Citrus Sinensis ID: 008447

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-----

MHDAEPDPGQSEGERDQSSQEVDVVDQREESEAKYTDSDEKEEYGQRVATSRRREVIESGSERSEENHYPDHEDEEVDQARSPSRSPGGEEKDQTHISHSAAEIRDVFGDSDEEDVGEYAIRNDIDQDSNRSPMEEEGSYEKSIRPEDIVPDEDMHYESEEEHVEPKHKEKPVGPPLELEIPLRPPPADPTKMNMIKVSNIMGIDPKPFDPKTYVEEDTFVTDESGAKKRIRLENNIVRWRTVKNKDGMTSYESNARFVRWSDGSLQLQIGNEVLDITVQDAQHDQAHLFLRHGKGILQSQGRILKKMRFIPSSLSSNSHRLLTALVDSRHKKVYKVKNCITDIDPEREKEEKERAESQNIRANVLLNRKREKINRKYTQTVERRRQLSTGYLEDALEEDDETDYHDSRRSRRRFEEELEAEVRAEKRIINAKKPQGHRDIPRKSSTLPAAKSSRRPVDFSESEREESEYETDGEEDERSPLRKRVEGPEQDYEEEEEEEEEEQEEEPDINRASDDEEEAVEPKQKARDSGSNHKRRGIESDEDSPPRKMPTHRRMAVVYDSDEE

ccccccccccccccccccccccccccHHccccccccccHHHHHccccccccHHHHHHcccccccccccccccccHHHHHcccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccEEEEccccccccccccccccccccccccccHHHHHHccccccccEEEEEEEccccccEEcccccEEEEccccEEEEEcccccccccccccccccEEEEEccccEEEEEEEEccEEEEEcccccHHHHHHHHHHHHHHHcccccccEEEccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccHHHHHccccccccccccHHHHccccccccHHHHHHHHHHHHcccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccc

ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccHcccccccccccccccEEEEccccccccccccEEEEEccccEEccccccccHHcccHHHHccccccccHHHEccccEEEEEEEEcccccEEEEcccEEEEEccccEEEEEcccEEEEEEccccccccEEEEEccccEEEEEEEEEcEEEEEccccccHHHHHHHHHHHHHccccccEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHcccccccccccccccccccccccccccHcccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHHcccccHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHccHcccccccccccccccccccccccccccccccEEEEEccccc

mhdaepdpgqsegerdqssqevdVVDQreeseakytdsdekeeygqrVATSRRREVIesgserseenhypdhedeevdqarspsrspggeekdqthisHSAAEIRdvfgdsdeedvgeyairndidqdsnrspmeeegsyeksirpedivpdedmhyeseeehvepkhkekpvgppleleiplrpppadptkmnmikvsnimgidpkpfdpktyveedtfvtdesgakkriRLENNIVRWRtvknkdgmtsyesnarfvrwsdgslqlqignevLDITVQDAQHDQAHLFLRHGKGILQSQGRILKKmrfipsslssnsHRLLTALVDSrhkkvykvkncitdidpereKEEKERAESQNIRANVLLNRKREKINRKYTQTVERRRQLSTGYLedaleeddetdyhdsrrsRRRFEEELEAEVRAEKRIINakkpqghrdiprksstlpaakssrrpvdfsesereeseyetdgeedersplrkrvegpeqdyeeeeeeeeeeqeeepdinrasddeeeavepkqkardsgsnhkrrgiesdedspprkmpthrrmavvydsdee

mhdaepdpgqsegerdqssqevdvvdqreeseakytdsdekeeygqrvatsrrreviesgserseenhypdhedeevdqarspsrspggeekdqthishsaaeirdvfgdsdeedVGEYAirndidqdsnrspmeeegsyeksirpedivpDEDMHYESeeehvepkhkekpvgppLELEIPLRPPPADPTKMNMIKVSNIMGIDPKPFDPKTYVEEDtfvtdesgakkrirlennivrwrtvknkdgmtsyeSNARFVRWSDGSLQLQIGNEVLDITVQDAQHDQAHLFLRHGKGILQSQGRILKKMRFipsslssnsHRLLTAlvdsrhkkvykvkncitdidperekeekeraesqniranvllnrkrekinrkytqtverrrqlstgyledaleeddetdyhdsrrsrrrFEEELEAEVraekriinakkpqghrdiprksstlpaakssrrpvdfsesereeseyetdgeedersplrkrvegpeqdyeeeeeeeeeeqeeepdinrasddeeeavepkqkardsgsnhkrrgiesdedspprkmpthrrmavvydsdee

MHDAEPDPGQSEGERDQSSQEVDVVDQREESEAKYTDSDEKEEYGQRVATSRRREVIESGSERSEENHYPDHEDEEVDQARSPSRSPGGEEKDQTHISHSAAEIRDVFGDSDEEDVGEYAIRNDIDQDSNRSPMEEEGSYEKSIRPEDIVPDEDMHYESeeehvepkhkekpvGppleleiplrpppADPTKMNMIKVSNIMGIDPKPFDPKTYVEEDTFVTDESGAKKRIRLENNIVRWRTVKNKDGMTSYESNARFVRWSDGSLQLQIGNEVLDITVQDAQHDQAHLFLRHGKGILQSQGRILKKMRFIPSSLSSNSHRLLTALVDSRHKKVYKVKNCITDIDPerekeekeraeSQNIRANVLLNRKREKINRKYTQTVERRRQLSTGYledaleeddetdYHDSrrsrrrfeeeleaevraekrIINAKKPQGHRDIPRKSSTLPAAKSSRRPVDFsesereeseyetdgeedersPLRKRVEGPEQDYeeeeeeeeeeqeeePDINRASDDEEEAVEPKQKARDSGSNHKRRGIESDEDSPPRKMPTHRRMAVVYDSDEE

