Citrus Sinensis ID: 006625

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------64

MATTVAPAVEKASDLLQKLSLDSQTKSLEISEHTKKPSANQYGSVDSVNAAANGQIPSERSGTPFLNDFMDPNMCYVPNGYPSTAFYYGGYDGNVGEWDDYTRYVSQDGVDMTSGVYGDNGSLMYHHGYGYAPYPPYSPATSPVPTMGTDGQLYGPQHYQYPHYFQPITPTSSPYSPSPVAPTPGDIPTSVAADQKPLPVESTNGKSNGVANAGGVKGNNGSAPFKPTYQPFNSNNTYGRGSLPGRGPASGYQDPRCNLDGMRSPIPWLDGPVISDARPVASNTFNSSISNVNNVASSRNQNYRPNSHYMGLHHPRPMSGMGAAQGFMNMNRMYPNKLYGQYGNTFRSGVGFGSNGYDLRTNGRGWLSVDGKYKSRGRGNGYFGYGNENMDGLNELNRGPRAKGAKNQKGSAPNALPVKEQNVLTNGTAEDENDKISLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIQEKKAKQQQFQKQASMGRKAC

cccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccHHHHHHHHHccccccccccHHHHHHHHHHHHHccccccEEEEEEccccccEEEEEEEccccccccccccccccccccccccEEEEEEcccccccccccccccccccEEEccccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccc

ccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccEEcccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEcccHHcccccHccccccccEEEEEEEccccccccEEEEEEEEccccccHHHHHHHHHHHHccccccEEEEEEEcccccEEEEEEEEccccccccccEEEcccccccccEEEEEEEEcccccEEEEEEEcccccccccccccccccHHHHHHHHHHHHcccccccHHccHHHHHHHHHHHHHHHHHHHHHHHHcccccccc

MATTVAPAVEKASDLLQKLSLDSqtksleisehtkkpsanqygsvdsvnaaangqipsersgtpflndfmdpnmcyvpngypstafyyggydgnvgewddytryvsqdgvdmtsgvygdngslmyhhgygyapyppyspatspvptmgtdgqlygpqhyqyphyfqpitptsspyspspvaptpgdiptsvaadqkplpvestngksngvanaggvkgnngsapfkptyqpfnsnntygrgslpgrgpasgyqdprcnldgmrspipwldgpvisdarpvasntfnssiSNVNNvassrnqnyrpnshymglhhprpmsgmgaaqgfmnmnrmypnklygqygntfrsgvgfgsngydlrtngrgwlsvdgkyksrgrgngyfgygnenmdglnelnrgprakgaknqkgsapnalpvkeqnvltngtaedendkislspdrdeynkadfpeeytdAKFFVIKsyseddvhksIKYSVwastpngnkkLDAAYQEAQqksrscpvflLFSVNtsgqfvglaemagpvdfnknveywqqdkwtgcfpvkwhivkdvpnsLLKHItlennenkpvtnsrdtQEIKLEQGLKLIKIFkdhpsktcilddfgfYETRQKTIQEKKAKQQQFQKQASMGRKAC

mattvapavekASDLLQKLSLDSQTKSLEisehtkkpsanqygsVDSVNAAANGQIPSERSGTPFLNDFMDPNMCYVPNGYPSTAFYYGGYDGNVGEWDDYTRYVSQDGVDMTSGVYGDNGSLMYHHGYGYAPYPPYSPATSPVPTMGTDGQLYGPQHYQYPHYFQPITPTSSPYSPSPVAPTPGDIPTSVAADQKPLPVESTNGKSNGVANAGGVKGNNGSAPFKPTYQPFNSNNTYGRGSLPGRGPASGYQDPRCNLDGMRSPIPWLDGPVISDARPVASNTFNSSISNVNNVASSRNQNYRPNSHYMGLHHPRPMSGMGAAQGFMNMNRMYPNKLYGQYGNTFRSGVGFGSNGYDLRTNGRgwlsvdgkyksrgrgNGYFGYGNENMDGLNELNRGPRAKGAknqkgsapnalpvkeqnvltngtaedendkislspdrdeynkadfpeeytDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHitlennenkpvtnsrdtqeIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIQEKKAKQQqfqkqasmgrkac

MATTVAPAVEKAsdllqklsldsqtkslEISEHTKKPSANQYGSVDSVNAAANGQIPSERSGTPFLNDFMDPNMCYVPNGYPSTAFYYGGYDGNVGEWDDYTRYVSQDGVDMTSGVYGDNGSLMyhhgygyapyppyspatspvptMGTDGQLYGPQHYQYPHYFQpitptsspyspspvaptpGDIPTSVAADQKPLPVESTNGKSngvanaggvkgnngSAPFKPTYQPFNSNNTYGRGSLPGRGPASGYQDPRCNLDGMRSPIPWLDGPVISDARPVAsntfnssisnvnnvassrnqnYRPNSHYMGLHHPRPMSGMGAAQGFMNMNRMYPNKLYGQYGNTFRSGVGFGSNGYDLRTNGRGWLSVDGKYKSrgrgngyfgygnENMDGLNELNRGPRAKGAKNQKGSAPNALPVKEQNVLTNGTAEDENDKISLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIqekkakqqqfqkqASMGRKAC

****************************************************************FLNDFMDPNMCYVPNGYPSTAFYYGGYDGNVGEWDDYTRYVSQDGVDMTSGVYGDNGSLMYHHGYGYAPYPPY*************GQLYGPQHYQYPHYFQP**************************************************************************************************IPWLDGPVI***************************************************GFMNMNRMYPNKLYGQYGNTFRSGVGFGSNGYDLRTNGRGWLSVDGKYKSRGRGNGYFGYG******************************************************************EYTDAKFFVIKSYSEDDVHKSIKYSVWAS********************SCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITL****************IKLEQGLKLIKIFKDHPSKTCILDDFGFYET**************************

***************************************************************************YVPNGYPSTAFYYGGYDGNVGEWD**************************************************************************************************************************************************************************************************************************************************************************************************************************************************************FPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGF*****************************

