Citrus Sinensis ID: 003521

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---

MAPDPNSASGSGTKDEASVKVPAKDPKKKDDKKDEDLSEEDLALKQQLELYVERVQDPDPGLQKVALESMRTEIRTSTSSMTSVPKPLKFLRPHYGTLKAYYETMPDSDLKKYMADILSVLALTMSAEGERESLKYRLLGSEGDIGSWGHEYVRNLAGEIAQEYAKRQTDEASIDDLMELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPDDMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITLELDDDMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASAGASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQNVTDCR

ccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHccccHHHHHHHHHHHHHHHHHccccHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHccHHHHHHHHHHccHHHHHHHHHHHccccccccHHHHHHHHHHHHHccccHHHHHHHHHHcccHHHHHHHHHHccHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHcccccHHHHHHHHHHccccccccHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccHHHHcccccHHHHHHHHcccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHccccccHHHHHHHHHHcHHHHHHHHHHHHHHHHHHccccHHHHHHHHccccccccccccccHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccccccc

cccccccccccccccccccccccccccccccccHHHccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcccccccccccHHHHcccHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccccccEEEEEEEcccccHcccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHcccccccHHHHHHHHcccccHHHHHHHHHHccccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHcccccccEEEcccccccccccccEEEEcccccHHHHHHHHHHHHHccHHccHHHHHHHcccccHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccccEEEEHHHHHHHHHHcccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHEEccccHHHHHHHHHHHHHccHHHHccHHHHHHHHHHHHHHHccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHccHccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHccccccHHHHHHHHHccccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccEEEEcccccccccccHHHHHHHHHHHHHHHcHHHHHHcccHHHHHHHHHHcccccccc

mapdpnsasgsgtkdeasvkvpakdpkkkddkkdedLSEEDLALKQQLELYVErvqdpdpglQKVALESMRTeirtstssmtsvpkplkflrphygtlkayyetmpdsdlKKYMADILSVLALTMSAEGERESLKYRLLgsegdigswGHEYVRNLAGEIAQEYAKRQTDEASIDDLMELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHvdatnfkrTCLYLTSaakylpgpddmLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGitleldddmvpddddryALQDIVNNVKLSEGYLTLARdievmepkspediyKAHLldgrasagasVDSARQNLAATFVNAFVnagfgqdklmtvpsdassggssgnwlfknkehgKMSAAASLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIvncgirndcDPALALLSEYVGREDACIRIGAIMGLgisyagtqndQIRHKLSTIlndaksplDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDrseselgepltrlIPLGLgllylgkqesvEATAEVSKTFNEKIRKYCDMTLLscayagtgnVLKVQNLLGHCaqhhekgeayqgpaVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLlcisnpkvnvmdtlsrlshdtdSEVAMAAVISLGligsgtnnARIAGMLRNLSsyyykdanLLFCVRIAQGLVHmgkglltlnpyhsdrfllsptALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQNVTDCR

mapdpnsasgsgtkdeasvkvpakdpkkkddkkdedlseEDLALKQQLELyvervqdpdpglQKVALESMrteirtstssmtsvpkplkFLRPHYGTLKAYYETMPDSDLKKYMADILSVLALTMSAEGERESLKYRLLGSEGDIGSWGHEYVRNLAGEIAQEYAKRQTDEASIDDLMELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPDDMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHgitleldddmvPDDDDRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASAGASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQNVTDCR

MAPDPNSASGSGTKDEasvkvpakdpkkkddkkdedlseedlalkQQLELYVERVQDPDPGLQKVALESMRTEIRTSTSSMTSVPKPLKFLRPHYGTLKAYYETMPDSDLKKYMADILSVLALTMSAEGERESLKYRLLGSEGDIGSWGHEYVRNLAGEIAQEYAKRQTDEASIDDLMELVQEIVAFHMKHNAEPeavdllmevedldllvehvdATNFKRTCLYLTSAAKYLPGPDDMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITLELdddmvpddddRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASAGASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPltrliplglgllylgKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQNVTDCR

***************************************************************************************LKFLRPHYGTLKAYYETMPDSDLKKYMADILSVLALTMSAEGERESLKYRLLGSEGDIGSWGHEYVRNLAGEIAQEYAKRQTDEASIDDLMELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPDDMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITLELDDDMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVM*******IYKAHLLD************RQNLAATFVNAFVNAGFGQDKL***************WLFK******MSAAASLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQNV****

*******************************************LKQQLELYVERVQDPDPGLQKVALESMRTEIRTSTSSMTSVPKPLKFLRPHYGTLKAYYETMPDSDLKKYMADILSVLALTMSAEGERESLKYRLLGSEGDIGSWGHEYVRNLAGEIAQEYAK********DDLMELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPDDMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITLELD***********************EGYLTLARDIEVMEPKSPEDIYKAHLLD***********ARQNLAATFVNAFVNAGFGQDKLMTVPSD**SGGSSGNWLFKNKEHGKMSAAASLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQNVTDCR

***************************************EDLALKQQLELYVERVQDPDPGLQKVALESMRT***********VPKPLKFLRPHYGTLKAYYETMPDSDLKKYMADILSVLALTMSAEGERESLKYRLLGSEGDIGSWGHEYVRNLAGEIAQEYAKRQTDEASIDDLMELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPDDMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITLELDDDMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASAGASVDSARQNLAATFVNAFVNAGFGQDKLMTVP********SGNWLFKNKEHGKMSAAASLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQNVTDCR

************************************LSEEDLALKQQLELYVERVQDPDPGLQKVALESMRTEIRTSTSSMTSVPKPLKFLRPHYGTLKAYYETMPDSDLKKYMADILSVLALTMSAEGERESLKYRLLGSEGDIGSWGHEYVRNLAGEIAQEYAKRQTDEASIDDLMELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPDDMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITLELDDDMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASAGASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQNV****

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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		813	2.2.26 [Sep-21-2011]
Q9SIV2		891	26S proteasome non-ATPase	yes	no	0.991	0.904	0.852	0.0
Q6XJG8		891	26S proteasome non-ATPase	no	no	0.988	0.902	0.823	0.0
P56701		908	26S proteasome non-ATPase	yes	no	0.971	0.870	0.499	0.0
Q8VDM4		908	26S proteasome non-ATPase	yes	no	0.965	0.864	0.504	0.0
Q4FZT9		908	26S proteasome non-ATPase	yes	no	0.965	0.864	0.504	0.0
Q13200		908	26S proteasome non-ATPase	yes	no	0.969	0.867	0.500	0.0
Q5R9I6		908	26S proteasome non-ATPase	yes	no	0.969	0.867	0.499	0.0
P87048		891	26S proteasome regulatory	yes	no	0.970	0.885	0.461	0.0
Q7S8R8		902	26S proteasome regulatory	N/A	no	0.956	0.862	0.456	0.0
Q54BC6		893	26S proteasome non-ATPase	yes	no	0.943	0.858	0.465	0.0

>sp\|Q9SIV2\|RPN1A_ARATH 26S proteasome non-ATPase regulatory subunit 2 1A OS=Arabidopsis thaliana GN=RPN1A PE=1 SV=2	Back alignment and function desciption

 Score = 1368 bits (3541), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 690/809 (85%), Positives = 761/809 (94%), Gaps = 3/809 (0%)

Query: 1   MAP--DPNSASGSGTKDEASVKVPAKDPKKKDDKKDEDLSEEDLALKQQLELYVERVQDP 58
           MAP  DPNS  G   KDEA++KVP+KDPKKKD+KKDEDLSEEDL LKQ LELYVERVQDP
Sbjct: 1   MAPTQDPNSVGGGAKKDEATLKVPSKDPKKKDEKKDEDLSEEDLELKQNLELYVERVQDP 60

Query: 59  DPGLQKVALESMRTEIRTSTSSMTSVPKPLKFLRPHYGTLKAYYETMPDSDLKKYMADIL 118
           +P LQK ALESMR EIR STSSMTSVPKPLKFLRPHYGTLKA++ETM DSDLKKY++DIL
Sbjct: 61  NPELQKAALESMRQEIRASTSSMTSVPKPLKFLRPHYGTLKAFHETMADSDLKKYLSDIL 120

Query: 119 SVLALTMSAEGERESLKYRLLGSEGDIGSWGHEYVRNLAGEIAQEYAKRQTDEASIDDLM 178
           SVLALTMSA+GERESL++RL+G+EGDIGSWGHEYVRNLAGEIAQEY KRQ++EASIDDLM
Sbjct: 121 SVLALTMSADGERESLRFRLIGTEGDIGSWGHEYVRNLAGEIAQEYTKRQSEEASIDDLM 180

Query: 179 ELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPDD 238
           ELVQ+IVAFHMKHNAE EAVDLLM+VEDLDLL+EHVD TNFKRTC YLTSAA+YLPGPDD
Sbjct: 181 ELVQQIVAFHMKHNAETEAVDLLMDVEDLDLLLEHVDKTNFKRTCNYLTSAARYLPGPDD 240

Query: 239 MLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITL 298
           MLVLDI+YMIY+KFEE+PNALQIALFLDN QYVKQ+FTSC DLL+KKQFCY++ARHGIT 
Sbjct: 241 MLVLDISYMIYMKFEEYPNALQIALFLDNTQYVKQVFTSCTDLLKKKQFCYMIARHGITF 300

Query: 299 ELDDDMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASAG 358
           ELDD+MV DDDDR ALQDIVNN KLSEGYLTLARDIEVME K+PEDIYKAHLLDGRAS+G
Sbjct: 301 ELDDEMVADDDDREALQDIVNNTKLSEGYLTLARDIEVMEAKTPEDIYKAHLLDGRASSG 360

Query: 359 ASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASL 418
           ASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSD+++G SSGNWLFKNKEHGK SAAASL
Sbjct: 361 ASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDSTTG-SSGNWLFKNKEHGKTSAAASL 419

Query: 419 GMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGRED 478
           GMI LWDVDSGL+Q+DKYFHS DN +IAGALLGVGIVNCGI+NDCDPALALL +Y+ +ED
Sbjct: 420 GMIQLWDVDSGLSQLDKYFHSNDNPIIAGALLGVGIVNCGIKNDCDPALALLGDYIDKED 479

Query: 479 ACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEV 538
           + +RIGAIMGLGISYAG+QNDQIR+KLS ILNDAK+PLDVIAF+++SLG+IYVGSCNEEV
Sbjct: 480 SSVRIGAIMGLGISYAGSQNDQIRNKLSPILNDAKAPLDVIAFASLSLGMIYVGSCNEEV 539