********************************************************************************************************************************************************************************************************IMG*********TYVEEDTFVTD***AKKRIRLENNIVRWRTVKNKDGMTSYESNARFVRWSDGSLQLQIGNEVLDITVQDAQHDQAHLFLRHGKGILQSQGRILKKMRFIPS*****SHRLLTALVDSRHKKVYKVKNCITDI*****************************************************************************************************************************************************************************************************************************

*********************************************************************************************************************************************************************************ELEIPLRPPPADPTKMNMIKVSNIMGIDPKPFDPKTYVE******************NNIVRWRTVK******SYESNARFVRWSDGSLQLQIGNEVLDITVQDAQHDQAHLFLRHGKGILQSQGRILKKMRFIPSSLSSNS******************************************************************************************************************************************************************************************************************************************************

*************************************************************************************************SHSAAEIRDVFGDSDEEDVGEYAIRNDIDQDS*************SIRPEDIVPDEDM********************PLELEIPLRPPPADPTKMNMIKVSNIMGIDPKPFDPKTYVEEDTFVTDESGAKKRIRLENNIVRWRTVKNKDGMTSYESNARFVRWSDGSLQLQIGNEVLDITVQDAQHDQAHLFLRHGKGILQSQGRILKKMRFIPSSLSSNSHRLLTALVDSRHKKVYKVKNCITDIDPE***********QNIRANVLLNRKREKINRKYTQTVERRRQLSTGYLEDAL***********************AEVRAEKRIINA************************************************************************************************************************HRRMAVVYDSDEE

***************************************************************************************************************************************************************************PVGPPLELEIPLRPPPADPTKMNMIKVSNIMGIDPKPFDPKTYVEEDT*V***SGAKKRIRLENNIVRWRTVKNKDGMTSYESNARFVRWSDGSLQLQIGNEVLDITVQDAQHDQAHLFLRHGKGILQSQGRILKKMRFIPSSLSSNSHRLLTALVDSRHKKVYKVKNCITDIDPEREKEEKERAESQNIRANVLLN********************************************RRFEEELEAEVRAEKRIINA**************************************************************************************************************************R**********

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MHDAEPDPGQSEGERDQSSQEVDVVDQREESEAKYTDSDEKEEYGQRVATSRRREVIESGSERSEENHYPDHEDEEVDQARSPSRSPGGEEKDQTHISHSAAEIRDVFGDSDEEDVGEYAIRNDIDQDSNRSPMEEEGSYEKSIRPEDIVPDEDMHYESEEEHVEPKHKEKPVGPPLELEIPLRPPPADPTKMNMIKVSNIMGIDPKPFDPKTYVEEDTFVTDESGAKKRIRLENNIVRWRTVKNKDGMTSYESNARFVRWSDGSLQLQIGNEVLDITVQDAQHDQAHLFLRHGKGILQSQGRILKKMRFIPSSLSSNSHRLLTALVDSRHKKVYKVKNCITDIDPEREKEExxxxxxxxxxxxxxxxxxxxxINRKYTQTVERRRQLSTGYLEDALEEDDETDYHDSRRSRRRFEEELEAEVRAEKRIINAKKPQGHRDIPRKSSTLPAAKSSRRPVDFSESEREESEYETDGEEDERSPLRKRxxxxxxxxxxxxxxxxxxxxxxxxxxxxSDDEEEAVEPKQKARDSGSNHKRRGIESDEDSPPRKMPTHRRMAVVYDSDEE

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		565	2.2.26 [Sep-21-2011]
Q6NYV9		696	RNA polymerase-associated	yes	no	0.387	0.314	0.343	3e-29
Q52KV5		703	RNA polymerase-associated	N/A	no	0.373	0.300	0.343	6e-29
Q8WVC0		666	RNA polymerase-associated	yes	no	0.373	0.316	0.339	6e-28
Q641X2		678	RNA polymerase-associated	yes	no	0.373	0.311	0.339	7e-28
Q5XJE5		667	RNA polymerase-associated	yes	no	0.373	0.316	0.339	7e-28
Q5R4D6		666	RNA polymerase-associated	yes	no	0.371	0.315	0.342	3e-27
Q94546		725	Another transcription uni	yes	no	0.288	0.224	0.394	3e-24
Q54MB8		487	RNA polymerase-associated	yes	no	0.265	0.308	0.380	1e-21
P38439		464	RNA polymerase-associated	yes	no	0.306	0.372	0.331	6e-18
Q9P6R2		429	Uncharacterized protein C	yes	no	0.329	0.433	0.282	2e-13

>sp\|Q6NYV9\|LEO1_DANRE RNA polymerase-associated protein LEO1 OS=Danio rerio GN=leo1 PE=1 SV=1	Back alignment and function desciption

 Score =  130 bits (326), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 79/230 (34%), Positives = 129/230 (56%), Gaps = 11/230 (4%)