*********EKASDLLQKLSLDSQTKSLEISEHTKKPSANQYGSVDSVNAAANGQIPSERSGTPFLNDFMDPNMCYVPNGYPSTAFYYGGYDGNVGEWDDYTRYVSQDGVDMTSGVYGDNGSLMYHHGYGYAPYPPYSPATSPVPTMGTDGQLYGPQHYQYPHYFQPITPT***********TPGDIPTSVAADQKPLPVESTNGKSNGVANAGGVKGNNGSAPFKPTYQPFNSNNTYGRGSLPGRGPASGYQDPRCNLDGMRSPIPWLDGPVISDARPVASNTFNSSISNVNNVASSRNQNYRPNSHYMGLHHPRPMSGMGAAQGFMNMNRMYPNKLYGQYGNTFRSGVGFGSNGYDLRTNGRGWLSVDGKYKSRGRGNGYFGYGNENMDGLNELNRGP************PNALPVKEQNVLTNGTAEDENDKISLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDA*********RSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKT**********************

***********************************************************RSGTPFLNDFMDPNMCYVPNGYPSTAFYYGGYDGNVGEWDDYTRYVSQDGVDMTSGVYGDNGSLMYHHGYGYAPYPPYSPATSPVPTMGTDGQLYGPQHYQYPHYFQPITPTSSPYSPSPVAPTPGDIPTSVAADQKPLPVESTNGKSNGVANAGGVKGNNGSAPFKPTYQPFNSNNTYGRGSLPGRGPASGYQDPRCNLDGMRSPIPWLDGPVISDARP*******************************************AAQ***NMNRMYPNKLYGQYGNTFRSGVGFGSNGYDLRTNGRGW************************DG******************************************KISLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIQEKKAK***************

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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	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		638	2.2.26 [Sep-21-2011]
Q4R5D9		579	YTH domain family protein	N/A	no	0.282	0.310	0.540	9e-53
Q9Y5A9		579	YTH domain family protein	yes	no	0.282	0.310	0.540	9e-53
Q0VCZ3		580	YTH domain family protein	yes	no	0.282	0.310	0.540	1e-52
P59326		559	YTH domain family protein	no	no	0.344	0.393	0.460	2e-51
Q9BYJ9		559	YTH domain family protein	no	no	0.286	0.327	0.516	5e-51
Q8BYK6		585	YTH domain family protein	no	no	0.260	0.283	0.556	2e-49
Q5RFL8		585	YTH domain family protein	no	no	0.260	0.283	0.556	2e-49
Q7Z739		585	YTH domain family protein	no	no	0.260	0.283	0.556	2e-49
Q06390		306	YTH domain-containing pro	yes	no	0.231	0.483	0.401	6e-25
Q96MU7		727	YTH domain-containing pro	no	no	0.208	0.182	0.331	1e-14

>sp\|Q4R5D9\|YTHD2_MACFA YTH domain family protein 2 OS=Macaca fascicularis GN=YTHDF2 PE=2 SV=1	Back alignment and function desciption

 Score =  208 bits (530), Expect = 9e-53,   Method: Compositional matrix adjust.
 Identities = 99/183 (54%), Positives = 124/183 (67%), Gaps = 3/183 (1%)

Query: 443 DEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRS 502
           + YN  DF       + F+IKSYSEDD+H+SIKY++W ST +GNK+LDAAY+    K   
Sbjct: 396 NNYNPKDFDWNLKHGRVFIIKSYSEDDIHRSIKYNIWCSTEHGNKRLDAAYRSMNGKG-- 453

Query: 503 CPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKH 562
            PV+LLFSVN SG F G+AEM   VD+N     W QDKW G F V+W  VKDVPNS L+H
Sbjct: 454 -PVYLLFSVNGSGHFCGVAEMKSAVDYNTCAGVWSQDKWKGRFDVRWIFVKDVPNSQLRH 512

Query: 563 ITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIQEKKA 622
           I LENNENKPVTNSRDTQE+ LE+  +++KI   +   T I DDF  YE RQ+  +  K 
Sbjct: 513 IRLENNENKPVTNSRDTQEVPLEKAKQVLKIIASYKHTTSIFDDFSHYEKRQEEEESVKK 572

Query: 623 KQQ 625
           ++Q
Sbjct: 573 ERQ 575

Macaca fascicularis (taxid: 9541)

>sp\|Q9Y5A9\|YTHD2_HUMAN YTH domain family protein 2 OS=Homo sapiens GN=YTHDF2 PE=1 SV=2	Back alignment and function description

>sp\|Q0VCZ3\|YTHD2_BOVIN YTH domain family protein 2 OS=Bos taurus GN=YTHDF2 PE=2 SV=1	Back alignment and function description

>sp\|P59326\|YTHD1_MOUSE YTH domain family protein 1 OS=Mus musculus GN=Ythdf1 PE=2 SV=1	Back alignment and function description

>sp\|Q9BYJ9\|YTHD1_HUMAN YTH domain family protein 1 OS=Homo sapiens GN=YTHDF1 PE=1 SV=1	Back alignment and function description

>sp\|Q8BYK6\|YTHD3_MOUSE YTH domain family protein 3 OS=Mus musculus GN=Ythdf3 PE=1 SV=2	Back alignment and function description

>sp\|Q5RFL8\|YTHD3_PONAB YTH domain family protein 3 OS=Pongo abelii GN=YTHDF3 PE=2 SV=1	Back alignment and function description

>sp\|Q7Z739\|YTHD3_HUMAN YTH domain family protein 3 OS=Homo sapiens GN=YTHDF3 PE=1 SV=1	Back alignment and function description

>sp\|Q06390\|YD374_YEAST YTH domain-containing protein YDR374C OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=YDR374C PE=4 SV=1	Back alignment and function description

