Citrus Sinensis ID: 006647

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-------

MISWTRICAMFPMVIPQLLSTMGVSGYDGNVGEWDDYTRYGVYGDNGSLMYHHGYGYAPYPPYSPATSPVPTMGTDGQLYGPQHYQYPHYFQPITPTSSPYSPSPVAPTPGDIPTSVAADQKPLPVESTNGKSNGVANAGGVKGNNGSAPFKPTYQPFNSNNTYGRGSLPGRGPASGYQDPRCNLDGMRSPIPWLDGPVISDARPVASNTFNSSISNVNNVASSRNQNYRPNSHYMGLHHPRPMSGMGAAQGFMNMNRMYPNKLYGQYGNTFRSGVGFGSNGYDLRTNGRGWLSVDGKYKSRGRGNGYFGYGNENMDGLNELNRGPRAKGAKNQKGSAPNALPVKEQNVLTNGTAEDENDKISLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIQEKKAKQQQFQKQVWEGKPAEEKKELANGELKTQKSSEVASDLVEERTTTVQSNGDLRLSENGSVAKTGDAHKGSKPVVVSEKVILANGVANGC

cccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccHHHHHHHHHccEEccccccHHHHHHHHHHHHHccccccEEEEEEEcccccEEEEEEcccccccccccccccccccccccccEEEEEEccccccccccccccccccccccccccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccc

cccHHHHHHccccccccccHHHccccccccccccccccccEEEcccccEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEcccHHHccccHccccccccEEEEEEEccccccccEEEEEEEEccccccHHHHHHHHHHHHccccccEEEEEEEcccccEEEEEEEEccccccccccEEEEccccccccEEEEEEEEcccccEEEEEEEcccccccccccccccccHHHHHHHHHHHHccccccccHccHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccEcccccccccccccccccccccccccccccccccccccccccccccEEccc

MISWTRICAMFPMVIPQllstmgvsgydgnvgewddytrygvygdngslmyhhgygyapyppyspatspvptmgtdgqlygpqhyqyphyfqpitptsspyspspvaptpgdiptsvaadqkplpvestngksngvanaggvkgnngsapfkptyqpfnsnntygrgslpgrgpasgyqdprcnldgmrspipwldgpvisdarpvasntfnssiSNVNNvassrnqnyrpnshymglhhprpmsgmgaaqgfmnmnrmypnklygqygntfrsgvgfgsngydlrtngrgwlsvdgkyksrgrgngyfgygnenmdglnelnrgprakgaknqkgsapnalpvkeqnvltngtaedendkislspdrdeynkadfpeeytdAKFFVIKsyseddvhksIKYSVwastpngnkkLDAAYQEAQqksrscpvflLFSVNtsgqfvglaemagpvdfnknveywqqdkwtgcfpvkwhivkdvpnsLLKHItlennenkpvtnsrdtQEIKLEQGLKLIKIFkdhpsktcilddfgfYETRQKTIQEKKAKQQQFQKQVwegkpaeeKKELAngelktqkssEVASDLVEERtttvqsngdlrlsengsvaktgdahkgskpvvVSEKVILANGVANGC

MISWTRICAMFPMVIPQLLSTMGVSGYDGNVGEWDDYTRYGVYGDNGSLMYHHGYGYAPYPPYSPATSPVPTMGTDGQLYGPQHYQYPHYFQPITPTSSPYSPSPVAPTPGDIPTSVAADQKPLPVESTNGKSNGVANAGGVKGNNGSAPFKPTYQPFNSNNTYGRGSLPGRGPASGYQDPRCNLDGMRSPIPWLDGPVISDARPVASNTFNSSISNVNNVASSRNQNYRPNSHYMGLHHPRPMSGMGAAQGFMNMNRMYPNKLYGQYGNTFRSGVGFGSNGYDLRTNGRgwlsvdgkyksrgrgNGYFGYGNENMDGLNELNRGPRAKGAknqkgsapnalpvkeqnvltngtaedendkislspdrdeynkadfpeeytDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHitlennenkpvtnsrdtqeIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIQEKKAKQQQFQkqvwegkpaeekkelangelktqkssevasdlveertttvqsngdlrlsengsvaktgdahkgskpvvvsekvilangvangc