Query: 177 LELEIPLRPPPADPTKMNMIKVSNIMGIDPKPFDPKTYVEEDTFVTDESG-AKKRIRLE- 234
           +E+EIP +      + +  +K+ N + ++P+PFDP+ Y +E           + R++L+ 
Sbjct: 336 IEVEIP-KVSTDLGSDLYFVKLPNFLSVEPRPFDPQYYEDEFEDEEMLDEEGRTRLKLKV 394

Query: 235 NNIVRWRTVKNKDGMTSYESNARFVRWSDGSLQLQIGNEVLDITVQDAQHDQAHLFLRHG 294
            N +RWR+ ++++G    ESNAR V+WSDGS+ L +GNEV D+     Q D  HLF+R G
Sbjct: 395 ENTIRWRSRRDEEGNEVKESNARIVKWSDGSMSLHLGNEVFDVYKAPLQGDHNHLFIRQG 454

Query: 295 KGILQSQGRILKKMRFIPSSLSSNSHRLLTALVDSRHKKVYKVKNC-ITDIDPEREKEEK 353
            G LQ Q     K+ F P S  S +HR +T  +  R  K  K++   +   DPE ++ E 
Sbjct: 455 TG-LQGQAVFKTKLTFRPHSTDSATHRKMTLSLADRCSKTQKIRILPMAGRDPESQRNEM 513

Query: 354 ERAESQNIRANVLLNRKREKINRKYTQTVERRRQLSTGYLE-DALEEDDE 402
            + E + +RA++    +RE   R+  +  + +R L+ GYLE D  +ED+E
Sbjct: 514 IKKEEERLRASI----RRESQQRRMREK-QHQRGLNAGYLEPDRYDEDEE 558

Component of the PAF1 complex (PAF1C) which has multiple functions during transcription by RNA polymerase II. PAF1C associates with RNA polymerase II, is involved in transcriptional elongation and in histone modifications including methylation on histone H3 'Lys-4' (H3K4me3) (By similarity). PAF1C seems to be required for multiple steps in cardiac formation. Involved in heart development and required for differentiation of the atrioventricular boundary. Required for neural crest cell development.
Danio rerio (taxid: 7955)

>sp\|Q52KV5\|LEO1_XENLA RNA polymerase-associated protein LEO1 OS=Xenopus laevis GN=leo1 PE=2 SV=1	Back alignment and function description

>sp\|Q8WVC0\|LEO1_HUMAN RNA polymerase-associated protein LEO1 OS=Homo sapiens GN=LEO1 PE=1 SV=1	Back alignment and function description

>sp\|Q641X2\|LEO1_RAT RNA polymerase-associated protein LEO1 OS=Rattus norvegicus GN=Leo1 PE=2 SV=1	Back alignment and function description

>sp\|Q5XJE5\|LEO1_MOUSE RNA polymerase-associated protein LEO1 OS=Mus musculus GN=Leo1 PE=1 SV=2	Back alignment and function description

>sp\|Q5R4D6\|LEO1_PONAB RNA polymerase-associated protein LEO1 OS=Pongo abelii GN=LEO1 PE=2 SV=1	Back alignment and function description

>sp\|Q94546\|ATU_DROME Another transcription unit protein OS=Drosophila melanogaster GN=Atu PE=1 SV=2	Back alignment and function description

>sp\|Q54MB8\|LEO1_DICDI RNA polymerase-associated protein LEO1 OS=Dictyostelium discoideum GN=leo1 PE=3 SV=1	Back alignment and function description

>sp\|P38439\|LEO1_YEAST RNA polymerase-associated protein LEO1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=LEO1 PE=1 SV=1	Back alignment and function description

>sp\|Q9P6R2\|YOH8_SCHPO Uncharacterized protein C13E7.08c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPBC13E7.08c PE=3 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		565
359491648		623	PREDICTED: uncharacterized protein LOC10	0.984	0.892	0.782	0.0
297733888		622	unnamed protein product [Vitis vinifera]	0.982	0.892	0.780	0.0
224121454		620	PAF1 complex component [Populus trichoca	0.973	0.887	0.753	0.0
147820590		718	hypothetical protein VITISV_003891 [Viti	0.984	0.774	0.685	0.0
449439305		623	PREDICTED: uncharacterized protein LOC10	0.973	0.882	0.75	0.0
255547219		629	RNA polymerase-associated protein LEO1,	0.987	0.887	0.738	0.0
356508502		629	PREDICTED: uncharacterized protein LOC10	0.985	0.885	0.722	0.0
356516855		631	PREDICTED: uncharacterized protein LOC10	0.976	0.874	0.720	0.0
297797071		720	hypothetical protein ARALYDRAFT_358320 [	0.982	0.770	0.610	1e-168
30697488		623	leo1-like family protein [Arabidopsis th	0.962	0.873	0.630	1e-162

>gi\|359491648\|ref\|XP_002280975.2\| PREDICTED: uncharacterized protein LOC100248444 [Vitis vinifera]	Back alignment and taxonomy information

 Score =  787 bits (2033), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 442/565 (78%), Positives = 491/565 (86%), Gaps = 9/565 (1%)