Query: 539 AQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMT 598
           AQ+IIFALMDRSE+ELG+ LTR +PLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMT
Sbjct: 540 AQSIIFALMDRSEAELGDALTRFLPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMT 599

Query: 599 LLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEH 658
           LLSCAYAGTGNVLKVQ+LL  C +H EKG+ +QGPAVLG+AMVAM+EELG++M IRSLE 
Sbjct: 600 LLSCAYAGTGNVLKVQDLLAQCGEHLEKGDIHQGPAVLGLAMVAMSEELGVDMEIRSLER 659

Query: 659 LLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTN 718
           +LQYGEQNIRRAVPLALGLLCISNPKV VMDTLSRLSHDTDSEVAM+A+ISLGLIG+GTN
Sbjct: 660 MLQYGEQNIRRAVPLALGLLCISNPKVTVMDTLSRLSHDTDSEVAMSAIISLGLIGAGTN 719

Query: 719 NARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIV 778
           NARIAGMLRNLSSYYYKD +LLFCVRIAQGLVHMGKGLLTL+P+HS+RFLLSPTALAGIV
Sbjct: 720 NARIAGMLRNLSSYYYKDMSLLFCVRIAQGLVHMGKGLLTLSPFHSERFLLSPTALAGIV 779

Query: 779 TTLFACLDMKAVIVGKYHYVLYFLVLAMQ 807
           T L ACLDMK +I+GKYHYVLYFLVLAMQ
Sbjct: 780 TLLHACLDMKPIILGKYHYVLYFLVLAMQ 808

Acts as a regulatory subunit of the 26 proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins (By similarity). Required during embryogenesis (PubMed:16169895). Required for optimal plant growth and stress responses (PubMed:19605416).
Arabidopsis thaliana (taxid: 3702)

>sp\|Q6XJG8\|RPN1B_ARATH 26S proteasome non-ATPase regulatory subunit 2 1B OS=Arabidopsis thaliana GN=RPN1B PE=2 SV=1	Back alignment and function description

>sp\|P56701\|PSMD2_BOVIN 26S proteasome non-ATPase regulatory subunit 2 OS=Bos taurus GN=PSMD2 PE=1 SV=2	Back alignment and function description

>sp\|Q8VDM4\|PSMD2_MOUSE 26S proteasome non-ATPase regulatory subunit 2 OS=Mus musculus GN=Psmd2 PE=1 SV=1	Back alignment and function description

>sp\|Q4FZT9\|PSMD2_RAT 26S proteasome non-ATPase regulatory subunit 2 OS=Rattus norvegicus GN=Psmd2 PE=2 SV=1	Back alignment and function description

>sp\|Q13200\|PSMD2_HUMAN 26S proteasome non-ATPase regulatory subunit 2 OS=Homo sapiens GN=PSMD2 PE=1 SV=3	Back alignment and function description

>sp\|Q5R9I6\|PSMD2_PONAB 26S proteasome non-ATPase regulatory subunit 2 OS=Pongo abelii GN=PSMD2 PE=2 SV=1	Back alignment and function description

>sp\|P87048\|RPN1_SCHPO 26S proteasome regulatory subunit rpn1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpn1 PE=1 SV=2	Back alignment and function description

>sp\|Q7S8R8\|RPN1_NEUCR 26S proteasome regulatory subunit rpn-1 OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=rpn-1 PE=3 SV=2	Back alignment and function description

>sp\|Q54BC6\|PSMD2_DICDI 26S proteasome non-ATPase regulatory subunit 2 OS=Dictyostelium discoideum GN=psmD2 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		813
255553635		895	26S proteasome regulatory subunit rpn1,	0.992	0.901	0.900	0.0
225446449		890	PREDICTED: 26S proteasome non-ATPase reg	0.991	0.905	0.895	0.0
449453553		896	PREDICTED: 26S proteasome non-ATPase reg	0.992	0.900	0.871	0.0
356542984		885	PREDICTED: 26S proteasome non-ATPase reg	0.986	0.906	0.859	0.0
356517488		885	PREDICTED: 26S proteasome non-ATPase reg	0.986	0.906	0.861	0.0
357474441		886	26S proteasome non-ATPase regulatory sub	0.987	0.906	0.862	0.0
18399399		891	26S proteasome regulatory subunit N1 [Ar	0.991	0.904	0.852	0.0
224132892		890	predicted protein [Populus trichocarpa]	0.988	0.903	0.851	0.0
297832660		891	AtRPN1a/RPN1A [Arabidopsis lyrata subsp.	0.988	0.902	0.857	0.0
240256099		891	26S proteasome regulatory subunit S2 1B	0.988	0.902	0.823	0.0

>gi\|255553635\|ref\|XP_002517858.1\| 26S proteasome regulatory subunit rpn1, putative [Ricinus communis] gi\|223542840\|gb\|EEF44376.1\| 26S proteasome regulatory subunit rpn1, putative [Ricinus communis]	Back alignment and taxonomy information

 Score = 1420 bits (3675), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 730/811 (90%), Positives = 776/811 (95%), Gaps = 4/811 (0%)

Query: 1   MAPDPNSASGSGT----KDEASVKVPAKDPKKKDDKKDEDLSEEDLALKQQLELYVERVQ 56
           MAPDPN+ASGSG+    +DEASVKVP+KDPKKKD+KKDEDLS+EDLALKQQLELYVER Q
Sbjct: 1   MAPDPNNASGSGSGATARDEASVKVPSKDPKKKDEKKDEDLSDEDLALKQQLELYVERAQ 60

Query: 57  DPDPGLQKVALESMRTEIRTSTSSMTSVPKPLKFLRPHYGTLKAYYETMPDSDLKKYMAD 116
           DPDP LQKVALESMR EIRTSTSSMTSVPKPLKFLRPHYGTLKA+YETM DSDLKK +AD
Sbjct: 61  DPDPALQKVALESMRQEIRTSTSSMTSVPKPLKFLRPHYGTLKAFYETMTDSDLKKLLAD 120

Query: 117 ILSVLALTMSAEGERESLKYRLLGSEGDIGSWGHEYVRNLAGEIAQEYAKRQTDEASIDD 176
           ILSVLALTMSAEGERESLKYRLLGSE DIGSWGHEYVRNLAGE AQEYAKRQ++E+SIDD
Sbjct: 121 ILSVLALTMSAEGERESLKYRLLGSESDIGSWGHEYVRNLAGECAQEYAKRQSEESSIDD 180

Query: 177 LMELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGP 236
           LMELV +IVAFHMKHNAEPEAVDLLMEVEDLDLL++HVD+TNFKRTCLYLTSAA+YLPGP
Sbjct: 181 LMELVTQIVAFHMKHNAEPEAVDLLMEVEDLDLLIDHVDSTNFKRTCLYLTSAARYLPGP 240

Query: 237 DDMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGI 296
           DDMLVLDIAYMIY+K+EE+ NALQIALFLDNMQYVKQ+FT CDD+LRKKQF YI+ARHGI
Sbjct: 241 DDMLVLDIAYMIYIKYEEYSNALQIALFLDNMQYVKQVFTVCDDVLRKKQFSYIVARHGI 300

Query: 297 TLELDDDMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRAS 356
           T ELDD++  DD+DR ALQDIVNN KLSEGYLTLARDIEVMEPKSP+DIYKAHLLDGRAS
Sbjct: 301 TFELDDEVAADDEDREALQDIVNNTKLSEGYLTLARDIEVMEPKSPDDIYKAHLLDGRAS 360

Query: 357 AGASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAA 416
           AG SVDSARQNLAATFVNAFVNAGFGQDKLMTVPSD+SSGGSSGNWLFKNKEHGK SAAA
Sbjct: 361 AGVSVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDSSSGGSSGNWLFKNKEHGKASAAA 420

Query: 417 SLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGR 476
           SLGMILLWDVDSGLAQIDKYFHS DNHVIAGALLGVGIVNC I+NDCDPALALL +Y+ +
Sbjct: 421 SLGMILLWDVDSGLAQIDKYFHSNDNHVIAGALLGVGIVNCSIKNDCDPALALLGDYIDK 480

Query: 477 EDACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNE 536
           ED+ IRIGAIMGLGI+YAG+QN+QIR KLS ILNDAK+PLDVIAF+AISLGLIYVGSCNE
Sbjct: 481 EDSSIRIGAIMGLGIAYAGSQNEQIRFKLSPILNDAKAPLDVIAFTAISLGLIYVGSCNE 540

Query: 537 EVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCD 596
           EVAQAIIFALMDRSESEL EPLTR +PLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCD
Sbjct: 541 EVAQAIIFALMDRSESELQEPLTRFLPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCD 600

Query: 597 MTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSL 656
           MTLLSCAYAGTGNVLKVQNLLGHCAQH EKGE +QGPAVLGIAMVAMAEELGLEMAIRSL
Sbjct: 601 MTLLSCAYAGTGNVLKVQNLLGHCAQHLEKGETHQGPAVLGIAMVAMAEELGLEMAIRSL 660

Query: 657 EHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSG 716
           EHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIG+G
Sbjct: 661 EHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGAG 720

Query: 717 TNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAG 776
           TNNARIAGMLRNLSSYYYKDA+LLFCVRIAQGLVH+GKGLLTLNPYHSDRFLLSPTALAG
Sbjct: 721 TNNARIAGMLRNLSSYYYKDASLLFCVRIAQGLVHLGKGLLTLNPYHSDRFLLSPTALAG 780

Query: 777 IVTTLFACLDMKAVIVGKYHYVLYFLVLAMQ 807
           ++T L ACLDMKA+I+GKYHYVLYFLVLAMQ
Sbjct: 781 LITMLHACLDMKAIILGKYHYVLYFLVLAMQ 811

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|225446449\|ref\|XP_002277029.1\| PREDICTED: 26S proteasome non-ATPase regulatory subunit 2 1A [Vitis vinifera] gi\|302143338\|emb\|CBI21899.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|449453553\|ref\|XP_004144521.1\| PREDICTED: 26S proteasome non-ATPase regulatory subunit 2 1A-like [Cucumis sativus] gi\|449522658\|ref\|XP_004168343.1\| PREDICTED: 26S proteasome non-ATPase regulatory subunit 2 1A-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|356542984\|ref\|XP_003539943.1\| PREDICTED: 26S proteasome non-ATPase regulatory subunit 2 1A-like [Glycine max]	Back alignment and taxonomy information