MISWTRICAMFPMVIPQLLSTMGVSGYDGNVGEWDDYTRYGVYGDNGSLMyhhgygyapyppyspatspvptMGTDGQLYGPQHYQYPHYFQpitptsspyspspvaptpGDIPTSVAADQKPLPVESTNGKSngvanaggvkgnngSAPFKPTYQPFNSNNTYGRGSLPGRGPASGYQDPRCNLDGMRSPIPWLDGPVISDARPVAsntfnssisnvnnvassrnqnYRPNSHYMGLHHPRPMSGMGAAQGFMNMNRMYPNKLYGQYGNTFRSGVGFGSNGYDLRTNGRGWLSVDGKYKSrgrgngyfgygnENMDGLNELNRGPRAKGAKNQKGSAPNALPVKEQNVLTNGTAEDENDKISLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIqekkakqqqfqkqVWEGKPAEEKKELANGELKTQKSSEVASDLVEERTTTVQSNGDLRLSENGSVAKTGDAHKGSKPVVVSEKVILANGVANGC

**SWTRICAMFPMVIPQLLSTMGVSGYDGNVGEWDDYTRYGVYGDNGSLMYHHGYGYAPYPPY************DGQLYGPQHYQYPHYFQP**************************************************************************************************IPWLDGPVI***************************************************GFMNMNRMYPNKLYGQYGNTFRSGVGFGSNGYDLRTNGRGWLSVDGKYKSRGRGNGYFGYG******************************************************************EYTDAKFFVIKSYSEDDVHKSIKYSVWAS********************SCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITL****************IKLEQGLKLIKIFKDHPSKTCILDDFGFYETR***************************************************************************************VIL********

**SWTRICAMFPMVIPQLLSTMGVSGYDG********************MYHHGYGY*************************************************************************************************************************************************************************************************************************************************************************************************************************YNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGF***********************************************************************************************N******

MISWTRICAMFPMVIPQLLSTMGVSGYDGNVGEWDDYTRYGVYGDNGSLMYHHGYGYAPYPPYSPATSPVPTMGTDGQLYGPQHYQYPHYFQPITPT***********TPGDIPTSVAADQKPLPVESTNGKSNGVANAGGVKGNNGSAPFKPTYQPFNSNNTYGRGSLPGRGPASGYQDPRCNLDGMRSPIPWLDGPVISDARPVASNTFNSSISNVNNVASSRNQNYRPNSHYMGLHHPRPMSGMGAAQGFMNMNRMYPNKLYGQYGNTFRSGVGFGSNGYDLRTNGRGWLSVDGKYKSRGRGNGYFGYGNENMDGLNELNRGP************PNALPVKEQNVLTNGTAEDENDKISLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDA*********RSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKT*******************PAEEKKELAN*************************NGDLRLSENGSV**********KPVVVSEKVILANGVANGC

MISWTRICAMFPMVIPQLLSTMGVSGYDGNVGEWDDYTRYGVYGDNGSLMYHHGYGYAPYPPYSPATSPVPTMGTDGQLYGPQHYQYPHYFQPITPTSSPYSPSPVAPTPGDIPTSVAADQKPLPVESTNGKSNGVANAGGVKGNNGSAPFKPTYQPFNSNNTYGRGSLPGRGPASGYQDPRCNLDGMRSPIPWLDGPVISDARPV************************************************N*NRMYPNK*YGQYGNTFRSGV*F*SN***LRTNGRGWLS*********************MDG******************************************KISLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIQEKKA*****************************************************************************************

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

iiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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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		637	2.2.26 [Sep-21-2011]
Q4R5D9		579	YTH domain family protein	N/A	no	0.282	0.310	0.540	2e-52
Q0VCZ3		580	YTH domain family protein	yes	no	0.282	0.310	0.540	2e-52
Q9Y5A9		579	YTH domain family protein	yes	no	0.282	0.310	0.540	2e-52
P59326		559	YTH domain family protein	no	no	0.345	0.393	0.460	3e-51
Q9BYJ9		559	YTH domain family protein	no	no	0.287	0.327	0.516	9e-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	0.232	0.483	0.401	7e-25
Q9QY02		738	YTH domain-containing pro	no	no	0.208	0.180	0.331	2e-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 =  207 bits (528), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 99/183 (54%), Positives = 124/183 (67%), Gaps = 3/183 (1%)