>sp\|Q96MU7\|YTDC1_HUMAN YTH domain-containing protein 1 OS=Homo sapiens GN=YTHDC1 PE=1 SV=3	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		638
356525319		707	PREDICTED: uncharacterized protein LOC10	0.989	0.892	0.727	0.0
225435800		705	PREDICTED: uncharacterized protein LOC10	0.951	0.860	0.739	0.0
297746505		675	unnamed protein product [Vitis vinifera]	0.905	0.856	0.711	0.0
356525321		659	PREDICTED: uncharacterized protein LOC10	0.904	0.875	0.725	0.0
356512580		660	PREDICTED: uncharacterized protein LOC10	0.904	0.874	0.715	0.0
449452630		704	PREDICTED: uncharacterized protein LOC10	0.956	0.866	0.718	0.0
357519269		677	YTH domain family protein [Medicago trun	0.926	0.872	0.680	0.0
255544682		636	yth domain-containing protein, putative	0.873	0.875	0.681	0.0
118489688		615	unknown [Populus trichocarpa x Populus d	0.909	0.943	0.646	0.0
297739755		694	unnamed protein product [Vitis vinifera]	0.952	0.876	0.622	0.0

>gi\|356525319\|ref\|XP_003531272.1\| PREDICTED: uncharacterized protein LOC100819200 isoform 1 [Glycine max]	Back alignment and taxonomy information

 Score =  913 bits (2359), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 467/642 (72%), Positives = 528/642 (82%), Gaps = 11/642 (1%)

Query: 1   MATTVAPAVEKASDLLQKLSLDSQTKSLEISEHTKKPSANQYGSVDSVNAAANGQIPS-E 59
           MAT  +PA ++A+DLLQKLSL++Q K LEI E TKK + NQYGSVDS NAA NGQIPS +
Sbjct: 1   MATVASPA-DQATDLLQKLSLETQPKPLEIPEPTKKATGNQYGSVDSGNAA-NGQIPSYD 58

Query: 60  RSGTPFLNDFMDPNMCYVPNGYPSTAFYYGGYDGNVGEWDDYTRYVSQDGVDMTSGVYGD 119
           RS TP L DF+DP MCY+PNGYPSTA+YYGGYDG   EWDDY+RYV+ +GV+MTSGVYGD
Sbjct: 59  RSVTPVLQDFIDPTMCYLPNGYPSTAYYYGGYDGTGNEWDDYSRYVNSEGVEMTSGVYGD 118

Query: 120 NGSLMYHHGYGYAPYPPYSPATSPVPTMGTDGQLYGPQHYQYPHYFQPITPTSSPYSPSP 179
           NGSL+YHHGYGYAPY PYSPA SPVPTMG DGQLYGPQHYQYP YFQP+TPTS+P++P+P
Sbjct: 119 NGSLLYHHGYGYAPYGPYSPAGSPVPTMGNDGQLYGPQHYQYPPYFQPLTPTSAPFTPTP 178

Query: 180 VAPTPGDIPTSVAADQKPLPVESTNGKSNGVANAGGVKGNNGSAPFKPTYQ--PFNSNNT 237
                G++ TSVAADQKPLPVE+ NG SNGV+N G  KGNN +AP K   Q   F+S  +
Sbjct: 179 AVLPQGEVSTSVAADQKPLPVEAANGNSNGVSNGGNAKGNNAAAPIKQANQNSSFSSKAS 238

Query: 238 YGRGSLPGRGPASGYQDPRCNLDGMRSPIPWLDGPVISDA--RPVASNTFNSSISNVNNV 295
             R ++PGRGP SGYQDPR   DG+RSPIPWLD P+ SD   RPV+S T  SSIS  NN 
Sbjct: 239 NERVAMPGRGPTSGYQDPRFGYDGVRSPIPWLDAPLFSDGQPRPVSSTTITSSISGGNNT 298

Query: 296 ASSRNQNYRPNSHYMGLHHPRPMSGMGAAQGFMNMNRMYPNKLYGQYGNTFRSGVGFGSN 355
           AS R+Q +RPNS +MGLHHPRPM  MGA   F+N  RMYPNKLYGQYGNT RSG+G+G++
Sbjct: 299 AS-RSQTFRPNSQFMGLHHPRPMPAMGATHSFIN--RMYPNKLYGQYGNTVRSGMGYGTH 355

Query: 356 GYDLRTNGRGWLSVDGKYKSRGRGNGYFGYGNENMDGLNELNRGPRAKGAKNQKGSAPNA 415
           GYD R NGR WL+VD KYK+RGR  GYFGYGNEN+DGLNELNRGPRAKG KNQKG AP  
Sbjct: 356 GYDSRANGRAWLAVDSKYKTRGRSGGYFGYGNENVDGLNELNRGPRAKGGKNQKGFAPTI 415

Query: 416 LPVKEQNVLTNGTAEDENDKISLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIK 475
           L VK QN+  +   ++E DK S  PDRD+YNKADFPEEYTDAKFFVIKSYSEDD+HKSIK
Sbjct: 416 LAVKGQNLPASLGTDEEKDKTSTVPDRDQYNKADFPEEYTDAKFFVIKSYSEDDIHKSIK 475

Query: 476 YSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEY 535
           Y+VWAST NGNKKLDAAY EAQQK   CPVFL FSVNTSGQFVGLAEM GPVDFNK+VEY
Sbjct: 476 YNVWASTQNGNKKLDAAYHEAQQKPGGCPVFLFFSVNTSGQFVGLAEMIGPVDFNKSVEY 535

Query: 536 WQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFK 595
           WQQDKW GCFP+KWH+VKDVPN+LL+HITL+NNENKPVTNSRDTQE+ LE GLKLIKIFK
Sbjct: 536 WQQDKWNGCFPLKWHVVKDVPNNLLRHITLDNNENKPVTNSRDTQEVMLEPGLKLIKIFK 595

Query: 596 DHPSKTCILDDFGFYETRQKTIQEKKAKQQQFQKQASMGRKA 637
           ++ SKTCILDDFGFYE RQKTI EKKAK QQF KQ   G+ A
Sbjct: 596 EYTSKTCILDDFGFYEARQKTILEKKAK-QQFPKQVWEGKPA 636

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|225435800\|ref\|XP_002285750.1\| PREDICTED: uncharacterized protein LOC100253534 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|297746505\|emb\|CBI16561.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|356525321\|ref\|XP_003531273.1\| PREDICTED: uncharacterized protein LOC100819200 isoform 2 [Glycine max]	Back alignment and taxonomy information

>gi\|356512580\|ref\|XP_003524996.1\| PREDICTED: uncharacterized protein LOC100807919 [Glycine max]	Back alignment and taxonomy information