Query: 1   MHDAEPDPGQSEGERDQSSQEVDVVDQREESEAKYTDSDEKEEYGQRVATSRRREVIESG 60
           + D +PDPG+SE ERDQSS++V+V DQREESE + T SDEKE YGQRV TSRRR+VIESG
Sbjct: 68  LRDVDPDPGESEAERDQSSEDVEVGDQREESEGRETGSDEKEGYGQRVVTSRRRDVIESG 127

Query: 61  SERSEENHYPDHEDEEVDQARSPSRSPGGEEKDQTHISHSAAEIRDVFGDSDEEDVGEYA 120
           SERSEENHY DHEDEEVDQARSPSRSPG EEKDQTH SHS AEIRDVFG+SD+E+  EYA
Sbjct: 128 SERSEENHYADHEDEEVDQARSPSRSPG-EEKDQTHNSHSVAEIRDVFGESDDEEAAEYA 186

Query: 121 IRNDIDQDSNRSPMEEEGSYEKSIRPEDIVPDEDMHYESEEEHVEPKHKEKPVGPPLELE 180
           + NDI+Q+S RSPMEEEGSYEK++RPEDI+PDED  Y SEEE+VE K KEKPVGPPL LE
Sbjct: 187 VDNDIEQNSIRSPMEEEGSYEKNLRPEDILPDEDAQYGSEEENVEIKSKEKPVGPPLVLE 246

Query: 181 IPLRPPPADPTKMNMIKVSNIMGIDPKPFDPKTYVEEDTFVTDESGAKKRIRLENNIVRW 240
           +PLR PPA P KMNMIKVSNIMGI+PKPFDPKTYVEEDTFVTDESG+KKRIRLENNIVRW
Sbjct: 247 VPLRRPPAHPDKMNMIKVSNIMGIEPKPFDPKTYVEEDTFVTDESGSKKRIRLENNIVRW 306

Query: 241 RTVKNKDGMTSYESNARFVRWSDGSLQLQIGNEVLDITVQDAQHDQAHLFLRHGKGILQS 300
           R VKN DG TSYESNARFVRWSDGSLQL IGNEVLDI+VQDAQHDQ+HLFLRHGKGILQS
Sbjct: 307 RNVKNPDGTTSYESNARFVRWSDGSLQLLIGNEVLDISVQDAQHDQSHLFLRHGKGILQS 366

Query: 301 QGRILKKMRFIPSSLSSNSHRLLTALVDSRHKKVYKVKNCITDIDPEREKEEKERAESQN 360
           QGRIL+KMRF+PSSLSSNSHRLLTALVDSRHKKVYKVKNCITDIDPEREKEEKE+A SQ 
Sbjct: 367 QGRILRKMRFMPSSLSSNSHRLLTALVDSRHKKVYKVKNCITDIDPEREKEEKEKAVSQT 426

Query: 361 IRANVLLNRKREKINRKYTQTVERRRQLSTGYLEDALEEDDETDYHDSRRSRRRFEEELE 420
           IRAN LLNRKREK+NRKYTQTV+R RQLS G+LE+AL+EDDE DYHDSRR RRRFE++LE
Sbjct: 427 IRANQLLNRKREKVNRKYTQTVDRGRQLSPGFLEEALDEDDEPDYHDSRRHRRRFEDDLE 486

Query: 421 AEVRAEKRIINAKKPQGHRDIPRKSSTLPAAKSSRRPVDFSESEREESEYETDGEEDERS 480
            + RAEKRI N KK  GH+DIPRKSS L A KSSRRPVDFS+SEREESEYE+DGEEDERS
Sbjct: 487 MDTRAEKRIFNVKK--GHKDIPRKSS-LSAIKSSRRPVDFSDSEREESEYESDGEEDERS 543

Query: 481 PLRKRVEGPEQDYEEEEEEEEEEQEEEPDINRASDDEEEAVEPKQKARDSGSNHKRRGIE 540
             RKR E  E + E  EE+EEE++ +E +     + EEE  EPKQK ++     KR+GIE
Sbjct: 544 FSRKRAE--EPEEEYAEEDEEEDERDEEEAEANEESEEEVEEPKQKGKEYA---KRKGIE 598

Query: 541 SDEDSPPRKMPTHRRMAVVYDSDEE 565
           SDEDSPPRK  +HRRMA VY+SDEE
Sbjct: 599 SDEDSPPRKTASHRRMAFVYESDEE 623

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|297733888\|emb\|CBI15135.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|224121454\|ref\|XP_002318586.1\| PAF1 complex component [Populus trichocarpa] gi\|222859259\|gb\|EEE96806.1\| PAF1 complex component [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|147820590\|emb\|CAN72101.1\| hypothetical protein VITISV_003891 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|449439305\|ref\|XP_004137426.1\| PREDICTED: uncharacterized protein LOC101221752 [Cucumis sativus] gi\|449486962\|ref\|XP_004157455.1\| PREDICTED: uncharacterized protein LOC101229895 [Cucumis sativus]	Back alignment and taxonomy information

>gi\|255547219\|ref\|XP_002514667.1\| RNA polymerase-associated protein LEO1, putative [Ricinus communis] gi\|223546271\|gb\|EEF47773.1\| RNA polymerase-associated protein LEO1, putative [Ricinus communis]	Back alignment and taxonomy information

>gi\|356508502\|ref\|XP_003522995.1\| PREDICTED: uncharacterized protein LOC100791454 [Glycine max]	Back alignment and taxonomy information