Query: 369 DEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRS 428
           + YN  DF       + F+IKSYSEDD+H+SIKY++W ST +GNK+LDAAY+    K   
Sbjct: 396 NNYNPKDFDWNLKHGRVFIIKSYSEDDIHRSIKYNIWCSTEHGNKRLDAAYRSMNGKG-- 453

Query: 429 CPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKH 488
            PV+LLFSVN SG F G+AEM   VD+N     W QDKW G F V+W  VKDVPNS L+H
Sbjct: 454 -PVYLLFSVNGSGHFCGVAEMKSAVDYNTCAGVWSQDKWKGRFDVRWIFVKDVPNSQLRH 512

Query: 489 ITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIQEKKA 548
           I LENNENKPVTNSRDTQE+ LE+  +++KI   +   T I DDF  YE RQ+  +  K 
Sbjct: 513 IRLENNENKPVTNSRDTQEVPLEKAKQVLKIIASYKHTTSIFDDFSHYEKRQEEEESVKK 572

Query: 549 KQQ 551
           ++Q
Sbjct: 573 ERQ 575

Macaca fascicularis (taxid: 9541)

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

>sp\|Q9Y5A9\|YTHD2_HUMAN YTH domain family protein 2 OS=Homo sapiens GN=YTHDF2 PE=1 SV=2	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\|Q9QY02\|YTDC1_RAT YTH domain-containing protein 1 OS=Rattus norvegicus GN=Ythdc1 PE=1 SV=1	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		637
225435800		705	PREDICTED: uncharacterized protein LOC10	0.941	0.851	0.751	0.0
356525319		707	PREDICTED: uncharacterized protein LOC10	0.938	0.845	0.701	0.0
297746505		675	unnamed protein product [Vitis vinifera]	0.897	0.847	0.718	0.0
357519269		677	YTH domain family protein [Medicago trun	0.882	0.830	0.682	0.0
356525321		659	PREDICTED: uncharacterized protein LOC10	0.863	0.834	0.638	0.0
356512580		660	PREDICTED: uncharacterized protein LOC10	0.864	0.834	0.631	0.0
449452630		704	PREDICTED: uncharacterized protein LOC10	0.938	0.849	0.688	0.0
118489688		615	unknown [Populus trichocarpa x Populus d	0.833	0.863	0.683	0.0
297739755		694	unnamed protein product [Vitis vinifera]	0.941	0.864	0.605	0.0
255544682		636	yth domain-containing protein, putative	0.843	0.844	0.608	0.0

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

 Score =  907 bits (2345), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 468/623 (75%), Positives = 521/623 (83%), Gaps = 23/623 (3%)

Query: 28  DGNVGEWDDYTRY----------GVYGDNGSLMYHHGYGYAPYPPYSPATSPVPTMGTDG 77
           DG   EW+DY+RY          GVYGDNGSLMYHHGYGYAPY PY PA SPVPT+G DG
Sbjct: 89  DGTTNEWEDYSRYMNPEGVEMPAGVYGDNGSLMYHHGYGYAPYGPYPPAGSPVPTVGHDG 148

Query: 78  QLYGPQHYQYPH-YFQPITPTSSPYSPSPVAPTPGDIPTSVAADQKPLPVESTNGKSNGV 136
           QLYGPQHYQYP  YFQP TPTS PY+PSP AP PG++ TSVAADQKPL VE+ NG SNG+
Sbjct: 149 QLYGPQHYQYPAPYFQPPTPTSGPYNPSPGAPPPGEVTTSVAADQKPLSVETANGNSNGI 208

Query: 137 ANAGGVKGNNGSAPFKPTYQ--PFNSNNTYGRGSLPGRGPASGYQDPRCNLDGMRSPIPW 194
           A+ G +KGNNGSAP KPTYQ  PFNSN +YGRG+LPG  PASGYQDPR   DG+RSP+PW
Sbjct: 209 ASGGAMKGNNGSAPVKPTYQNSPFNSNGSYGRGALPGGVPASGYQDPRFAFDGLRSPLPW 268

Query: 195 LDGPVISDARPVASNTFNSSISNVNNVASSRNQNYRPNSHYMGLHHPRPMSGMGAAQGFM 254
           LDGPV SD RPV S +  SSISN NNV +SRN   RP+SH+MGL HPRPMSGMG A GFM
Sbjct: 269 LDGPVFSDPRPVTSTSITSSISNANNVTASRN--LRPHSHFMGLQHPRPMSGMGTAHGFM 326