>gi\|449452630\|ref\|XP_004144062.1\| PREDICTED: uncharacterized protein LOC101215929 [Cucumis sativus] gi\|449493566\|ref\|XP_004159352.1\| PREDICTED: uncharacterized LOC101215929 [Cucumis sativus]	Back alignment and taxonomy information

>gi\|357519269\|ref\|XP_003629923.1\| YTH domain family protein [Medicago truncatula] gi\|355523945\|gb\|AET04399.1\| YTH domain family protein [Medicago truncatula]	Back alignment and taxonomy information

>gi\|255544682\|ref\|XP_002513402.1\| yth domain-containing protein, putative [Ricinus communis] gi\|223547310\|gb\|EEF48805.1\| yth domain-containing protein, putative [Ricinus communis]	Back alignment and taxonomy information

>gi\|118489688\|gb\|ABK96645.1\| unknown [Populus trichocarpa x Populus deltoides]	Back alignment and taxonomy information

>gi\|297739755\|emb\|CBI29937.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		638
TAIR\|locus:2092815		667	ECT2 "evolutionarily conserved	0.932	0.892	0.534	2e-166
TAIR\|locus:2159391		495	ECT3 "AT5G61020" [Arabidopsis	0.473	0.610	0.631	3.5e-105
TAIR\|locus:2095938		428	ECT1 "evolutionarily conserved	0.470	0.700	0.548	1e-90
TAIR\|locus:2089280		634	ECT5 "AT3G13060" [Arabidopsis	0.454	0.457	0.515	2.4e-89
TAIR\|locus:2088995		595	ECT6 "AT3G17330" [Arabidopsis	0.330	0.354	0.601	6e-72
TAIR\|locus:2023807		639	ECT7 "AT1G48110" [Arabidopsis	0.338	0.338	0.580	1.6e-71
TAIR\|locus:2207405		528	ECT8 "AT1G79270" [Arabidopsis	0.346	0.418	0.573	1.6e-71
TAIR\|locus:2161213		528	ECT10 "evolutionarily conserve	0.321	0.388	0.544	5.3e-69
TAIR\|locus:2010494		539	ECT9 "AT1G27960" [Arabidopsis	0.282	0.333	0.651	6.8e-65
TAIR\|locus:2024286		470	ECT11 "AT1G09810" [Arabidopsis	0.332	0.451	0.554	3.8e-62

TAIR\|locus:2092815 ECT2 "evolutionarily conserved C-terminal region 2" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1619 (575.0 bits), Expect = 2.0e-166, P = 2.0e-166
 Identities = 331/619 (53%), Positives = 390/619 (63%)

Query:     4 TVAPAVEKAXXXXXXXXXXXXXXXXEISEHTKKPSANQYGSVDSVNAAANGQIPS-ERSG 62
             TVAP  ++A                EI E  KK +  QYG VD      +GQ+PS +RS 
Sbjct:     3 TVAPPADQATDLLQKLSLDSPAKASEIPEPNKKTAVYQYGGVD-----VHGQVPSYDRSL 57

Query:    63 TPFL-NDFMDPNMCYVPNGYPSTAFYYGGYDGNVGEWDDYTRYVSQDGVDMTSGVYGDNG 121
             TP L +D  DP++CYVPN Y +   YY  Y G+  EW DY  Y + +GVDM SG+YG+NG
Sbjct:    58 TPMLPSDAADPSVCYVPNPY-NPYQYYNVY-GSGQEWTDYPAYTNPEGVDMNSGIYGENG 115

Query:   122 SLMXXXXXXXXXXXXXXXXXXXXXXMGTDGQLYGPQHYQYPHYFQXXXXXXXXXXXXXXX 181
             +++                      +G +GQLYG Q YQYP+YF                
Sbjct:   116 TVVYPQGYGYAAYPYSPATSPAPQ-LGGEGQLYGAQQYQYPNYFPNSGPYASSVATPTQP 174

Query:   182 XXXGDIPTSVAADQKPLPVESTNGKSXXXXXXXXXXXXXXSAPFKPTYQP-FN-SNNTYG 239
                 + P  V    K LP +S N  S              SAP KPT Q   N S+N YG
Sbjct:   175 DLSANKPAGV----KTLPADSNNVASAAGITKGSNG----SAPVKPTNQATLNTSSNLYG 226

Query:   240 RGSLPGRGPASGYQDPRCNLDGMRSPIPWLDGPVISDA-RPVAXXXXXXXXXXXXXXXXX 298
              G+ PG G A+GYQDPR   +G  +P+PW DG   SD  RPV+                 
Sbjct:   227 MGA-PGGGLAAGYQDPRYAYEGYYAPVPWHDGSKYSDVQRPVSGSGVASSYSKSSTVPSS 285

Query:   299 XXXXYRPNSHYMGLHHPRPMSGMGAAQGFMNMNRMYPNKLYGQYGNTFRSGVGFGSNGYD 358
                 YR NSHY  +H P  ++G G AQG+ N  RMY NKLYGQYG+T RS +G+GS+GYD
Sbjct:   286 RNQNYRSNSHYTSVHQPSSVTGYGTAQGYYN--RMYQNKLYGQYGSTGRSALGYGSSGYD 343

Query:   359 LRTNGRGWLSVDGKYKSXXXXXXXXXXXXENMDGLNELNRGPRAKGAKNQKGSAPNALPV 418
              RTNGRGW + D KY+S             N+DGLNELNRGPRAKG KNQKG+  ++L V
Sbjct:   344 SRTNGRGWAATDNKYRSWGRGNSYYYGNENNVDGLNELNRGPRAKGTKNQKGNLDDSLEV 403

Query:   419 KEQNVLTNGTAEDENDKISLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSV 478
             KEQ   +N T   E D   + PDR++YNK DFP +Y +A FF+IKSYSEDDVHKSIKY+V
Sbjct:   404 KEQTGESNVTEVGEADNTCVVPDREQYNKEDFPVDYANAMFFIIKSYSEDDVHKSIKYNV 463

Query:   479 WASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQ 538
             WASTPNGNKKL AAYQEAQQK+  CP+FL FSVN SGQFVGLAEM GPVDFN NVEYWQQ
Sbjct:   464 WASTPNGNKKLAAAYQEAQQKAGGCPIFLFFSVNASGQFVGLAEMTGPVDFNTNVEYWQQ 523

