    ...++  ......+...+++|++|+|+++
T Consensus       195 ~l~~L~~L~Ls----~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N  234 (310)
T 4glp_A          195 KFPAIQNLALR----NTGMETPTGVCAALAAAGVQPHSLDLSHN  234 (310)
T ss_dssp             SSCCCCSCBCC----SSCCCCHHHHHHHHHHHTCCCSSEECTTS
T ss_pred             cCCCCCEEECC----CCCCCchHHHHHHHHhcCCCCCEEECCCC
Confidence            45666666666    33444  3333334556788888888776

>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=81.99  E-value=0.7  Score=35.95  Aligned_cols=44  Identities=23%  Similarity=0.289  Sum_probs=27.7

Q ss_pred             HhhcCcccceeceeccCCCCcccH-HHHHHHHHhCCCCcEEeccCCCCCC
Q 038746           97 VFSRFDSVTKLALRCDRKSISLDD-DALVLISLRCQKLTRLKLRGCREIT  145 (147)
Q Consensus        97 l~~r~~~L~~L~L~c~r~c~~ItD-~~L~~ia~~Cp~L~~L~L~~C~~iT  145 (147)
                      +...+++|+.|+|+    ...|++ .++..+...+++|+.|+|++- +|+
T Consensus       165 ~~~~l~~L~~L~Ls----~N~l~~l~~l~~~~~~l~~L~~L~Ls~N-~i~  209 (267)
T 3rw6_A          165 IEENIPELLSLNLS----NNRLYRLDDMSSIVQKAPNLKILNLSGN-ELK  209 (267)
T ss_dssp             HHHHCTTCCEEECT----TSCCCCCGGGTTHHHHSTTCCEEECTTS-CCC
T ss_pred             HHhhCCCCCEEECC----CCCCCCCccchhHHhhCCCCCEEECCCC-ccC
Confidence            33567888888887    344443 233344567888888888764 454

>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=81.18  E-value=0.28  Score=34.10  Aligned_cols=42  Identities=12%  Similarity=0.027  Sum_probs=27.8

Q ss_pred             HhhcCcccceeceeccCCCCcccHHHH--HHHHHhCCCCcEEeccCCC
Q 038746           97 VFSRFDSVTKLALRCDRKSISLDDDAL--VLISLRCQKLTRLKLRGCR  142 (147)
Q Consensus        97 l~~r~~~L~~L~L~c~r~c~~ItD~~L--~~ia~~Cp~L~~L~L~~C~  142 (147)
                      .+..+++|+.|+|+    ...+++..-  ..+...+++|+.|++++|.
T Consensus       115 ~l~~l~~L~~L~l~----~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~  158 (168)
T 2ell_A          115 PLKKLECLKSLDLF----NCEVTNLNDYRESVFKLLPQLTYLDGYDRE  158 (168)
T ss_dssp             GGSSCSCCCEEECC----SSGGGTSTTHHHHHHTTCSSCCEETTEETT
T ss_pred             HHhcCCCCCEEEee----CCcCcchHHHHHHHHHhCccCcEecCCCCC
Confidence            34567888888887    334443321  2345578899999998884

---

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) [	1e-06
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 = 40.8 bits (96), Expect = 1e-06
 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]}	99.38
d1nexb1	100	Cdc4 F-box and linker domains {Baker's yeast (Sacc	99.17
d2ovrb1	102	F-box/WD repeat-containing protein 7, FBXW7 {Human	99.11
d1p22a1	118	F-box/WD-repeat protein 1 (beta-TRCP1) {Human (Hom	98.91
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	98.51
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	98.19
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.85
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	96.69
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	96.61
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.35
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.51
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	94.91
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	94.01
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	93.07
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	92.37
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	90.68
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	85.08

>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=99.38  E-value=3.7e-14  Score=80.97  Aligned_cols=35  Identities=40%  Similarity=0.612  Sum_probs=32.8

Q ss_pred             CCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC
Q 038746           41 TGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD   75 (147)
Q Consensus        41 ~~~LP~elL~~Ifs~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            46799999999999999999999999999998875