Query: 255 NMNRMYPNKLYGQYGNTFRSGVGFGSNGYDLRTNGRGWLSVDGKYKSRGRGNGYFGYGNE 314
           N  RMYPNKLYGQYGNT RSG+GFGSN YD RTNGR WL+VD KYK RGRG G+FGYGNE
Sbjct: 327 N--RMYPNKLYGQYGNTVRSGLGFGSNAYDSRTNGRSWLAVDNKYKPRGRGIGFFGYGNE 384

Query: 315 NMDGLNELNRGPRAKGAKNQKGSAPNALPVKEQNVLTNGTAEDENDKISLSPDRDEYNKA 374
           NMDGLNELNRGPRAK +KNQKG AP  +  K QNV +NG+ ++E D+ S+ PDRD+YN A
Sbjct: 385 NMDGLNELNRGPRAKSSKNQKGLAP--VTAKGQNVQSNGSNDEEKDRTSVFPDRDQYNHA 442

Query: 375 DFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLL 434
           DFP E+T+AKFF+IKSYSEDDVHKSIKY+VWASTPNGNKKLDAAY+EAQ+KS  CPVFL 
Sbjct: 443 DFPVEHTEAKFFIIKSYSEDDVHKSIKYNVWASTPNGNKKLDAAYREAQEKSAGCPVFLF 502

Query: 435 FSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENN 494
           FSVNTSGQFVGLAEM G VDF+KNVEYWQQDKW GCF VKWH+VKDVPNSLLKHITLENN
Sbjct: 503 FSVNTSGQFVGLAEMVGHVDFHKNVEYWQQDKWNGCFSVKWHVVKDVPNSLLKHITLENN 562

Query: 495 ENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIQEKKAKQQQFQ 554
           ENKPVTNSRDTQE+KLEQGL+++KIFK+H SKTCILDDF FYE+RQKTIQEKKAKQQQFQ
Sbjct: 563 ENKPVTNSRDTQEVKLEQGLQMLKIFKEHCSKTCILDDFAFYESRQKTIQEKKAKQQQFQ 622

Query: 555 KQVWEGKPAEEKKELANGELKTQKSSEVASDLVEERTTTVQSNGDLRLSENGSVAKTGDA 614
           KQVWEGKP +EK    NGELK QKS EVASDL++E T  VQ+NGD ++ ENGSVAK+GDA
Sbjct: 623 KQVWEGKPTDEK----NGELKPQKSLEVASDLIKESTPAVQANGDRKVFENGSVAKSGDA 678

Query: 615 HKGSKPVVVSEKVILANGVANGC 637
            K  KP +VSEK I+ANGVANG 
Sbjct: 679 PKAFKPSIVSEKRIVANGVANGV 701

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

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

>gi\|297746505\|emb\|CBI16561.3\| unnamed protein product [Vitis vinifera]	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\|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\|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

>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

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		637
TAIR\|locus:2092815		667	ECT2 "evolutionarily conserved	0.879	0.839	0.525	7.4e-153
TAIR\|locus:2159391		495	ECT3 "AT5G61020" [Arabidopsis	0.474	0.610	0.631	2.5e-102
TAIR\|locus:2095938		428	ECT1 "evolutionarily conserved	0.470	0.700	0.548	1e-90
TAIR\|locus:2089280		634	ECT5 "AT3G13060" [Arabidopsis	0.455	0.457	0.515	3.6e-82
TAIR\|locus:2207405		528	ECT8 "AT1G79270" [Arabidopsis	0.346	0.418	0.573	4.7e-70
TAIR\|locus:2023807		639	ECT7 "AT1G48110" [Arabidopsis	0.339	0.338	0.580	1.2e-69
TAIR\|locus:2088995		595	ECT6 "AT3G17330" [Arabidopsis	0.331	0.354	0.601	3.8e-69
TAIR\|locus:2161213		528	ECT10 "evolutionarily conserve	0.321	0.388	0.544	2.6e-67
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 = 1491 (529.9 bits), Expect = 7.4e-153, P = 7.4e-153
 Identities = 315/600 (52%), Positives = 369/600 (61%)