Query:   539 DKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDHP 598
             DKWTG FP+KWHIVKDVPNSLLKHITLENNENKPVTNSRDTQE+KLEQGLK++KIFK+H 
Sbjct:   524 DKWTGSFPLKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEVKLEQGLKIVKIFKEHS 583

Query:   599 SKTCILDDFGFYETRQKTI 617
             SKTCILDDF FYE RQKTI
Sbjct:   584 SKTCILDDFSFYEVRQKTI 602

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005829 "cytosol" evidence=IDA

TAIR\|locus:2159391 ECT3 "AT5G61020" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2095938 ECT1 "evolutionarily conserved C-terminal region 1" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2089280 ECT5 "AT3G13060" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2088995 ECT6 "AT3G17330" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2023807 ECT7 "AT1G48110" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2207405 ECT8 "AT1G79270" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2161213 ECT10 "evolutionarily conserved C-terminal region 10" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2010494 ECT9 "AT1G27960" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2024286 ECT11 "AT1G09810" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

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:
	fgenesh2_kg.3__1434__AT3G13460.1	annotation not avaliable (677 aa)
		(Arabidopsis lyrata)
Predicted Functional Partners:
		Sorry, there are no predicted associations at the current settings.

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		638
pfam04146		135	pfam04146, YTH, YT521-B-like domain	1e-68

>gnl\|CDD\|217926 pfam04146, YTH, YT521-B-like domain	Back alignment and domain information

 Score =  219 bits (560), Expect = 1e-68
 Identities = 76/141 (53%), Positives = 99/141 (70%), Gaps = 8/141 (5%)

Query: 458 KFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQF 517
           +FF+IKSY+ED+VH SIKY VWAST + NKKL+ A++EA+      PV+L+FSVN SG+F
Sbjct: 1   RFFIIKSYNEDNVHLSIKYGVWASTSHNNKKLNKAFKEAE------PVYLIFSVNKSGKF 54

Query: 518 VGLAEMAGPVDFNK--NVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTN 575
            G A M  P+DF+   N +     KW G F V+W  VKD+P   L+H+   NNENKPVT 
Sbjct: 55  CGYARMTSPIDFDSTANSQDSSSQKWGGPFKVEWLSVKDLPFHRLRHLKNPNNENKPVTI 114

Query: 576 SRDTQEIKLEQGLKLIKIFKD 596
           SRD QEI+ E G +L+KIFK+
Sbjct: 115 SRDGQEIEPEIGEELLKIFKN 135

A protein of the YTH family has been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells. It has been speculated that in higher eukaryotic YTH-family members may be involved in similar mechanisms to suppress gene regulation during gametogenesis or general silencing. The rat protein YT521-B is a tyrosine-phosphorylated nuclear protein, that interacts with the nuclear transcriptosomal component scaffold attachment factor B, and the 68-kDa Src substrate associated during mitosis, Sam68. In vivo splicing assays demonstrated that YT521-B modulates alternative splice site selection in a concentration-dependent manner. The YTH domain has been identified as part of the PUA superfamily. Length = 135

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		638
KOG1901		487	consensus Uncharacterized high-glucose-regulated p	100.0
PF04146		140	YTH: YT521-B-like domain; InterPro: IPR007275 A pr	100.0
KOG1902		441	consensus Putative signal transduction protein inv	100.0
PRK00809		144	hypothetical protein; Provisional	94.59
PF01878		143	EVE: EVE domain; InterPro: IPR002740 The EVE domai	82.41

>KOG1901 consensus Uncharacterized high-glucose-regulated protein [General function prediction only]	Back alignment and domain information

Probab=100.00  E-value=1.1e-82  Score=682.02  Aligned_cols=459  Identities=44%  Similarity=0.673  Sum_probs=328.5

Q ss_pred             CCCCCCccccccccCCCCCCcccccCCCcccc-ccCCCCC--CCCCCCCCCCCCCcCCCCCccccCCCCCCC-CCCCCCC
Q 006625           94 NVGEWDDYTRYVSQDGVDMTSGVYGDNGSLMY-HHGYGYA--PYPPYSPATSPVPTMGTDGQLYGPQHYQYP-HYFQPIT  169 (638)
Q Consensus        94 ~~~~w~~y~~Yvn~dg~e~~~~vy~dn~Sl~y-~~Gygy~--pYg~Ysp~~sp~p~~g~DgQly~~q~y~yp-~yyq~~~  169 (638)
                      .+.+ ++|+-|.|.|++.+. ++.+.+.+++. ...+++.  ||.|++   ..++++|.|++++.+|++.+. ++|-   
T Consensus         3 ~~~~-~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~~~~~~~~~~~~~~---   74 (487)
T KOG1901|consen    3 SGLY-TDYGVVSNSESVQPD-GGQGQESANTSYPTSLGYHSFPYNPSS---YAASSLGSDGSLGEPQQNPLYSPSYG---   74 (487)
T ss_pred             CCCc-CCccccccCcccccC-CccCCCcccccCCccccccCCCCCCCc---ccccCCCCCccccccccccccCCCcC---
Confidence            4456 899999999994333 55555555444 3333432  344443   344588999999999999997 5554   


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCccCCCCCCccccCCCCCCCcccCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 006625          170 PTSSPYSPSPVAPTPGDIPTSVAADQKPLPVESTNGKSNGVANAGGVKGNNGSAPFKPTYQPFNSNNTYGRGSLPGRGPA  249 (638)
Q Consensus       170 ~~~~~y~~~~~~~~q~e~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~gs~g~g~~~~~~p~  249 (638)
                      +...|+........++++.......   ...+..+.            +.  +.+..|...   ..+.++ ..-+.+.|.
T Consensus        75 ~~s~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~------------~~--~~~~~p~~~---~~~~~~-~~~~~~~~~  133 (487)
T KOG1901|consen   75 PVSLPTASTSGSSTFSNLTLRKAPG---FSSSGPKQ------------GG--SMPSDPRGS---AQRNSS-ISASPGYPP  133 (487)
T ss_pred             cccCccccccCcccccchhhhcccc---cccccccc------------Cc--CCCCCCccc---cccccc-ccCCCCCCC
Confidence            2222333333333344443322221   11111111            10  122222222   111111 122223444