>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=99.17  E-value=4.1e-13  Score=89.87  Aligned_cols=49  Identities=22%  Similarity=0.302  Sum_probs=43.2

Q ss_pred             CCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC---CCcceeeeccc
Q 038746           38 RDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD---GGSRYRLSLNA   86 (147)
Q Consensus        38 ~~~~~~LP~elL~~Ifs~L~~~dl~~~s~VCk~W~~~~---~~lw~~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            57788999999999999999999999999999999864   56899886654

>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=99.11  E-value=4.2e-12  Score=84.59  Aligned_cols=47  Identities=23%  Similarity=0.412  Sum_probs=42.3

Q ss_pred             CCCCCCCCHHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeeec
Q 038746           38 RDFTGDLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLSL   84 (147)
Q Consensus        38 ~~~~~~LP~elL~~Ifs~L~~~dl~~~s~VCk~W~~~~--~~lw~~l~l   84 (147)
                      .|.++.||+||+.+||+||+..|++++++|||+|+.++  ..+|+.+..
T Consensus        16 ~D~i~~LP~Eil~~Ils~Ld~~dL~~~~~vcr~w~~l~~~~~lW~~~~~   64 (102)
T d2ovrb1          16 RDFISLLPKELALYVLSFLEPKDLLQAAQTCRYWRILAEDNLLWREKCK   64 (102)
T ss_dssp             CSTTTSSCHHHHHHHHTTSCHHHHHHHTTSCHHHHHHHTCSHHHHHHHT
T ss_pred             cCChhhCCHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHH
Confidence            68899999999999999999999999999999999976  568876643

>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=98.91  E-value=3.5e-11  Score=82.33  Aligned_cols=49  Identities=35%  Similarity=0.560  Sum_probs=42.3

Q ss_pred             CCCCCCCC----HHHHHHHHHhCChHHHHHHhhhcccccccC--CCcceeeeccc
Q 038746           38 RDFTGDLP----DDCLAYIFQFLGSGDRKRCSLVCKRWLRVD--GGSRYRLSLNA   86 (147)
Q Consensus        38 ~~~~~~LP----~elL~~Ifs~L~~~dl~~~s~VCk~W~~~~--~~lw~~l~l~~   86 (147)
                      .|.+..||    +||+++||+||+.+||+++++|||+|+.++  ..+|+++....
T Consensus         8 ~D~i~~LP~~l~~EI~~~Ils~Ld~~dL~~~s~Vck~W~~l~~d~~lWk~~~~~~   62 (118)
T d1p22a1           8 RDFITALPARGLDHIAENILSYLDAKSLCAAELVCKEWYRVTSDGMLWKKLIERM   62 (118)
T ss_dssp             CCHHHHTGGGTCHHHHHHHHTTCCHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHH
T ss_pred             ccHHHHCCCCChHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCHHHHHHHHHhh
Confidence            45666777    699999999999999999999999999986  78999876543

>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=98.51  E-value=9e-08  Score=73.25  Aligned_cols=45  Identities=22%  Similarity=0.408  Sum_probs=32.6

Q ss_pred             hcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746           99 SRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        99 ~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD  146 (147)
                      .++++|++|+|+   +|..+||+++..+++.|++|++|+|++|..+||
T Consensus        92 ~~~~~L~~L~Ls---~c~~itd~~l~~l~~~~~~L~~L~ls~c~~~~~  136 (284)
T d2astb2          92 AKNSNLVRLNLS---GCSGFSEFALQTLLSSCSRLDELNLSWCFDFTE  136 (284)
T ss_dssp             TTCTTCSEEECT---TCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCH
T ss_pred             hcCCCCcCcccc---ccccccccccchhhHHHHhcccccccccccccc
Confidence            344555555555   577788888888888888888888888877765

>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=98.19  E-value=6.2e-07  Score=68.43  Aligned_cols=99  Identities=18%  Similarity=0.199  Sum_probs=67.6