>gi\|356516855\|ref\|XP_003527108.1\| PREDICTED: uncharacterized protein LOC100810965 [Glycine max]	Back alignment and taxonomy information

>gi\|297797071\|ref\|XP_002866420.1\| hypothetical protein ARALYDRAFT_358320 [Arabidopsis lyrata subsp. lyrata] gi\|297312255\|gb\|EFH42679.1\| hypothetical protein ARALYDRAFT_358320 [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|30697488\|ref\|NP_200923.2\| leo1-like family protein [Arabidopsis thaliana] gi\|332010045\|gb\|AED97428.1\| leo1-like family protein [Arabidopsis thaliana]	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		565
TAIR\|locus:2159466		625	VIP4 "VERNALIZATION INDEPENDEN	0.962	0.870	0.523	4.7e-135
UNIPROTKB\|Q52KV5		703	leo1 "RNA polymerase-associate	0.638	0.513	0.253	5.7e-32
ZFIN\|ZDB-GENE-040426-2435		696	leo1 "Leo1, Paf1/RNA polymeras	0.336	0.272	0.348	7e-32
UNIPROTKB\|E1BV70		657	LOC769405 "Uncharacterized pro	0.336	0.289	0.348	1.1e-31
UNIPROTKB\|Q8WVC0		666	LEO1 "RNA polymerase-associate	0.336	0.285	0.348	1.5e-31
UNIPROTKB\|F1RZB7		666	LEO1 "Uncharacterized protein"	0.336	0.285	0.348	4.9e-31
MGI\|MGI:2685031		667	Leo1 "Leo1, Paf1/RNA polymeras	0.336	0.284	0.348	4.9e-31
RGD\|1549772		678	Leo1 "Leo1, Paf1/RNA polymeras	0.336	0.280	0.348	7e-31
UNIPROTKB\|Q641X2		678	Leo1 "RNA polymerase-associate	0.336	0.280	0.348	7e-31
UNIPROTKB\|A4FUW5		584	LEO1 "LEO1 protein" [Bos tauru	0.336	0.325	0.348	7.3e-31

TAIR\|locus:2159466 VIP4 "VERNALIZATION INDEPENDENCE 4" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1323 (470.8 bits), Expect = 4.7e-135, P = 4.7e-135
 Identities = 300/573 (52%), Positives = 363/573 (63%)

Query:     3 DAEPDPGQSEGERDQSSQEVDVVDQREESEAKYTDSDEKEE-YGQRVATSRRREVIESGS 61
             D E DPG+SEGER+QSSQE D    +EESEA+ +DSD KEE +G RVA  RR+EV+ESGS
Sbjct:    72 DVELDPGESEGEREQSSQEAD---PQEESEARDSDSDNKEEEHGGRVAKKRRQEVVESGS 128

Query:    62 ERSEENHYPDHEDEEVDQARSPSRSPGGEEKDQTHISHSAAEIRDVFGDSDEEDVGEYAI 121
             ERS E HY + EDEEVDQ RSP RSP  EEK++  ++ S   IR+VFG SD+ED  EY +
Sbjct:   129 ERSGEKHY-ESEDEEVDQTRSP-RSPS-EEKEEVQVAQSDVNIRNVFGSSDDEDAEEY-V 184

Query:   122 RNDIDQDSNRSPMEEEGSYEKSIRPED-----IVPDEDMHYESXXXXXXXXXXXXXXGXX 176
             RND++QD +RSP+E+E   EK +RP+D     I+P+ED  YES              G  
Sbjct:   185 RNDVEQDEHRSPIEDEEGSEKDLRPDDMVLDDIIPEEDPQYESEAEHVEARYRERPVGPP 244

Query:   177 XXXXXXXXXXXADPTKMNMIKVSNIMGIDPKPFDPKTYVEEDTFVTDESGAKKRIRLENN 236
                         DP KMNMIKVSNIMGIDPKPFD KT+VEEDTF+TDE GAK RIRL+NN
Sbjct:   245 LEVEVPFRPPPGDPVKMNMIKVSNIMGIDPKPFDAKTFVEEDTFMTDEPGAKNRIRLDNN 304

Query:   237 IVRWRTVKNKDGMTSYESNARFVRWSDGSLQLQIGNEVLDITVQDAQHDQAHLFLRHGKG 296
             IVR R VK++DG T  ESNARFVRWSDGSLQL IGNEVL+IT QDA+ DQ HLF++H KG
Sbjct:   305 IVRHRFVKSRDGKTYSESNARFVRWSDGSLQLLIGNEVLNITEQDAKEDQNHLFIKHEKG 364

Query:   297 ILQSQGRILKKMRFIPSSLSSNSHRLLTALVDSRHKKVYKVKNCITDIDPXXXXXXXXXX 356
             ILQSQGRILKKMRF PSSL+SNSHRLLTA+V+SR KK +KVKNC+TDIDP          
Sbjct:   365 ILQSQGRILKKMRFTPSSLTSNSHRLLTAIVESRQKKAFKVKNCVTDIDPEREKEKREKA 424

Query:   357 XSQNIRANVLLNRKREKINRKYTQTVERRRQLSTGYXXXXXXXXXXXXYHDSXXXXXXXX 416
              SQN++A+  L++ REKI RKY   VERR QLSTGY            Y  +        
Sbjct:   425 ESQNLKASTKLSQAREKIKRKYPLPVERR-QLSTGYLEDALDEDDED-YRSNRGYEEDLE 482