>gi\|356517488\|ref\|XP_003527419.1\| PREDICTED: 26S proteasome non-ATPase regulatory subunit 2 1A-like [Glycine max]	Back alignment and taxonomy information

>gi\|357474441\|ref\|XP_003607505.1\| 26S proteasome non-ATPase regulatory subunit [Medicago truncatula] gi\|355508560\|gb\|AES89702.1\| 26S proteasome non-ATPase regulatory subunit [Medicago truncatula]	Back alignment and taxonomy information

>gi|18399399|ref|NP_565477.1| 26S proteasome regulatory subunit N1 [Arabidopsis thaliana] gi|75265911|sp|Q9SIV2.2|RPN1A_ARATH RecName: Full=26S proteasome non-ATPase regulatory subunit 2 1A; AltName: Full=26S proteasome regulatory subunit RPN1 A; Short=AtRPN1a; AltName: Full=26S proteasome regulatory subunit S2 1A gi|13430608|gb|AAK25926.1|AF360216_1 putative 26S proteasome regulatory subunit S2 [Arabidopsis thaliana] gi|14532874|gb|AAK64119.1| putative 26S proteasome regulatory subunit S2 [Arabidopsis thaliana] gi|20198043|gb|AAD21708.2| 26S proteasome regulatory subunit S2 (RPN1) [Arabidopsis thaliana] gi|32700010|gb|AAP86655.1| 26S proteasome subunit RPN1a [Arabidopsis thaliana] gi|330251938|gb|AEC07032.1| 26S proteasome regulatory subunit N1 [Arabidopsis thaliana]

Back alignment and taxonomy information

>gi\|224132892\|ref\|XP_002327906.1\| predicted protein [Populus trichocarpa] gi\|222837315\|gb\|EEE75694.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|297832660\|ref\|XP_002884212.1\| AtRPN1a/RPN1A [Arabidopsis lyrata subsp. lyrata] gi\|297330052\|gb\|EFH60471.1\| AtRPN1a/RPN1A [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi|240256099|ref|NP_194576.5| 26S proteasome regulatory subunit S2 1B [Arabidopsis thaliana] gi|75130218|sp|Q6XJG8.1|RPN1B_ARATH RecName: Full=26S proteasome non-ATPase regulatory subunit 2 1B; AltName: Full=26S proteasome regulatory subunit RPN1 B; Short=AtRPN1b; AltName: Full=26S proteasome regulatory subunit S2 1B gi|32700012|gb|AAP86656.1| 26S proteasome subunit RPN1b [Arabidopsis thaliana] gi|332660090|gb|AEE85490.1| 26S proteasome regulatory subunit S2 1B [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		813
TAIR\|locus:2046016		891	RPN1A "26S proteasome regulato	0.991	0.904	0.775	0.0
TAIR\|locus:2121358		891	RPN1B "26S proteasome regulato	0.988	0.902	0.751	0.0
UNIPROTKB\|E2RCP9		908	PSMD2 "Uncharacterized protein	0.697	0.624	0.466	8.6e-197
RGD\|1305752		908	Psmd2 "proteasome (prosome, ma	0.697	0.624	0.464	1.4e-196
UNIPROTKB\|P56701		908	PSMD2 "26S proteasome non-ATPa	0.697	0.624	0.463	1.4e-196
UNIPROTKB\|Q13200		908	PSMD2 "26S proteasome non-ATPa	0.697	0.624	0.463	1.4e-196
UNIPROTKB\|I3LEW5		908	PSMD2 "Uncharacterized protein	0.697	0.624	0.463	1.4e-196
MGI\|MGI:1096584		908	Psmd2 "proteasome (prosome, ma	0.697	0.624	0.464	1.8e-196
UNIPROTKB\|Q5R9I6		908	PSMD2 "26S proteasome non-ATPa	0.697	0.624	0.461	1.8e-196
ZFIN\|ZDB-GENE-040426-1480		897	psmd2 "proteasome (prosome, ma	0.694	0.629	0.463	8.8e-195

TAIR\|locus:2046016 RPN1A "26S proteasome regulatory subunit S2 1A" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 3191 (1128.3 bits), Expect = 0., P = 0.
 Identities = 627/809 (77%), Positives = 690/809 (85%)

Query:     1 MAP--DPNSASGSGTKDEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXQQLELYVERVQDP 58
             MAP  DPNS  G   KDE                             Q LELYVERVQDP
Sbjct:     1 MAPTQDPNSVGGGAKKDEATLKVPSKDPKKKDEKKDEDLSEEDLELKQNLELYVERVQDP 60

Query:    59 DPGLQKVALESMRTEIRTSTSSMTSVPKPLKFLRPHYGTLKAYYETMPDSDLKKYMADIL 118
             +P LQK ALESMR EIR STSSMTSVPKPLKFLRPHYGTLKA++ETM DSDLKKY++DIL
Sbjct:    61 NPELQKAALESMRQEIRASTSSMTSVPKPLKFLRPHYGTLKAFHETMADSDLKKYLSDIL 120

Query:   119 SVLALTMSAEGERESLKYRLLGSEGDIGSWGHEYVRNLAGEIAQEYAKRQTDEASIDDLM 178
             SVLALTMSA+GERESL++RL+G+EGDIGSWGHEYVRNLAGEIAQEY KRQ++EASIDDLM
Sbjct:   121 SVLALTMSADGERESLRFRLIGTEGDIGSWGHEYVRNLAGEIAQEYTKRQSEEASIDDLM 180

Query:   179 ELVQEIVAFHMKHNAEPXXXXXXXXXXXXXXXXXXXXATNFKRTCLYLTSAAKYLPGPDD 238
             ELVQ+IVAFHMKHNAE                      TNFKRTC YLTSAA+YLPGPDD
Sbjct:   181 ELVQQIVAFHMKHNAETEAVDLLMDVEDLDLLLEHVDKTNFKRTCNYLTSAARYLPGPDD 240

Query:   239 MLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITL 298
             MLVLDI+YMIY+KFEE+PNALQIALFLDN QYVKQ+FTSC DLL+KKQFCY++ARHGIT 
Sbjct:   241 MLVLDISYMIYMKFEEYPNALQIALFLDNTQYVKQVFTSCTDLLKKKQFCYMIARHGITF 300

Query:   299 ELXXXXXXXXXXRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASAG 358
             EL          R ALQDIVNN KLSEGYLTLARDIEVME K+PEDIYKAHLLDGRAS+G
Sbjct:   301 ELDDEMVADDDDREALQDIVNNTKLSEGYLTLARDIEVMEAKTPEDIYKAHLLDGRASSG 360

Query:   359 ASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASL 418
             ASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSD+++G SSGNWLFKNKEHGK SAAASL
Sbjct:   361 ASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDSTTG-SSGNWLFKNKEHGKTSAAASL 419

Query:   419 GMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGRED 478
             GMI LWDVDSGL+Q+DKYFHS DN +IAGALLGVGIVNCGI+NDCDPALALL +Y+ +ED
Sbjct:   420 GMIQLWDVDSGLSQLDKYFHSNDNPIIAGALLGVGIVNCGIKNDCDPALALLGDYIDKED 479

Query:   479 ACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEV 538
             + +RIGAIMGLGISYAG+QNDQIR+KLS ILNDAK+PLDVIAF+++SLG+IYVGSCNEEV
Sbjct:   480 SSVRIGAIMGLGISYAGSQNDQIRNKLSPILNDAKAPLDVIAFASLSLGMIYVGSCNEEV 539

Query:   539 AQAIIFALMDRSESELGEPXXXXXXXXXXXXXXXKQESVEATAEVSKTFNEKIRKYCDMT 598
             AQ+IIFALMDRSE+ELG+                KQESVEATAEVSKTFNEKIRKYCDMT
Sbjct:   540 AQSIIFALMDRSEAELGDALTRFLPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMT 599

Query:   599 LLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEH 658
             LLSCAYAGTGNVLKVQ+LL  C +H EKG+ +QGPAVLG+AMVAM+EELG++M IRSLE 
Sbjct:   600 LLSCAYAGTGNVLKVQDLLAQCGEHLEKGDIHQGPAVLGLAMVAMSEELGVDMEIRSLER 659

Query:   659 LLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTN 718
             +LQYGEQNIRRAVPLALGLLCISNPKV VMDTLSRLSHDTDSEVAM+A+ISLGLIG+GTN
Sbjct:   660 MLQYGEQNIRRAVPLALGLLCISNPKVTVMDTLSRLSHDTDSEVAMSAIISLGLIGAGTN 719

Query:   719 NARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIV 778
             NARIAGMLRNLSSYYYKD +LLFCVRIAQGLVHMGKGLLTL+P+HS+RFLLSPTALAGIV
Sbjct:   720 NARIAGMLRNLSSYYYKDMSLLFCVRIAQGLVHMGKGLLTLSPFHSERFLLSPTALAGIV 779

Query:   779 TTLFACLDMKAVIVGKYHYVLYFLVLAMQ 807
             T L ACLDMK +I+GKYHYVLYFLVLAMQ
Sbjct:   780 TLLHACLDMKPIILGKYHYVLYFLVLAMQ 808

GO:0000502 "proteasome complex" evidence=IEA;IDA

GO:0005634 "nucleus" evidence=ISM;TAS

GO:0008540 "proteasome regulatory particle, base subcomplex" evidence=ISS;IDA

GO:0030234 "enzyme regulator activity" evidence=IEA

GO:0042176 "regulation of protein catabolic process" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=RCA;TAS

GO:0030163 "protein catabolic process" evidence=TAS

GO:0051726 "regulation of cell cycle" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

GO:0043130 "ubiquitin binding" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005829 "cytosol" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0006094 "gluconeogenesis" evidence=RCA

GO:0007010 "cytoskeleton organization" evidence=RCA

GO:0009630 "gravitropism" evidence=RCA

GO:0010498 "proteasomal protein catabolic process" evidence=RCA

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=RCA

GO:0043248 "proteasome assembly" evidence=RCA

GO:0051788 "response to misfolded protein" evidence=RCA

TAIR\|locus:2121358 RPN1B "26S proteasome regulatory subunit S2 1B" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

UNIPROTKB\|E2RCP9 PSMD2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

RGD\|1305752 Psmd2 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 2" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

UNIPROTKB\|P56701 PSMD2 "26S proteasome non-ATPase regulatory subunit 2" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

UNIPROTKB\|Q13200 PSMD2 "26S proteasome non-ATPase regulatory subunit 2" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|I3LEW5 PSMD2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

