Citrus Sinensis ID: 002522

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-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------870-------880-------890-------900-------910---

MASRFWTQGGSDSEEESSDYEDDVENEGVETTTQTAGSRYLQANASDSDDSDGQKRVVRSAKDKRFEEMAATVDQMKNAMKINDWVSLQESFDKINKQLDKVMRVTEAEKVPTLYIKALVMLEDFLNQAMANKEAKKKMSSSNAKALNSMKQKLKKNNKQYEDLINKYRENPESEEVKDEDEESEEEEEDEDEEFEEDPDNIRAGSGSDNDDDDDGEEAEDTNDSGWVRQTGRRDKSIDKQFKNPSEITWENVNKKFKEVVAARGRKGTGRFEQVEQLTFLTKVAKTPAQKLEILFSLISAQFDVNPGLSGHMPINVWKKCVVNMLIVLDILTQYPNIVVNDMVEPDENETQKAADYNGTIRVWGNLVAFVERIDVEFFKSLQSIDPHTREYVERLRDEPMFLVLAQDVQEYLEQAGEFKAASKVALRRVELIYYKPQEVYDAMRKLAEQTDEGDNGEKAIEEESRGPSAFISVPELVPRKPTFPENSRTMMDMLVSLIYKYGDERTKARAMLCDIYHHALLDEFSTARDLLLMSHLQDNVQQMDVLSQILFNRAMAQLGLCAFRVGLVAEGHSCLSELYSGGKVKELLAQGISQSRYHEKTPEQERLERRRQMPYHMHINLELLEAVHLICAMLLEVPNMAANTHGAKSKVISKTFRRLLEVSERQTFTGPPENVRDHVMAATRALTKGDFQKAFDVINSLDVWRLLRNRESVLEMLKAKIKEEALRTYLFTFTSSYDSLSLDQLTKMFDLSEVQTHSIVSKMMINEELHASWDQPTHCIIFHDVEHSRLQALAFQLTEKLSILAESNERAMESRTGGGLDLSLRRRDQDYAAGTGAMGGKWQDNLSYNQGRQGRSGFTGGGGRSLALGQAGGYSRGQLRGSGGYSGRAAAARGSQMDGSNRMVSLNKGVRV

ccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEcccccccHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHcHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHccccEEEccccccccccccccccccccEEEEccHHHHHHHHHHHHHHHHcccccccHHHHHHHccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccHHcccccccccccccccccccccccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHccHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHcccccHHHHHHccccccccccccHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHcccHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHccccHHHHHHHHHHHHccccccEEEEccccEEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEccccccc

cccHHEcccccccccccccccccccccccccccccccccEcccccccccccccccEEEccHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHcHHHHHcccccccccccHccccccccccccccccccHHccccccccccccccEEEcccccccccHHccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcHHHHHEEEEEEEEEEEcccccccccccHHHHHHHHHHHHHHHHHHHHcccEEEEcccccccccccccccccccEEEccHHHHHHHHHHHHHHHHHHccccccHHHHHHHccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHcHHHHcHHHHHHHHHHcccccccccccHHHHHHHHHHHHHcccHHHHHHHHHcccHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHccccHHHHHHHHHHHHHHHHHHHcccccccEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEcccccc

masrfwtqggsdseeessdyeddvenegvetttqtAGSRylqanasdsddsdgqkrVVRSAKDKRFEEMAATVDQMKNAMKINDWVSLQESFDKINKQLDKVMRVTEAEKVPTLYIKALVMLEDFLNQAMANKEAKKKMSSSNAKALNSMKQKLKKNNKQYEDLINKyrenpeseevkdedeeseeeeededeefeedpdniragsgsdndddddgeeaedtndsgwvrqtgrrdksidkqfknpseiTWENVNKKFKEVVAArgrkgtgrfeQVEQLTFLTKVAKTPAQKLEILFSLISaqfdvnpglsghmpinVWKKCVVNMLIVLDIltqypnivvndmvepdenetqkaadyngtIRVWGNLVAFVERIDVEFFkslqsidphTREYVERLRDEPMFLVLAQDVQEYLEQAGEFKAASKVALRRVELIYYKPQEVYDAMRKLAEqtdegdngekaieeesrgpsafisvpelvprkptfpensRTMMDMLVSLIYKYGDERTKARAMLCDIYHHALLDEFSTARDLLLMSHLQDNVQQMDVLSQILFNRAMAQLGLCAFRVGLVAEGHSCLSELYSGGKVKELLAQGIsqsryhektpeQERLErrrqmpyhMHINLELLEAVHLICAMLLevpnmaanthgaksKVISKTFRRLLEVSerqtftgppenvrDHVMAATRALTKGDFQKAFDVINSLDVWRLLRNRESVLEMLKAKIKEEALRTYLFTFtssydslsldqltkmfdlsevQTHSIVSKMMINeelhaswdqpthciifhDVEHSRLQALAFQLTEKLSILAESNERAMesrtgggldlslrrrdqdyaagtgamggkwqdnlsynqgrqgrsgftggggrslalgqaggysrgqlrgsggysgraaaargsqmdgsnrmvslnkgvrv

masrfwtqggsdseeessdyedDVENEGVetttqtagsrylqanasdsddsdgqkrVVRSAKDKRFEEMAATVDQMKNAMKINDWVSLQESFDKINKQLDKVMRVTEAEKVPTLYIKALVMLEDFLNQAMANKEAKKKMSSSNAKALNSMKQKLKKNNKQYEDLInkyrenpeseevkdedeeseeeeededeefeedpdniragsgsdndddddgeeaedtndsgwvrqtgrrdksidkqfknpseitwenvnkKFKEVVAArgrkgtgrfeqveqLTFLTKVAKTPAQKLEILFSLISAQFDVNPGLSGHMPINVWKKCVVNMLIVLDILTQYPNIVVNDMVEPDENETqkaadyngtiRVWGNLVAFVERIDVEffkslqsidpHTREYVERLRDEPMFLVLAQDVQEYLEQAGEFKAASKVALRRVELIYYKPQEVYDAMRKLAEQTDEGDNGEKAieeesrgpsafisvpelvprkptfpensrTMMDMLVSLIYKYGDERTKARAMLCDIYHHALLDEFSTARDLLLMSHLQDNVQQMDVLSQILFNRAMAQLGLCAFRVGLVAEGHSCLSELYSGGKVKELLAqgisqsryhektpeqeRLERRRQMPYHMHINLELLEAVHLICAMLLEVPNMAANTHGAKSKVISKTFRRLLEVSerqtftgppenvrdHVMAATRALTKGDFQKAFDVINSLDVWRLLRNRESVLEMLKAKIKEEALRTYLFTFTSSYDSLSLDQLTKMFDLSEVQTHSIVSKMMINEELHASWDQPTHCIIFHDVEHSRLQALAFQLTEKLSILAesneramesrtgggldlslrrRDQDYAAgtgamggkwqdNLSYNQGRQGRSGFTGGGGRSLALGQAGGYSRGQLRGSGGYSGRAAaargsqmdgsnrmvslnkgvrv

MASRFWTQGGsdseeessdyeddVENEGVETTTQTAGSRYLQANASDSDDSDGQKRVVRSAKDKRFEEMAATVDQMKNAMKINDWVSLQESFDKINKQLDKVMRVTEAEKVPTLYIKALVMLEDFLNQamankeakkkmsssnakalnsmkQKLKKNNKQYEDLINKYRenpeseevkdedeeseeeeededeefeedpdNIRagsgsdndddddgeeaedtndSGWVRQTGRRDKSIDKQFKNPSEITWENVNKKFKEVVAARGRKGTGRFEQVEQLTFLTKVAKTPAQKLEILFSLISAQFDVNPGLSGHMPINVWKKCVVNMLIVLDILTQYPNIVVNDMVEPDENETQKAADYNGTIRVWGNLVAFVERIDVEFFKSLQSIDPHTREYVERLRDEPMFLVLAQDVQEYLEQAGEFKAASKVALRRVELIYYKPQEVYDAMRKLAEQTDEGDNGEKAIEEESRGPSAFISVPELVPRKPTFPENSRTMMDMLVSLIYKYGDERTKARAMLCDIYHHALLDEFSTARDLLLMSHLQDNVQQMDVLSQILFNRAMAQLGLCAFRVGLVAEGHSCLSELYSGGKVKELLAQGISQSRYHEKTPEQERLERRRQMPYHMHINLELLEAVHLICAMLLEVPNMAANTHGAKSKVISKTFRRLLEVSERQTFTGPPENVRDHVMAATRALTKGDFQKAFDVINSLDVWRLLRNRESVLEMLKAKIKEEALRTYLFTFTSSYDSLSLDQLTKMFDLSEVQTHSIVSKMMINEELHASWDQPTHCIIFHDVEHSRLQALAFQLTEKLSILAESNERAMESRTGGGLDLSLRRRDQDYAAGTGAMGGKWQDNLSYNqgrqgrsgftggggrslalgqaggYSRGQLrgsggysgraaaargsQMDGSNRMVSLNKGVRV