Query:    29 GNVGEWDDYTRY----------GVYGDNGSLMXXXXXXXXXXXXXXXXXXXXXXMGTDGQ 78
             G+  EW DY  Y          G+YG+NG+++                      +G +GQ
Sbjct:    87 GSGQEWTDYPAYTNPEGVDMNSGIYGENGTVVYPQGYGYAAYPYSPATSPAPQ-LGGEGQ 145

Query:    79 LYGPQHYQYPHYFQXXXXXXXXXXXXXXXXXXGDIPTSVAADQKPLPVESTNGKSXXXXX 138
             LYG Q YQYP+YF                    + P  V    K LP +S N  S     
Sbjct:   146 LYGAQQYQYPNYFPNSGPYASSVATPTQPDLSANKPAGV----KTLPADSNNVASAAGIT 201

Query:   139 XXXXXXXXXSAPFKPTYQP-FN-SNNTYGRGSLPGRGPASGYQDPRCNLDGMRSPIPWLD 196
                      SAP KPT Q   N S+N YG G+ PG G A+GYQDPR   +G  +P+PW D
Sbjct:   202 KGSNG----SAPVKPTNQATLNTSSNLYGMGA-PGGGLAAGYQDPRYAYEGYYAPVPWHD 256

Query:   197 GPVISDA-RPVAXXXXXXXXXXXXXXXXXXXXXYRPNSHYMGLHHPRPMSGMGAAQGFMN 255
             G   SD  RPV+                     YR NSHY  +H P  ++G G AQG+ N
Sbjct:   257 GSKYSDVQRPVSGSGVASSYSKSSTVPSSRNQNYRSNSHYTSVHQPSSVTGYGTAQGYYN 316

Query:   256 MNRMYPNKLYGQYGNTFRSGVGFGSNGYDLRTNGRGWLSVDGKYKSXXXXXXXXXXXXEN 315
               RMY NKLYGQYG+T RS +G+GS+GYD RTNGRGW + D KY+S             N
Sbjct:   317 --RMYQNKLYGQYGSTGRSALGYGSSGYDSRTNGRGWAATDNKYRSWGRGNSYYYGNENN 374

Query:   316 MDGLNELNRGPRAKGAKNQKGSAPNALPVKEQNVLTNGTAEDENDKISLSPDRDEYNKAD 375
             +DGLNELNRGPRAKG KNQKG+  ++L VKEQ   +N T   E D   + PDR++YNK D
Sbjct:   375 VDGLNELNRGPRAKGTKNQKGNLDDSLEVKEQTGESNVTEVGEADNTCVVPDREQYNKED 434

Query:   376 FPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLF 435
             FP +Y +A FF+IKSYSEDDVHKSIKY+VWASTPNGNKKL AAYQEAQQK+  CP+FL F
Sbjct:   435 FPVDYANAMFFIIKSYSEDDVHKSIKYNVWASTPNGNKKLAAAYQEAQQKAGGCPIFLFF 494

Query:   436 SVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNE 495
             SVN SGQFVGLAEM GPVDFN NVEYWQQDKWTG FP+KWHIVKDVPNSLLKHITLENNE
Sbjct:   495 SVNASGQFVGLAEMTGPVDFNTNVEYWQQDKWTGSFPLKWHIVKDVPNSLLKHITLENNE 554

Query:   496 NKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIXXXXXXXXXXXX 555
             NKPVTNSRDTQE+KLEQGLK++KIFK+H SKTCILDDF FYE RQKTI            
Sbjct:   555 NKPVTNSRDTQEVKLEQGLKIVKIFKEHSSKTCILDDFSFYEVRQKTILEKKAKQTQKQ- 613

Query:   556 XVWEGKPAEEKKELANGELKTQKSSEVASDLVEERTTTVQSNGDLRLSENGSVAK--TGD 613
              V E K  +EKKE A  E    K S  A          VQ++ D++++ENGSVAK  TGD
Sbjct:   614 -VSEEKVTDEKKESATAE-SASKESPAA----------VQTSSDVKVAENGSVAKPVTGD 661

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:2207405 ECT8 "AT1G79270" [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:2088995 ECT6 "AT3G17330" [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:
	estExt_fgenesh4_pm.C_LG_III0726	hypothetical protein (522 aa)
		(Populus trichocarpa)
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		637
pfam04146		135	pfam04146, YTH, YT521-B-like domain	2e-68