Q ss_pred             CCCHHHHHHHHHhCChHHHHHHhhhccccccc-CCCcceeeeccchhhhhhchHHHhhcCcccceeceeccCCCCcccHH
Q 038746           43 DLPDDCLAYIFQFLGSGDRKRCSLVCKRWLRV-DGGSRYRLSLNAQSEILSSLPSVFSRFDSVTKLALRCDRKSISLDDD  121 (147)
Q Consensus        43 ~LP~elL~~Ifs~L~~~dl~~~s~VCk~W~~~-~~~lw~~l~l~~~~~~~~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~  121 (147)
                      .++.+++.++++.-...-+..-..+...+... ...--+.++++.+.-....+..++.+|++|++|+|+   +| .++|.
T Consensus        11 ~l~~~~l~~l~~~~~~~lrl~~~~~~~~~~~~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~---~~-~l~~~   86 (284)
T d2astb2          11 NLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLE---GL-RLSDP   86 (284)
T ss_dssp             BCCHHHHHHHHHTTCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECT---TC-BCCHH
T ss_pred             CCCchHHHHHHhccceEeeccccccccchhhhccCCCCCEEECCCCccCHHHHHHHHHhCCCccccccc---cc-CCCcH
Confidence            47788888888742211111112222223222 223346777776532235577889999999999998   45 79999


Q ss_pred             HHHHHHHhCCCCcEEeccCCCCCCC
Q 038746          122 ALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus       122 ~L~~ia~~Cp~L~~L~L~~C~~iTD  146 (147)
                      ++..+++ |++|++|+|++|.++||
T Consensus        87 ~~~~l~~-~~~L~~L~Ls~c~~itd  110 (284)
T d2astb2          87 IVNTLAK-NSNLVRLNLSGCSGFSE  110 (284)
T ss_dssp             HHHHHTT-CTTCSEEECTTCBSCCH
T ss_pred             HHHHHhc-CCCCcCccccccccccc
Confidence            9999985 99999999999999987

>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=96.85  E-value=0.00051  Score=47.56  Aligned_cols=41  Identities=12%  Similarity=0.138  Sum_probs=26.1

Q ss_pred             HhhcCcccceeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCC
Q 038746           97 VFSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGC  141 (147)
Q Consensus        97 l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~---~Cp~L~~L~L~~C  141 (147)
                      ....+++|++|+|+    ...++++++..|++   .++.|+.|++.+|
T Consensus        41 al~~n~~L~~L~Ls----~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~   84 (166)
T d1io0a_          41 ALKTNTYVKKFSIV----GTRSNDPVAFALAEMLKVNNTLKSLNVESN   84 (166)
T ss_dssp             HHTTCCSCCEEECT----TSCCCHHHHHHHHHHHHHCSSCCEEECCSS
T ss_pred             HHhcCCccCeeecc----CCcccHHHHHHHHHHHhhcccchhhhhccc
Confidence            33455677777776    34667776666553   4667777777766

>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=96.69  E-value=0.00071  Score=51.99  Aligned_cols=61  Identities=21%  Similarity=0.296  Sum_probs=46.7

Q ss_pred             eeeeccchhhhh----hchHHHhhcCcccceeceeccCCCCcccHHHHHHHHHhC----CCCcEEeccCCCCCCC
Q 038746           80 YRLSLNAQSEIL----SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLRC----QKLTRLKLRGCREITD  146 (147)
Q Consensus        80 ~~l~l~~~~~~~----~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~C----p~L~~L~L~~C~~iTD  146 (147)
                      +.+++..+. +.    ..+..+...+++|++|+|+    ...|+|+++..+++..    .+|++|+|++| ++||
T Consensus        30 ~~L~L~~~~-i~~~~~~~l~~~L~~~~~L~~LdLs----~N~i~~~~~~~l~~~l~~~~~~L~~L~L~~n-~it~   98 (460)
T d1z7xw1          30 QVVRLDDCG-LTEARCKDISSALRVNPALAELNLR----SNELGDVGVHCVLQGLQTPSCKIQKLSLQNC-CLTG   98 (460)
T ss_dssp             SEEEEESSC-CCHHHHHHHHHHHHTCTTCCEEECT----TCCCHHHHHHHHHHTTCSTTCCCCEEECTTS-CCBG
T ss_pred             CEEEeCCCC-CCHHHHHHHHHHHhcCCCCCEEECc----CCcCChHHHHHHHHHHhcCCCCCCEEECCCC-Cccc
Confidence            567777663 22    3455666788999999998    5679999999998753    57999999999 5876