******************************************************************************AMKINDWVSLQESFDKINKQLDKVMRVTEAEKVPTLYIKALVMLEDFLN************************************************************************************************************************ITWENVNKKFKEVVAARGRKGTGRFEQVEQLTFLTKVAKTPAQKLEILFSLISAQFDVNPGLSGHMPINVWKKCVVNMLIVLDILTQYPNIVVNDMVE*******KAADYNGTIRVWGNLVAFVERIDVEFFKSLQSIDPHTREYVERLRDEPMFLVLAQDVQEYLEQAGEFKAASKVALRRVELIYYKPQEVYDA***********************************************MMDMLVSLIYKYGDERTKARAMLCDIYHHALLDEFSTARDLLLMSHLQDNVQQMDVLSQILFNRAMAQLGLCAFRVGLVAEGHSCLSELYSGGKVKELLAQ***********************PYHMHINLELLEAVHLICAMLLEVPNMAANTHGAKSKVISKTFRRLLEVS***********VRDHVMAATRALTKGDFQKAFDVINSLDVWRLLRNRESVLEMLKAKIKEEALRTYLFTFTSSYDSLSLDQLTKMFDLSEVQTHSIVSKMMINEELHASWDQPTHCIIFHDVEHSRLQALAFQLTEKLSIL************************************************************************************************************

MASRFWT****************************************************SAKDKRFEEMAATVDQMKNAMKINDWVSLQESFDKINKQLDKVMRVTEAEKVPTLYIKALVMLEDFLNQAM*************AKALNSMKQKLKKNNKQYEDLINKYRENP***************************************************************************ITWENVNKKFKEVVAARGRKGTGRFEQVEQLTFLTKVAKTPAQKLEILFSLISAQFDVNPGLSGHMPINVWKKCVVNMLIVLDILTQYPNIVVNDMVEP*************TIRVWGNLVAFVERIDVEFFKSLQSIDPHTREYVERLRDEPMFLVLAQDVQEYLEQAGEFKAASKVALRRVELIYYKPQEVYDAMRK******************************************RTMMDMLVSLIYKYGDERTKARAMLCDIYHHALLDEFSTARDLLLMSHLQDNVQQMDVLSQILFNRAMAQLGLCAFRVGLVAEGHSCLSELYSGGKVK*************************RQMPYHMHINLELLEAVHLICAMLLEVPNMAANTHGAKSKVISKTFRRLLEVSERQTFTGPPENVRDHVMAATRALTKGDFQKAFDVINSLDVWRLLRNRESVLEMLKAKIKEEALRTYLFTFTSSYDSLSLDQLTKMFDLSEVQTHSIVSKMMINEELHASWDQPTHCIIFHDVEHSRLQALAFQLTEKLSILAESNERAM*********************************************************************************************LNK****

***********************************AGSRYLQAN**************RSAKDKRFEEMAATVDQMKNAMKINDWVSLQESFDKINKQLDKVMRVTEAEKVPTLYIKALVMLEDFLNQAMAN**************LNSMKQKLKKNNKQYEDLINKYREN****************************DNIRAG*******************SGWVRQTGRRDKSIDKQFKNPSEITWENVNKKFKEVVAARGRKGTGRFEQVEQLTFLTKVAKTPAQKLEILFSLISAQFDVNPGLSGHMPINVWKKCVVNMLIVLDILTQYPNIVVNDMVEPDENETQKAADYNGTIRVWGNLVAFVERIDVEFFKSLQSIDPHTREYVERLRDEPMFLVLAQDVQEYLEQAGEFKAASKVALRRVELIYYKPQEVYDAMRKLAE****************RGPSAFISVPELVPRKPTFPENSRTMMDMLVSLIYKYGDERTKARAMLCDIYHHALLDEFSTARDLLLMSHLQDNVQQMDVLSQILFNRAMAQLGLCAFRVGLVAEGHSCLSELYSGGKVKELLAQGISQS***********LERRRQMPYHMHINLELLEAVHLICAMLLEVPNMAANTHGAKSKVISKTFRRLLEVSERQTFTGPPENVRDHVMAATRALTKGDFQKAFDVINSLDVWRLLRNRESVLEMLKAKIKEEALRTYLFTFTSSYDSLSLDQLTKMFDLSEVQTHSIVSKMMINEELHASWDQPTHCIIFHDVEHSRLQALAFQLTEKLSILAESN*********GGLDLSLRRRDQDYAAGTGAMGGKWQDNLSYNQGRQGRSGFTGGGGRSLALGQAGGYSRGQLR*****************DGSNRMVSLNKGVRV

*****************************************************QKRVVRSAKDKRFEEMAATVDQMKNAMKINDWVSLQESFDKINKQLDKVMRVTEAEKVPTLYIKALVMLEDFLNQAMANKEAKKKMSSSNAKALNSMKQKLKKNNKQYEDLINKYRENPE*****************************************************WVRQTG**DKSIDKQFKNPSEITWENVNKKFKEVVAARGRKGTGRFEQVEQLTFLTKVAKTPAQKLEILFSLISAQFDVNPGLSGHMPINVWKKCVVNMLIVLDILTQYPNIVVNDMVEPDENETQKAADYNGTIRVWGNLVAFVERIDVEFFKSLQSIDPHTREYVERLRDEPMFLVLAQDVQEYLEQAGEFKAASKVALRRVELIYYKPQEVYDAMRKLAEQT****************************RK**FPENSRTMMDMLVSLIYKYGDERTKARAMLCDIYHHALLDEFSTARDLLLMSHLQDNVQQMDVLSQILFNRAMAQLGLCAFRVGLVAEGHSCLSELYSGGKVKELLAQGISQSRYHEKTPEQERLERRRQMPYHMHINLELLEAVHLICAMLLEVPNMAANTHGAKSKVISKTFRRLLEVSERQTFTGPPENVRDHVMAATRALTKGDFQKAFDVINSLDVWRLLRNRESVLEMLKAKIKEEALRTYLFTFTSSYDSLSLDQLTKMFDLSEVQTHSIVSKMMINEELHASWDQPTHCIIFHDVEHSRLQALAFQLTEKLSILAESNERAMESRT*******************************Y****************************************************************

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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MASRFWTQGGSDSEEESSDYEDDVENEGVETTTQTAGSRYLQANASDSDDSDGQKRVVRSAKDKRFEEMAATVDQMKNAMKINDWVSLQESFDKINKQLDKVMRVTEAEKVPTLYIKALVMLEDFLNQAMANKEAKKKMSSSNxxxxxxxxxxxxxxxxxxxxxxxxxxxxPExxxxxxxxxxxxxxxxxxxxxxxxxPDNIRAGSGSDNDDDDDGEEAEDTNDSGWVRQTGRRDKSIDKQFKNPSEITWENVNKKFKEVVAARGRKGTGRFEQVEQLTFLTKVAKTPAQKLEILFSLISAQFDVNPGLSGHMPINVWKKCVVNMLIVLDILTQYPNIVVNDMVEPDENETQKAADYNGTIRVWGNLVAFVERIDVEFFKSLQSIDPHTREYVERLRDEPMFLVLAQDVQEYLEQAGEFKAASKVALRRVELIYYKPQEVYDAMRKLAEQTDEGDNGEKAIEEESRGPSAFISVPELVPRKPTFPENSRTMMDMLVSLIYKYGDERTKARAMLCDIYHHALLDEFSTARDLLLMSHLQDNVQQMDVLSQILFNRAMAQLGLCAFRVGLVAEGHSCLSELYSGGKVKELLAQGISQSRYHEKTPEQERLERRRQMPYHMHINLELLEAVHLICAMLLEVPNMAANTHGAKSKVISKTFRRLLEVSERQTFTGPPENVRDHVMAATRALTKGDFQKAFDVINSLDVWRLLRNRESVLEMLKAKIKEEALRTYLFTFTSSYDSLSLDQLTKMFDLSEVQTHSIVSKMMINEELHASWDQPTHCIIFHDVEHSRLQALAFQLTEKLSILAESNERAMESRTGGGLDLSLRRRDQDYAAGTGAMGGKWQDNLSYNQGRQGRSGFTGGGGRSLALGQAGGYSRGQLRGSGGYSGRAAAARGSQMDGSNRMVSLNKGVRV

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		913	2.2.26 [Sep-21-2011]
O49160		900	Eukaryotic translation in	yes	no	0.978	0.992	0.718	0.0
Q9XHM1		935	Eukaryotic translation in	N/A	no	0.993	0.970	0.706	0.0
A7E471		870	Eukaryotic translation in	N/A	no	0.780	0.819	0.413	1e-160
A6S043		869	Eukaryotic translation in	N/A	no	0.782	0.821	0.410	1e-158
Q7SBD4		872	Eukaryotic translation in	N/A	no	0.833	0.872	0.379	1e-155
Q0V1H5		853	Eukaryotic translation in	N/A	no	0.789	0.845	0.410	1e-154
A1D9P1		862	Eukaryotic translation in	N/A	no	0.805	0.852	0.397	1e-153
Q4W9S8		862	Eukaryotic translation in	yes	no	0.802	0.850	0.398	1e-153
B0YEH1		862	Eukaryotic translation in	N/A	no	0.802	0.850	0.398	1e-153
A4QSX4		865	Eukaryotic translation in	N/A	no	0.776	0.819	0.396	1e-153

>sp\|O49160\|EIF3C_ARATH Eukaryotic translation initiation factor 3 subunit C OS=Arabidopsis thaliana GN=TIF3C1 PE=1 SV=2	Back alignment and function desciption

 Score = 1258 bits (3254), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 661/920 (71%), Positives = 763/920 (82%), Gaps = 27/920 (2%)