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCccccccccCCCcccCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCC
Q 006625          250 SGYQDPRCNLDGMRSPIPWLDGPVISDARPVASNTFNSSISNVNNVASSRNQNYRPNSHYMGLHHPRPMSGMG-AAQGFM  328 (638)
Q Consensus       250 ~gy~~~~~~~~g~~~~~~~~d~~~~s~~~~~~~~~~s~~~~~~~~~~~~~nq~~~~~~~~~~~~~~~~~~~~~-~~~~~~  328 (638)
                      .+|.+|++.++.....                                 +..++..+.+++.+....+.+.++ ...+|+
T Consensus       134 ~~~~~P~~~~~~~~~~---------------------------------~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~  180 (487)
T KOG1901|consen  134 LPYSAPKFASDLIPGK---------------------------------PPPPISGNTGPPTPDSKGPVSSSGHNAQGYY  180 (487)
T ss_pred             cccCCCccccccccCC---------------------------------CCCCccccCCCCCcccCCcccCCcccccccc
Confidence            5777777666641100                                 112222223333333333333332 345665


Q ss_pred             ccCccCC-CccCCCCCCccccCCCCCCCCCCCCCCCccccccCCccccCCCCCCccCCCCC-CccccccccCCCCCCCCC
Q 006625          329 NMNRMYP-NKLYGQYGNTFRSGVGFGSNGYDLRTNGRGWLSVDGKYKSRGRGNGYFGYGNE-NMDGLNELNRGPRAKGAK  406 (638)
Q Consensus       329 ~~~~~y~-~~~y~~~g~~~~~~~~~g~~~~~~~~~~r~w~~~~~k~~~~~~~~~~~~~~~~-~~~~~~e~~rgpr~~~~~  406 (638)
                        +.++. .+.|+.+..+...+..|+...+.....+|+|..+++..+..+. .......++ ..+.++|+|||||+...+
T Consensus       181 --~~~~~~~~~~g~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~nrg~~s~~~~  257 (487)
T KOG1901|consen  181 --DQFSSQPGLYGSYQPTGGSGPPYGQSLYANQPKGRSPYGVDNSRPTWGI-NYPRLPSDEAGSDSLNEQNRGPRSSDSR  257 (487)
T ss_pred             --cccccCcccccCccccCCCCCccCcccccccccCCCCcccCCCcccccc-cCCCccccccccccccccccCccccccc
Confidence              55555 3456666656666888999999988999999999975544442 222223332 378899999999999999


Q ss_pred             CCCCCCCCcccccccccccCCCCcccCCcccCCCCcccCCCCCCCCCCCCceEEEEecCChhHHHHHhhcCeeecCCchH
Q 006625          407 NQKGSAPNALPVKEQNVLTNGTAEDENDKISLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGN  486 (638)
Q Consensus       407 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~qyN~~df~~~~~~aRFFIIKS~nedNIhkSIKygVWaTT~~nn  486 (638)
                      ++.........+...+.         .+....++++++||+++|...+.+||||||||++|||||+||||+|||+|.++|
T Consensus       258 ~~~~~~~~~~~~~~~s~---------~~~~~~~~~~~~yn~~~f~~~~~nAkfFVIKSySEDdVHkSIKY~vWsST~~GN  328 (487)
T KOG1901|consen  258 GQDINSSGPTEAGSASA---------PESNESVKRRDRYNPPDFLTDYSNAKFFVIKSYSEDDVHKSIKYNVWSSTLNGN  328 (487)
T ss_pred             CccccCCcchhcccccc---------ccccccccChhhcCccccccccccceEEEEeccChhhhhhhcccceeecccCCc
Confidence            88765443333332111         112256889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCCCEEEEEEeCCCCCeeeeEEecCCCCCCCCcccccccCCcCccceeEEEeecCCCccccccccC
Q 006625          487 KKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLE  566 (638)
Q Consensus       487 kkLd~AFrea~~k~~~~pVfLfFSVN~Sg~FqG~AeM~SpVdf~k~~~~WqqdKw~G~F~VeWi~vkdVPf~~lkHI~Np  566 (638)
                      ||||+|||+++.+.++||||||||||+||||||+|||++||||+++++||+||||.|.|+||||+||||||..|+||+++
T Consensus       329 KkLdaAYreak~~~~~cPvfLfFSVNaSGqFCGvAEMvgPVdfn~~~~~WqQDKW~G~FpVKWhiVKDVPNs~lrHI~Le  408 (487)
T KOG1901|consen  329 KKLDAAYREAKKKSGKCPVFLFFSVNASGQFCGVAEMVGPVDFNKDMEYWQQDKWSGSFPVKWHIVKDVPNSQLRHIILE  408 (487)
T ss_pred             hhhHHHHHHhhhccCCCCceEEEEEcCCccccceeeeccceecccccchhhhcccceecceeeEEEeeCCccceeEEEee
Confidence            99999999999899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCceeecCCCcccchHHHHHHHHHhhcCCCCccccccccchHHHHHHHHHHHHHhhh
Q 006625          567 NNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIQEKKAKQQQ  626 (638)
Q Consensus       567 ~NeNKPVt~SRDGQEIe~e~G~qLLkIF~~~~~~tSILDDF~~ye~rek~~~e~r~~~q~  626 (638)
                      +|||||||++||+|||.+++|+|||+||+++.++|||||||.|||+||+.|+++|+|++.
T Consensus       409 NNeNKPVTnSRDTQEV~leqGievlkIfk~y~~~TSiLDDf~~Ye~rq~~~~~~k~r~~~  468 (487)
T KOG1901|consen  409 NNENKPVTNSRDTQEVPLEQGIEVLKIFKSYAAKTSILDDFGFYEERQKIIQDKKARQPP  468 (487)
T ss_pred             cCCCCCcccccccceecHHHHHHHHHHHHhhcceeeecccccchHHHHHHhhhcccccCc
Confidence            999999999999999999999999999999999999999999999999999999999864

>PF04146 YTH: YT521-B-like domain; InterPro: IPR007275 A protein of the YTH family has been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells []	Back alignment and domain information