MGI\|MGI:1096584 Psmd2 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 2" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

UNIPROTKB\|Q5R9I6 PSMD2 "26S proteasome non-ATPase regulatory subunit 2" [Pongo abelii (taxid:9601)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-040426-1480 psmd2 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 2" [Danio rerio (taxid:7955)]	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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q6XJG8	RPN1B_ARATH	No assigned EC number	0.8236	0.9889	0.9023	no	no
Q4FZT9	PSMD2_RAT	No assigned EC number	0.5042	0.9655	0.8645	yes	no
Q54BC6	PSMD2_DICDI	No assigned EC number	0.4654	0.9434	0.8589	yes	no
Q5R9I6	PSMD2_PONAB	No assigned EC number	0.4993	0.9692	0.8678	yes	no
P87048	RPN1_SCHPO	No assigned EC number	0.4613	0.9704	0.8855	yes	no
Q13200	PSMD2_HUMAN	No assigned EC number	0.5006	0.9692	0.8678	yes	no
P56701	PSMD2_BOVIN	No assigned EC number	0.4993	0.9717	0.8700	yes	no
Q9SIV2	RPN1A_ARATH	No assigned EC number	0.8529	0.9913	0.9046	yes	no
Q8VDM4	PSMD2_MOUSE	No assigned EC number	0.5042	0.9655	0.8645	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

Your Input:
	RPN1A	RPN1A (26S PROTEASOME REGULATORY SUBUNIT S2 1A); binding / enzyme regulator; encoding the RPN subunits of the 26S proteasome (891 aa)
		(Arabidopsis thaliana)
Predicted Functional Partners:
	RPT2a	RPT2a (regulatory particle AAA-ATPase 2a); ATPase; 26S proteasome AAA-ATPase subunit RPT2a (RPT [...] (443 aa)	•	•	•	•	0.999
	AT5G23540	26S proteasome regulatory subunit, putative; 26S proteasome regulatory subunit, putative; INVOL [...] (308 aa)	•	•	•	•	0.997
	RPN8A	RPN8A (RP NON-ATPASE SUBUNIT 8A); Encodes a putative 26S proteasome subunit RPN8a. The function [...] (308 aa)	•	•	•	•	0.997
	RPT5A	RPT5A (REGULATORY PARTICLE TRIPLE-A ATPASE 5A); ATPase/ calmodulin binding; Encodes RPT5a (Regu [...] (424 aa)	•	•	•	•	0.997
	RPN12a	RPN12a (Regulatory Particle non-ATPase 12a); peptidase; Regulatory Particle non-ATPase 12a (RPN [...] (267 aa)	•	•	•	•	0.997
	EMB2719	EMB2719 (EMBRYO DEFECTIVE 2719); enzyme regulator; EMBRYO DEFECTIVE 2719 (EMB2719); FUNCTIONS I [...] (488 aa)	•	•	•	•	0.996
	RPT1A	RPT1A (REGULATORY PARTICLE TRIPLE-A 1A); ATPase; 26S proteasome AAA-ATPase subunit RPT1a (RPT1a [...] (426 aa)	•	•	•	•	0.996
	AT4G24820	26S proteasome regulatory subunit, putative (RPN7); 26S proteasome regulatory subunit, putative [...] (387 aa)	•	•	•	•	0.995
	AT5G20000	26S proteasome AAA-ATPase subunit, putative; 26S proteasome AAA-ATPase subunit, putative; FUNCT [...] (419 aa)	•	•	•	•	0.994
	RPN10	RPN10 (REGULATORY PARTICLE NON-ATPASE 10); peptide receptor; Regulatory particle non-ATPase sub [...] (386 aa)	•	•	•	•	0.992

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		813
COG5110		881	COG5110, RPN1, 26S proteasome regulatory complex c	0.0
COG5116		926	COG5116, RPN2, 26S proteasome regulatory complex c	1e-21

>gnl\|CDD\|227441 COG5110, RPN1, 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

 Score =  739 bits (1909), Expect = 0.0
 Identities = 320/810 (39%), Positives = 481/810 (59%), Gaps = 28/810 (3%)

Query: 7   SASGSGTKDEASVKVPAK-DPKKKDDKKDE--DLSEEDLALKQQLELYVERVQDPDPGLQ 63
           S     T DE S   P K  P KKD KK+E   LSEED  LK  LEL VER+QDPD  LQ
Sbjct: 5   SDKKQQTIDEQSQISPEKQTPNKKDKKKEEEEQLSEEDAMLKGDLELLVERIQDPDIDLQ 64

Query: 64  KVALESMRTEIRTSTSSMTSVPKPLKFLRPHYGTLKAYYETMPDSDLKKYMADILSVLAL 123
             +L  ++  I++STSSMT+VPKPLKFLRP+Y  L   Y+   + + K+++ADILS L +
Sbjct: 65  NNSLNMLKEVIKSSTSSMTAVPKPLKFLRPNYLDLLEIYDKWLEGNKKRWLADILSALCM 124

Query: 124 TMSAEGERESLKYRLLGSEGDIGSWGHEYVRNLAGEIAQEYAKRQTDEA-SIDDLMELVQ 182
             S  G+ +SL YRL G+  D+  WGHEYVR+LAGEIA+    +   +A S  D  +L  
Sbjct: 125 VYSENGKHKSLAYRLEGNIIDLKEWGHEYVRHLAGEIAEVKNDQNEMDAPSFADTRDLGL 184

Query: 183 EIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPDDMLVL 242
           EIV F +KHNAE +A+DLL+EV  ++ +++ VD  N+ R CLYL      LP P+D+ +L
Sbjct: 185 EIVPFFLKHNAEFDAIDLLVEVGGIEKVLDFVDTHNYNRVCLYLEDCVPLLPPPEDVALL 244

Query: 243 DIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITLELDD 302
           + A  IYLK  +   A+  A+ L   + + +   + +D   KKQ  YILAR  +  E  D
Sbjct: 245 ETALKIYLKMGDLTRAVVGAIRLQKSKEIIEYVRAIEDPDYKKQCLYILARQNLYYEASD 304

Query: 303 DMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASAG-ASV 361
           +           +DI++N  LS+ +  L +++ + +PK PEDI K HL   + +   A +
Sbjct: 305 E---------EEKDILSNGYLSDHFRYLGKELNLDKPKVPEDILKGHLKYDKDTRQLAGI 355

Query: 362 DSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASLGMI 421
            SA QNLA  FVN  +N G+  D L  +P D         W++K K  G +SA AS+G+I
Sbjct: 356 GSANQNLAMGFVNDPINLGYENDSL--IPLDD-------EWIYKCKVPGLISAFASIGVI 406

Query: 422 LLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACI 481
             W+ D GL  +DKY ++ +++  AGALLG+G+    +  +  PALALLS Y+    +  
Sbjct: 407 ESWNSDKGLETLDKYLYADESYRKAGALLGIGLSGLRVFEERPPALALLSNYLQSSSSKH 466

Query: 482 RIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQA 541
            I AI+GLG +++GTQ +++   L  I+    SP++V+ F++++LG ++VG+CN ++   
Sbjct: 467 VIAAILGLGAAFSGTQAEEVLELLQPIMFSTDSPIEVVFFASLTLGSVFVGTCNGDLTSL 526

Query: 542 IIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMTLLS 601
           I+   ++R + E      R + LGL  L+ G+++ V+   E        + K+ ++ +  
Sbjct: 527 ILQTFVERGKIESETQWFRFLALGLASLFYGRKDQVDDVEETIMAIEGALSKHEEILVKG 586

Query: 602 CAYAGTGNVLKVQNLLGHCAQ-----HHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSL 656
           C Y GTG+VL +Q+LL    +        +    +  A+LG A++AM E++G EM +R  
Sbjct: 587 CQYVGTGDVLVIQSLLHVKDEFTGDTLKNEEALIESLALLGCALIAMGEDIGSEMVLRHF 646

Query: 657 EHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSG 716
            H + YG  +IR  +PLA G+L  SNP++NV DTL R SHD D  V +  + ++GLIG+G
Sbjct: 647 SHSMHYGSSHIRSVLPLAYGILSPSNPQMNVFDTLERSSHDGDLNVIINTIFAMGLIGAG 706

Query: 717 TNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAG 776
           T NAR+A +LR L+SYYYK++  LF +RIAQGL+ +GKG +T++P + D+  L P   AG
Sbjct: 707 TLNARLAQLLRQLASYYYKESKALFVLRIAQGLLSLGKGTMTISPLYFDKTTLMPKNTAG 766

Query: 777 IVTTLFACLDMKAVIVGKYHYVLYFLVLAM 806
           + TT+F  LD     +   H ++YFL+  +
Sbjct: 767 LFTTVFMLLDSSIFPLVSSHALMYFLLCQI 796