Query: 1   MASRFWTQGGSDSEEESSDYEDDVENEGVETTTQTAGSRYLQANASDSDDSDGQKRVVRS 60
           M SRF+TQ GS+SE+ES DYE +V     E       +RYLQ+ + D DD+D  KRVV+ 
Sbjct: 1   MTSRFFTQVGSESEDES-DYEVEVN----EVQNDDVNNRYLQSGSEDDDDTD-TKRVVKP 54

Query: 61  AKDKRFEEMAATVDQMKNAMKINDWVSLQESFDKINKQLDKVMRVTEAEKVPTLYIKALV 120
           AKDKRFEEM  TVDQMKNAMKINDWVSLQE+FDK+NKQL+KVMR+TEA K PTLYIK LV
Sbjct: 55  AKDKRFEEMTYTVDQMKNAMKINDWVSLQENFDKVNKQLEKVMRITEAVKPPTLYIKTLV 114

Query: 121 MLEDFLNQAMANKEAKKKMSSSNAKALNSMKQKLKKNNKQYEDLINKYRENPESEEVKDE 180
           MLEDFLN+A+ANKEAKKKMS+SN+KALNSMKQKLKKNNK YED INKYRE PE EE K  
Sbjct: 115 MLEDFLNEALANKEAKKKMSTSNSKALNSMKQKLKKNNKLYEDDINKYREAPEVEEEKQP 174

Query: 181 DEESEEEEEDEDEEFEEDP--DNIRAGSGSDNDDDDDGEEAEDTNDSGWVRQTGRRDKSI 238
           +++ +++++D++ E ++D   D      GSD D        E T++  W +   ++DK +
Sbjct: 175 EDDDDDDDDDDEVEDDDDSSIDGPTVDPGSDVD--------EPTDNLTWEKMLSKKDKLL 226

Query: 239 DKQF-KNPSEITWENVNKKFKEVVAARGRKGTGRFEQVEQLTFLTKVAKTPAQKLEILFS 297
           +K   K+P EITW+ VNKKFKE+VAARG+KGT RFE V+QLT LTK+AKTPAQKLEILFS
Sbjct: 227 EKLMNKDPKEITWDWVNKKFKEIVAARGKKGTARFELVDQLTHLTKIAKTPAQKLEILFS 286

Query: 298 LISAQFDVNPGLSGHMPINVWKKCVVNMLIVLDILTQYPNIVVNDMVEPDENETQKAADY 357
           +ISAQFDVNPGLSGHMPINVWKKCV+NML +LDIL +Y NIVV+D VEPDENET K  DY
Sbjct: 287 VISAQFDVNPGLSGHMPINVWKKCVLNMLTILDILVKYSNIVVDDTVEPDENETSKPTDY 346

Query: 358 NGTIRVWGNLVAFVERIDVEFFKSLQSIDPHTREYVERLRDEPMFLVLAQDVQEYLEQAG 417
           +G IRVWGNLVAF+ER+D EFFKSLQ IDPHTREYVERLRDEPMFL LAQ++Q+Y E+ G
Sbjct: 347 DGKIRVWGNLVAFLERVDTEFFKSLQCIDPHTREYVERLRDEPMFLALAQNIQDYFERMG 406

Query: 418 EFKAASKVALRRVELIYYKPQEVYDAMRKLAEQTDEGDNGEKAIEEESRGPSAFISVPEL 477
           +FKAA+KVALRRVE IYYKPQEVYDAMRKLAE  +E     +  +EES  P++FI VPE+
Sbjct: 407 DFKAAAKVALRRVEAIYYKPQEVYDAMRKLAELVEEE-EETEEAKEESGPPTSFIVVPEV 465

Query: 478 VPRKPTFPENSRTMMDMLVSLIYKYGDERTKARAMLCDIYHHALLDEFSTARDLLLMSHL 537
           VPRKPTFPE+SR MMD+LVSLIY+ GDERTKARAMLCDI HHAL+D F TARDLLLMSHL
Sbjct: 466 VPRKPTFPESSRAMMDILVSLIYRNGDERTKARAMLCDINHHALMDNFVTARDLLLMSHL 525

Query: 538 QDNVQQMDVLSQILFNRAMAQLGLCAFRVGLVAEGHSCLSELYSGGKVKELLAQGISQSR 597
           QDN+Q MD+ +QILFNR MAQLGLCAFR G++ E HSCLSELYSG +V+ELLAQG+SQSR
Sbjct: 526 QDNIQHMDISTQILFNRTMAQLGLCAFRAGMITESHSCLSELYSGQRVRELLAQGVSQSR 585

Query: 598 YHEKTPEQERLERRRQMPYHMHINLELLEAVHLICAMLLEVPNMAANTHGAKSKVISKTF 657
           YHEKTPEQER+ERRRQMPYHMH+NLELLEAVHLICAMLLEVPNMAAN+H AK +VISK F
Sbjct: 586 YHEKTPEQERMERRRQMPYHMHLNLELLEAVHLICAMLLEVPNMAANSHDAKRRVISKNF 645

Query: 658 RRLLEVSERQTFTGPPENVRDHVMAATRALTKGDFQKAFDVINSLDVWRLLRNRESVLEM 717
           RRLLE+SERQ FT PPENVRDHVMAATRALTKGDFQKAF+V+NSL+VWRLL+NR+S+L+M
Sbjct: 646 RRLLEISERQAFTAPPENVRDHVMAATRALTKGDFQKAFEVLNSLEVWRLLKNRDSILDM 705

Query: 718 LKAKIKEEALRTYLFTFTSSYDSLSLDQLTKMFDLSEVQTHSIVSKMMINEELHASWDQP 777
           +K +IKEEALRTYLFT++SSY+SLSLDQL KMFD+SE Q HSIVSKMMINEELHASWDQP
Sbjct: 706 VKDRIKEEALRTYLFTYSSSYESLSLDQLAKMFDVSEPQVHSIVSKMMINEELHASWDQP 765

Query: 778 THCIIFHDVEHSRLQALAFQLTEKLSILAESNERAMESRT-GGGLDLSLRRRD--QDYAA 834
           T CI+FH+V+HSRLQ+LAFQLTEKLSILAESNERAMESRT GGGLDLS RRRD  QDYA 
Sbjct: 766 TRCIVFHEVQHSRLQSLAFQLTEKLSILAESNERAMESRTGGGGLDLSSRRRDNNQDYAG 825

Query: 835 GTGAMGGKWQDNLSYNQGRQGRSGFTGGGGRSLALGQAGGYSRGQLRGSGGYSGRAAAA- 893
                GG WQD  +Y QGRQG     GGG  S   GQ  G +RG     GGY+GR  +  
Sbjct: 826 AASGGGGYWQDKANYGQGRQGNRSGYGGGRSSGQNGQWSGQNRG-----GGYAGRVGSGN 880

Query: 894 RGSQMDGSNRMVSLNKGVRV 913
           RG QMDGS+RMVSLN+GVR 
Sbjct: 881 RGMQMDGSSRMVSLNRGVRT 900

Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome.
Arabidopsis thaliana (taxid: 3702)

>sp\|Q9XHM1\|EIF3C_MEDTR Eukaryotic translation initiation factor 3 subunit C OS=Medicago truncatula GN=TIF3C1 PE=2 SV=1	Back alignment and function description

>sp\|A7E471\|EIF3C_SCLS1 Eukaryotic translation initiation factor 3 subunit C OS=Sclerotinia sclerotiorum (strain ATCC 18683 / 1980 / Ss-1) GN=nip1 PE=3 SV=1	Back alignment and function description

>sp\|A6S043\|EIF3C_BOTFB Eukaryotic translation initiation factor 3 subunit C OS=Botryotinia fuckeliana (strain B05.10) GN=nip1 PE=3 SV=1	Back alignment and function description

>sp\|Q7SBD4\|EIF3C_NEUCR Eukaryotic translation initiation factor 3 subunit C OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=nip-1 PE=3 SV=1	Back alignment and function description

>sp\|Q0V1H5\|EIF3C_PHANO Eukaryotic translation initiation factor 3 subunit C OS=Phaeosphaeria nodorum (strain SN15 / ATCC MYA-4574 / FGSC 10173) GN=NIP1 PE=3 SV=1	Back alignment and function description

>sp\|A1D9P1\|EIF3C_NEOFI Eukaryotic translation initiation factor 3 subunit C OS=Neosartorya fischeri (strain ATCC 1020 / DSM 3700 / FGSC A1164 / NRRL 181) GN=nip1 PE=3 SV=1	Back alignment and function description

>sp\|Q4W9S8\|EIF3C_ASPFU Eukaryotic translation initiation factor 3 subunit C OS=Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) GN=nip1 PE=3 SV=1	Back alignment and function description

>sp\|B0YEH1\|EIF3C_ASPFC Eukaryotic translation initiation factor 3 subunit C OS=Neosartorya fumigata (strain CEA10 / CBS 144.89 / FGSC A1163) GN=nip1 PE=3 SV=1	Back alignment and function description