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

 Score =  218 bits (558), Expect = 2e-68
 Identities = 76/141 (53%), Positives = 99/141 (70%), Gaps = 8/141 (5%)

Query: 384 KFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQF 443
           +FF+IKSY+ED+VH SIKY VWAST + NKKL+ A++EA+      PV+L+FSVN SG+F
Sbjct: 1   RFFIIKSYNEDNVHLSIKYGVWASTSHNNKKLNKAFKEAE------PVYLIFSVNKSGKF 54

Query: 444 VGLAEMAGPVDFNK--NVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTN 501
            G A M  P+DF+   N +     KW G F V+W  VKD+P   L+H+   NNENKPVT 
Sbjct: 55  CGYARMTSPIDFDSTANSQDSSSQKWGGPFKVEWLSVKDLPFHRLRHLKNPNNENKPVTI 114

Query: 502 SRDTQEIKLEQGLKLIKIFKD 522
           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		637
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	94.14
PF01878		143	EVE: EVE domain; InterPro: IPR002740 The EVE domai	81.69

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

Probab=100.00  E-value=3.5e-82  Score=676.97  Aligned_cols=291  Identities=58%  Similarity=0.910  Sum_probs=250.0

Q ss_pred             CCCCCccCccCC-CcccccCCCccccCCCCCCCCCCCCCCCccccccCCccccCCCCCCccCCCCC-CccccccccCCCC
Q 006647          250 AQGFMNMNRMYP-NKLYGQYGNTFRSGVGFGSNGYDLRTNGRGWLSVDGKYKSRGRGNGYFGYGNE-NMDGLNELNRGPR  327 (637)
Q Consensus       250 ~~~~~~~~~~yp-~~~y~~~g~~~~~~~~~g~~~~~~~~~~r~w~~~~~k~~~~~~~~~~~~~~~~-~~~~~~e~nrgpr  327 (637)
                      ..+|+  ++++. .+.|+.+..+...+..|+...+.....+|+|..+++..+..+ ........++ ..+.++|+|||||
T Consensus       176 ~~~~~--~~~~~~~~~~g~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~nrg~~  252 (487)
T KOG1901|consen  176 AQGYY--DQFSSQPGLYGSYQPTGGSGPPYGQSLYANQPKGRSPYGVDNSRPTWG-INYPRLPSDEAGSDSLNEQNRGPR  252 (487)
T ss_pred             ccccc--cccccCcccccCccccCCCCCccCcccccccccCCCCcccCCCccccc-ccCCCccccccccccccccccCcc
Confidence            35555  45555 235555555555578899999998899999999987554444 2222223332 3788999999999


Q ss_pred             CCCCCCCCCCCCCcccccccccccCCCCcccCCcccCCCCCccCCCCCCCCCCCCceEEEEecCChhHHHHHhhcCeeec
Q 006647          328 AKGAKNQKGSAPNALPVKEQNVLTNGTAEDENDKISLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWAS  407 (637)
Q Consensus       328 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~qyN~~~f~~~y~~ARFFIIKS~nedNIhkSIKygVWaS  407 (637)
                      +...+++.........+...+.         .+....++++++||+++|++.+.+||||||||++|||||+||||+|||+
T Consensus       253 s~~~~~~~~~~~~~~~~~~~s~---------~~~~~~~~~~~~yn~~~f~~~~~nAkfFVIKSySEDdVHkSIKY~vWsS  323 (487)
T KOG1901|consen  253 SSDSRGQDINSSGPTEAGSASA---------PESNESVKRRDRYNPPDFLTDYSNAKFFVIKSYSEDDVHKSIKYNVWSS  323 (487)
T ss_pred             cccccCccccCCcchhcccccc---------ccccccccChhhcCccccccccccceEEEEeccChhhhhhhcccceeec
Confidence            9999988765543333322111         1112468899999999999999999999999999999999999999999