Length = 881

>gnl\|CDD\|227446 COG5116, RPN2, 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		813
KOG2005		878	consensus 26S proteasome regulatory complex, subun	100.0
COG5110		881	RPN1 26S proteasome regulatory complex component [	100.0
KOG2062		929	consensus 26S proteasome regulatory complex, subun	100.0
COG5116		926	RPN2 26S proteasome regulatory complex component [	100.0
KOG2062		929	consensus 26S proteasome regulatory complex, subun	100.0
COG5116		926	RPN2 26S proteasome regulatory complex component [	100.0
KOG2005		878	consensus 26S proteasome regulatory complex, subun	100.0
COG5110		881	RPN1 26S proteasome regulatory complex component [	100.0
KOG1858		1496	consensus Anaphase-promoting complex (APC), subuni	99.94
PRK09687		280	putative lyase; Provisional	99.21
KOG1858		1496	consensus Anaphase-promoting complex (APC), subuni	99.17
PRK09687		280	putative lyase; Provisional	99.12
PRK13800		897	putative oxidoreductase/HEAT repeat-containing pro	99.08
PRK13800		897	putative oxidoreductase/HEAT repeat-containing pro	98.78
TIGR02270		410	conserved hypothetical protein. Members are found	98.3
COG1413		335	FOG: HEAT repeat [Energy production and conversion	98.24
TIGR02270		410	conserved hypothetical protein. Members are found	98.18
KOG2171		1075	consensus Karyopherin (importin) beta 3 [Nuclear s	98.09
COG1413		335	FOG: HEAT repeat [Energy production and conversion	97.84
PF01851		35	PC_rep: Proteasome/cyclosome repeat; InterPro: IPR	97.71
PF01851		35	PC_rep: Proteasome/cyclosome repeat; InterPro: IPR	97.71
PF13646		88	HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2I	97.67
PF13646		88	HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2I	97.46
KOG0567		289	consensus HEAT repeat-containing protein [General	97.46
KOG0166		514	consensus Karyopherin (importin) alpha [Intracellu	97.24
PLN03200		2102	cellulose synthase-interactive protein; Provisiona	97.16
PTZ00429		746	beta-adaptin; Provisional	97.03
PF01602		526	Adaptin_N: Adaptin N terminal region; InterPro: IP	97.0
PF01602		526	Adaptin_N: Adaptin N terminal region; InterPro: IP	96.93
PLN03200		2102	cellulose synthase-interactive protein; Provisiona	96.74
TIGR02917		899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	96.32
KOG1824		1233	consensus TATA-binding protein-interacting protein	96.14
TIGR02917		899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	96.07
PRK11788		389	tetratricopeptide repeat protein; Provisional	96.07
KOG0567		289	consensus HEAT repeat-containing protein [General	95.79
PF12755		97	Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region	95.61
PF13513		55	HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O	95.47
COG5064		526	SRP1 Karyopherin (importin) alpha [Intracellular t	95.45
PTZ00429		746	beta-adaptin; Provisional	95.26
KOG2171		1075	consensus Karyopherin (importin) beta 3 [Nuclear s	94.68
PRK10049		765	pgaA outer membrane protein PgaA; Provisional	94.13
PRK11788		389	tetratricopeptide repeat protein; Provisional	93.91
smart00638		574	LPD_N Lipoprotein N-terminal Domain.	93.84
KOG2023		885	consensus Nuclear transport receptor Karyopherin-b	93.18
COG5064		526	SRP1 Karyopherin (importin) alpha [Intracellular t	93.15
COG5240		898	SEC21 Vesicle coat complex COPI, gamma subunit [In	92.86
cd00020		120	ARM Armadillo/beta-catenin-like repeats. An approx	92.6
KOG1078		865	consensus Vesicle coat complex COPI, gamma subunit	92.01
KOG0166		514	consensus Karyopherin (importin) alpha [Intracellu	91.47
COG5096		757	Vesicle coat complex, various subunits [Intracellu	90.57
smart00638		574	LPD_N Lipoprotein N-terminal Domain.	90.55
PF01347		618	Vitellogenin_N: Lipoprotein amino terminal region;	90.53
PF12348		228	CLASP_N: CLASP N terminal; InterPro: IPR024395 Thi	89.86
PF05004		309	IFRD: Interferon-related developmental regulator (	89.82
KOG1824		1233	consensus TATA-binding protein-interacting protein	89.66
KOG1060		968	consensus Vesicle coat complex AP-3, beta subunit	89.66
COG5096		757	Vesicle coat complex, various subunits [Intracellu	89.65
PRK12370		553	invasion protein regulator; Provisional	89.47
KOG4224		550	consensus Armadillo repeat protein VAC8 required f	89.04
PF01347		618	Vitellogenin_N: Lipoprotein amino terminal region;	89.03
COG5240		898	SEC21 Vesicle coat complex COPI, gamma subunit [In	87.1
KOG1059		877	consensus Vesicle coat complex AP-3, delta subunit	86.4
PF02985		31	HEAT: HEAT repeat; InterPro: IPR000357 The HEAT re	85.72
PF12717		178	Cnd1: non-SMC mitotic condensation complex subunit	85.61
PRK15174		656	Vi polysaccharide export protein VexE; Provisional	85.47
PF13513		55	HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O	85.08
PF05004		309	IFRD: Interferon-related developmental regulator (	84.89
cd05804		355	StaR_like StaR_like; a well-conserved protein foun	84.79
PRK15174		656	Vi polysaccharide export protein VexE; Provisional	83.77
cd00020		120	ARM Armadillo/beta-catenin-like repeats. An approx	82.47
KOG0211		759	consensus Protein phosphatase 2A regulatory subuni	81.62

>KOG2005 consensus 26S proteasome regulatory complex, subunit RPN1/PSMD2 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

Probab=100.00  E-value=1.4e-205  Score=1684.46  Aligned_cols=776  Identities=64%  Similarity=0.990  Sum_probs=747.4

Q ss_pred             CCCCCCCCCCccccCCCHHHHHhHHHHHHHHHHhCCCChhHHHHHHHHHHHHHhhhccccccCCCccchhhhhHHHHHHH
Q 003521           22 PAKDPKKKDDKKDEDLSEEDLALKQQLELYVERVQDPDPGLQKVALESMRTEIRTSTSSMTSVPKPLKFLRPHYGTLKAY  101 (813)
Q Consensus        22 ~~~~~~~~~~~~~~~lseed~~lk~~l~~~v~~l~e~d~~l~~~aL~~L~~~i~~~tss~tsvpkplk~l~~~~~~l~~~  101 (813)
                      +.++.++|+++|||+|||||+|||++||++|+|++|+|++|+++||++|+++||+|||||||||||||||||||++|+++
T Consensus        24 ~~k~~~~k~~~k~e~lSEED~~lk~dLellVervqdpd~~Lq~~aLe~lr~~irsStSSmtsvpkPlKFLrphy~~Lk~i  103 (878)
T KOG2005|consen   24 PNKKNKKKDKDKEEDLSEEDLQLKGDLELLVERVQDPDPDLQKAALESLREEIRSSTSSMTSVPKPLKFLRPHYGVLKEI  103 (878)
T ss_pred             CccccccccchhhhhccHHHHHhhhhHHHHHHHhcCCChHHHHHHHHHHHHHHHhcccccccCCchhhhhccchhHHHHH
Confidence            34444566677789999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCCCcchHHHHHHHHHHHHhhccccccccchhhhhcCCCCCCCCcccHHHHHHHHHHHHHHHHhccCccCHHHHHHHH
Q 003521          102 YETMPDSDLKKYMADILSVLALTMSAEGERESLKYRLLGSEGDIGSWGHEYVRNLAGEIAQEYAKRQTDEASIDDLMELV  181 (813)
Q Consensus       102 ye~~~~~~~k~~~AdilS~l~~t~~~~~~~~~L~y~L~~~~~d~~~wgheYvr~l~~~i~~~y~~~~~~~~~~~~L~~lv  181 (813)
                      |++|.+++.|+++|||+|||+|||+.  ..+.|+|||.|+..|+++|||||||||++||.++|+++..+.+..++|..|+
T Consensus       104 ~~~~~~~n~Kk~laDIlSvLamt~se--~~~~l~YRl~G~~~d~~~WGHeYVRhLageIaee~~~~~~e~~~~~dl~~l~  181 (878)
T KOG2005|consen  104 YESMADSNLKKWLADILSVLAMTMSE--RGEHLAYRLLGSIIDLGSWGHEYVRHLAGEIAEEYNNREMEAPSKADLLDLV  181 (878)
T ss_pred             HHhccCchhHhHHHHHHHHHheeecc--cchheeeeeccccCChhhhHHHHHHHHHHHHHHHHhhccccccchHHHHHHH
Confidence            99999999999999999999999984  4567999999999999999999999999999999999665556689999999


Q ss_pred             HHHHHHHhcCCCHHHHHHHHHhcCChhhhHHHhhccChHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHccCCHHHHHHH
Q 003521          182 QEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPDDMLVLDIAYMIYLKFEEFPNALQI  261 (813)
Q Consensus       182 ~~iv~~~l~~n~e~eAvdlalE~~~ld~i~~~vd~~~~~rv~~Yl~~~~~~~~~p~~~~vl~~~~~iy~~~~~~~~al~~  261 (813)
                      .+||+||||||+|.||||+++|+++||++.+|||++||+|+|+|+.+|++++|+|+|..++++++.||+|+++|++|+++
T Consensus       182 ~~iV~f~mkHNAE~eAiDlL~Eve~id~l~~~Vd~~n~~RvclYl~sc~~~lP~Pdd~~ll~~a~~IYlKf~~~~~al~~  261 (878)
T KOG2005|consen  182 QEIVPFHMKHNAEFEAIDLLMEVEGIDLLLDYVDEHNYQRVCLYLTSCVPLLPGPDDVALLRTALKIYLKFNEYPRALVG  261 (878)
T ss_pred             HHHHHHHHhccchhHHHHHHHHhhhHhHHHHHhhhhhHHHHHHHHHHHhhcCCCchhhHHHHHHHHHHHHHHHhHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhCCChHHHHHHHHhcchHHHHHHHHHHHHhhcccccccCCCCCCcchHHHHHHHHcccCcchhHHHHHHHhhccCCCC
Q 003521          262 ALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITLELDDDMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVMEPKS  341 (813)
Q Consensus       262 al~l~d~~~i~~i~~~~~d~~~~~Qlaf~larq~~~~~~~~~~~~~~~~~~~l~~il~n~~l~~~~~~~~~~l~i~~~k~  341 (813)
                      ||+++|.+.|+++|.+|+|+.++||+||+||||++.++..+        ++.+++|++|.+++++|+++++|+++++||+
T Consensus       262 ai~l~~~~~v~~vf~s~~D~~~kKQ~~ymLaR~~i~~e~~~--------~e~l~di~sN~~Lse~f~~LarELeimepk~  333 (878)
T KOG2005|consen  262 AIRLDDMKEVKEVFTSCTDPLLKKQMAYMLARHGIYFELSE--------DEELQDILSNGKLSEHFLYLARELEIMEPKV  333 (878)
T ss_pred             HHhcCcHHHHHHHHHhccCHHHHHHHHHHHHhcCCceecCc--------CHHHHHHHccccHHHHHHHHHHHhcccCCCC
Confidence            99999999999999999999999999999999999998742        4789999999999999999999999999999


Q ss_pred             hHHHHHhhhccCCCCcCcchhHHHHhHHHHHHHHHHhcccCCccccccCCCCCCCCCCCccccccchhhHHHHHHHhhhh
Q 003521          342 PEDIYKAHLLDGRASAGASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASLGMI  421 (813)
Q Consensus       342 ~e~iyK~~l~~~r~~~~~~~dsa~~~la~~~~na~vnaG~~~D~~l~~~~~~~~~~~~~~wl~k~~~~~k~sA~aslGlI  421 (813)
                      ||+|||+|++++|...++++||||||+|++|||||||+|||+||+|.+..+     +..+|+|||+++++.+|+||+|+|
T Consensus       334 pedIyK~hl~~~r~~s~a~vdSarqnla~~fvNgFVn~Gyg~Dkl~~~~~~-----s~~~w~yknke~g~~sa~aS~G~I  408 (878)
T KOG2005|consen  334 PEDIYKSHLEDSRGGSGAGVDSARQNLAATFVNGFVNAGYGQDKLMLVQEG-----SRVNWLYKNKEHGMTSAAASLGMI  408 (878)
T ss_pred             hHHHHHHHHhccccccccCccHHHHHHHHHHHHHHhhcccCCCceeccCcc-----ccCcceeeccccCchHhhhhcchh
Confidence            999999999998966678999999999999999999999999999998753     456799999999999999999999