Query:   417 XXXXXXXXXXXXIINAKKPQGHRDIPRKSSTLPAAKSSRRPVDFXXXXXXXXXXXXXXXX 476
                         I+NAKK   H+ IP +SS + +A+ SRR +++                
Sbjct:   483 AEAQRERR----ILNAKK--SHKGIPGRSS-MTSARPSRRQMEYSESEREESEYETEEEE 535

Query:   477 XXXXPLRKRVEGPEQDYXXXXXXXXXXXXXXPDINRASDD--EEEAVEPKQKARDS-GSN 533
                 P R R +  E +Y                 NR SD+  EEE V   +  +D  GS 
Sbjct:   536 EEKSPARGRGKDSEDEYEEDAEEDEEERGKS---NRYSDEDEEEEEVAGGRAEKDHRGSG 592

Query:   534 HKRRGIESDED-SPPRKMPTHRRMAVVYDSDEE 565
              KR+GIESDE+ SPPRK PTHRR AV+ DSDE+
Sbjct:   593 RKRKGIESDEEESPPRKAPTHRRKAVIDDSDED 625

GO:0005634 "nucleus" evidence=ISM

GO:0009910 "negative regulation of flower development" evidence=IMP

GO:0010048 "vernalization response" evidence=RCA;IMP

GO:0005829 "cytosol" evidence=IDA

GO:0000226 "microtubule cytoskeleton organization" evidence=RCA

GO:0000911 "cytokinesis by cell plate formation" evidence=RCA

GO:0008284 "positive regulation of cell proliferation" evidence=RCA

UNIPROTKB\|Q52KV5 leo1 "RNA polymerase-associated protein LEO1" [Xenopus laevis (taxid:8355)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-040426-2435 leo1 "Leo1, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae)" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

UNIPROTKB\|E1BV70 LOC769405 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

UNIPROTKB\|Q8WVC0 LEO1 "RNA polymerase-associated protein LEO1" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|F1RZB7 LEO1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

MGI\|MGI:2685031 Leo1 "Leo1, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae)" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

RGD\|1549772 Leo1 "Leo1, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae)" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

UNIPROTKB\|Q641X2 Leo1 "RNA polymerase-associated protein LEO1" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

UNIPROTKB\|A4FUW5 LEO1 "LEO1 protein" [Bos taurus (taxid:9913)]	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:
	PAFB901	PAF1 complex component (620 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	PAFC901	PAF1 complex component (1056 aa)	•	•	0.603
	eugene3.00060987	SubName- Full=Putative uncharacterized protein; (321 aa)	•	•	0.498

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		565
pfam04004		312	pfam04004, Leo1, Leo1-like protein	2e-62
TIGR00927		1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	6e-05
pfam03344		715	pfam03344, Daxx, Daxx Family	2e-04
COG5271		4600	COG5271, MDN1, AAA ATPase containing von Willebran	6e-04

>gnl\|CDD\|217838 pfam04004, Leo1, Leo1-like protein	Back alignment and domain information

 Score =  207 bits (529), Expect = 2e-62
 Identities = 109/313 (34%), Positives = 153/313 (48%), Gaps = 13/313 (4%)

Query: 124 DIDQDSNRSPMEEEGSYEKSIRPEDI-----VPDEDMHYESEEEHVEPKHKEKPVGPPLE 178
           D +QDS+RS      S +  +          +  ED    SE E       EK V    +
Sbjct: 1   DREQDSHRSNDRNSLSGDDDLSRGGNGDDGEINGEDPSQFSEIEEATETFPEKDVAVKFQ 60

Query: 179 LEIPLRP--PPADPTKMNMIKVSNIMGIDPKPFDPKTYVEEDTF----VTDESGAKKRIR 232
            E+P +    PA        K+ N + ++PKPFDP+T+  E T        E+  ++RI+
Sbjct: 61  TEVPTQNFGLPAGSNPSFFAKIPNFLSVEPKPFDPETFEAEMTKEDAKDEHEAHWRQRIK 120

Query: 233 LE-NNIVRWRTVKNKDGMTSYESNARFVRWSDGSLQLQIGNEVLDITVQDAQHDQAHLFL 291
           L   N VRWR  K+KDG T+ ESNA+ VRWSDGS  L IGNE+ DI  Q    +Q HL +
Sbjct: 121 LRVENTVRWRENKSKDGKTTKESNAQIVRWSDGSYSLHIGNEIFDIMHQPLSVNQNHLTV 180

Query: 292 RHGKGILQSQGRILKKMRFIPSSLSSNSHRLLTALVDSRHKKVYKVKNCITDIDPEREKE 351
            H + +LQ QG I KK+ F PSS +S +HR LT  + +R +K   VK  I   DPE EK 
Sbjct: 181 SHEQTLLQPQGVIKKKLTFRPSSTNSFTHRKLTRNLATRQRKSGGVKITIVGKDPEHEKR 240

Query: 352 EKERAESQNIRANVLLNRKREKINRKYTQTVERRRQLSTGYLEDALEEDDETDYHDSRRS 411
           E+E+ E Q +RA     + REK+  K            +   + A    ++ D      +
Sbjct: 241 EREKKEEQKLRARR-RRQNREKMKNKPPNRPGHGSGSDSNVAKAATTYSEDEDEGSDCET 299