Q ss_pred             CCchHHHHHHHHHHHHhhcCCCCEEEEEEeCCCCCeeEEEEecCCCCCCCCchhhccccCCCccceeEEEeecCCCcccc
Q 006647          408 TPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLK  487 (637)
Q Consensus       408 Tp~nnkKLn~AFrea~~k~~~~pVfLfFSVN~SG~FqG~AeM~SpVDf~ks~d~WqqdKw~G~F~VeWi~vkDVPf~~lr  487 (637)
                      |.++|||||+||++++.|.++||||||||||+||||||+|||++||||+++++||+||||.|.|+||||+||||||..||
T Consensus       324 T~~GNKkLdaAYreak~~~~~cPvfLfFSVNaSGqFCGvAEMvgPVdfn~~~~~WqQDKW~G~FpVKWhiVKDVPNs~lr  403 (487)
T KOG1901|consen  324 TLNGNKKLDAAYREAKKKSGKCPVFLFFSVNASGQFCGVAEMVGPVDFNKDMEYWQQDKWSGSFPVKWHIVKDVPNSQLR  403 (487)
T ss_pred             ccCCchhhHHHHHHhhhccCCCCceEEEEEcCCccccceeeeccceecccccchhhhcccceecceeeEEEeeCCcccee
Confidence            99999999999999998999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccCCCCCCceeecCCCcccchHHHHHHHHHHhcCCCCcccccchhhhHHHHHHHHHHHHHhhh
Q 006647          488 HITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIQEKKAKQQQ  552 (637)
Q Consensus       488 HI~N~nNeNKPVt~SRDgQEIe~e~G~qLLkIF~~~~~~tSIlDDF~~Ye~rek~~~~~r~~~~~  552 (637)
                      ||++++|||||||++||+|||.+++|++||+||+++.++|||||||.|||.||+.|+++|+|+..
T Consensus       404 HI~LeNNeNKPVTnSRDTQEV~leqGievlkIfk~y~~~TSiLDDf~~Ye~rq~~~~~~k~r~~~  468 (487)
T KOG1901|consen  404 HIILENNENKPVTNSRDTQEVPLEQGIEVLKIFKSYAAKTSILDDFGFYEERQKIIQDKKARQPP  468 (487)
T ss_pred             EEEeecCCCCCcccccccceecHHHHHHHHHHHHhhcceeeecccccchHHHHHHhhhcccccCc
Confidence            99999999999999999999999999999999999999999999999999999999999998764

>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		637
2yud_A		180	Solution Structure Of The Yth Domain In Yth Domain-		4e-15
2yu6_A		141	Solution Structure Of The Yth Domain In Yth Domain-		2e-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 = 4e-15, Method: Compositional matrix adjust. Identities = 48/145 (33%), Positives = 76/145 (52%), Gaps = 12/145 (8%) Query: 382 DAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSG 441 DA+FF+IKS + ++V + VW++ P KKL+ A++ A+ V L+FSV SG Sbjct: 25 DARFFLIKSNNHENVSLAKAKGVWSTLPVNEKKLNLAFRSARS------VILIFSVRESG 78 Query: 442 QFVGLAEMAGPVDFNKNVEYW------QQDKWTGCFPVKWHIVKDVPNSLLKHITLENNE 495 +F G A ++ + +W G F + W +++P + H+T NE Sbjct: 79 KFQGFARLSSESHHGGSPIHWVLPAGMSAKMLGGVFKIDWICRRELPFTKSAHLTNPWNE 138 Query: 496 NKPVTNSRDTQEIKLEQGLKLIKIF 520 +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		637
2yu6_A		141	YTH domain-containing protein 2; structural genomi	3e-62
2yud_A		180	YTH domain-containing protein 1; structure genomic	3e-61
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-10
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
3h0g_A		1752	DNA-directed RNA polymerase II subunit RPB1; trans	1e-05
3h0g_A		1752	DNA-directed RNA polymerase II subunit RPB1; trans	9e-05
3h0g_A		1752	DNA-directed RNA polymerase II subunit RPB1; trans	6e-04
1twf_A		1733	B220, DNA-directed RNA polymerase II largest subun	1e-05
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	1e-04
3lvg_D		190	LCB, clathrin light chain B; SELF assembly, coated	2e-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 =  201 bits (513), Expect = 3e-62
 Identities = 40/143 (27%), Positives = 77/143 (53%), Gaps = 7/143 (4%)