>KOG1902 consensus Putative signal transduction protein involved in RNA splicing [Signal transduction mechanisms; RNA processing and modification]	Back alignment and domain information

>PRK00809 hypothetical protein; Provisional	Back alignment and domain information

>PF01878 EVE: EVE domain; InterPro: IPR002740 The EVE domain is part of the wider PUA domain superfamily	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		638
2yud_A		180	Solution Structure Of The Yth Domain In Yth Domain-		5e-15
2yu6_A		141	Solution Structure Of The Yth Domain In Yth Domain-		3e-12

>pdb|2YUD|A Chain A, Solution Structure Of The Yth Domain In Yth Domain- Containing Protein 1 (Putative Splicing Factor Yt521) Length = 180

Back alignment and structure

Iteration: 1

Score = 79.7 bits (195), Expect = 5e-15, Method: Composition-based stats. Identities = 48/145 (33%), Positives = 76/145 (52%), Gaps = 12/145 (8%) Query: 456 DAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSG 515 DA+FF+IKS + ++V + VW++ P KKL+ A++ A+ V L+FSV SG Sbjct: 25 DARFFLIKSNNHENVSLAKAKGVWSTLPVNEKKLNLAFRSARS------VILIFSVRESG 78 Query: 516 QFVGLAEMAGPVDFNKNVEYW------QQDKWTGCFPVKWHIVKDVPNSLLKHITLENNE 569 +F G A ++ + +W G F + W +++P + H+T NE Sbjct: 79 KFQGFARLSSESHHGGSPIHWVLPAGMSAKMLGGVFKIDWICRRELPFTKSAHLTNPWNE 138 Query: 570 NKPVTNSRDTQEIKLEQGLKLIKIF 594 +KPV RD QEI+LE G +L +F Sbjct: 139 HKPVKIGRDGQEIELECGTQLCLLF 163

PyMOL of 2yud

>pdb|2YU6|A Chain A, Solution Structure Of The Yth Domain In Yth Domain- Containing Protein 2 Length = 141

Back alignment and structure

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		638
2yu6_A		141	YTH domain-containing protein 2; structural genomi	2e-62
2yud_A		180	YTH domain-containing protein 1; structure genomic	5e-61
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-09
3h0g_A		1752	DNA-directed RNA polymerase II subunit RPB1; trans	4e-07
1twf_A		1733	B220, DNA-directed RNA polymerase II largest subun	8e-06
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	2e-04
3lvg_D		190	LCB, clathrin light chain B; SELF assembly, coated	5e-04

>2yu6_A YTH domain-containing protein 2; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 141	Back alignment and structure

 Score =  202 bits (515), Expect = 2e-62
 Identities = 40/143 (27%), Positives = 77/143 (53%), Gaps = 7/143 (4%)

Query: 453 EYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVN 512
             +  ++F++KS +  ++  S +  +W++TP+  +KL+ A+ E+        V+L+FSV 
Sbjct: 4   GSSGVRYFIMKSSNLRNLEISQQKGIWSTTPSNERKLNRAFWESS------IVYLVFSVQ 57

Query: 513 TSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKP 572
            SG F G + M+  +   K+   W      G F V+W   + +P     H+    N+NK 
Sbjct: 58  GSGHFQGFSRMSSEIGREKSQ-DWGSAGLGGVFKVEWIRKESLPFQFAHHLLNPWNDNKK 116

Query: 573 VTNSRDTQEIKLEQGLKLIKIFK 595
           V  SRD QE++ + G +L+++++
Sbjct: 117 VQISRDGQELEPQVGEQLLQLWE 139

PyMOL of 2yu6

>2yud_A YTH domain-containing protein 1; structure genomics, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 180	Back alignment and structure

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Length = 1752	Back alignment and structure

>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ... Length = 1733	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		638
2yud_A		180	YTH domain-containing protein 1; structure genomic	100.0
2yu6_A		141	YTH domain-containing protein 2; structural genomi	100.0
2hd9_A		145	UPF0310 protein PH1033; pyrococcus horikoshii OT3,	96.41
2p5d_A		147	UPF0310 protein mjecl36; NPPSFA, national project	95.36

>2yud_A YTH domain-containing protein 1; structure genomics, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

Probab=100.00  E-value=3.2e-54  Score=414.64  Aligned_cols=166  Identities=31%  Similarity=0.539  Sum_probs=156.1

Q ss_pred             cCCCCcccCCCCCCCCCCCCceEEEEecCChhHHHHHhhcCeeecCCchHHHHHHHHHHHHhhcCCCCEEEEEEeCCCCC
Q 006625          437 SLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQ  516 (638)
Q Consensus       437 ~~~~~~~qyN~~df~~~~~~aRFFIIKS~nedNIhkSIKygVWaTT~~nnkkLd~AFrea~~k~~~~pVfLfFSVN~Sg~  516 (638)
                      ...+++||||+.++..  +++|||||||++++|||+||+||||+||++||++|++||++++      +||||||||+||+
T Consensus         8 ~~~~~~~~~~~~~~~~--~~arfFIIKS~s~~ni~~Sik~gvWatt~~n~~kL~~Af~~~~------~V~L~FSVn~Sg~   79 (180)
T 2yud_A            8 VRAVRKDQTSKLKYVL--QDARFFLIKSNNHENVSLAKAKGVWSTLPVNEKKLNLAFRSAR------SVILIFSVRESGK   79 (180)
T ss_dssp             CCCCCCCSSHHHHHHT--TTCEEEEEEESCHHHHHHHHHHTEECCCHHHHHHHHHHHHHSS------CEEEEEEETTTSE
T ss_pred             hhhcchhhcccccccc--CceEEEEEEeCCHHHHHHHHHcCEeecccccHHHHHHHHhhCC------eEEEEEEeCCCCc
Confidence            4567899999988875  7999999999999999999999999999999999999999984      8999999999999