Query: 412 RRRFEEELEAEVR 424
           R+  E + E   R
Sbjct: 300 RKAKEVKKEGAGR 312

Members of this family are part of the Paf1/RNA polymerase II complex. The Paf1 complex probably functions during the elongation phase of transcription. The Leo1 subunit of the yeast Paf1-complex binds RNA and contributes to complex recruitment. The subunit acts by co-ordinating co-transcriptional chromain modifications and helping recruitment of mRNA 3prime-end processing factors. Length = 312

>gnl\|CDD\|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	Back alignment and domain information

>gnl\|CDD\|217503 pfam03344, Daxx, Daxx Family	Back alignment and domain information

>gnl\|CDD\|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		565
KOG2428		443	consensus Uncharacterized conserved protein [Funct	100.0
PF04004		171	Leo1: Leo1-like protein; InterPro: IPR007149 Membe	100.0

>KOG2428 consensus Uncharacterized conserved protein [Function unknown]	Back alignment and domain information

Probab=100.00  E-value=2e-63  Score=519.60  Aligned_cols=323  Identities=36%  Similarity=0.528  Sum_probs=258.5

Q ss_pred             cccC-CcCCCCCCCCCeeeecc-CCCCCCCCCceeEeecCCcccccCCCCCCCCCcccCCc--ccccch-hccccccccc
Q 008447          162 EHVE-PKHKEKPVGPPLELEIP-LRPPPADPTKMNMIKVSNIMGIDPKPFDPKTYVEEDTF--VTDESG-AKKRIRLENN  236 (565)
Q Consensus       162 e~~E-~~~~ek~~~~~ldlelP-~~~~p~~~~~l~~lKmPNFLsIeP~PFDPeTFe~e~~~--~~dE~g-~~~~l~~eeN  236 (565)
                      +.++ +..++.++.++|++.|| +.+++.....+||+||||||+|+|+||||+||+.+..+  .+++.| .+.++++ +|
T Consensus       113 ~~~e~~~e~e~~~e~v~evevp~~~n~~~~~~~~~fvkiPNFLsVep~PfDPetyede~~~~~~~Dee~r~r~klkv-eN  191 (443)
T KOG2428|consen  113 EEQEEAQEKEPPVETVLEVEVPIFVNPDLGKNPSFFVKIPNFLSVEPKPFDPETYEDEFEDEALLDEEGRQRLKLKV-EN  191 (443)
T ss_pred             cchhhccccccCCCcceEeecccccCCccCCCccceeecCcccccCCcCCChhhhhhhhhhhhhcccchhhhhhhhh-cc
Confidence            3344 66778899999999999 55554455678999999999999999999999986432  335544 4566665 69


Q ss_pred             eEEEeeecCCCCCceecccccEEEeCCCceeeeeccceeeeeccccccCCceEEEeccCceeEEeeeecceEEeecCCCC
Q 008447          237 IVRWRTVKNKDGMTSYESNARFVRWSDGSLQLQIGNEVLDITVQDAQHDQAHLFLRHGKGILQSQGRILKKMRFIPSSLS  316 (565)
Q Consensus       237 TIRWR~~~d~dG~~~kESNARIVRWSDGSlSL~IGnE~FDI~~k~l~~~d~hLyvrh~~~vLQ~qg~It~kLtfrPtSt~  316 (565)
                      |||||+.++.+|..++||||||||||||||||+||||+|||+.+||..+++|||++++++ ||.||+|+++|||+|+||+
T Consensus       192 TVRWR~~~d~~g~~~kESNAriVrWSDGS~SL~lGNEvfDv~~~pl~~~~nhl~vrq~t~-l~~Q~~ik~kltFrP~S~~  270 (443)
T KOG2428|consen  192 TVRWRERRDKDGNKIKESNARIVRWSDGSMSLHLGNEVFDVYKQPLSGNQNHLFVRQGTG-LQGQAVIKKKLTFRPHSTD  270 (443)
T ss_pred             eeeEeeeecCCCCcceeccceEEEecCCceeEeechhHHHhhhcccccCcceeEEecccc-cchhheeeceeEeeccccc
Confidence            999999999999999999999999999999999999999999999999999999999864 8899999999999999999


Q ss_pred             cHHHHHHHHHHHhhhccccccc-ceeccCChhhHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhccccccccCCCcccccc
Q 008447          317 SNSHRLLTALVDSRHKKVYKVK-NCITDIDPEREKEEKERAESQNIRANVLLNRKREKINRKYTQTVERRRQLSTGYLED  395 (565)
Q Consensus       317 S~tHrrLt~ava~r~~K~~kik-~~it~~DPEleKke~EkaEeErlRa~~kl~RKREk~~~r~~~~~~Rr~gLS~g~LE~  395 (565)
                      |.||++||+.|+.+.+|+.+++ +++++.|||.+|.+++|+|.++|||+.+++.++.               +..++++.
T Consensus       271 S~tHrklt~~~a~r~~k~skvk~~~~vg~DPE~~k~~~~KkEee~LRa~~R~~~~~~---------------~~~~~r~~  335 (443)
T KOG2428|consen  271 SATHRKLTLNRADRSQKTSKVKILTIVGKDPEHEKREREKKEEERLRASRRREQRAL---------------MNPKQREK  335 (443)
T ss_pred             hHHHHHHHHHHhhcccccccceeeeeccCCccchhHHHHHHHHHHHHHHHHHHHHHh---------------hcccccCc
Confidence            9999999999999999999998 5689999999999999999999997655332221               12344445