>sp\|A4QSX4\|EIF3C_MAGO7 Eukaryotic translation initiation factor 3 subunit C OS=Magnaporthe oryzae (strain 70-15 / ATCC MYA-4617 / FGSC 8958) GN=NIP1 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		913
225441573		946	PREDICTED: eukaryotic translation initia	0.995	0.960	0.774	0.0
356512984		925	PREDICTED: eukaryotic translation initia	0.991	0.978	0.776	0.0
147860527		1047	hypothetical protein VITISV_038366 [Viti	0.969	0.845	0.742	0.0
356524672		926	PREDICTED: eukaryotic translation initia	0.992	0.978	0.772	0.0
224139946		895	predicted protein [Populus trichocarpa]	0.968	0.987	0.745	0.0
224065745		910	predicted protein [Populus trichocarpa]	0.987	0.991	0.755	0.0
34978809		934	putative translation-initiation factor 3	0.993	0.971	0.739	0.0
356505465		926	PREDICTED: eukaryotic translation initia	0.990	0.976	0.763	0.0
449495544		939	PREDICTED: LOW QUALITY PROTEIN: eukaryot	0.989	0.961	0.729	0.0
449457041		939	PREDICTED: eukaryotic translation initia	0.989	0.961	0.729	0.0

>gi\|225441573\|ref\|XP_002281426.1\| PREDICTED: eukaryotic translation initiation factor 3 subunit C-like [Vitis vinifera]	Back alignment and taxonomy information

 Score = 1428 bits (3696), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 734/948 (77%), Positives = 822/948 (86%), Gaps = 39/948 (4%)

Query: 1   MASRFWT-QGGSDSEEESSDYEDDVENEGVET-TTQTAGSRYLQANASDSDDSDGQKRVV 58
           M+SRFWT QG SD+EEE SDYED VE  G    +   AGSRYLQANASDSDDSDGQKRVV
Sbjct: 1   MSSRFWTAQGDSDTEEEESDYEDGVERGGAAGESAPHAGSRYLQANASDSDDSDGQKRVV 60

Query: 59  RSAKDKRFEEMAATVDQMKNAMKINDWVSLQESFDKINKQLDKVMRVTEAEKVPTLYIKA 118
           RSAKDKRFEEM+ATVDQMKNAMKINDWVSLQESFDKINKQL+KVMRVTE++KVPTLYIKA
Sbjct: 61  RSAKDKRFEEMSATVDQMKNAMKINDWVSLQESFDKINKQLEKVMRVTESDKVPTLYIKA 120

Query: 119 LVMLEDFLNQAMANKEAKKKMSSSNAKALNSMKQKLKKNNKQYEDLINKYRENPESEEVK 178
           LVMLEDFL+QA+ANK+AKKKMSSSNAKALNSMKQKLKKNNKQYEDLINKYRE+PESEE  
Sbjct: 121 LVMLEDFLSQALANKDAKKKMSSSNAKALNSMKQKLKKNNKQYEDLINKYREHPESEEEG 180

Query: 179 DEDEESEEEEEDEDEEFEEDPDNIRAGSGSDNDDDDDGEEAEDTNDSG--WVRQTGRRDK 236
           DEDEE EE+E+   E FEEDP  I   S S+ D++D  +  +   ++G  W ++  ++DK
Sbjct: 181 DEDEEMEEDEDSGSE-FEEDPSKIAMRSDSEEDEEDGEDREDSAAEAGGGWEKKMSKKDK 239

Query: 237 SIDKQF-KNPSEITWENVNKKFKEVVAARGRKGTGRFEQVEQLTFLTKVAKTPAQKLEIL 295
            +DKQF K+PSEITW+ VNKKFKE+VA RGRKGTGR EQVEQLTFLT+VAKTPAQKLEIL
Sbjct: 240 LMDKQFMKDPSEITWDTVNKKFKEIVAVRGRKGTGRIEQVEQLTFLTRVAKTPAQKLEIL 299

Query: 296 FSLISAQFDVNPGLSGHMPINVWKKCVVNMLIVLDILTQYPNIVVNDMVEPDENETQKAA 355
           FS++SAQFDVNP LSGHMPINVWKKCV NML++LDIL Q+ NI+V+D+VEP+ENETQK A
Sbjct: 300 FSVVSAQFDVNPSLSGHMPINVWKKCVQNMLVILDILVQHSNILVDDVVEPEENETQKGA 359

Query: 356 DYNGTIRVWGNLVAFVERIDVEFFKSLQSIDPHTREYVERLRDEPMFLVLAQDVQEYLEQ 415
           DY GTIRVWGNLVAF+ERIDVEFFKSLQ IDPHTREYVERLRDEP+FLVLAQ+VQ+YLE+
Sbjct: 360 DYKGTIRVWGNLVAFLERIDVEFFKSLQCIDPHTREYVERLRDEPLFLVLAQNVQDYLER 419

Query: 416 AGEFKAASKVALRRVELIYYKPQEVYDAMRKLAEQTDEGDNGEKAIEEE-----SRGPSA 470
            G+FKAASKVALRRVELIYYKPQEVYDAM+ LAEQT++ +NGE    EE     SRGP A
Sbjct: 420 VGDFKAASKVALRRVELIYYKPQEVYDAMKNLAEQTEDTENGESEAGEEPRVEESRGPPA 479

Query: 471 FISVPELVPRKPTFPENSRTMMDMLVSLIYKYGDERTKARAMLCDIYHHALLDEFSTARD 530
           F+  PE+VPRKPTFPENSRT+MD+LVSLIY +GDERTKARAMLCDIYHHA+LDEFSTARD
Sbjct: 480 FVVTPEVVPRKPTFPENSRTLMDILVSLIYNHGDERTKARAMLCDIYHHAILDEFSTARD 539

Query: 531 LLLMSHLQDNVQQMDVLSQILFNRAMAQLGLCAFRVGLVAEGHSCLSELYSGGKVKELLA 590
           LLLMSHLQDNVQ MD+ +QILFNRAMAQLGLCAFRVGL+AEGH CLSELYSGG+VKELLA
Sbjct: 540 LLLMSHLQDNVQHMDISTQILFNRAMAQLGLCAFRVGLIAEGHGCLSELYSGGRVKELLA 599

Query: 591 QGISQSRYHEKTPEQERLERRRQMPYHMHINLELLEAVHLICAMLLEVPNMAANTHGAKS 650
           QG+SQSRYHEKTPEQER+ERRRQMPYHMHINLELLE VHLICAMLLEVPNMAANTH AK 
Sbjct: 600 QGVSQSRYHEKTPEQERIERRRQMPYHMHINLELLEGVHLICAMLLEVPNMAANTHDAKR 659

Query: 651 KVISKTFRRLLEVSERQTFTGPPENVRDHVMAATRALTKGDFQKAFDVINSLDVWRLLRN 710
           KVISKTFRRLLEVSERQTFTGPPENVRDHVMAATRAL+KGDFQKAFDVI SLD W+LLRN
Sbjct: 660 KVISKTFRRLLEVSERQTFTGPPENVRDHVMAATRALSKGDFQKAFDVIKSLDFWKLLRN 719

Query: 711 RESVLEMLKAKIKEEALRTYLFTFTSSYDSLSLDQLTKMFDLSEVQTHSIVSKMMINEEL 770
           RE VLEML+AKIKEEALRTYLFT++ SY++LSLDQLTKMFDLSE  THSI+SKMM+ EEL
Sbjct: 720 REDVLEMLRAKIKEEALRTYLFTYSLSYNTLSLDQLTKMFDLSETLTHSIISKMMVMEEL 779

Query: 771 HASWDQPTHCIIFHDVEHSRLQALAFQLTEKLSILAESNERAMESRT-GGGLDLSLRRRD 829
           HASWDQPT CI+FHDVEH+RLQAL+FQLT+KL+ILAE+NERA E++  GGGLDL LRRRD
Sbjct: 780 HASWDQPTRCIVFHDVEHTRLQALSFQLTDKLTILAENNERAYEAKIGGGGLDLPLRRRD 839

Query: 830 -QDYAAGTGAMGGKWQDNLSYNQGRQG--RSGFTGGGGRSLALG-QAGGYSR---GQLRG 882
            QDY AG  ++GGKWQDN S++QGRQG  R+G+ G GGR L  G  AG +SR   GQ RG
Sbjct: 840 GQDY-AGAASVGGKWQDNFSFSQGRQGGVRTGY-GVGGRPLGPGSSAGTFSRDRGGQSRG 897

Query: 883 SGGYSG------------------RAAAARGSQMDGSNRMVSLNKGVR 912
           +GGYSG                   ++A RGSQMD S RMVSLN+GVR
Sbjct: 898 TGGYSGGYQSTRYQDAAYGRTAYQTSSAVRGSQMDTSTRMVSLNRGVR 945

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|356512984\|ref\|XP_003525194.1\| PREDICTED: eukaryotic translation initiation factor 3 subunit C-like [Glycine max]	Back alignment and taxonomy information

>gi\|147860527\|emb\|CAN81874.1\| hypothetical protein VITISV_038366 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|356524672\|ref\|XP_003530952.1\| PREDICTED: eukaryotic translation initiation factor 3 subunit C-like [Glycine max]	Back alignment and taxonomy information

>gi\|224139946\|ref\|XP_002323353.1\| predicted protein [Populus trichocarpa] gi\|222867983\|gb\|EEF05114.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|224065745\|ref\|XP_002301950.1\| predicted protein [Populus trichocarpa] gi\|222843676\|gb\|EEE81223.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|34978809\|gb\|AAL13083.1\| putative translation-initiation factor 3 subunit [Prunus avium]	Back alignment and taxonomy information

>gi\|356505465\|ref\|XP_003521511.1\| PREDICTED: eukaryotic translation initiation factor 3 subunit C-like [Glycine max]	Back alignment and taxonomy information

>gi\|449495544\|ref\|XP_004159873.1\| PREDICTED: LOW QUALITY PROTEIN: eukaryotic translation initiation factor 3 subunit C-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|449457041\|ref\|XP_004146257.1\| PREDICTED: eukaryotic translation initiation factor 3 subunit C-like [Cucumis sativus]	Back alignment and taxonomy information

Prediction of Gene Ontology (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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q4W9S8	EIF3C_ASPFU	No assigned EC number	0.3982	0.8028	0.8503	yes	no
Q2U0Q9	EIF3C_ASPOR	No assigned EC number	0.3934	0.8094	0.8583	yes	no
Q9XHM1	EIF3C_MEDTR	No assigned EC number	0.7060	0.9934	0.9700	N/A	no
O49160	EIF3C_ARATH	No assigned EC number	0.7184	0.9780	0.9922	yes	no

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

Fail to connect to STRING server

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		913
pfam05470		593	pfam05470, eIF-3c_N, Eukaryotic translation initia	0.0
pfam01399		100	pfam01399, PCI, PCI domain	2e-16
smart00753		88	smart00753, PAM, PCI/PINT associated module	1e-15
smart00088		88	smart00088, PINT, motif in proteasome subunits, In	1e-15
pfam11705		221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	4e-06
pfam03153		332	pfam03153, TFIIA, Transcription factor IIA, alpha/	4e-05
pfam09538		104	pfam09538, FYDLN_acid, Protein of unknown function	1e-04
COG5137		279	COG5137, COG5137, Histone chaperone involved in ge	3e-04
PRK05901		509	PRK05901, PRK05901, RNA polymerase sigma factor; P	3e-04
pfam09073		424	pfam09073, BUD22, BUD22	4e-04
pfam09538		104	pfam09538, FYDLN_acid, Protein of unknown function	0.001
pfam09538		104	pfam09538, FYDLN_acid, Protein of unknown function	0.001
pfam03344		715	pfam03344, Daxx, Daxx Family	0.001
TIGR00927		1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.001
pfam08553		794	pfam08553, VID27, VID27 cytoplasmic protein	0.001
pfam04147		809	pfam04147, Nop14, Nop14-like family	0.001
TIGR00927		1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.002
pfam04147		809	pfam04147, Nop14, Nop14-like family	0.002
pfam04147		809	pfam04147, Nop14, Nop14-like family	0.003
pfam04147		809	pfam04147, Nop14, Nop14-like family	0.003
PTZ00108		1388	PTZ00108, PTZ00108, DNA topoisomerase 2-like prote	0.003

>gnl\|CDD\|218598 pfam05470, eIF-3c_N, Eukaryotic translation initiation factor 3 subunit 8 N-terminus	Back alignment and domain information

 Score =  850 bits (2198), Expect = 0.0
 Identities = 363/616 (58%), Positives = 446/616 (72%), Gaps = 29/616 (4%)

Query: 39  RYLQANASD-SDDSDGQKRVVRSAKDKRFEEMAATVDQMKNAMKINDWVSLQESFDKINK 97
           +YL+ ++SD S D +  KRVV+SAKDKRFEEM +T+  +KNAMKINDWVSL E FDK+NK
Sbjct: 1   KYLRDDSSDESSDEEDTKRVVKSAKDKRFEEMTSTIKTIKNAMKINDWVSLLEEFDKLNK 60

Query: 98  QLDKVMRVTEAEKVPTLYIKALVMLEDFLNQAMANKEAKKKMSSSNAKALNSMKQKLKKN 157
              K  RV+E  K P  YIK LVMLEDFLN+  A+KEAKKKMS +NAKALN++KQK+KKN
Sbjct: 61  AYQKAKRVSENVKTPRFYIKTLVMLEDFLNELWADKEAKKKMSKNNAKALNTLKQKVKKN 120

Query: 158 NKQYEDLINKYRENPESEEVKDEDEESEEEEEDEDEEFEEDPDNIRAGSG-SDNDDDDDG 216
           NKQ+ED I +YRE+PESE+  +E+EE E++++D  ++ +ED D + A    + + +    
Sbjct: 121 NKQFEDDITRYREDPESED--EEEEEDEDDDDDGSDDEDEDEDGVGATEEVAASSESGVD 178

Query: 217 EEAEDTNDSGWVRQTGRRDKSIDKQFKNPSEITWENVNKKFKEVVAARGRKGTGRFEQVE 276
              ED  +      + +      K FK P EITW++V KK KE+++ARG+K T R EQ++
Sbjct: 179 RVKEDDEEDEDADLSKKDVLEEPKMFKKPEEITWDDVFKKLKEIMSARGKKTTDRSEQID 238

Query: 277 QLTFLTKVAKTPAQKLEILFSLISAQFDVNPGLSGHMPINVWKKCVVNMLIVLDILTQYP 336
            L  L  +A+TP QK++ILFS+ISA+FDVN GLSG+MPI+ WKKC+ NML +LDIL   P
Sbjct: 239 LLEELLTIAETPYQKVKILFSIISARFDVNAGLSGYMPIDQWKKCLQNMLSILDILDANP 298

Query: 337 NIVVN----DMVEPDENETQKAADYNGTIRVWGNLVAFVERIDVEFFKSLQSIDPHTREY 392
           NIVV     D VE DENET    DY+G IRV G++VAFVER+D EFFKSLQ+IDPH+ +Y
Sbjct: 299 NIVVVEEVADEVEEDENET--PEDYDGPIRVQGSIVAFVERLDDEFFKSLQNIDPHSNDY 356

Query: 393 VERLRDEPMFLVLAQDVQEYLEQAGEFKAASKVALRRVELIYYKPQEVYDAMRKLAEQTD 452
           VERL+DEP F  L + VQ+YLE+ G+ KA  +V LRR+E IYYKPQEV D          
Sbjct: 357 VERLKDEPSFYALIERVQDYLERTGDSKAVCRVYLRRIEHIYYKPQEVID---------- 406

Query: 453 EGDNGEKAIEEESRGPSAFISVPELVPRKPTFPENSRTMMDMLVSLIYKYGDERTKARAM 512
                     EE   P +FI   ELVPRKPTF E S  +MD L S IYK GDERT+ RAM
Sbjct: 407 ---------TEEWNIPPSFIVSKELVPRKPTFAETSDALMDGLCSYIYKDGDERTRTRAM 457

Query: 513 LCDIYHHALLDEFSTARDLLLMSHLQDNVQQMDVLSQILFNRAMAQLGLCAFRVGLVAEG 572
           LC IYHHAL D F TARDLLLMSHLQDN+Q  D+ +QILFNR M QLGLCAFR GL+ E 
Sbjct: 458 LCHIYHHALHDNFYTARDLLLMSHLQDNIQHADISTQILFNRTMVQLGLCAFRQGLIKEA 517

Query: 573 HSCLSELYSGGKVKELLAQGISQSRYHEKTPEQERLERRRQMPYHMHINLELLEAVHLIC 632
           H CLS+LYS G+VKELL QG+ QSR HEKTPEQE++ERRRQMPYHMHINLELLE V+L C
Sbjct: 518 HQCLSDLYSTGRVKELLGQGVLQSRQHEKTPEQEKIERRRQMPYHMHINLELLECVYLTC 577

Query: 633 AMLLEVPNMAANTHGA 648
           AMLLE+PNMAAN   A
Sbjct: 578 AMLLEIPNMAANESDA 593

The largest of the mammalian translation initiation factors, eIF3, consists of at least eight subunits ranging in mass from 35 to 170 kDa. eIF3 binds to the 40 S ribosome in an early step of translation initiation and promotes the binding of methionyl-tRNAi and mRNA. Length = 593

>gnl\|CDD\|216479 pfam01399, PCI, PCI domain	Back alignment and domain information

>gnl\|CDD\|214803 smart00753, PAM, PCI/PINT associated module	Back alignment and domain information

>gnl\|CDD\|214509 smart00088, PINT, motif in proteasome subunits, Int-6, Nip-1 and TRIP-15	Back alignment and domain information

>gnl\|CDD\|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31	Back alignment and domain information

>gnl\|CDD\|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit	Back alignment and domain information

>gnl\|CDD\|220284 pfam09538, FYDLN_acid, Protein of unknown function (FYDLN_acid)	Back alignment and domain information

>gnl\|CDD\|227466 COG5137, COG5137, Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]	Back alignment and domain information

>gnl\|CDD\|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional	Back alignment and domain information

>gnl\|CDD\|220102 pfam09073, BUD22, BUD22	Back alignment and domain information

>gnl\|CDD\|220284 pfam09538, FYDLN_acid, Protein of unknown function (FYDLN_acid)	Back alignment and domain information

>gnl\|CDD\|220284 pfam09538, FYDLN_acid, Protein of unknown function (FYDLN_acid)	Back alignment and domain information

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

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

>gnl\|CDD\|219900 pfam08553, VID27, VID27 cytoplasmic protein	Back alignment and domain information

>gnl\|CDD\|217927 pfam04147, Nop14, Nop14-like family	Back alignment and domain information

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

>gnl\|CDD\|217927 pfam04147, Nop14, Nop14-like family	Back alignment and domain information

>gnl\|CDD\|217927 pfam04147, Nop14, Nop14-like family	Back alignment and domain information

>gnl\|CDD\|217927 pfam04147, Nop14, Nop14-like family	Back alignment and domain information

>gnl\|CDD\|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		913
KOG1076		843	consensus Translation initiation factor 3, subunit	100.0
PF05470		595	eIF-3c_N: Eukaryotic translation initiation factor	100.0
PF01399		105	PCI: PCI domain; InterPro: IPR000717 A homology do	99.04
smart00753		88	PAM PCI/PINT associated module.	98.62
smart00088		88	PINT motif in proteasome subunits, Int-6, Nip-1 an	98.62
KOG3973		465	consensus Uncharacterized conserved glycine-rich p	98.24
KOG0921		1282	consensus Dosage compensation complex, subunit MLE	98.2
KOG0921		1282	consensus Dosage compensation complex, subunit MLE	98.11
KOG1497		399	consensus COP9 signalosome, subunit CSN4 [Posttran	96.32
KOG2908		380	consensus 26S proteasome regulatory complex, subun	95.64
PRK11634		629	ATP-dependent RNA helicase DeaD; Provisional	95.26
KOG2758		432	consensus Translation initiation factor 3, subunit	95.24
PF05918		556	API5: Apoptosis inhibitory protein 5 (API5); Inter	93.75
PF05918		556	API5: Apoptosis inhibitory protein 5 (API5); Inter	93.66
COG5071		439	RPN5 26S proteasome regulatory complex component [	93.47
KOG4661		940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	92.66
KOG1498		439	consensus 26S proteasome regulatory complex, subun	92.4
PRK11634		629	ATP-dependent RNA helicase DeaD; Provisional	92.29
KOG2044		931	consensus 5'-3' exonuclease HKE1/RAT1 [Replication	91.8
PF07172		95	GRP: Glycine rich protein family; InterPro: IPR010	91.06
KOG0116		419	consensus RasGAP SH3 binding protein rasputin, con	89.67
KOG2044		931	consensus 5'-3' exonuclease HKE1/RAT1 [Replication	89.46
PHA00370		297	III attachment protein	89.07
COG5600		413	Transcription-associated recombination protein [DN	88.91
KOG1076		843	consensus Translation initiation factor 3, subunit	88.87
COG4907		595	Predicted membrane protein [Function unknown]	88.15
PF10255		404	Paf67: RNA polymerase I-associated factor PAF67; I	87.06
KOG0116		419	consensus RasGAP SH3 binding protein rasputin, con	86.84
COG4907		595	Predicted membrane protein [Function unknown]	85.06
KOG2581		493	consensus 26S proteasome regulatory complex, subun	85.06
PF10075		143	PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro	82.74
PRK10590		456	ATP-dependent RNA helicase RhlE; Provisional	81.34
PF13324		275	GCIP: Grap2 and cyclin-D-interacting; PDB: 3AY5_A.	80.29

>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

Probab=100.00  E-value=4.8e-257  Score=2140.62  Aligned_cols=786  Identities=56%  Similarity=0.877  Sum_probs=707.3

Q ss_pred             CccccCCCCCCCccccCCccccccccccccccccccccccccCCCCCCCCcCCceeecccccccHHHHHHHHHHHHHhhh
Q 002522            2 ASRFWTQGGSDSEEESSDYEDDVENEGVETTTQTAGSRYLQANASDSDDSDGQKRVVRSAKDKRFEEMAATVDQMKNAMK   81 (913)
Q Consensus         2 ~SrFw~~~~s~s~~~~s~~~~~~~~~~~~~~~~~~~~rf~~~~~sdsd~dee~kRVVkSaKdKr~eEl~~~i~~i~n~~k   81 (913)
                      |||||.+ +|+|++++|.++++++.         ..+......+.++|+++|+||||+++|||||+||..+|++|+|+++
T Consensus         1 mSrFf~~-~sese~essse~ee~~~---------~n~~~~s~~~~~~d~e~d~krvv~~~kdkrfee~~~~i~~~~~a~~   70 (843)
T KOG1076|consen    1 MSRFFTQ-GSESESESSSEEEEVEE---------ENSNKLSELDDSEDDEEDTKRVVRAAKDKRFEELTNIIKTIRNAMK   70 (843)
T ss_pred             Ccccccc-Ccccccccchhhhhhhc---------cccccccccccccccchhhhhhhcccccccHHHHhhhHHHHHhHHH
Confidence            8999999 44444343333333332         0222221111122225789999999999999999999999999999


Q ss_pred             cccHHHHHHHHHHHHHHHHHHhhhhccCC--CCHHHHHHHHhHHHHHHHHHhchHHHhhcChhhhhhhHHHHHHHHHhhH
Q 002522           82 INDWVSLQESFDKINKQLDKVMRVTEAEK--VPTLYIKALVMLEDFLNQAMANKEAKKKMSSSNAKALNSMKQKLKKNNK  159 (913)
Q Consensus        82 i~Dw~~i~~~Fd~L~K~~~K~~~~~~~~g--~P~~yIk~L~~Led~v~e~~~dke~kKKms~~nakalntlKQklkK~~k  159 (913)
                      |+||+.+++.|++|+|.+.|+..++.+++  +|+||||+|++||||+|+.|+|++++|||+++|+||||+||||+||+++
T Consensus        71 ~~d~~~~~~~F~~l~k~~~ka~~~~~~e~~~~p~~yik~L~eleD~~Ne~~e~~~~k~~lsknN~kaL~~lrqk~~k~~~  150 (843)
T KOG1076|consen   71 IRDQVGLLEKFEKLNKAYSKAKEVDEKENVKVPRFYIKTLVELEDFLNELWDDKEGKKKLSKSNSKALNSLRQKLKKYNK  150 (843)
T ss_pred             HhhccchhhhhHHHHhhhccccchhhhcCCCCchHHHHHHHHHHHHHHHHHHhhhHHHHhhhhhhhhhHHHHHHHHHhhc
Confidence            99999999999999999999999986655  8999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhCCCcccccCcccchhhhhccccccccCCCccccC---CCCCCCCCCCC------ccccccCCCCCceee
Q 002522          160 QYEDLINKYRENPESEEVKDEDEESEEEEEDEDEEFEEDPDNIRA---GSGSDNDDDDD------GEEAEDTNDSGWVRQ  230 (913)
Q Consensus       160 ~~e~~i~~yrenPe~~~~~~~~~~d~~~~~~sd~~~~~~~~~~~~---~~~s~~~~~~~------~e~~~~~~~~~w~~~  230 (913)
                      .|+..|+.||++|+...++.++-.++++ |++++     +..|..   ++++++.++.+      ++.++++++..|+.+
T Consensus       151 ~~~~~i~~~r~~Pd~~~~~~~e~~~~D~-dd~~d-----~~~~ds~~~~~~~~s~d~e~~~~~~r~~~~e~~d~~~we~v  224 (843)
T KOG1076|consen  151 DFEDDIKRYRENPDQENEENPETQDADD-DDSDD-----SEDWDSTPSSSDKDSEDEEDKMAKLRDDPEEDDDGVTWELV  224 (843)
T ss_pred             cHHHHHHHhccCcccccccccccccccc-ccccc-----hhhhcCCCcccCCccccchhhHHHhccccccccCCcceeee
Confidence            9999999999999977654433111111 11111     111211   11111111110      123345677899988


Q ss_pred             cccCccccccccCCCCCCCHHHHHHHHHHHHHhhcCCCCChHHHHHHHHHHHHHhcCccc--hhhhhhhhhhhhcccCCC
Q 002522          231 TGRRDKSIDKQFKNPSEITWENVNKKFKEVVAARGRKGTGRFEQVEQLTFLTKVAKTPAQ--KLEILFSLISAQFDVNPG  308 (913)
Q Consensus       231 ~~~~~~~~~k~f~~~~eit~~~v~kkL~eIv~~RGKK~tDr~eqi~~L~~L~~iak~~~~--~i~il~~lIsa~FD~~~~  308 (913)
                      .+++  .++++|.++.||||++|+|||++|++|||||+|||.+||.+|++|++||++|++  .|+|+|+||||+||+|++
T Consensus       225 ~s~~--~~~~~~~~~eEit~~~v~kkl~eI~~ARGKK~tdr~~~i~~L~~L~~IA~~~~~~~~v~i~f~iIsa~fD~N~~  302 (843)
T KOG1076|consen  225 VSGK--EKPKMFQKPEEITHADVFKKLNEIMSARGKKTTDRQELIDLLEELLTIAETPGQGVKVKIKFNIISARFDYNAG  302 (843)
T ss_pred             cccc--ccccccCCchhcCHHHHHHHHHHHHHhhccccccHHHHHHHHHHHHHHHcccCcceEEEEEEEEeehhhccCcC
Confidence            7654  568999999999999999999999999999999999999999999999999966  999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHhhCCCeEEecCCCCCccccccccCCCCcEEEechHHHHHHHhhHHHHHhhccCCCC
Q 002522          309 LSGHMPINVWKKCVVNMLIVLDILTQYPNIVVNDMVEPDENETQKAADYNGTIRVWGNLVAFVERIDVEFFKSLQSIDPH  388 (913)
Q Consensus       309 ~~~~M~~~~Wk~~~~~i~~ll~iL~~~~~i~v~e~~~~~e~e~~~~~~~~~~~~v~Gsl~sfvERLDdEf~KsLQ~iDpH  388 (913)
                      +++|||+++|++|+++|+.|||||.+||+|+|+++++++|+|+  ..+++|+++|+|||++|||||||||+|||||||||
T Consensus       303 ~s~yMpid~W~~~l~~~~slLdIL~~~~~i~~~e~ve~eE~E~--~~d~dg~~rV~Gsi~afvERlDdEF~KsLq~iDPH  380 (843)
T KOG1076|consen  303 LSGYMPIDQWKKCLNNMNSLLDILDANPNIVVVETVEAEEDEN--LKDADGVIRVQGSILAFVERLDDEFTKSLQNIDPH  380 (843)
T ss_pred             cccCcCHHHHHHHHHHHHHHHHHHhcCCCEEEeeeeccccccc--cccCCCcEEEeccHHHHHHHHhHHHHHHHHccCCC
Confidence            9999999999999999999999999999999999997665543  34889999999999999999999999999999999


Q ss_pred             cHHHHHHhhChhHHHHHHHHHHHHHHHhcchhhhhHHHHHHHhhhccCchhHHHHHHHHHhhcccCCCCchhhhhhccCC
Q 002522          389 TREYVERLRDEPMFLVLAQDVQEYLEQAGEFKAASKVALRRVELIYYKPQEVYDAMRKLAEQTDEGDNGEKAIEEESRGP  468 (913)
Q Consensus       389 s~EYveRLkDE~~l~~l~~r~q~Y~e~~~~~~~~~rv~lrRlEhiYyK~d~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~  468 (913)
                      |.|||+|||||+.||+||+++|.|||++|...++||++|||||||||||++||++|++.+|..+.               
T Consensus       381 s~dYverLkDE~~~~~li~r~q~Y~Er~g~~~~~~rv~l~RiehiYYKpe~v~d~~~~~a~~~~~---------------  445 (843)
T KOG1076|consen  381 SNDYVERLKDEPSVYALIERVQDYFERTGDSEAVCRVYLRRIEHIYYKPEEVFDAMEELAWNEIP---------------  445 (843)
T ss_pred             cHHHHHHHhhhHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHcChHhhhhHHHHHHhhccC---------------
Confidence            99999999999999999999999999999999999999999999999999999999999998773               


Q ss_pred             CCcccCCcccCCCCCCCCChHHHHHHHHHHHHhcCCcchhhHHHHHHHHHHhhcCChHHHHHHHHhhhhhhhccCCChhh
Q 002522          469 SAFISVPELVPRKPTFPENSRTMMDMLVSLIYKYGDERTKARAMLCDIYHHALLDEFSTARDLLLMSHLQDNVQQMDVLS  548 (913)
Q Consensus       469 ~~~~~~~~~~~~~~~~~~~~~~li~~L~~~Iyk~~~~r~r~RAmLc~IYh~ALhd~~~~ARDLlLmShLQe~I~~~Di~t  548 (913)
                      ++|..+.+-+++++++++++..||+.||+|||++|++|+||||||||||||||||+|++|||||||||||++|+||||+|
T Consensus       446 ~~~~~s~ts~~~~~~~~~~~~~lmd~Lc~~iY~~~d~r~rtRAmLchIYh~AL~d~f~~ARDlLLMSHlQdnI~h~D~st  525 (843)
T KOG1076|consen  446 EAFKSSGTSVDRKPTFAESSDALMDGLCKYIYKNDDDRLRTRAMLCHIYHHALHDNFYTARDLLLMSHLQDNIQHADIST  525 (843)
T ss_pred             ccccccCCCccccccccccHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhccChhH
Confidence            33333444478889999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhcccHHHHHHHHHhhhhCCccchhhcccccccccCCCChhhHHHHHHhCCCcccccCHHHHHHH
Q 002522          549 QILFNRAMAQLGLCAFRVGLVAEGHSCLSELYSGGKVKELLAQGISQSRYHEKTPEQERLERRRQMPYHMHINLELLEAV  628 (913)
Q Consensus       549 QILyNRamvQLGLcAFR~GlI~EAh~~L~ei~~s~R~KELLAQG~~~~r~~ekt~EQEk~ErrRqlPfHMHINlELLE~v  628 (913)
                      |||||||||||||||||+|+|+|||+||+||+++||+|||||||++++|+|++||||+++||||||||||||||||||||
T Consensus       526 QIL~NRtmvQLGLCAFR~Gmi~EaH~~L~dl~st~r~kELLgQgv~~~~~he~t~eQe~~eR~rQlPyHmHINLELlEcV  605 (843)
T KOG1076|consen  526 QILFNRTMVQLGLCAFRQGMIKEAHQCLSDLQSTGRVKELLGQGVLQRRQHEKTAEQEKIERRRQLPYHMHINLELLECV  605 (843)
T ss_pred             HHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcchHHHHHhhhhhhhhhhccChhhHHHHHhhcCchhhhccHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhHhhcchhhhccCCCccchhchHHHHHHHHhhccccccCCCcchhhHHHHHHHHhhcCCHHHHHHHHhc-cccccc
Q 002522          629 HLICAMLLEVPNMAANTHGAKSKVISKTFRRLLEVSERQTFTGPPENVRDHVMAATRALTKGDFQKAFDVINS-LDVWRL  707 (913)
Q Consensus       629 ~lisaMLlEIP~mAa~~~d~rrr~isK~Frr~Le~~erq~f~GPPEn~rdhV~aA~kal~~GdWk~~~~~I~s-ikiW~l  707 (913)
                      |||||||||||+|||+.+|+|+|||||+|||+|+++|||+|+|||||+|||||||+|||++|||++|.+||.+ +|||+|
T Consensus       606 yLtcaMLlEIP~MAA~~~d~Rrr~iSk~frr~Le~serqsf~gPPEn~RehVvaAsKAm~~Gnw~~c~~fi~nn~KvW~L  685 (843)
T KOG1076|consen  606 YLTCAMLLEIPYMAAHESDARRRMISKSFRRQLEHSERQSFTGPPENTREHVVAASKAMQKGNWQKCFEFIVNNIKVWDL  685 (843)
T ss_pred             HHHHHHHHhhhHHhhhhhhhhcccccHHHHHHHHHHhhccccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHhhhhHHHh
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999987 999999


Q ss_pred             cCChHHHHHHHHHHHHHHhhhhceeeccccccccCHHHHHhhcCCCccchhHhhhhhhcccccceeeccCCceEEEccCC
Q 002522          708 LRNRESVLEMLKAKIKEEALRTYLFTFTSSYDSLSLDQLTKMFDLSEVQTHSIVSKMMINEELHASWDQPTHCIIFHDVE  787 (913)
Q Consensus       708 ~p~~e~v~~mL~~kIqeeaLRtYlfty~~~y~slSl~~L~~~F~L~~~~V~sivskmI~n~el~As~D~~~~~iv~~~~e  787 (913)
                      |||++.|+.||++||||||||||||||+++|+|+||.+||+||+||+++||+||||||+|+||+|+|||||+||||||+|
T Consensus       686 fpn~d~V~~Ml~~rIqEEsLRTYLftYss~Y~SvSl~~LA~mFdLp~~~VhsIiSkmiineEl~AslDqpt~~iv~hrvE  765 (843)
T KOG1076|consen  686 FPNADTVLDMLTERIQEESLRTYLFTYSSVYDSVSLAKLADMFDLPEPKVHSIISKMIINEELHASLDQPTQCIVMHRVE  765 (843)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHhCCCchhHHHHHHHHHHHHHhhhccCCCcceEEEeecc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHHhHhhhhhhhhHhhhcCCCCC
Q 002522          788 HSRLQALAFQLTEKLSILAESNERAMESRTGGGLD  822 (913)
Q Consensus       788 ~trLQ~LAl~laeKv~~lve~NEr~~~~k~g~~g~  822 (913)
                      |||||.||+||+||+.+|+|+||++++.|+|++|+
T Consensus       766 ~srlq~La~qL~eKl~~L~E~NE~~~e~ktg~~g~  800 (843)
T KOG1076|consen  766 PSRLQSLAVQLSEKLAILAENNEKVFESKTGGGGL  800 (843)
T ss_pred             chHHHHHHHHHHHHHHHHHHhccchhccccCCCCC
Confidence            99999999999999999999999999999998764

>PF05470 eIF-3c_N: Eukaryotic translation initiation factor 3 subunit 8 N-terminus; InterPro: IPR008905 The largest of the mammalian translation initiation factors, eIF3, consists of at least eight subunits ranging in mass from 35 to 170 kDa	Back alignment and domain information

>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins	Back alignment and domain information

>smart00753 PAM PCI/PINT associated module	Back alignment and domain information

>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15	Back alignment and domain information

>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]	Back alignment and domain information

>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]	Back alignment and domain information

>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]	Back alignment and domain information

>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]	Back alignment and domain information

>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK11634 ATP-dependent RNA helicase DeaD; Provisional	Back alignment and domain information

>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms	Back alignment and domain information

>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms	Back alignment and domain information

>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]	Back alignment and domain information

>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK11634 ATP-dependent RNA helicase DeaD; Provisional	Back alignment and domain information

>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]	Back alignment and domain information

>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins	Back alignment and domain information