Q ss_pred             cccccchhHHhHhhhhcCCChhhHHHHHHHHHHhhcCCCCChhhHHHHHHHhhcCCCHHHHHHHHHHHHHHhccCCCHHH
Q 003521          422 LLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQNDQI  501 (813)
Q Consensus       422 ~~~~~~~~l~~l~~yL~s~~~~~k~GAllaLGli~~g~~~e~d~~~~lL~~~L~~~~~~v~~gA~lGLGl~y~Gs~~e~i  501 (813)
                      .+||+|.|++++++|++++++|+|+||++|+|++++|+++||||++++|++|+.+++..+|+||++|||++|+||+++++
T Consensus       409 ~~Wnvd~gL~qldkylys~~~~ikaGaLLgigi~~~gv~ne~dpalALLsdyv~~~~s~~ri~aIlGLglayaGsq~e~V  488 (878)
T KOG2005|consen  409 QLWNVDKGLEQLDKYLYSDESYIKAGALLGIGISNSGVFNECDPALALLSDYLQSSSSIHRIGAILGLGLAYAGSQREEV  488 (878)
T ss_pred             heecchhhHHHHHHHhhcCCchhhhccceeeeeeccccccccCHHHHHHHHhccCCCceeehHHhhhhHHhhcCCchHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCCCCchhHHHHHHHHHhhHhcCCCCHHHHHHHHHHHhccCccccCchhHHHHHHHHHHhhcCChhhHHHHH
Q 003521          502 RHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATA  581 (813)
Q Consensus       502 ~e~L~~~L~d~~~~~e~~~~AaLaLGLi~lGs~~~e~~e~ll~~L~~~~~~~l~e~~~r~~~lglgLl~lG~~e~~~~~i  581 (813)
                      ...|.|++.|++.++|+.++|+|+||+||+||||+++++.|++++|++.++++.+.|.||+++|+|++|+|++|.+|++.
T Consensus       489 ~~lL~Pi~~d~~~~~ev~~~aslsLG~IfvGscn~dvts~ilqtlmekse~El~d~~~RFL~LGL~llflgkqe~~d~~~  568 (878)
T KOG2005|consen  489 LELLSPIMFDTKSPMEVVAFASLSLGMIFVGSCNEDVTSSILQTLMEKSETELEDQWFRFLALGLALLFLGKQESVDAVV  568 (878)
T ss_pred             HHHHhHHhcCCCCchhHHHHHHhhcceeEEecCChHHHHHHHHHHHHhhhhhhhchHHHHHHHHHHHHHhcccchHHHHH
Confidence            99999999988888999999999999999999999999999999999999889999999999999999999999999999


Q ss_pred             HHhhhhhhhhhhhhhHHHHHHHHhcCCCHHHH--HHHHhhhcccCCCCcchhhHHHHHHHHhhccchhhHHHHHHHHHHH
Q 003521          582 EVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKV--QNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHL  659 (813)
Q Consensus       582 ~~L~~~~~p~~r~~~~~~~glAyaGTGn~~~i--q~LL~~~~~~~~d~~~vrr~AvlglalI~~~~~~g~e~~~~~l~~L  659 (813)
                      +.++++++|+.++..+++.+|||+||||+.+|  |.++|+|.+|..+.+..+..||+|+|+|+||+++|++|+.|+|+|+
T Consensus       569 e~~~~i~~~~~~~~~~lv~~caYaGTGnvl~Iq~q~ll~~cgE~~~~~e~~~~~avLgiAliAMgeeig~eM~lR~f~h~  648 (878)
T KOG2005|consen  569 ETIKAIEGPIRKHESILVKSCAYAGTGNVLKIQSQLLLSFCGEHDADLESEQELAVLGIALIAMGEEIGSEMVLRHFGHL  648 (878)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhhccccCceEEechhhhhhhcCCCccchhhhccchhhhhhhhhhhhhhhhHHHHHHHHHH
Confidence            99999999999999999999999999999999  8899999999876555677999999999999999999999999999


Q ss_pred             hhcCChhHHhHHHHHHhhhccCCCchhHHHHHHHhhcCCchHHHHHHHHHHHHHcCCCCchHHHHHHHHHhhhhccChhh
Q 003521          660 LQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNNARIAGMLRNLSSYYYKDANL  739 (813)
Q Consensus       660 ~~~~~~~VR~g~~lALGL~~aGt~~~~aid~L~~l~~D~d~~Vr~~AiiAlGlV~aGt~n~rv~~~Lr~l~~~~~~d~~~  739 (813)
                      ++|++|+||+++|+|+|++|+|||+.+|+|+|++++||.|.+|..+||||||+|||||||+|++++||||+|||+||+++
T Consensus       649 l~yge~~iRravPLal~llsvSNPq~~vlDtLsk~shd~D~eva~naIfamGLiGAGTnNARla~mLrqlaSYyyKd~~~  728 (878)
T KOG2005|consen  649 LHYGEPHIRRAVPLALGLLSVSNPQVNVLDTLSKFSHDGDLEVAMNAIFAMGLIGAGTNNARLAQMLRQLASYYYKDSKA  728 (878)
T ss_pred             HHcCCHHHHHHHHHHHhhhccCCCcchHHHHHHHhccCcchHHHHHHHHHhccccCCcchHHHHHHHHHHHHHHhccchh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhhcCCCcccccccCCCCCCCChHHHHHHHHHHhhhcccccccccchhHHHHHHhhhhcccccC
Q 003521          740 LFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQNVTDC  812 (813)
Q Consensus       740 ~f~~~lAqGll~~G~g~~tlsp~~sd~~~~~~~a~~gL~~~l~~~ld~~~~i~~~~~~l~~~l~~a~~Pr~l~  812 (813)
                      +|.+||||||+|+|||++|++|+|+||++++|+|+|||++++++|+|++.+++.++||++|||++||+|||++
T Consensus       729 Lf~vriAQGL~hlGKGtltl~p~~~dr~ll~p~alagl~t~~~~~LD~~i~l~~~~H~~ly~Lv~amqprm~~  801 (878)
T KOG2005|consen  729 LFVVRIAQGLVHLGKGTLTLSPFHSDRQLLMPTALAGLLTTVFALLDANIILLVKSHYLLYFLVLAMQPRMLV  801 (878)
T ss_pred             HHHHHHHHHHHHhcCCceecccccchhhhhchHHHHHHHHHHHHHhccchhccchHHHHHHHHHHhhCceEEE
Confidence            9999999999999999999999999999999999999999999999999666668999999999999999985

>COG5110 RPN1 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG2062 consensus 26S proteasome regulatory complex, subunit RPN2/PSMD1 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>COG5116 RPN2 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG2062 consensus 26S proteasome regulatory complex, subunit RPN2/PSMD1 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>COG5116 RPN2 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG2005 consensus 26S proteasome regulatory complex, subunit RPN1/PSMD2 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>COG5110 RPN1 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1858 consensus Anaphase-promoting complex (APC), subunit 1 (meiotic check point regulator/Tsg24) [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK09687 putative lyase; Provisional	Back alignment and domain information

>KOG1858 consensus Anaphase-promoting complex (APC), subunit 1 (meiotic check point regulator/Tsg24) [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK09687 putative lyase; Provisional	Back alignment and domain information

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional	Back alignment and domain information

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional	Back alignment and domain information

>TIGR02270 conserved hypothetical protein	Back alignment and domain information

>COG1413 FOG: HEAT repeat [Energy production and conversion]	Back alignment and domain information

>TIGR02270 conserved hypothetical protein	Back alignment and domain information

>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>COG1413 FOG: HEAT repeat [Energy production and conversion]	Back alignment and domain information

>PF01851 PC_rep: Proteasome/cyclosome repeat; InterPro: IPR002015 A weakly conserved repeat module of unknown function, which occurs in two regulatory subunits of the 26S-proteasome and in one subunit of the APC-complex (cyclosome) []	Back alignment and domain information

>PF01851 PC_rep: Proteasome/cyclosome repeat; InterPro: IPR002015 A weakly conserved repeat module of unknown function, which occurs in two regulatory subunits of the 26S-proteasome and in one subunit of the APC-complex (cyclosome) []	Back alignment and domain information

>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A	Back alignment and domain information

>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A	Back alignment and domain information

>KOG0567 consensus HEAT repeat-containing protein [General function prediction only]	Back alignment and domain information

>KOG0166 consensus Karyopherin (importin) alpha [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>PLN03200 cellulose synthase-interactive protein; Provisional	Back alignment and domain information

>PTZ00429 beta-adaptin; Provisional	Back alignment and domain information

>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment	Back alignment and domain information

>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment	Back alignment and domain information

>PLN03200 cellulose synthase-interactive protein; Provisional	Back alignment and domain information

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein	Back alignment and domain information

>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]	Back alignment and domain information

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein	Back alignment and domain information

>PRK11788 tetratricopeptide repeat protein; Provisional	Back alignment and domain information

>KOG0567 consensus HEAT repeat-containing protein [General function prediction only]	Back alignment and domain information

>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region	Back alignment and domain information

>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B	Back alignment and domain information

>COG5064 SRP1 Karyopherin (importin) alpha [Intracellular trafficking and secretion]	Back alignment and domain information

>PTZ00429 beta-adaptin; Provisional	Back alignment and domain information

>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>PRK10049 pgaA outer membrane protein PgaA; Provisional	Back alignment and domain information

>PRK11788 tetratricopeptide repeat protein; Provisional	Back alignment and domain information

>smart00638 LPD_N Lipoprotein N-terminal Domain	Back alignment and domain information

>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>COG5064 SRP1 Karyopherin (importin) alpha [Intracellular trafficking and secretion]	Back alignment and domain information

>COG5240 SEC21 Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]	Back alignment and domain information

>cd00020 ARM Armadillo/beta-catenin-like repeats	Back alignment and domain information

>KOG1078 consensus Vesicle coat complex COPI, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>KOG0166 consensus Karyopherin (importin) alpha [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>COG5096 Vesicle coat complex, various subunits [Intracellular trafficking and secretion]	Back alignment and domain information