>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=96.61  E-value=0.0021  Score=49.23  Aligned_cols=60  Identities=18%  Similarity=0.201  Sum_probs=39.4

Q ss_pred             eeeeccchhhhh-hchHHHhhc----CcccceeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCCCCCC
Q 038746           80 YRLSLNAQSEIL-SSLPSVFSR----FDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGCREIT  145 (147)
Q Consensus        80 ~~l~l~~~~~~~-~~l~~l~~r----~~~L~~L~L~c~r~c~~ItD~~L~~ia~---~Cp~L~~L~L~~C~~iT  145 (147)
                      +.++++... +. ..+..+...    ..+|++|+|+    ...|+|+++..+++   .+++|++|+|+++ .++
T Consensus        58 ~~LdLs~N~-i~~~~~~~l~~~l~~~~~~L~~L~L~----~n~it~~~~~~l~~~l~~~~~L~~L~L~~N-~i~  125 (460)
T d1z7xw1          58 AELNLRSNE-LGDVGVHCVLQGLQTPSCKIQKLSLQ----NCCLTGAGCGVLSSTLRTLPTLQELHLSDN-LLG  125 (460)
T ss_dssp             CEEECTTCC-CHHHHHHHHHHTTCSTTCCCCEEECT----TSCCBGGGHHHHHHHTTSCTTCCEEECCSS-BCH
T ss_pred             CEEECcCCc-CChHHHHHHHHHHhcCCCCCCEEECC----CCCccccccccccchhhccccccccccccc-cch
Confidence            677776532 22 123333332    3579999998    34689988877765   5889999999887 344

>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=96.35  E-value=0.0017  Score=45.09  Aligned_cols=62  Identities=15%  Similarity=0.154  Sum_probs=43.7

Q ss_pred             eeeeccchhhhh----hchHHHhhcCcccceeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCCCCCCC
Q 038746           80 YRLSLNAQSEIL----SSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGCREITD  146 (147)
Q Consensus        80 ~~l~l~~~~~~~----~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~---~Cp~L~~L~L~~C~~iTD  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            666775432222    2244455667889999998    55789988877764   5889999999998 6765

>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=95.51  E-value=0.0046  Score=42.78  Aligned_cols=58  Identities=17%  Similarity=0.117  Sum_probs=43.5

Q ss_pred             eeeeccchhh---hhhchHHHhhcCcccceeceeccCCCCcccHHHHHHHHHh---CCCCcEEeccCC
Q 038746           80 YRLSLNAQSE---ILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLR---CQKLTRLKLRGC  141 (147)
Q Consensus        80 ~~l~l~~~~~---~~~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~---Cp~L~~L~L~~C  141 (147)
                      +.++++.+.-   ....+.......+.|++|+|+    ...|+++++..+++.   ++.|++|+|+++
T Consensus        47 ~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~----~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n  110 (167)
T d1pgva_          47 EKFSLANTAISDSEARGLIELIETSPSLRVLNVE----SNFLTPELLARLLRSTLVTQSIVEFKADNQ  110 (167)
T ss_dssp             CEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECC----SSBCCHHHHHHHHHHTTTTCCCSEEECCCC
T ss_pred             ceeeccccccchhHHHHHhhhhhhcccccceeee----hhhcchHHHHHHHHHHHhCCcCCEEECCCC
Confidence            5677765421   123466667788999999998    457999999998764   566999999876

>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=94.91  E-value=0.0085  Score=45.26  Aligned_cols=39  Identities=15%  Similarity=0.232  Sum_probs=19.8

Q ss_pred             hcCcccceeceeccCCCCcccHHHHHHHH---HhCCCCcEEeccCC
Q 038746           99 SRFDSVTKLALRCDRKSISLDDDALVLIS---LRCQKLTRLKLRGC  141 (147)
Q Consensus        99 ~r~~~L~~L~L~c~r~c~~ItD~~L~~ia---~~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    3345555544443   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=94.01  E-value=0.036  Score=37.62  Aligned_cols=63  Identities=10%  Similarity=0.191  Sum_probs=43.5