Q ss_pred             eeeeEEecCCCCCCCCccccc------ccCCcCccceeEEEeecCCCccccccccCCCCCCceeecCCCcccchHHHHHH
Q 006625          517 FVGLAEMAGPVDFNKNVEYWQ------QDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKL  590 (638)
Q Consensus       517 FqG~AeM~SpVdf~k~~~~Wq------qdKw~G~F~VeWi~vkdVPf~~lkHI~Np~NeNKPVt~SRDGQEIe~e~G~qL  590 (638)
                      |||||||+++++++....+|+      +++|+|.|+|+||+++||||..++||+|+|||||||+++||||||++++|++|
T Consensus        80 F~G~A~M~s~~~~~~~~~~W~~~~~~~~~~~~g~F~V~Wi~~~dvPf~~~~hl~n~~NenkpV~~sRDgqEI~~~~G~~L  159 (180)
T 2yud_A           80 FQGFARLSSESHHGGSPIHWVLPAGMSAKMLGGVFKIDWICRRELPFTKSAHLTNPWNEHKPVKIGRDGQEIELECGTQL  159 (180)
T ss_dssp             EEEEEEEEEEEECSSCCCCCCCCSSCCGGGGCSEEEEEEEECSCEEHHHHTTCCBTTTTSBCTTSCCTTEEECHHHHHHH
T ss_pred             EEEEEEEccCCCCCCCCccccccCccchhhcCCceEEEEEEeecCCchhhhhccccccCCCeeeeCCCCEEcCHHHHHHH
Confidence            999999999999998888896      46799999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhcCCCCccccccccchHHHHHHH
Q 006625          591 IKIFKDHPSKTCILDDFGFYETRQKTI  617 (638)
Q Consensus       591 LkIF~~~~~~tSILDDF~~ye~rek~~  617 (638)
                      |+||+.+       ++|++|+.|+|..
T Consensus       160 ~~lf~~~-------~~~~~~~~~~~~~  179 (180)
T 2yud_A          160 CLLFPPD-------ESIDLYQVIHKMR  179 (180)
T ss_dssp             HHHSCCC-------SSSCSHHHHHHHH
T ss_pred             HHhcccC-------cCccHHHHHHhhc
Confidence            9999986       6899999998753

PyMOL of 2yud

>2yu6_A YTH domain-containing protein 2; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>2hd9_A UPF0310 protein PH1033; pyrococcus horikoshii OT3, structural genomics, NPPSFA, NATI project on protein structural and functional analyses; HET: CIT; 1.35A {Pyrococcus horikoshii} SCOP: b.122.1.8 PDB: 1wmm_A* 2zbn_A	Back alignment and structure

>2p5d_A UPF0310 protein mjecl36; NPPSFA, national project on protein structural and functional analyses; 1.70A {Methanocaldococcus jannaschii}	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		638
d2hd9a1		145	Hypothetical protein PH1033 {Pyrococcus horikoshii	93.82

>d2hd9a1 b.122.1.8 (A:1-145) Hypothetical protein PH1033 {Pyrococcus horikoshii [TaxId: 53953]}	Back information, alignment and structure

class: All beta proteins
fold: PUA domain-like
superfamily: PUA domain-like
family: Atu2648/PH1033-like
domain: Hypothetical protein PH1033
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=93.82  E-value=0.15  Score=45.03  Aligned_cols=124  Identities=11%  Similarity=0.165  Sum_probs=76.8

Q ss_pred             EEEEecCChhHHHHHhhcCeeecCCchHHHHHHHHHHHHhhcCCCCEEEEEEeCCC--------CCeeeeEEecCCCCCC
Q 006625          459 FFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTS--------GQFVGLAEMAGPVDFN  530 (638)
Q Consensus       459 FFIIKS~nedNIhkSIKygVWaTT~~nnkkLd~AFrea~~k~~~~pVfLfFSVN~S--------g~FqG~AeM~SpVdf~  530 (638)
                      |+|+=+ ++||+...++.|+|.......+.|++.        ....-+||++....        +.|.|+++.++....+
T Consensus         3 YWi~v~-s~e~~~~~~~~g~~~~~~~k~~~~~ri--------kpGD~li~Y~~~~~~~~~~~~~q~f~ai~~V~~~~~~d   73 (145)
T d2hd9a1           3 YWICIT-NRENWEVIKRHNVWGVPKKHKNTLSRV--------KPGDKLVIYVRQEKDKEGNLLEPKIVGIYEVTSEPYVD   73 (145)
T ss_dssp             EEEEEE-CHHHHHHHHHHCEEEECGGGHHHHTTC--------CTTCEEEEEECCEECTTCCEECCEEEEEEEECSCCEEC
T ss_pred             eEEEeC-CHHHHHHHHhCCEEeccCCchhhHhhC--------CCCCEEEEEeCccccCCCcccccEEEEEEEEeccceec
Confidence            555544 799999999999999875544433332        22467788875433        4799999999876443


Q ss_pred             CCcccccccCCcC-----ccceeEEEeecCCCccccccccCCCCCCc---eeecCC-CcccchHHHHHHHHH
Q 006625          531 KNVEYWQQDKWTG-----CFPVKWHIVKDVPNSLLKHITLENNENKP---VTNSRD-TQEIKLEQGLKLIKI  593 (638)
Q Consensus       531 k~~~~WqqdKw~G-----~F~VeWi~vkdVPf~~lkHI~Np~NeNKP---Vt~SRD-GQEIe~e~G~qLLkI  593 (638)
                      .+ ..|...+..+     .++|+|+.+.+||+..+.- +++.-.|+.   ...-|. -.||+.+....|-++
T Consensus        74 ~t-~i~~~~~~~~~~~P~R~~v~~~~~~ev~i~~l~~-~L~fi~~k~~W~~y~~r~g~~~I~~~D~~lI~~~  143 (145)
T d2hd9a1          74 FS-RIFKPHRGGKETYPYRVKIKPIKIGEINFKPLIN-DLKFIKNKKRWSMHFFGKAMRELPEEDYKLIEKL  143 (145)
T ss_dssp             CC-CCSCCTTSSCCCCCEEEEEEEEEEEEEESGGGGG-GCTTCCCSTTGGGGTTTCSEEEECHHHHHHHHHH
T ss_pred             cc-ccccccccCCceEEEEEEeEEeecccccHHHHHh-HHHhhcCchhhhHHHhcCCceecCHHHHHHHHHH
Confidence            33 3465433322     4789999999999864321 112222221   223343 346887777666554

PyMOL of d2hd9a1