Q ss_pred             ccccCCCCCccchhhhHHHhHHHHHHHHHHhHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCCCCCcchhcccccccccc
Q 008447          396 ALEEDDETDYHDSRRSRRRFEEELEAEVRAEKRIINAKKPQGHRDIPRKSSTLPAAKSSRRPVDFSESEREESEYETDGE  475 (565)
Q Consensus       396 gldeDDe~d~~~~~r~~~~~~~~~~~~~~~e~r~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~  475 (565)
                      ++.+++....|+     ..|..+++.|...+.+|.++|+..  +.   ... |-.........+++++.+++.+++...+
T Consensus       336 ~~~~e~~~~~~n-----~~~~~~~~~e~e~~~~~~a~k~~~--~~---~~~-~~~~~~d~~~~d~de~sd~e~e~~~~~~  404 (443)
T KOG2428|consen  336 RYAEEDSDSAYN-----SPTTYDEEEEGEDEIRLAALKNRY--KE---AGQ-SEEETADIEESDEDESSDEEAEKEKREE  404 (443)
T ss_pred             ccccCccccccC-----CCCccccccccchhhhhhhhhhhh--cc---ccc-cccccccccccccccccchhHHHHHHHH
Confidence            555555555465     456778899999999999999853  32   122 5677778888899999999999998888


Q ss_pred             ccccCcccccCCCCCccchhhHHHHhhhhccccccCCCCchhHhh
Q 008447          476 EDERSPLRKRVEGPEQDYEEEEEEEEEEQEEEPDINRASDDEEEA  520 (565)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  520 (565)
                      ..+.+|..++.++...+|.+..+.+        ..+.++.+++|.
T Consensus       405 kee~~~~~~~~~ees~~~~~~s~~d--------~~~~as~e~~Ed  441 (443)
T KOG2428|consen  405 KEEKLPADGEGREESDEGKDESESD--------KSNRASIEDEED  441 (443)
T ss_pred             hhhcccccccccCcccccccccccc--------cccccccccccc
Confidence            8888888887766665444332221        355566665553

>PF04004 Leo1: Leo1-like protein; InterPro: IPR007149 Members of this family are part of the Paf1/RNA polymerase II complex [, ]	Back alignment and domain information

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	Alignment Graph	Length	Definition	E-value
Query		565
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05

>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

 Score = 46.8 bits (110), Expect = 2e-05
 Identities = 61/466 (13%), Positives = 133/466 (28%), Gaps = 115/466 (24%)

Query: 18  SSQEVDVV------------------DQREESEAKYTDSDEKEEYGQRVATSRRREVIES 59
           S +E+D +                   ++EE   K+ +   +  Y   ++  +  +   S
Sbjct: 47  SKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPS 106

Query: 60  GSERS-EENHYPDHEDEEVDQARSPSRSPGGEEKDQTHISHSAAEIRD-----VFGDSDE 113
              R   E     + D +V    + SR      +    +  +  E+R      + G    
Sbjct: 107 MMTRMYIEQRDRLYNDNQVFAKYNVSR-----LQPYLKLRQALLELRPAKNVLIDGVLG- 160

Query: 114 EDVGEYAIRNDIDQDSNRSPMEEEGSY----EKSIRPEDIV-PDEDMHYESEEEHVEPKH 168
              G+  +  D+          +   +    +    PE ++   + + Y      ++P  
Sbjct: 161 --SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY-----QIDPNW 213

Query: 169 KEKPVGPPLELEIPLRPPPADPTKMNMIK-------------VSNIMGIDPKPFDP--KT 213
             +         I LR          ++K             V N    +   F+   K 
Sbjct: 214 TSRSDHSS---NIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNA--FNLSCKI 268

Query: 214 YV-EEDTFVTDESGAKKRIRLENNIVRWRTVKNKDGMTSYESNARFVRWSDGSLQLQIGN 272
            +      VTD   A     +           +   +T  E  +  +++        +  
Sbjct: 269 LLTTRFKQVTDFLSAATTTHI-------SLDHHSMTLTPDEVKSLLLKY--------LDC 313

Query: 273 EVLDITVQDAQHDQAHL-----FLRHGKGILQ--SQGRILKKMRFIPSSLSSNSHRLLTA 325
              D+  +    +   L      +R G             K    I SSL+         
Sbjct: 314 RPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN--------V 365

Query: 326 LVDSRHKKVYK-----VKNCITDIDPEREKE----EKERAESQNIRANVLLNRKREKINR 376
           L  + ++K++        +    I P         +  +++   +  N L      +   
Sbjct: 366 LEPAEYRKMFDRLSVFPPS--AHI-PTILLSLIWFDVIKSDVMVV-VNKLHKYSLVEKQP 421

Query: 377 KYTQTVERRRQLSTGYLEDALEEDDETDYH----DSRRSRRRFEEE 418
           K     E    + + YLE  ++ ++E   H    D     + F+ +
Sbjct: 422 K-----ESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSD 462

PyMOL of 1vt4

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

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

No hit with probability above 80.00