Q ss_pred             eeeeccchh---hhhhchHHHhhcCcccceeceeccCCCCcccHHHHHHHHH---hCCCCcEEeccCCC-CCCC
Q 038746           80 YRLSLNAQS---EILSSLPSVFSRFDSVTKLALRCDRKSISLDDDALVLISL---RCQKLTRLKLRGCR-EITD  146 (147)
Q Consensus        80 ~~l~l~~~~---~~~~~l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~---~Cp~L~~L~L~~C~-~iTD  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   1123355556667889999997    66789999888884   56789988887663 5554

>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=93.07  E-value=0.043  Score=41.15  Aligned_cols=44  Identities=16%  Similarity=0.170  Sum_probs=22.8

Q ss_pred             hHHHhhcCcccceeceeccCCCCcccHHHHHHHHHh-----CCCCcEEeccCC
Q 038746           94 LPSVFSRFDSVTKLALRCDRKSISLDDDALVLISLR-----CQKLTRLKLRGC  141 (147)
Q Consensus        94 l~~l~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~-----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            33445556666666665    233555555555432     233555555554

>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=92.37  E-value=0.018  Score=39.43  Aligned_cols=48  Identities=23%  Similarity=0.278  Sum_probs=32.1

Q ss_pred             hHHHhhcCcccceeceeccCCCCcccH-HHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746           94 LPSVFSRFDSVTKLALRCDRKSISLDD-DALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        94 l~~l~~r~~~L~~L~L~c~r~c~~ItD-~~L~~ia~~Cp~L~~L~L~~C~~iTD  146 (147)
                      +..+...+++|+.|+|+    ...|++ ..+......|++|+.|+|++. .|++
T Consensus        57 l~~~~~~~~~L~~L~Ls----~N~i~~l~~~~~~~~~l~~L~~L~Ls~N-~i~~  105 (162)
T d1koha1          57 LRIIEENIPELLSLNLS----NNRLYRLDDMSSIVQKAPNLKILNLSGN-ELKS  105 (162)
T ss_dssp             HHHHHHHCTTCCCCCCC----SSCCCCCSGGGTHHHHSTTCCCCCCTTS-CCCC
T ss_pred             hHHHHHhCCCCCEeeCC----CccccCCchhHHHHhhCCcccccccccC-cccc
Confidence            44455677888888887    455554 244455567888888888875 4553

>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=90.68  E-value=0.032  Score=39.49  Aligned_cols=41  Identities=17%  Similarity=0.340  Sum_probs=28.7

Q ss_pred             hhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746           98 FSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        98 ~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD  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--ISPL-ASLPNLIEVHLKNN-QISD  209 (227)
T ss_dssp             GTTCTTCCEEECC----SSCCCC--CGGG-GGCTTCCEEECTTS-CCCB
T ss_pred             hcccccceecccC----CCccCC--Chhh-cCCCCCCEEECcCC-cCCC
Confidence            3557889999988    334554  2223 46899999999998 6764

>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=85.08  E-value=0.12  Score=38.24  Aligned_cols=41  Identities=15%  Similarity=0.287  Sum_probs=27.5

Q ss_pred             hhcCcccceeceeccCCCCcccHHHHHHHHHhCCCCcEEeccCCCCCCC
Q 038746           98 FSRFDSVTKLALRCDRKSISLDDDALVLISLRCQKLTRLKLRGCREITD  146 (147)
Q Consensus        98 ~~r~~~L~~L~L~c~r~c~~ItD~~L~~ia~~Cp~L~~L~L~~C~~iTD  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--VSSLA-NLTNINWLSAGHN-QISD  365 (384)
T ss_dssp             GGGCTTCCEEECC---SS-CCCC--CGGGG-GCTTCCEEECCSS-CCCB
T ss_pred             cccCCCCCEEECC---CC-CCCC--ChhHc-CCCCCCEEECCCC-cCCC
Confidence            4567788888887   33 5554  23343 5888999998876 5664