Query: 379 EYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVN 438
             +  ++F++KS +  ++  S +  +W++TP+  +KL+ A+ E+        V+L+FSV 
Sbjct: 4   GSSGVRYFIMKSSNLRNLEISQQKGIWSTTPSNERKLNRAFWESS------IVYLVFSVQ 57

Query: 439 TSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKP 498
            SG F G + M+  +   K+   W      G F V+W   + +P     H+    N+NK 
Sbjct: 58  GSGHFQGFSRMSSEIGREKSQ-DWGSAGLGGVFKVEWIRKESLPFQFAHHLLNPWNDNKK 116

Query: 499 VTNSRDTQEIKLEQGLKLIKIFK 521
           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

>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

>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

>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		637
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,	96.24
2p5d_A		147	UPF0310 protein mjecl36; NPPSFA, national project	94.94

>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=1.6e-54  Score=415.98  Aligned_cols=166  Identities=31%  Similarity=0.539  Sum_probs=156.2

Q ss_pred             cCCCCCccCCCCCCCCCCCCceEEEEecCChhHHHHHhhcCeeecCCchHHHHHHHHHHHHhhcCCCCEEEEEEeCCCCC
Q 006647          363 SLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQ  442 (637)
Q Consensus       363 ~~~~~~~qyN~~~f~~~y~~ARFFIIKS~nedNIhkSIKygVWaSTp~nnkKLn~AFrea~~k~~~~pVfLfFSVN~SG~  442 (637)
                      ...+++++||+.++..  +++|||||||++++|||+|++||||+||++||++|++||++++      +||||||||+||+
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            3466789999988774  8999999999999999999999999999999999999999984      8999999999999


Q ss_pred             eeEEEEecCCCCCCCCchhhc------cccCCCccceeEEEeecCCCccccccccCCCCCCceeecCCCcccchHHHHHH
Q 006647          443 FVGLAEMAGPVDFNKNVEYWQ------QDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKL  516 (637)
Q Consensus       443 FqG~AeM~SpVDf~ks~d~Wq------qdKw~G~F~VeWi~vkDVPf~~lrHI~N~nNeNKPVt~SRDgQEIe~e~G~qL  516 (637)
                      |||||||+|+++++....+|+      +++|+|.|+|+||+++||||..++||+|++||||||+++||||||++++|++|
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            999999999999988888996      46799999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCCCcccccchhhhHHHHHHH
Q 006647          517 IKIFKDHPSKTCILDDFGFYETRQKTI  543 (637)
Q Consensus       517 LkIF~~~~~~tSIlDDF~~Ye~rek~~  543 (637)
                      |+||+.+       ++|++|+.|+|+.
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            9999886       5799999999874

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		637
d2hd9a1		145	Hypothetical protein PH1033 {Pyrococcus horikoshii	93.88

>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=93.88  E-value=0.061  Score=47.60  Aligned_cols=124  Identities=11%  Similarity=0.165  Sum_probs=76.8

Q ss_pred             EEEEecCChhHHHHHhhcCeeecCCchHHHHHHHHHHHHhhcCCCCEEEEEEeCCC--------CCeeEEEEecCCCCCC
Q 006647          385 FFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTS--------GQFVGLAEMAGPVDFN  456 (637)
Q Consensus       385 FFIIKS~nedNIhkSIKygVWaSTp~nnkKLn~AFrea~~k~~~~pVfLfFSVN~S--------G~FqG~AeM~SpVDf~  456 (637)
                      |+|+=+ |+||+...++.|+|.......+.|+..        ..+.-+||++....        +.|.|+++.++....+
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        23578888885433        4799999999876444


Q ss_pred             CCchhhccccCCC-----ccceeEEEeecCCCccccccccCCCCCCc---eeecCC-CcccchHHHHHHHHH
Q 006647          457 KNVEYWQQDKWTG-----CFPVKWHIVKDVPNSLLKHITLENNENKP---VTNSRD-TQEIKLEQGLKLIKI  519 (637)
Q Consensus       457 ks~d~WqqdKw~G-----~F~VeWi~vkDVPf~~lrHI~N~nNeNKP---Vt~SRD-gQEIe~e~G~qLLkI  519 (637)
                      .+ ..|...+..+     .++|+|+.+.+||+..+.- +|+.-.||.   ...-|. -.||+.+....|-++
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 3465443322     3789999999999764321 111222221   222343 346777776666554

PyMOL of d2hd9a1