>smart00638 LPD_N Lipoprotein N-terminal Domain	Back alignment and domain information

>PF01347 Vitellogenin_N: Lipoprotein amino terminal region; InterPro: IPR001747 This entry represents a conserved region found in several lipid transport proteins, including vitellogenin, microsomal triglyceride transfer protein and apolipoprotein B-100 []	Back alignment and domain information

>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]	Back alignment and domain information

>PF05004 IFRD: Interferon-related developmental regulator (IFRD); InterPro: IPR007701 Interferon-related developmental regulator (IFRD1) is the human homologue of the Rattus norvegicus early response protein PC4 and its murine homologue TIS7 []	Back alignment and domain information

>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]	Back alignment and domain information

>KOG1060 consensus Vesicle coat complex AP-3, beta subunit [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>COG5096 Vesicle coat complex, various subunits [Intracellular trafficking and secretion]	Back alignment and domain information

>PRK12370 invasion protein regulator; Provisional	Back alignment and domain information

>KOG4224 consensus Armadillo repeat protein VAC8 required for vacuole fusion, inheritance and cytosol-to-vacuole protein targeting [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>PF01347 Vitellogenin_N: Lipoprotein amino terminal region; InterPro: IPR001747 This entry represents a conserved region found in several lipid transport proteins, including vitellogenin, microsomal triglyceride transfer protein and apolipoprotein B-100 []	Back alignment and domain information

>COG5240 SEC21 Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]	Back alignment and domain information

>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []	Back alignment and domain information

>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1	Back alignment and domain information

>PRK15174 Vi polysaccharide export protein VexE; Provisional	Back alignment and domain information

>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B	Back alignment and domain information

>PF05004 IFRD: Interferon-related developmental regulator (IFRD); InterPro: IPR007701 Interferon-related developmental regulator (IFRD1) is the human homologue of the Rattus norvegicus early response protein PC4 and its murine homologue TIS7 []	Back alignment and domain information

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals	Back alignment and domain information

>PRK15174 Vi polysaccharide export protein VexE; Provisional	Back alignment and domain information

>cd00020 ARM Armadillo/beta-catenin-like repeats	Back alignment and domain information

>KOG0211 consensus Protein phosphatase 2A regulatory subunit A and related proteins [Signal transduction mechanisms]	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		813
4b4t_N		945	Near-Atomic Resolution Structural Model Of The Yeas		4e-12
4ady_A		963	Crystal Structure Of 26s Proteasome Subunit Rpn2 Le		5e-08

>pdb|4B4T|N Chain N, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 945

Back alignment and structure

Iteration: 1

Score = 70.1 bits (170), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 97/425 (22%), Positives = 183/425 (43%), Gaps = 36/425 (8%) Query: 369 AATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASLGMILLWDVDS 428 A + N F++AG +D S ++ WL K + K +A ASLG+I ++ Sbjct: 331 AVSVANGFMHAG---------TTDNSFIKANLPWLGKAQNWAKFTATASLGVIHKGNLLE 381 Query: 429 GLAQIDKYF---HSTDNHVIAGALLGVGIVNCGIRNDCDPALALL----SEYVGREDACI 481 G + Y ++ + G+L G+G++ G D L + S G ED + Sbjct: 382 GKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDV 441 Query: 482 RI-GAIMGLGISYAGTQNDQIRHKLSTIL-NDAKSPLDVIAFSAISLGLIYVGSCNEEVA 539 + GA +G+G++ G+ N ++ L +L ND+ + + +A+ +GL +G+ E Sbjct: 442 LLHGASLGIGLAAMGSANIEVYEALKEVLYNDSATSGEA---AALGMGLCMLGTGKPEA- 497 Query: 540 QAIIFALMDRSESELGEPXXXXXXXXXXXXXXXKQESVEATAEVSKTFNEKIRKYCDMTL 599 I + S+ +QE + +E + +Y Sbjct: 498 ---IHDMFTYSQETQHGNITRGLAVGLALINYGRQELADDLITKMLASDESLLRYGGAFT 554 Query: 600 LSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHL 659 ++ AYAGTGN V+ LL H A + + AV+ + V + + + R ++ L Sbjct: 555 IALAYAGTGNNSAVKRLL-HVAVSDSNDDVRRA-AVIALGFVLLRDYTTVP---RIVQLL 609 Query: 660 LQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLI---GSG 716 + ++R ALG+ C + +D L L+ D V AA+I+L +I + Sbjct: 610 SKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQAAMIALSMILIQQTE 669 Query: 717 TNNARIAGMLRNLSSYY---YKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTA 773 N ++A + +N S +++ F +AQG+++ G +T+ ++D L + Sbjct: 670 KLNPQVADINKNFLSVITNKHQEGLAKFGACVAQGIMNAGGRNVTIQLENADTGTLDTKS 729 Query: 774 LAGIV 778 + G+V Sbjct: 730 VVGLV 734

PyMOL of 4b4t

>pdb|4ADY|A Chain A, Crystal Structure Of 26s Proteasome Subunit Rpn2 Length = 963

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		813
4ady_A		963	RPN2, 26S proteasome regulatory subunit RPN2; prot	0.0
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-12
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-10
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-09
1oyz_A		280	Hypothetical protein YIBA; structural genomics, PS	1e-05
3ltm_A		211	Alpha-REP4; protein engineering, heat-like repeat,	5e-05
3ltj_A		201	Alpharep-4; protein engineering, heat-like repeat,	1e-04

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} Length = 963	Back alignment and structure

 Score =  567 bits (1463), Expect = 0.0
 Identities = 139/805 (17%), Positives = 304/805 (37%), Gaps = 107/805 (13%)

Query: 51  YVERVQDPDPGLQKVALESMRTEIRTSTSSMTSVPKPLKFLRPHYGTLKAYYETMPDSDL 110
            +  +++    ++  ALES+   +    S +++              ++A Y+    SD 
Sbjct: 20  LLALLRENQDSVKTYALESINNVVDQLWSEISN----------ELPDIEALYDDDTFSD- 68

Query: 111 KKYMADILSVLALTMSAEGERESLKYRLLGSEGDIGSWGHEYVRNLAGEIAQEYAKRQTD 170
           ++  A I S +    +      ++KY L   +        ++V  +  +  + Y +  + 
Sbjct: 69  REMAALIASKV--YYNLGEYESAVKYALAAKDRFDIDEKSQFVETIVSKSIEMYVQEASK 126

Query: 171 EASIDD-----------LMELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLL-------VE 212
           + + D+           L  + + ++   +K +    A+ + +E   LD++       ++
Sbjct: 127 QYTKDEQFYTKDIIDPKLTSIFERMIEKCLKASELKLALGIALEGYRLDIIESALKSKLD 186

Query: 213 HVDATNFKRTCLYLTSAAKYLPGPDD--MLVLDIAYMIYLKFE--EFPNALQIALFLDNM 268
               +   +   YL + A            +L  ++   +     ++    ++ + L++ 
Sbjct: 187 QDSTSENVKIINYLLTLAITTVTNSKFRSSILRKSFDFLMNMPNCDYLTLNKVVVNLNDA 246

Query: 269 QYVKQIFTSC---DDLLRKKQFCYILARHGITLELDDDMVPDDDDRYALQDIVNNVKLSE 325
               Q+F      +D     Q  + L                      L +I+     ++
Sbjct: 247 GLALQLFKKLKEENDEGLSAQIAFDLVSSA---------------SQQLLEILVTELTAQ 291

Query: 326 GYLTLARDIEVMEPKSPEDIYKAHLLDGRASAGASVDSARQNL---------AATFVNAF 376
           GY     +I  +      D Y   LL+ +      ++ ++ +L         A +  N F
Sbjct: 292 GYDPALLNI--LSGLPTCDYYNTFLLNNKNIDIGLLNKSKSSLDGKFSLFHTAVSVANGF 349

Query: 377 VNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASLGMILLWDVDSGLAQIDKY 436
           ++AG   +  +          ++  WL K +   K +A ASLG+I   ++  G   +  Y
Sbjct: 350 MHAGTTDNSFIK---------ANLPWLGKAQNWAKFTATASLGVIHKGNLLEGKKVMAPY 400

Query: 437 F---HSTDNHVIAGALLGVGIVNCGIRNDCDPALALL-----SEYVGREDACIRIGAIMG 488
                ++   +  G+L G+G++  G   D    L  +           +   +  GA +G
Sbjct: 401 LPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLG 460

Query: 489 LGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMD 548
           +G++  G+ N ++   L  +L +  +     A  A+ +GL  +G+   E    +     +
Sbjct: 461 IGLAAMGSANIEVYEALKEVLYNDSATSGEAA--ALGMGLCMLGTGKPEAIHDMFTYSQE 518

Query: 549 RSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTG 608
                    +TR + +GL L+  G+QE  +         +E + +Y     ++ AYAGTG
Sbjct: 519 TQH----GNITRGLAVGLALINYGRQELADDLITKMLASDESLLRYGGAFTIALAYAGTG 574

Query: 609 NVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIR 668
           N   V+ LL          +  +  AV+ +  V + +        R ++ L +    ++R
Sbjct: 575 NNSAVKRLLHVAVSDSN--DDVRRAAVIALGFVLLRDY---TTVPRIVQLLSKSHNAHVR 629

Query: 669 RAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTN---NARIAGM 725
                ALG+ C      + +D L  L+ D    V  AA+I+L +I        N ++A +
Sbjct: 630 CGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQAAMIALSMILIQQTEKLNPQVADI 689

Query: 726 LRNLSSYY---YKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLF 782
            +N  S     +++    F   +AQG+++ G   +T+   ++D   L   ++ G+V    
Sbjct: 690 NKNFLSVITNKHQEGLAKFGACVAQGIMNAGGRNVTIQLENADTGTLDTKSVVGLVMFSQ 749

Query: 783 ACLDMKAVIVGKYHYVLYFLVLAMQ 807
                       +  + +FL L+  
Sbjct: 750 F---------WYWFPLAHFLSLSFT 765

PyMOL of 4ady

>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

>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

>1oyz_A Hypothetical protein YIBA; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Escherichia coli} SCOP: a.118.1.16 Length = 280	Back alignment and structure

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic} Length = 211	Back alignment and structure

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic} Length = 201	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