>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]	Back alignment and domain information

>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]	Back alignment and domain information

>PHA00370 III attachment protein	Back alignment and domain information

>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]	Back alignment and domain information

>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>COG4907 Predicted membrane protein [Function unknown]	Back alignment and domain information

>PF10255 Paf67: RNA polymerase I-associated factor PAF67; InterPro: IPR019382 RNA polymerase I is a multi-subunit enzyme and its transcription competence is dependent on the presence of PAF67 []	Back alignment and domain information

>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]	Back alignment and domain information

>COG4907 Predicted membrane protein [Function unknown]	Back alignment and domain information

>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8	Back alignment and domain information

>PRK10590 ATP-dependent RNA helicase RhlE; Provisional	Back alignment and domain information

>PF13324 GCIP: Grap2 and cyclin-D-interacting; PDB: 3AY5_A	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		913
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-13
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-13
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-10
1ufm_A		84	COP9 complex subunit 4; helix-turn-helix, structur	3e-07
2cg9_A		677	ATP-dependent molecular chaperone HSP82; chaperone	7e-04

>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 = 73.7 bits (180), Expect = 2e-13
 Identities = 94/716 (13%), Positives = 217/716 (30%), Gaps = 185/716 (25%)

Query: 150 MKQKLKKNNKQYEDLI----NKYRENPESEEVKDE------DEESEE--EEEDEDEE--- 194
           M  +  ++  QY+D++    + + +N + ++V+D        EE +     +D       
Sbjct: 7   MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66

Query: 195 ----FEEDPDNIRAGSGSDNDDDDDGEEAEDTNDSGWVR---QTGRRDKSID-KQFKNPS 246
                    + +      +              +  ++    +T +R  S+  + +    
Sbjct: 67  LFWTLLSKQEEMVQKFVEEVLRI----------NYKFLMSPIKTEQRQPSMMTRMYIEQR 116

Query: 247 EITWENVNKKF-KEVVAARGRKGTGRFEQVEQL-TFLTKVAKTPAQKLEILF-------S 297
           +  + N N+ F K  V+        R +   +L   L ++   PA+ + ++        +
Sbjct: 117 DRLY-NDNQVFAKYNVS--------RLQPYLKLRQALLEL--RPAKNV-LIDGVLGSGKT 164

Query: 298 LISAQFDVNPGLSGHMPINV-W---KKCVVNMLIVLDILTQYPNIVVNDMVEPD--ENET 351
            ++    ++  +   M   + W   K C     ++  +      I  N     D   N  
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224

Query: 352 QKAADYNGTIRVWGNLVAFVERIDVEFFKSLQSIDPHTREYVERLRDEPMFLVLAQDVQE 411
            +       +R                 KS        + Y   L      LVL  +VQ 
Sbjct: 225 LRIHSIQAELR--------------RLLKS--------KPYENCL------LVLL-NVQN 255

Query: 412 YLEQAGEFKAASKVALRRVELIYYKPQEVYDAMRKLAEQTDEGDNGEKAI-EEESRGPSA 470
             +    F  + K+      L+  + ++V D +          D+    +  +E +  S 
Sbjct: 256 -AKAWNAFNLSCKI------LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK--SL 306

Query: 471 FISVPELVPRKPTFPENSRTMMDMLVSLIYKYGDERTKARAMLCDIYHHALLDEFSTARD 530
            +   +  P+    P    T     +S+I     E  +      D + H   D+ +T  +
Sbjct: 307 LLKYLDCRPQD--LPREVLTTNPRRLSII---A-ESIRDGLATWDNWKHVNCDKLTTIIE 360

Query: 531 LLLMSHLQDNVQQMDVLSQILFNRAMAQLGLCAFRVGL-VAEGHSCLSELYSGGK--VKE 587
             L           +VL    + +   +L +  F     +      LS ++         
Sbjct: 361 SSL-----------NVLEPAEYRKMFDRLSV--FPPSAHIPT--ILLSLIWFDVIKSDVM 405

Query: 588 LLAQGISQSRYHEKTPEQERLERRRQMPYHMHINLELLEAVHLICAMLLEVPNMAANTHG 647
           ++   + +    EK P++            +           +   + +++ N  A  H 
Sbjct: 406 VVVNKLHKYSLVEKQPKEST--------ISIP---------SIYLELKVKLENEYA-LH- 446

Query: 648 AKSKVISKTFRRLLEVSERQTFTGPPENVRD---------HVMAATRALTKGDFQKAFDV 698
               ++      + +  +      P     D         H+           F+  F  
Sbjct: 447 --RSIVDH--YNIPKTFDSDDLIPPYL---DQYFYSHIGHHLKNIEHPERMTLFRMVF-- 497

Query: 699 INSLDVWRLLRNRESVLEMLKAKIKEEALRTYLFTFTSSYDSLSLDQLTKMFDLSEVQTH 758
              LD              L+ KI+ +   +  +  + S  +  L QL        +  +
Sbjct: 498 ---LD-----------FRFLEQKIRHD---STAWNASGSILNT-LQQLKFY--KPYICDN 537

Query: 759 SIVSKMMINEELHASWDQPTHCIIFHDVEHSRLQALAFQLTEKLSILAESNERAME 814
               + ++N  L        + I     +++ L  +A    E  +I  E+  + ++
Sbjct: 538 DPKYERLVNAILDFLPKIEENLICS---KYTDLLRIALM-AEDEAIFEEA-HKQVQ 588

PyMOL of 1vt4

>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

>1ufm_A COP9 complex subunit 4; helix-turn-helix, structural genomics, riken structural genomics/proteomics initiative, RSGI, signaling protein; NMR {Mus musculus} SCOP: a.4.5.47 Length = 84	Back alignment and structure

>2cg9_A ATP-dependent molecular chaperone HSP82; chaperone complex, HSP90, heat shock protein, ATP-binding, heat shock, nucleotide-binding, acetylation; HET: ATP; 3.1A {Saccharomyces cerevisiae} Length = 677	Back alignment and structure

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

ID	Alignment Graph	Length	Definition	E-value
Query		913
d1ufma_		84	a.4.5.47 (A:) COP9 signalosome complex subunit 4,	3e-11

>d1ufma_ a.4.5.47 (A:) COP9 signalosome complex subunit 4, GSN4 {Mouse (Mus musculus) [TaxId: 10090]} Length = 84	Back information, alignment and structure


class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: PCI domain (PINT motif)
domain: COP9 signalosome complex subunit 4, GSN4
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 58.3 bits (141), Expect = 3e-11
 Identities = 13/73 (17%), Positives = 32/73 (43%), Gaps = 4/73 (5%)

Query: 717 MLKAKIKEEALRTYLFTFTSSYDSLSLDQLTKMFDLSEVQTHSIVSKMMINEELHASWDQ 776
           +L   + E  L +     +  Y++++ ++L  + ++   +   I S+M+    ++   DQ
Sbjct: 11  ILDRAVIEHNLLSA----SKLYNNITFEELGALLEIPAAKAEKIASQMITEGRMNGFIDQ 66

Query: 777 PTHCIIFHDVEHS 789
               + F   E S
Sbjct: 67  IDGIVHFETREAS 79

PyMOL of d1ufma_

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		913
d1ufma_		84	COP9 signalosome complex subunit 4, GSN4 {Mouse (M	98.51

>d1ufma_ a.4.5.47 (A:) COP9 signalosome complex subunit 4, GSN4 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: PCI domain (PINT motif)
domain: COP9 signalosome complex subunit 4, GSN4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.51  E-value=2.3e-08  Score=72.31  Aligned_cols=68  Identities=18%  Similarity=0.366  Sum_probs=60.0

Q ss_pred             HHHHHHHHHHHHHCEEECCCCCCCCCHHHHHHHCCCCCCCHHHHHHHHHCCCCCCEEECCCCCEEEECCCCC
Q ss_conf             999999998523202201455564688889834188833016754644305655400016874599836787
Q 002522          717 MLKAKIKEEALRTYLFTFTSSYDSLSLDQLTKMFDLSEVQTHSIVSKMMINEELHASWDQPTHCIIFHDVEH  788 (913)
Q Consensus       717 mL~~kIkeeaLRtYLfty~~~Y~slSl~~L~~~F~L~~~~V~sIvskMI~n~el~As~D~~~~~iv~~~~e~  788 (913)
                      +|.+.|.|..++.    ++.+|.+++++.||++|.++...|..+|++||.+++|.|.+||++++|+|++.+.
T Consensus        11 ~L~~~i~Ehni~~----is~~Y~~Isl~~la~~l~l~~~evE~~l~~mI~~~~i~akIDq~~g~V~F~~~e~   78 (84)
T d1ufma_          11 ILDRAVIEHNLLS----ASKLYNNITFEELGALLEIPAAKAEKIASQMITEGRMNGFIDQIDGIVHFETREA   78 (84)
T ss_dssp             CCCHHHHHHHHHH----HHHSCSEEEHHHHHHHTTSCHHHHHHHHHHHHHTTSSCEEEETTTTEEEECCSSC
T ss_pred             HHHHHHHHHHHHH----HHHHHCEEEHHHHHHHHCCCHHHHHHHHHHHHHCCEEEEEEECCCCEEEECCCCC
T ss_conf             9999999998999----9883025669999999787999999999999856958999908999899778776

PyMOL of d1ufma_