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		813
d1b3ua_		588	Constant regulatory domain of protein phosphatase	99.1
d1oyza_		276	Hypothetical protein YibA {Escherichia coli [TaxId	99.02
d1b3ua_		588	Constant regulatory domain of protein phosphatase	99.01
d1oyza_		276	Hypothetical protein YibA {Escherichia coli [TaxId	98.96
d2vglb_		579	Adaptin beta subunit N-terminal fragment {Human (H	98.59
d2vglb_		579	Adaptin beta subunit N-terminal fragment {Human (H	98.41
d1u6gc_		1207	Cullin-associated NEDD8-dissociated protein 1 (Tip	98.09
d1q1sc_		434	Importin alpha {Mouse (Mus musculus) [TaxId: 10090	98.0
d1te4a_		111	MTH187 {Archaeon Methanobacterium thermoautotrophi	97.74
d1wa5b_		503	Karyopherin alpha {Baker's yeast (Saccharomyces ce	97.68
d1te4a_		111	MTH187 {Archaeon Methanobacterium thermoautotrophi	97.53
d1xqra1		264	Hsp70-binding protein 1 (HspBP1) {Human (Homo sapi	97.43
d2vgla_		584	Adaptin alpha C subunit N-terminal fragment {Mouse	97.13
d1jdha_		529	beta-Catenin {Human (Homo sapiens) [TaxId: 9606]}	96.59
d1q1sc_		434	Importin alpha {Mouse (Mus musculus) [TaxId: 10090	96.4
d1qbkb_		888	Karyopherin beta2 {Human (Homo sapiens) [TaxId: 96	95.8
d1xqra1		264	Hsp70-binding protein 1 (HspBP1) {Human (Homo sapi	95.04
d1jdha_		529	beta-Catenin {Human (Homo sapiens) [TaxId: 9606]}	95.03
d1qbkb_		888	Karyopherin beta2 {Human (Homo sapiens) [TaxId: 96	94.75
d1u6gc_		1207	Cullin-associated NEDD8-dissociated protein 1 (Tip	92.58
d1lsha1		336	Lipovitellin-phosvitin complex, superhelical domai	91.78
d1lrva_		233	Leucine-rich repeat variant {Azotobacter vinelandi	91.54
d1ibrb_		458	Importin beta {Human (Homo sapiens) [TaxId: 9606]}	87.91
d1wa5b_		503	Karyopherin alpha {Baker's yeast (Saccharomyces ce	85.91

>d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: HEAT repeat
domain: Constant regulatory domain of protein phosphatase 2a, pr65alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.10  E-value=4.5e-08  Score=68.75  Aligned_cols=281  Identities=15%  Similarity=0.120  Sum_probs=137.0

Q ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHH
Q ss_conf             7442037981468999999987616998990------3599999874069887999999999989843598877999998
Q 003521          433 IDKYFHSTDNHVIAGALLGVGIVNCGIRNDC------DPALALLSEYVGREDACIRIGAIMGLGISYAGTQNDQIRHKLS  506 (813)
Q Consensus       433 l~~yL~s~~~~~k~GAllaLGli~~g~~~e~------d~~~~lL~~~L~~~~~~v~~gA~lGLGlay~Gs~~e~i~e~L~  506 (813)
                      +...+.+.+..+|..|+.+++-+......+.      +.++..+...+.+.+..+|..++..++......++++..+.+.
T Consensus       286 l~~ll~d~~~~vr~~a~~~l~~~~~~l~~~~~~~~~~~~i~~~l~~~~~d~~~~vr~~~~~~l~~~~~~~~~~~~~~~l~  365 (588)
T d1b3ua_         286 FQNLMKDCEAEVRAAASHKVKEFCENLSADCRENVIMSQILPCIKELVSDANQHVKSALASVIMGLSPILGKDNTIEHLL  365 (588)
T ss_dssp             HHHHHTCSSHHHHHHHHHHHHHHHHTSCTTTHHHHHHHTHHHHHHHHHTCSCHHHHHHHHTTGGGGHHHHCHHHHHHHTH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf             99987213357779999879999998766554332199998888876138876789999998865543013167888888


Q ss_pred             HHC----CCCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHH
Q ss_conf             760----4899843688899999966760799989999999998505855558524778899999863389235999999
Q 003521          507 TIL----NDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAE  582 (813)
Q Consensus       507 ~~l----~d~~~~~e~~~~AalaLGLi~~Gs~~~e~~e~ll~~L~~~~~~~l~e~~~r~~~lglgLl~lG~~e~a~~lle  582 (813)
                      |.+    .|.  ..++...+.-+++-+.--.+.....+.++..+.+..+.. +......+.-.++.+.            
T Consensus       366 p~l~~~l~d~--~~~v~~~~~~~l~~~~~~~~~~~~~~~ll~~l~~~~~d~-~~~~r~~~~~~l~~l~------------  430 (588)
T d1b3ua_         366 PLFLAQLKDE--CPEVRLNIISNLDCVNEVIGIRQLSQSLLPAIVELAEDA-KWRVRLAIIEYMPLLA------------  430 (588)
T ss_dssp             HHHHHHHTCS--CHHHHHHHHTTCHHHHHHSCHHHHHHHHHHHHHHHHTCS-SHHHHHHHHHHHHHHH------------
T ss_pred             HHHHHHHHHH--HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHH------------
T ss_conf             8899998751--022226778888888750031344367789999998433-5889999999999999------------


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHC--CCHHHHHHHHHHHHH
Q ss_conf             86421244454566899999982479--89999999831001678894306488999887630--340127799999999
Q 003521          583 VSKTFNEKIRKYCDMTLLSCAYAGTG--NVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAM--AEELGLEMAIRSLEH  658 (813)
Q Consensus       583 ~L~~~~~~~~r~~~~~~~~layaGTg--n~~~iq~LL~~~~~~~~d~~~vrr~AvlglalI~~--~~~~g~e~~~~~l~~  658 (813)
                                          ...|..  .......++....+ ...  .||..|+-+++-+.-  |.+.....+...+..
T Consensus       431 --------------------~~~~~~~~~~~l~~~l~~~l~D-~~~--~VR~~A~~~L~~l~~~~~~~~~~~~i~~~l~~  487 (588)
T d1b3ua_         431 --------------------GQLGVEFFDEKLNSLCMAWLVD-HVY--AIREAATSNLKKLVEKFGKEWAHATIIPKVLA  487 (588)
T ss_dssp             --------------------HHHCGGGCCHHHHHHHHHGGGC-SSH--HHHHHHHHHHHHHHHHHCHHHHHHHTHHHHHH
T ss_pred             --------------------HHCCHHHHHHHHHHHHHHHCCC-CCH--HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_conf             --------------------7718476778888887763568-741--68999999999999983938789999999999


Q ss_pred             HHHCCCHHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHH
Q ss_conf             96119966983889998401268984----46999998753198649899999999988079991----48999999876
Q 003521          659 LLQYGEQNIRRAVPLALGLLCISNPK----VNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNN----ARIAGMLRNLS  730 (813)
Q Consensus       659 L~~~~~~~VR~g~~lALGL~~agt~~----~~vid~L~~l~~D~d~~Vr~~AiiAlGlV~agtnn----~ri~~~Lr~l~  730 (813)
                      +..+.+..+|.+++.+++.+...-+.    ..++..|.++.+|++..||.+|+-+++.++---++    .++...++++.
T Consensus       488 ~~~~~~~~~R~~~~~~l~~l~~~~~~~~~~~~ilp~ll~~~~D~v~nVR~~a~~~l~~i~~~~~~~~~~~~i~~~l~~L~  567 (588)
T d1b3ua_         488 MSGDPNYLHRMTTLFCINVLSEVCGQDITTKHMLPTVLRMAGDPVANVRFNVAKSLQKIGPILDNSTLQSEVKPILEKLT  567 (588)
T ss_dssp             TTTCSCHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHGGGCSCHHHHHHHHHHHHHHGGGSCHHHHHHHHHHHHHHHT
T ss_pred             HHCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
T ss_conf             86599878999999999999998696878999999999885999879999999999999987080757999999999975


Q ss_pred             HHHCCCHHHHHHHHHHHHHHHCC
Q ss_conf             33203714689999997655308
Q 003521          731 SYYYKDANLLFCVRIAQGLVHMG  753 (813)
Q Consensus       731 ~~~~~d~~~~f~~~iAqGll~~G  753 (813)
                      .  -.|..+|+.+.-|+..+-+|
T Consensus       568 ~--D~d~dVr~~A~~al~~l~~~  588 (588)
T d1b3ua_         568 Q--DQDVDVKYFAQEALTVLSLA  588 (588)
T ss_dssp             T--CSSHHHHHHHHHHHHHTTCC
T ss_pred             C--CCCHHHHHHHHHHHHHHHCC
T ss_conf             7--99877999999999987449

PyMOL of d1b3ua_

>d1oyza_ a.118.1.16 (A:) Hypothetical protein YibA {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1oyza_ a.118.1.16 (A:) Hypothetical protein YibA {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1u6gc_ a.118.1.2 (C:) Cullin-associated NEDD8-dissociated protein 1 (Tip120) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1q1sc_ a.118.1.1 (C:) Importin alpha {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1te4a_ a.118.1.16 (A:) MTH187 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}	Back information, alignment and structure

>d1wa5b_ a.118.1.1 (B:) Karyopherin alpha {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1te4a_ a.118.1.16 (A:) MTH187 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}	Back information, alignment and structure

>d1xqra1 a.118.1.21 (A:87-350) Hsp70-binding protein 1 (HspBP1) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1jdha_ a.118.1.1 (A:) beta-Catenin {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1q1sc_ a.118.1.1 (C:) Importin alpha {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1qbkb_ a.118.1.1 (B:) Karyopherin beta2 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1xqra1 a.118.1.21 (A:87-350) Hsp70-binding protein 1 (HspBP1) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1jdha_ a.118.1.1 (A:) beta-Catenin {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1qbkb_ a.118.1.1 (B:) Karyopherin beta2 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1u6gc_ a.118.1.2 (C:) Cullin-associated NEDD8-dissociated protein 1 (Tip120) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1lsha1 a.118.4.1 (A:285-620) Lipovitellin-phosvitin complex, superhelical domain {Lamprey (Ichthyomyzon unicuspis) [TaxId: 30308]}	Back information, alignment and structure

>d1lrva_ a.118.1.5 (A:) Leucine-rich repeat variant {Azotobacter vinelandii [TaxId: 354]}	Back information, alignment and structure

>d1ibrb_ a.118.1.1 (B:) Importin beta {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1wa5b_ a.118.1.1 (B:) Karyopherin alpha {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure