Citrus Sinensis ID: 005098

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----

MELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPDDMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITLELDDDMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASAGASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQPRMLLTVDENLKPLSVPVRVGQAVDVVGQAGRPKTITGFQTHSTPVLLAAGDRAELATEKYIPLSPILEGFVILKENPDYREDH

cccHHHHHHHHHccccHHHHHHHHHHHccHHHHHHHHHHccHHHHHHHHHHHcccccccccHHHHHHHHHHHHccccHHHHHHHHHHcccHHHHHHHHHHccHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHcccccHHHHHHHHHHccccccccHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHcHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHcccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHccccEEEEEccccccccEEEEEcccccccccccccccccccEEEEccEEcccHHHHHHHHHcccccccccccEEEEcccccccccc

ccHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHcccccHHHHHHHHHHccccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHcccccccEEEcccccccccccccEEEEcccccHHHHHHHHHHHHHccHHccHHHHHHHcccccHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccccEEEHHHHHHHHHHHcccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHEEccccHHHHHHHHHHHHHccHHHHccHHHHHHHHHHHHHHHccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHccccccHHHHHHHHHccccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccEEEEcccccccccccHHHHHHHHHHHHHHHcHHHHHHcccHHHHHHHHHHccccEEEEEccccccccEEEEEcEEEEEEcccccccEEEcEEcccccEEEEccccEEccccccccccHHccEEEEEEccccccccc

MELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHvdatnfkrTCLYLTSaakylpgpddmLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGitleldddmvpddddryALQDIVNNVKLSEGYLTLARdievmepkspediyKAHLldgrasagasVDSARQNLAATFVNAFVnagfgqdklmtvpsdassggssgnwlfknkehgKMSAAASLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIvncgirndcDPALALLSEYVGREDACIRIGAIMGLgisyagtqndQIRHKLSTIlndaksplDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDrseselgepltrlIPLGLgllylgkqesvEATAEVSKTFNEKIRKYCDMTLLscayagtgnVLKVQNLLGHCaqhhekgeayqgpaVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLlcisnpkvnvmdtlsrlshdtdSEVAMAAVISLGligsgtnnARIAGMLRNLSsyyykdanLLFCVRIAQGLVHmgkglltlnpyhsdrfllsptALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMqprmlltvdenlkplsvpvrvgqavdvvgqagrpktitgfqthstpvllaagdraelatekyiplspilegfvilkenpdyredh

MELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPDDMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHgitleldddmvPDDDDRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASAGASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQPRMLLTVDENLKPLSVPVRVGQAVDVVGQAgrpktitgfqthstpvLLAAGDRAELATEkyiplspilegfvilkenpdyredh

MELVQEIVAFHMKHNAEPeavdllmevedldllvehvdATNFKRTCLYLTSAAKYLPGPDDMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITLELdddmvpddddRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASAGASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPltrliplglgllylgKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQPRMLLTVDENLKPLSvpvrvgqavdvvgqagrPKTITGFQTHSTPVLLAAGDRAELATEKYIPLSPILEGFVILKENPDYREDH

*****EIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPDDMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITLELDDDMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVM*******IYKAHLLD************RQNLAATFVNAFVNAGFGQDKL***************WLFK******MSAAASLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQPRMLLTVDENLKPLSVPVRVGQAVDVVGQAGRPKTITGFQTHSTPVLLAAGDRAELATEKYIPLSPILEGFVILK*********

MELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPDDMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITL**********************VKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGR********SARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQPRMLLTVDENLKPLSVPVRVGQAVDVV************QTHSTPVLLAAGDRAELATEKYIPLSPILEGFVI***********

MELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPDDMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITLELDDDMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASAGASVDSARQNLAATFVNAFVNAGFGQDKLMTVP********SGNWLFKNKEHGKMSAAASLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQPRMLLTVDENLKPLSVPVRVGQAVDVVGQAGRPKTITGFQTHSTPVLLAAGDRAELATEKYIPLSPILEGFVILKENPDYREDH

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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		714	2.2.26 [Sep-21-2011]
Q9SIV2		891	26S proteasome non-ATPase	yes	no	0.997	0.799	0.870	0.0
Q6XJG8		891	26S proteasome non-ATPase	no	no	0.997	0.799	0.847	0.0
Q4FZT9		908	26S proteasome non-ATPase	yes	no	0.976	0.767	0.529	0.0
Q8VDM4		908	26S proteasome non-ATPase	yes	no	0.976	0.767	0.529	0.0
Q13200		908	26S proteasome non-ATPase	yes	no	0.976	0.767	0.529	0.0
Q5R9I6		908	26S proteasome non-ATPase	yes	no	0.976	0.767	0.527	0.0
P56701		908	26S proteasome non-ATPase	yes	no	0.976	0.767	0.529	0.0
Q54BC6		893	26S proteasome non-ATPase	yes	no	0.957	0.765	0.5	0.0
Q7S8R8		902	26S proteasome regulatory	N/A	no	0.973	0.770	0.474	0.0
P87048		891	26S proteasome regulatory	yes	no	0.970	0.777	0.469	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 = 1257 bits (3253), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 621/713 (87%), Positives = 679/713 (95%), Gaps = 1/713 (0%)

Query: 1   MELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPD 60
           MELVQ+IVAFHMKHNAE EAVDLLM+VEDLDLL+EHVD TNFKRTC YLTSAA+YLPGPD
Sbjct: 180 MELVQQIVAFHMKHNAETEAVDLLMDVEDLDLLLEHVDKTNFKRTCNYLTSAARYLPGPD 239

Query: 61  DMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGIT 120
           DMLVLDI+YMIY+KFEE+PNALQIALFLDN QYVKQ+FTSC DLL+KKQFCY++ARHGIT
Sbjct: 240 DMLVLDISYMIYMKFEEYPNALQIALFLDNTQYVKQVFTSCTDLLKKKQFCYMIARHGIT 299

Query: 121 LELDDDMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASA 180
            ELDD+MV DDDDR ALQDIVNN KLSEGYLTLARDIEVME K+PEDIYKAHLLDGRAS+
Sbjct: 300 FELDDEMVADDDDREALQDIVNNTKLSEGYLTLARDIEVMEAKTPEDIYKAHLLDGRASS 359

Query: 181 GASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAAS 240
           GASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSD S+ GSSGNWLFKNKEHGK SAAAS
Sbjct: 360 GASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSD-STTGSSGNWLFKNKEHGKTSAAAS 418

Query: 241 LGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGRE 300
           LGMI LWDVDSGL+Q+DKYFHS DN +IAGALLGVGIVNCGI+NDCDPALALL +Y+ +E
Sbjct: 419 LGMIQLWDVDSGLSQLDKYFHSNDNPIIAGALLGVGIVNCGIKNDCDPALALLGDYIDKE 478

Query: 301 DACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEE 360
           D+ +RIGAIMGLGISYAG+QNDQIR+KLS ILNDAK+PLDVIAF+++SLG+IYVGSCNEE
Sbjct: 479 DSSVRIGAIMGLGISYAGSQNDQIRNKLSPILNDAKAPLDVIAFASLSLGMIYVGSCNEE 538

Query: 361 VAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDM 420
           VAQ+IIFALMDRSE+ELG+ LTR +PLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDM
Sbjct: 539 VAQSIIFALMDRSEAELGDALTRFLPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDM 598

Query: 421 TLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLE 480
           TLLSCAYAGTGNVLKVQ+LL  C +H EKG+ +QGPAVLG+AMVAM+EELG++M IRSLE
Sbjct: 599 TLLSCAYAGTGNVLKVQDLLAQCGEHLEKGDIHQGPAVLGLAMVAMSEELGVDMEIRSLE 658

Query: 481 HLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGT 540
            +LQYGEQNIRRAVPLALGLLCISNPKV VMDTLSRLSHDTDSEVAM+A+ISLGLIG+GT
Sbjct: 659 RMLQYGEQNIRRAVPLALGLLCISNPKVTVMDTLSRLSHDTDSEVAMSAIISLGLIGAGT 718

Query: 541 NNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGI 600
           NNARIAGMLRNLSSYYYKD +LLFCVRIAQGLVHMGKGLLTL+P+HS+RFLLSPTALAGI
Sbjct: 719 NNARIAGMLRNLSSYYYKDMSLLFCVRIAQGLVHMGKGLLTLSPFHSERFLLSPTALAGI 778

Query: 601 VTTLFACLDMKAVIVGKYHYVLYFLVLAMQPRMLLTVDENLKPLSVPVRVGQAVDVVGQA 660
           VT L ACLDMK +I+GKYHYVLYFLVLAMQPRM+LTVDENLKPLSVPVRVGQAVDVVGQA
Sbjct: 779 VTLLHACLDMKPIILGKYHYVLYFLVLAMQPRMMLTVDENLKPLSVPVRVGQAVDVVGQA 838

Query: 661 GRPKTITGFQTHSTPVLLAAGDRAELATEKYIPLSPILEGFVILKENPDYRED 713
           GRPKTITGFQTHSTPVLLAAG+RAELAT+KYIPLSPILEGF+ILKENPDYRE+
Sbjct: 839 GRPKTITGFQTHSTPVLLAAGERAELATDKYIPLSPILEGFIILKENPDYREE 891

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\|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\|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\|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\|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\|Q54BC6\|PSMD2_DICDI 26S proteasome non-ATPase regulatory subunit 2 OS=Dictyostelium discoideum GN=psmD2 PE=1 SV=1	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\|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

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		714
225446449		890	PREDICTED: 26S proteasome non-ATPase reg	1.0	0.802	0.908	0.0
255553635		895	26S proteasome regulatory subunit rpn1,	1.0	0.797	0.913	0.0
356542984		885	PREDICTED: 26S proteasome non-ATPase reg	0.998	0.805	0.884	0.0
356517488		885	PREDICTED: 26S proteasome non-ATPase reg	0.998	0.805	0.887	0.0
449453553		896	PREDICTED: 26S proteasome non-ATPase reg	1.0	0.796	0.880	0.0
357474441		886	26S proteasome non-ATPase regulatory sub	0.998	0.804	0.882	0.0
18399399		891	26S proteasome regulatory subunit N1 [Ar	0.997	0.799	0.870	0.0
224132892		890	predicted protein [Populus trichocarpa]	0.997	0.8	0.877	0.0
297799128		891	26S proteasome subunit RPN1b [Arabidopsi	0.997	0.799	0.851	0.0
240256099		891	26S proteasome regulatory subunit S2 1B	0.997	0.799	0.847	0.0

>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

 Score = 1300 bits (3365), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 649/714 (90%), Positives = 691/714 (96%)

Query: 1   MELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPD 60
           MELVQ+IVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVD TN KRTCLYLTS+A+YLPGPD
Sbjct: 177 MELVQQIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDKTNHKRTCLYLTSSARYLPGPD 236

Query: 61  DMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGIT 120
           D+LVLDIAY+IYLKFEE+PNALQIA+FLDNMQYVKQIFTSCDDLL+KKQFCYILARHG+ 
Sbjct: 237 DILVLDIAYVIYLKFEEYPNALQIAVFLDNMQYVKQIFTSCDDLLQKKQFCYILARHGVA 296

Query: 121 LELDDDMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASA 180
            ELDD+MV D+D+R ALQDI+NN KLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASA
Sbjct: 297 FELDDEMVVDNDEREALQDIINNSKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASA 356

Query: 181 GASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAAS 240
           GASVDSARQNLAATFVNAFVNAGFGQDKLMTV S+ASSGGSSGNWLFKNKEHGK SAAAS
Sbjct: 357 GASVDSARQNLAATFVNAFVNAGFGQDKLMTVASEASSGGSSGNWLFKNKEHGKASAAAS 416

Query: 241 LGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGRE 300
           LGMILLWDVDSGLAQIDKYFHS DNHVIAGALLGVGIVNCGI+NDCDPALALL++Y+G+E
Sbjct: 417 LGMILLWDVDSGLAQIDKYFHSNDNHVIAGALLGVGIVNCGIKNDCDPALALLADYIGKE 476

Query: 301 DACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEE 360
           D  IRIGAI+GLG++YAG QNDQIR KL+ ILNDAK+PLDVIAF+AISLG +YVGSCNEE
Sbjct: 477 DPSIRIGAILGLGLAYAGCQNDQIRCKLTPILNDAKAPLDVIAFTAISLGFVYVGSCNEE 536

Query: 361 VAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDM 420
           +AQAIIFALMDRS+SELGEPLTRL+PLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDM
Sbjct: 537 IAQAIIFALMDRSDSELGEPLTRLLPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDM 596

Query: 421 TLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLE 480
           TLLSCAYAGTGNVLKVQ+LLG CAQH EKGE +QGPAVLGIAMVAMAEELGLEMAIRSLE
Sbjct: 597 TLLSCAYAGTGNVLKVQHLLGQCAQHLEKGETHQGPAVLGIAMVAMAEELGLEMAIRSLE 656

Query: 481 HLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGT 540
           HLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTD+EVAMAAVISLGLIG+GT
Sbjct: 657 HLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDTEVAMAAVISLGLIGAGT 716

Query: 541 NNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGI 600
           NNARIAGMLRNLSSYYYK+A+LLFCVRIAQGLVH+GKGLLTL PYHSDRFLLSP+ALAGI
Sbjct: 717 NNARIAGMLRNLSSYYYKEASLLFCVRIAQGLVHLGKGLLTLAPYHSDRFLLSPSALAGI 776

Query: 601 VTTLFACLDMKAVIVGKYHYVLYFLVLAMQPRMLLTVDENLKPLSVPVRVGQAVDVVGQA 660
           VT L ACLDMKA+I+GKYHYVLY LVLAMQPRML+TVDE+LKPLSVPVRVGQAVDVVGQA
Sbjct: 777 VTLLHACLDMKAIILGKYHYVLYVLVLAMQPRMLMTVDEDLKPLSVPVRVGQAVDVVGQA 836

Query: 661 GRPKTITGFQTHSTPVLLAAGDRAELATEKYIPLSPILEGFVILKENPDYREDH 714
           GRPKTITGFQTHSTPVLLAAGDRAELATEKYIP+SPILEGFVILKENPDYREDH
Sbjct: 837 GRPKTITGFQTHSTPVLLAAGDRAELATEKYIPVSPILEGFVILKENPDYREDH 890

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>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

>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\|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\|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\|297799128\|ref\|XP_002867448.1\| 26S proteasome subunit RPN1b [Arabidopsis lyrata subsp. lyrata] gi\|297313284\|gb\|EFH43707.1\| 26S proteasome subunit RPN1b [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		714
TAIR\|locus:2046016		891	RPN1A "26S proteasome regulato	0.997	0.799	0.791	5.3e-301
TAIR\|locus:2121358		891	RPN1B "26S proteasome regulato	0.997	0.799	0.772	5.3e-294
RGD\|1305752		908	Psmd2 "proteasome (prosome, ma	0.613	0.482	0.434	3.7e-183
UNIPROTKB\|P56701		908	PSMD2 "26S proteasome non-ATPa	0.613	0.482	0.434	4.8e-183
UNIPROTKB\|E2RCP9		908	PSMD2 "Uncharacterized protein	0.613	0.482	0.434	4.8e-183
UNIPROTKB\|E7EW34		778	PSMD2 "26S proteasome non-ATPa	0.613	0.562	0.434	4.8e-183
UNIPROTKB\|E9PCS3		749	PSMD2 "26S proteasome non-ATPa	0.613	0.584	0.434	4.8e-183
UNIPROTKB\|Q13200		908	PSMD2 "26S proteasome non-ATPa	0.613	0.482	0.434	4.8e-183
UNIPROTKB\|I3LEW5		908	PSMD2 "Uncharacterized protein	0.613	0.482	0.434	4.8e-183
MGI\|MGI:1096584		908	Psmd2 "proteasome (prosome, ma	0.613	0.482	0.434	4.8e-183

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

 Score = 2889 (1022.0 bits), Expect = 5.3e-301, P = 5.3e-301
 Identities = 564/713 (79%), Positives = 620/713 (86%)

Query:     1 MELVQEIVAFHMKHNAEPXXXXXXXXXXXXXXXXXXXXATNFKRTCLYLTSAAKYLPGPD 60
             MELVQ+IVAFHMKHNAE                      TNFKRTC YLTSAA+YLPGPD
Sbjct:   180 MELVQQIVAFHMKHNAETEAVDLLMDVEDLDLLLEHVDKTNFKRTCNYLTSAARYLPGPD 239

Query:    61 DMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGIT 120
             DMLVLDI+YMIY+KFEE+PNALQIALFLDN QYVKQ+FTSC DLL+KKQFCY++ARHGIT
Sbjct:   240 DMLVLDISYMIYMKFEEYPNALQIALFLDNTQYVKQVFTSCTDLLKKKQFCYMIARHGIT 299

Query:   121 LELXXXXXXXXXXRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASA 180
              EL          R ALQDIVNN KLSEGYLTLARDIEVME K+PEDIYKAHLLDGRAS+
Sbjct:   300 FELDDEMVADDDDREALQDIVNNTKLSEGYLTLARDIEVMEAKTPEDIYKAHLLDGRASS 359

Query:   181 GASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAAS 240
             GASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSD+++G SSGNWLFKNKEHGK SAAAS
Sbjct:   360 GASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDSTTG-SSGNWLFKNKEHGKTSAAAS 418

Query:   241 LGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGRE 300
             LGMI LWDVDSGL+Q+DKYFHS DN +IAGALLGVGIVNCGI+NDCDPALALL +Y+ +E
Sbjct:   419 LGMIQLWDVDSGLSQLDKYFHSNDNPIIAGALLGVGIVNCGIKNDCDPALALLGDYIDKE 478

Query:   301 DACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEE 360
             D+ +RIGAIMGLGISYAG+QNDQIR+KLS ILNDAK+PLDVIAF+++SLG+IYVGSCNEE
Sbjct:   479 DSSVRIGAIMGLGISYAGSQNDQIRNKLSPILNDAKAPLDVIAFASLSLGMIYVGSCNEE 538

Query:   361 VAQAIIFALMDRSESELGEPXXXXXXXXXXXXXXXKQESVEATAEVSKTFNEKIRKYCDM 420
             VAQ+IIFALMDRSE+ELG+                KQESVEATAEVSKTFNEKIRKYCDM
Sbjct:   539 VAQSIIFALMDRSEAELGDALTRFLPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDM 598

Query:   421 TLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLE 480
             TLLSCAYAGTGNVLKVQ+LL  C +H EKG+ +QGPAVLG+AMVAM+EELG++M IRSLE
Sbjct:   599 TLLSCAYAGTGNVLKVQDLLAQCGEHLEKGDIHQGPAVLGLAMVAMSEELGVDMEIRSLE 658

Query:   481 HLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGT 540
              +LQYGEQNIRRAVPLALGLLCISNPKV VMDTLSRLSHDTDSEVAM+A+ISLGLIG+GT
Sbjct:   659 RMLQYGEQNIRRAVPLALGLLCISNPKVTVMDTLSRLSHDTDSEVAMSAIISLGLIGAGT 718

Query:   541 NNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGI 600
             NNARIAGMLRNLSSYYYKD +LLFCVRIAQGLVHMGKGLLTL+P+HS+RFLLSPTALAGI
Sbjct:   719 NNARIAGMLRNLSSYYYKDMSLLFCVRIAQGLVHMGKGLLTLSPFHSERFLLSPTALAGI 778

Query:   601 VTTLFACLDMKAVIVGKYHYVLYFLVLAMQPRMLLTVDENLKPLSXXXXXXXXXXXXXXX 660
             VT L ACLDMK +I+GKYHYVLYFLVLAMQPRM+LTVDENLKPLS               
Sbjct:   779 VTLLHACLDMKPIILGKYHYVLYFLVLAMQPRMMLTVDENLKPLSVPVRVGQAVDVVGQA 838

Query:   661 XXPKTITGFQTHSTPVLLAAGDRAELATEKYIPLSPILEGFVILKENPDYRED 713
               PKTITGFQTHSTPVLLAAG+RAELAT+KYIPLSPILEGF+ILKENPDYRE+
Sbjct:   839 GRPKTITGFQTHSTPVLLAAGERAELATDKYIPLSPILEGFIILKENPDYREE 891

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

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

UNIPROTKB\|E7EW34 PSMD2 "26S proteasome non-ATPase regulatory subunit 2" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|E9PCS3 PSMD2 "26S proteasome non-ATPase regulatory subunit 2" [Homo sapiens (taxid:9606)]	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

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)
Q4FZT9	PSMD2_RAT	No assigned EC number	0.5292	0.9761	0.7676	yes	no
Q5R9I6	PSMD2_PONAB	No assigned EC number	0.5278	0.9761	0.7676	yes	no
Q13200	PSMD2_HUMAN	No assigned EC number	0.5292	0.9761	0.7676	yes	no
P56701	PSMD2_BOVIN	No assigned EC number	0.5292	0.9761	0.7676	yes	no
Q9SIV2	RPN1A_ARATH	No assigned EC number	0.8709	0.9971	0.7991	yes	no
Q8VDM4	PSMD2_MOUSE	No assigned EC number	0.5292	0.9761	0.7676	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		714
COG5110		881	COG5110, RPN1, 26S proteasome regulatory complex c	0.0
COG5116		926	COG5116, RPN2, 26S proteasome regulatory complex c	4e-22

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

 Score =  685 bits (1768), Expect = 0.0
 Identities = 285/718 (39%), Positives = 437/718 (60%), Gaps = 24/718 (3%)

Query: 1   MELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPD 60
            +L  EIV F +KHNAE +A+DLL+EV  ++ +++ VD  N+ R CLYL      LP P+
Sbjct: 180 RDLGLEIVPFFLKHNAEFDAIDLLVEVGGIEKVLDFVDTHNYNRVCLYLEDCVPLLPPPE 239

Query: 61  DMLVLDIAYMIYLKFEEFPNALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGIT 120
           D+ +L+ A  IYLK  +   A+  A+ L   + + +   + +D   KKQ  YILAR  + 
Sbjct: 240 DVALLETALKIYLKMGDLTRAVVGAIRLQKSKEIIEYVRAIEDPDYKKQCLYILARQNLY 299

Query: 121 LELDDDMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASA 180
            E  D+           +DI++N  LS+ +  L +++ + +PK PEDI K HL   + + 
Sbjct: 300 YEASDE---------EEKDILSNGYLSDHFRYLGKELNLDKPKVPEDILKGHLKYDKDTR 350

Query: 181 G-ASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAA 239
             A + SA QNLA  FVN  +N G+  D L  +P D         W++K K  G +SA A
Sbjct: 351 QLAGIGSANQNLAMGFVNDPINLGYENDSL--IPLDD-------EWIYKCKVPGLISAFA 401

Query: 240 SLGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGR 299
           S+G+I  W+ D GL  +DKY ++ +++  AGALLG+G+    +  +  PALALLS Y+  
Sbjct: 402 SIGVIESWNSDKGLETLDKYLYADESYRKAGALLGIGLSGLRVFEERPPALALLSNYLQS 461

Query: 300 EDACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNE 359
             +   I AI+GLG +++GTQ +++   L  I+    SP++V+ F++++LG ++VG+CN 
Sbjct: 462 SSSKHVIAAILGLGAAFSGTQAEEVLELLQPIMFSTDSPIEVVFFASLTLGSVFVGTCNG 521

Query: 360 EVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCD 419
           ++   I+   ++R + E      R + LGL  L+ G+++ V+   E        + K+ +
Sbjct: 522 DLTSLILQTFVERGKIESETQWFRFLALGLASLFYGRKDQVDDVEETIMAIEGALSKHEE 581

Query: 420 MTLLSCAYAGTGNVLKVQNLLGHC----AQHHEKGEA-YQGPAVLGIAMVAMAEELGLEM 474
           + +  C Y GTG+VL +Q+LL           +  EA  +  A+LG A++AM E++G EM
Sbjct: 582 ILVKGCQYVGTGDVLVIQSLLHVKDEFTGDTLKNEEALIESLALLGCALIAMGEDIGSEM 641

Query: 475 AIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLG 534
            +R   H + YG  +IR  +PLA G+L  SNP++NV DTL R SHD D  V +  + ++G
Sbjct: 642 VLRHFSHSMHYGSSHIRSVLPLAYGILSPSNPQMNVFDTLERSSHDGDLNVIINTIFAMG 701

Query: 535 LIGSGTNNARIAGMLRNLSSYYYKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSP 594
           LIG+GT NAR+A +LR L+SYYYK++  LF +RIAQGL+ +GKG +T++P + D+  L P
Sbjct: 702 LIGAGTLNARLAQLLRQLASYYYKESKALFVLRIAQGLLSLGKGTMTISPLYFDKTTLMP 761

Query: 595 TALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQPRMLLTVDENLKPLSVPVRVGQAV 654
              AG+ TT+F  LD     +   H ++YFL+  ++P+  +T+ E  +P+ V VRVGQAV
Sbjct: 762 KNTAGLFTTVFMLLDSSIFPLVSSHALMYFLLCQIRPQKYVTLSEKGEPIKVNVRVGQAV 821

Query: 655 DVVGQAGRPKTITGFQTHSTPVLLAAGDRAELATEKYIPLSPILEGFVILKENPDYRE 712
           + VGQAGRPK ITG+QTH+TPVLL+  +RAEL T++Y   +  +EG VILK+NPDYRE
Sbjct: 822 NTVGQAGRPKKITGWQTHTTPVLLSHKERAELDTDEYNVCTSYIEGVVILKKNPDYRE 879

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		714
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
KOG1858		1496	consensus Anaphase-promoting complex (APC), subuni	100.0
COG5110		881	RPN1 26S proteasome regulatory complex component [	100.0
KOG1858		1496	consensus Anaphase-promoting complex (APC), subuni	99.62
PRK09687		280	putative lyase; Provisional	99.25
PRK09687		280	putative lyase; Provisional	99.21
PRK13800		897	putative oxidoreductase/HEAT repeat-containing pro	99.1
PRK13800		897	putative oxidoreductase/HEAT repeat-containing pro	98.84
TIGR02270		410	conserved hypothetical protein. Members are found	98.21
COG1413		335	FOG: HEAT repeat [Energy production and conversion	98.2
TIGR02270		410	conserved hypothetical protein. Members are found	98.18
PF01851		35	PC_rep: Proteasome/cyclosome repeat; InterPro: IPR	97.83
COG1413		335	FOG: HEAT repeat [Energy production and conversion	97.76
KOG0567		289	consensus HEAT repeat-containing protein [General	97.73
PF01851		35	PC_rep: Proteasome/cyclosome repeat; InterPro: IPR	97.68
PF13646		88	HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2I	97.58
PF13646		88	HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2I	97.44
KOG0166		514	consensus Karyopherin (importin) alpha [Intracellu	97.19
PLN03200		2102	cellulose synthase-interactive protein; Provisiona	96.86
PTZ00429		746	beta-adaptin; Provisional	96.77
KOG2171		1075	consensus Karyopherin (importin) beta 3 [Nuclear s	96.66
PF01602		526	Adaptin_N: Adaptin N terminal region; InterPro: IP	96.64
PF01602		526	Adaptin_N: Adaptin N terminal region; InterPro: IP	96.63
PLN03200		2102	cellulose synthase-interactive protein; Provisiona	96.49
KOG0567		289	consensus HEAT repeat-containing protein [General	95.67
TIGR02917		899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	95.66
COG5064		526	SRP1 Karyopherin (importin) alpha [Intracellular t	95.63
PTZ00429		746	beta-adaptin; Provisional	95.58
TIGR02917		899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	95.54
PF13513		55	HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O	95.5
COG5240		898	SEC21 Vesicle coat complex COPI, gamma subunit [In	95.4
PF12755		97	Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region	95.39
PRK11788		389	tetratricopeptide repeat protein; Provisional	95.25
KOG1824		1233	consensus TATA-binding protein-interacting protein	94.87
KOG2171		1075	consensus Karyopherin (importin) beta 3 [Nuclear s	94.64
smart00638		574	LPD_N Lipoprotein N-terminal Domain.	94.32
KOG1078		865	consensus Vesicle coat complex COPI, gamma subunit	93.35
PF01347		618	Vitellogenin_N: Lipoprotein amino terminal region;	92.86
smart00638		574	LPD_N Lipoprotein N-terminal Domain.	92.51
KOG0166		514	consensus Karyopherin (importin) alpha [Intracellu	91.93
KOG0915		1702	consensus Uncharacterized conserved protein [Funct	91.86
cd00020		120	ARM Armadillo/beta-catenin-like repeats. An approx	91.6
COG5064		526	SRP1 Karyopherin (importin) alpha [Intracellular t	91.58
KOG4224		550	consensus Armadillo repeat protein VAC8 required f	91.27
PRK10049		765	pgaA outer membrane protein PgaA; Provisional	91.14
KOG2023		885	consensus Nuclear transport receptor Karyopherin-b	91.11
KOG2259		823	consensus Uncharacterized conserved protein [Funct	90.76
COG5096		757	Vesicle coat complex, various subunits [Intracellu	90.57
KOG0213		1172	consensus Splicing factor 3b, subunit 1 [RNA proce	89.94
PRK11788		389	tetratricopeptide repeat protein; Provisional	89.77
PF01347		618	Vitellogenin_N: Lipoprotein amino terminal region;	89.44
PRK12370		553	invasion protein regulator; Provisional	89.07
PF05004		309	IFRD: Interferon-related developmental regulator (	88.86
KOG1059		877	consensus Vesicle coat complex AP-3, delta subunit	88.2
PF02985		31	HEAT: HEAT repeat; InterPro: IPR000357 The HEAT re	88.09
PF12348		228	CLASP_N: CLASP N terminal; InterPro: IPR024395 Thi	87.27
PRK15174		656	Vi polysaccharide export protein VexE; Provisional	86.23
KOG1824		1233	consensus TATA-binding protein-interacting protein	85.44
PRK15174		656	Vi polysaccharide export protein VexE; Provisional	85.4
cd00020		120	ARM Armadillo/beta-catenin-like repeats. An approx	84.86
KOG0915		1702	consensus Uncharacterized conserved protein [Funct	84.4
PF12717		178	Cnd1: non-SMC mitotic condensation complex subunit	83.97
PRK12370		553	invasion protein regulator; Provisional	83.07
PF03130		27	HEAT_PBS: PBS lyase HEAT-like repeat; InterPro: IP	82.45
PF13513		55	HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O	81.78
smart00299		140	CLH Clathrin heavy chain repeat homology.	81.46
cd05804		355	StaR_like StaR_like; a well-conserved protein foun	80.73

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

Probab=100.00  E-value=9.1e-186  Score=1497.01  Aligned_cols=699  Identities=64%  Similarity=1.010  Sum_probs=678.6

Q ss_pred             ChhHHHHHHHHHcCCChHHHHHHHHhcCChhhhHHHhcccChHHHHHHHHHhcccCCCCCcHHHHHHHHHHHhccCCHHH
Q 005098            1 MELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDATNFKRTCLYLTSAAKYLPGPDDMLVLDIAYMIYLKFEEFPN   80 (714)
Q Consensus         1 ~~lv~~iv~~~~~~n~e~~AvdlllE~~~ld~i~~~vd~~~~~ri~~Yl~~~~~~~~~~~~~~vl~~~~~i~~~~~~~~~   80 (714)
                      ++|+.+||||+||||+|.||||+++|+++||++.+|||++||+|+|+|+.+|++|+|+|+|..++++++.||+|+++|++
T Consensus       178 ~~l~~~iV~f~mkHNAE~eAiDlL~Eve~id~l~~~Vd~~n~~RvclYl~sc~~~lP~Pdd~~ll~~a~~IYlKf~~~~~  257 (878)
T KOG2005|consen  178 LDLVQEIVPFHMKHNAEFEAIDLLMEVEGIDLLLDYVDEHNYQRVCLYLTSCVPLLPGPDDVALLRTALKIYLKFNEYPR  257 (878)
T ss_pred             HHHHHHHHHHHHhccchhHHHHHHHHhhhHhHHHHHhhhhhHHHHHHHHHHHhhcCCCchhhHHHHHHHHHHHHHHHhHH
Confidence            36899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChhHHHHHHhhcchHHHHHHHHHHHhhhcccccccCCCCCCcchHHHHHHHHcCcCcchhHHHHHHHhhcc
Q 005098           81 ALQIALFLDNMQYVKQIFTSCDDLLRKKQFCYILARHGITLELDDDMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVM  160 (714)
Q Consensus        81 al~~al~l~d~~~i~~i~~~~~d~~~~~Qlaf~larq~~~~~~~~~~~~~~~~~~~l~~il~n~~l~~~~~~~~~~l~~~  160 (714)
                      |+++||+++|.+.++++|.+|+|+.++||+||+||||++++++.+        ++.+++|++|.+++++|+.+++|++++
T Consensus       258 al~~ai~l~~~~~v~~vf~s~~D~~~kKQ~~ymLaR~~i~~e~~~--------~e~l~di~sN~~Lse~f~~LarELeim  329 (878)
T KOG2005|consen  258 ALVGAIRLDDMKEVKEVFTSCTDPLLKKQMAYMLARHGIYFELSE--------DEELQDILSNGKLSEHFLYLARELEIM  329 (878)
T ss_pred             HHHHHHhcCcHHHHHHHHHhccCHHHHHHHHHHHHhcCCceecCc--------CHHHHHHHccccHHHHHHHHHHHhccc
Confidence            999999999999999999999999999999999999999998742        378999999999999999999999999


Q ss_pred             CCCChhHHHHhhhccCCCCCCcchhhHHHhHHHHHHHHHHhhccCCCcccccCCCCCCCCCcccccccccchhHHHHHHH
Q 005098          161 EPKSPEDIYKAHLLDGRASAGASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAAS  240 (714)
Q Consensus       161 ~~k~~~~iyk~~l~~~~~~~~~~~dsa~~~la~~~~na~~~aG~~~d~~l~~~~~~~~~~~~~~wl~k~~~~~~~~a~as  240 (714)
                      +||+||+|||+|++++|...+..+||||||+|++|+|||||+||+.||+|.+..+     +...|+||||++++.+|++|
T Consensus       330 epk~pedIyK~hl~~~r~~s~a~vdSarqnla~~fvNgFVn~Gyg~Dkl~~~~~~-----s~~~w~yknke~g~~sa~aS  404 (878)
T KOG2005|consen  330 EPKVPEDIYKSHLEDSRGGSGAGVDSARQNLAATFVNGFVNAGYGQDKLMLVQEG-----SRVNWLYKNKEHGMTSAAAS  404 (878)
T ss_pred             CCCChHHHHHHHHhccccccccCccHHHHHHHHHHHHHHhhcccCCCceeccCcc-----ccCcceeeccccCchHhhhh
Confidence            9999999999999999965578899999999999999999999999999998653     35679999999999999999


Q ss_pred             hhhhhcccchhhHHhhhhhccCCCchhHHHHHHHHHHHhcCCCCChhhHHHHHHHhccCCChHHHHHHHHHHHHHhccCC
Q 005098          241 LGMILLWDVDSGLAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQ  320 (714)
Q Consensus       241 lGlI~~~~~~~~l~~l~~yL~s~~~~~~~GAllaLGli~~G~~~e~d~~~~lL~~~L~~~~~~v~~gA~lGLGl~y~Gs~  320 (714)
                      +|+|..||+|.|++++++|++++++|+++|||+|+|++++|+++|+||++++|++|+++++..+|+||+||||++|+||+
T Consensus       405 ~G~I~~Wnvd~gL~qldkylys~~~~ikaGaLLgigi~~~gv~ne~dpalALLsdyv~~~~s~~ri~aIlGLglayaGsq  484 (878)
T KOG2005|consen  405 LGMIQLWNVDKGLEQLDKYLYSDESYIKAGALLGIGISNSGVFNECDPALALLSDYLQSSSSIHRIGAILGLGLAYAGSQ  484 (878)
T ss_pred             cchhheecchhhHHHHHHHhhcCCchhhhccceeeeeeccccccccCHHHHHHHHhccCCCceeehHHhhhhHHhhcCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHhHHHHHHhhhcCCCChhHHHHHHHHHHHhHhcCCCCHHHHHHHHHHHhhcCccccCchhHhHHHHHHhHhhcCChhhH
Q 005098          321 NDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESV  400 (714)
Q Consensus       321 ~~~i~e~L~~~l~d~~~~~e~~~~AalaLGLi~lGs~~~~~~e~Ll~~L~~~~~~~l~~~~~r~a~l~lgLi~lG~~e~~  400 (714)
                      ++++...|.|++.|++.++|+.++|+|+||+||+||||++++..+++.+|++.++++.+.|.||+++|+|++|+|++|++
T Consensus       485 ~e~V~~lL~Pi~~d~~~~~ev~~~aslsLG~IfvGscn~dvts~ilqtlmekse~El~d~~~RFL~LGL~llflgkqe~~  564 (878)
T KOG2005|consen  485 REEVLELLSPIMFDTKSPMEVVAFASLSLGMIFVGSCNEDVTSSILQTLMEKSETELEDQWFRFLALGLALLFLGKQESV  564 (878)
T ss_pred             hHHHHHHHhHHhcCCCCchhHHHHHHhhcceeEEecCChHHHHHHHHHHHHhhhhhhhchHHHHHHHHHHHHHhcccchH
Confidence            99999999999999888899999999999999999999999999999999999988999999999999999999999999


Q ss_pred             HHHHHHHhhchhhhhhhhHHHHHHHHhhcCCCHHHH--HHHHhhccccCCCCccccchhHHHHHHhhcccchhhhhHHHH
Q 005098          401 EATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKV--QNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRS  478 (714)
Q Consensus       401 ~~ll~~L~~~~~~~~r~~~~~~~glayaGtGn~~~i--~~LL~~~~~~~~~~~~vrr~avl~lalI~~~~~~~~~~~~~~  478 (714)
                      +++.+.++.+++|+.++..+++.+|||+||||+.+|  |.++++|.++..+.+..+..|++|+|+|+||+++|.+|+.|+
T Consensus       565 d~~~e~~~~i~~~~~~~~~~lv~~caYaGTGnvl~Iq~q~ll~~cgE~~~~~e~~~~~avLgiAliAMgeeig~eM~lR~  644 (878)
T KOG2005|consen  565 DAVVETIKAIEGPIRKHESILVKSCAYAGTGNVLKIQSQLLLSFCGEHDADLESEQELAVLGIALIAMGEEIGSEMVLRH  644 (878)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhhccccCceEEechhhhhhhcCCCccchhhhccchhhhhhhhhhhhhhhhHHHHHH
Confidence            999999999999999999999999999999999999  889999999877544556799999999999999999999999


Q ss_pred             HHHHHhcCCHHHHhhHHHHHhhhccCCCcHHHHHHHHHhhcCCchHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhhhcc
Q 005098          479 LEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLIGSGTNNARIAGMLRNLSSYYYK  558 (714)
Q Consensus       479 l~~L~~~~~~~vr~g~~lALGl~~aGt~~~~ai~~L~~l~~D~~~~Vr~~AiiAlGlV~aGt~n~rv~~~lr~l~~~~~~  558 (714)
                      |+|+++|++|++|+++|+|+|++|++||+.+++|+|++++||.|.+|..+||+|||+|||||||+|++++||||++||+|
T Consensus       645 f~h~l~yge~~iRravPLal~llsvSNPq~~vlDtLsk~shd~D~eva~naIfamGLiGAGTnNARla~mLrqlaSYyyK  724 (878)
T KOG2005|consen  645 FGHLLHYGEPHIRRAVPLALGLLSVSNPQVNVLDTLSKFSHDGDLEVAMNAIFAMGLIGAGTNNARLAQMLRQLASYYYK  724 (878)
T ss_pred             HHHHHHcCCHHHHHHHHHHHhhhccCCCcchHHHHHHHhccCcchHHHHHHHHHhccccCCcchHHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHHhhhhcCCCcccccccCCCCCCCChHHHHHHHHHHHhhccccccccCchhHHHHHHhhhccccEeEeec
Q 005098          559 DANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYFLVLAMQPRMLLTVD  638 (714)
Q Consensus       559 d~~~~~~~~lA~Gll~~G~g~~tls~~~sd~~~~~~~a~agLl~~l~~~~~~~~~~~~~~h~l~~~l~lA~~Pr~li~~d  638 (714)
                      |++..|.+|+||||+|+|||++|++|+|+||++++|+|+|||++++++++|++.++..++||++||+++||+|||++|+|
T Consensus       725 d~~~Lf~vriAQGL~hlGKGtltl~p~~~dr~ll~p~alagl~t~~~~~LD~~i~l~~~~H~~ly~Lv~amqprm~~T~~  804 (878)
T KOG2005|consen  725 DSKALFVVRIAQGLVHLGKGTLTLSPFHSDRQLLMPTALAGLLTTVFALLDANIILLVKSHYLLYFLVLAMQPRMLVTVD  804 (878)
T ss_pred             cchhHHHHHHHHHHHHhcCCceecccccchhhhhchHHHHHHHHHHHHHhccchhccchHHHHHHHHHHhhCceEEEeec
Confidence            99999999999999999999999999999999999999999999999999999555568999999999999999999999


Q ss_pred             CCCCcceeeEEecceeeccccCCCcceeccceeeecceeccCCCeeeeccCCccccCCcccceEEeecCCCCCC
Q 005098          639 ENLKPLSVPVRVGQAVDVVGQAGRPKTITGFQTHSTPVLLAAGDRAELATEKYIPLSPILEGFVILKENPDYRE  712 (714)
Q Consensus       639 ~~l~~~~v~vrvg~~vd~vg~~g~p~~itg~qt~~tPvll~~~erael~~~~~~~~~~~~e~~vi~~~~~~~~~  712 (714)
                      ++++|++|+|||||||||||||||||||||||||+|||||.+|||||+++++|+|++|.|||||||||||||.+
T Consensus       805 e~~~pl~V~VRVGqaVdvVGqaGrPKtITg~qTHtTPVlLahgeRAElatd~y~p~t~~lEg~vILkkNp~y~~  878 (878)
T KOG2005|consen  805 EELEPLPVNVRVGQAVDVVGQAGRPKTITGFQTHTTPVLLAHGERAELATDEYLPLTSHLEGVVILKKNPDYIE  878 (878)
T ss_pred             ccCccccceeeccchhhhhhccCCCceecceeccCcceecccchhhhhccccccccccccceEEEEecCCcccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999964

>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

>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

>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

>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

>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

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

>KOG0567 consensus HEAT repeat-containing protein [General function prediction only]	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

>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

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

>KOG0567 consensus HEAT repeat-containing 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

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

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

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein	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

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

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

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

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

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

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

>KOG1078 consensus Vesicle coat complex COPI, gamma subunit [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

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

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

>KOG0915 consensus Uncharacterized conserved protein [Function unknown]	Back alignment and domain information

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

>COG5064 SRP1 Karyopherin (importin) alpha [Intracellular trafficking and secretion]	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

>PRK10049 pgaA outer membrane protein PgaA; Provisional	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

>KOG2259 consensus Uncharacterized conserved protein [Function unknown]	Back alignment and domain information

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

>KOG0213 consensus Splicing factor 3b, subunit 1 [RNA processing and modification]	Back alignment and domain information

>PRK11788 tetratricopeptide repeat protein; Provisional	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

>PRK12370 invasion protein regulator; Provisional	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

>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

>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

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

>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]	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

>KOG0915 consensus Uncharacterized conserved protein [Function unknown]	Back alignment and domain information

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

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

>PF03130 HEAT_PBS: PBS lyase HEAT-like repeat; InterPro: IPR004155 These proteins contain a short bi-helical repeat that is related to HEAT	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

>smart00299 CLH Clathrin heavy chain repeat homology	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

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		714
4b4t_N		945	Near-Atomic Resolution Structural Model Of The Yeas		5e-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 = 69.7 bits (169), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 97/425 (22%), Positives = 183/425 (43%), Gaps = 36/425 (8%) Query: 192 AATFVNAFVNAGFGQDKLMTVPSDASSGGSSGNWLFKNKEHGKMSAAASLGMILLWDVDS 251 A + N F++AG +D S ++ WL K + K +A ASLG+I ++ Sbjct: 331 AVSVANGFMHAG---------TTDNSFIKANLPWLGKAQNWAKFTATASLGVIHKGNLLE 381 Query: 252 GLAQIDKYF---HSTDNHVIAGALLGVGIVNCGIRNDCDPALALL----SEYVGREDACI 304 G + Y ++ + G+L G+G++ G D L + S G ED + Sbjct: 382 GKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDV 441 Query: 305 RI-GAIMGLGISYAGTQNDQIRHKLSTIL-NDAKSPLDVIAFSAISLGLIYVGSCNEEVA 362 + GA +G+G++ G+ N ++ L +L ND+ + + +A+ +GL +G+ E Sbjct: 442 LLHGASLGIGLAAMGSANIEVYEALKEVLYNDSATSGEA---AALGMGLCMLGTGKPEA- 497 Query: 363 QAIIFALMDRSESELGEPXXXXXXXXXXXXXXXKQESVEATAEVSKTFNEKIRKYCDMTL 422 I + S+ +QE + +E + +Y Sbjct: 498 ---IHDMFTYSQETQHGNITRGLAVGLALINYGRQELADDLITKMLASDESLLRYGGAFT 554 Query: 423 LSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHL 482 ++ AYAGTGN V+ LL H A + + AV+ + V + + + R ++ L Sbjct: 555 IALAYAGTGNNSAVKRLL-HVAVSDSNDDVRRA-AVIALGFVLLRDYTTVP---RIVQLL 609 Query: 483 LQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISLGLI---GSG 539 + ++R ALG+ C + +D L L+ D V AA+I+L +I + Sbjct: 610 SKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQAAMIALSMILIQQTE 669 Query: 540 TNNARIAGMLRNLSSYY---YKDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTA 596 N ++A + +N S +++ F +AQG+++ G +T+ ++D L + Sbjct: 670 KLNPQVADINKNFLSVITNKHQEGLAKFGACVAQGIMNAGGRNVTIQLENADTGTLDTKS 729 Query: 597 LAGIV 601 + 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		714
4ady_A		963	RPN2, 26S proteasome regulatory subunit RPN2; prot	1e-164
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-09
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-07
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
2db0_A		253	253AA long hypothetical protein; heat repeats, hel	7e-04

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

 Score =  497 bits (1281), Expect = e-164
 Identities = 121/680 (17%), Positives = 261/680 (38%), Gaps = 83/680 (12%)

Query: 2   ELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLL-------VEHVDATNFKRTCLYLTSAAK 54
            + + ++   +K +    A+ + +E   LD++       ++    +   +   YL + A 
Sbjct: 146 SIFERMIEKCLKASELKLALGIALEGYRLDIIESALKSKLDQDSTSENVKIINYLLTLAI 205

Query: 55  YLPGPDD--MLVLDIAYMIYLKFE--EFPNALQIALFLDNMQYVKQIFTSC---DDLLRK 107
                      +L  ++   +     ++    ++ + L++     Q+F      +D    
Sbjct: 206 TTVTNSKFRSSILRKSFDFLMNMPNCDYLTLNKVVVNLNDAGLALQLFKKLKEENDEGLS 265

Query: 108 KQFCYILARHGITLELDDDMVPDDDDRYALQDIVNNVKLSEGYLTLARDIEVMEPKSPED 167
            Q  + L                      L +I+     ++GY     +I  +      D
Sbjct: 266 AQIAFDLVSSA---------------SQQLLEILVTELTAQGYDPALLNI--LSGLPTCD 308

Query: 168 IYKAHLLDGRASAGASVDSARQNL---------AATFVNAFVNAGFGQDKLMTVPSDASS 218
            Y   LL+ +      ++ ++ +L         A +  N F++AG   +  +        
Sbjct: 309 YYNTFLLNNKNIDIGLLNKSKSSLDGKFSLFHTAVSVANGFMHAGTTDNSFIK------- 361

Query: 219 GGSSGNWLFKNKEHGKMSAAASLGMILLWDVDSGLAQIDKYF---HSTDNHVIAGALLGV 275
             ++  WL K +   K +A ASLG+I   ++  G   +  Y     ++   +  G+L G+
Sbjct: 362 --ANLPWLGKAQNWAKFTATASLGVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGL 419

Query: 276 GIVNCGIRNDCDPALALL-----SEYVGREDACIRIGAIMGLGISYAGTQNDQIRHKLST 330
           G++  G   D    L  +           +   +  GA +G+G++  G+ N ++   L  
Sbjct: 420 GLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGLAAMGSANIEVYEALKE 479

Query: 331 ILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLG 390
           +L +  +     A  A+ +GL  +G+   E    +     +         +TR + +GL 
Sbjct: 480 VLYNDSATSGEAA--ALGMGLCMLGTGKPEAIHDMFTYSQETQH----GNITRGLAVGLA 533

Query: 391 LLYLGKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKG 450
           L+  G+QE  +         +E + +Y     ++ AYAGTGN   V+ LL          
Sbjct: 534 LINYGRQELADDLITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDSN-- 591

Query: 451 EAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNV 510
           +  +  AV+ +  V + +        R ++ L +    ++R     ALG+ C      + 
Sbjct: 592 DDVRRAAVIALGFVLLRDY---TTVPRIVQLLSKSHNAHVRCGTAFALGIACAGKGLQSA 648

Query: 511 MDTLSRLSHDTDSEVAMAAVISLGLIGSGTN---NARIAGMLRNLSSYY---YKDANLLF 564
           +D L  L+ D    V  AA+I+L +I        N ++A + +N  S     +++    F
Sbjct: 649 IDVLDPLTKDPVDFVRQAAMIALSMILIQQTEKLNPQVADINKNFLSVITNKHQEGLAKF 708

Query: 565 CVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFACLDMKAVIVGKYHYVLYF 624
              +AQG+++ G   +T+   ++D   L   ++ G+V                +  + +F
Sbjct: 709 GACVAQGIMNAGGRNVTIQLENADTGTLDTKSVVGLVMFSQF---------WYWFPLAHF 759

Query: 625 LVLAMQPRMLLTVDENLKPL 644
           L L+  P  ++ +  + + +
Sbjct: 760 LSLSFTPTTVIGIRGSDQAI 779

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

>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

>2db0_A 253AA long hypothetical protein; heat repeats, helical structure, structural genomics; 2.20A {Pyrococcus horikoshii} Length = 253	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		714
4ady_A		963	RPN2, 26S proteasome regulatory subunit RPN2; prot	100.0
4ady_A		963	RPN2, 26S proteasome regulatory subunit RPN2; prot	100.0
1oyz_A		280	Hypothetical protein YIBA; structural genomics, PS	98.95
1oyz_A		280	Hypothetical protein YIBA; structural genomics, PS	98.9
3ltm_A		211	Alpha-REP4; protein engineering, heat-like repeat,	98.68
3ltj_A		201	Alpharep-4; protein engineering, heat-like repeat,	98.64
3ltm_A		211	Alpha-REP4; protein engineering, heat-like repeat,	98.57
3ltj_A		201	Alpharep-4; protein engineering, heat-like repeat,	98.57
1b3u_A		588	Protein (protein phosphatase PP2A); scaffold prote	98.55
1b3u_A		588	Protein (protein phosphatase PP2A); scaffold prote	98.51
2jdq_A		450	Importin alpha-1 subunit; transport, PB2 subunit,	98.45
2jdq_A		450	Importin alpha-1 subunit; transport, PB2 subunit,	98.29
2vgl_B		591	AP-2 complex subunit beta-1; cytoplasmic vesicle,	98.27
2vgl_B		591	AP-2 complex subunit beta-1; cytoplasmic vesicle,	98.27
4b8j_A		528	Importin subunit alpha-1A; transport protein, nucl	98.26
1wa5_B		530	Importin alpha subunit; nuclear transport/complex,	98.22
1w63_A		618	Adapter-related protein complex 1 gamma 1 subunit;	98.22
1wa5_B		530	Importin alpha subunit; nuclear transport/complex,	98.18
4b8j_A		528	Importin subunit alpha-1A; transport protein, nucl	98.11
4hxt_A		252	De novo protein OR329; structural genomics, PSI-bi	98.03
3ul1_B		510	Importin subunit alpha-2; arm repeat, armadillo re	98.0
3tpo_A		529	Importin subunit alpha-2; nuclear import, protein	97.91
4fdd_A		852	Transportin-1; heat repeats, karyopherin, nuclear	97.83
1w63_A		618	Adapter-related protein complex 1 gamma 1 subunit;	97.8
1te4_A		131	Conserved protein MTH187; methanobacterium thermoa	97.75
4fdd_A		852	Transportin-1; heat repeats, karyopherin, nuclear	97.69
2z6g_A		780	B-catenin; FULL-length, beta-catenin, cell adhesio	97.67
3ul1_B		510	Importin subunit alpha-2; arm repeat, armadillo re	97.63
1jdh_A		529	Beta-catenin; beta-catenin, protein-protein comple	97.59
4db8_A		252	Armadillo-repeat protein; solenoid repeat, de novo	97.57
2z6g_A		780	B-catenin; FULL-length, beta-catenin, cell adhesio	97.57
1qgr_A		876	Protein (importin beta subunit); transport recepto	97.56
2z6h_A		644	Catenin beta-1, beta-catenin; C-terminal domain, a	97.52
1ibr_B		462	P95, importin beta-1 subunit, nuclear factor; smal	97.5
1u6g_C		1230	TIP120 protein, CAND1; cullin repeat, heat repeat,	97.5
3tpo_A		529	Importin subunit alpha-2; nuclear import, protein	97.48
4db6_A		210	Armadillo repeat protein; solenoid repeat, armadil	97.46
4hxt_A		252	De novo protein OR329; structural genomics, PSI-bi	97.46
3now_A		810	UNC-45 protein, SD10334P; armadillo repeat, HSP90,	97.45
1jdh_A		529	Beta-catenin; beta-catenin, protein-protein comple	97.44
2z6h_A		644	Catenin beta-1, beta-catenin; C-terminal domain, a	97.38
3now_A		810	UNC-45 protein, SD10334P; armadillo repeat, HSP90,	97.33
4db6_A		210	Armadillo repeat protein; solenoid repeat, armadil	97.29
2bpt_A		861	Importin beta-1 subunit; nuclear transport, nucleo	97.18
4db8_A		252	Armadillo-repeat protein; solenoid repeat, de novo	97.18
2bpt_A		861	Importin beta-1 subunit; nuclear transport, nucleo	97.15
1te4_A		131	Conserved protein MTH187; methanobacterium thermoa	97.11
1u6g_C		1230	TIP120 protein, CAND1; cullin repeat, heat repeat,	97.07
2vgl_A		621	Adaptor protein complex AP-2, alpha 2 subunit; cyt	96.35
1qgr_A		876	Protein (importin beta subunit); transport recepto	96.3
1xm9_A		457	Plakophilin 1; armadillo repeat, cell adhesion; 2.	96.21
3l6x_A		584	Catenin delta-1; catenin, armadillo, ARM, JMD, CE	96.13
2qk1_A		249	Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, h	95.99
3l6x_A		584	Catenin delta-1; catenin, armadillo, ARM, JMD, CE	95.97
1ibr_B		462	P95, importin beta-1 subunit, nuclear factor; smal	95.85
2vgl_A		621	Adaptor protein complex AP-2, alpha 2 subunit; cyt	95.67
1xqr_A		296	HSPBP1 protein; armadillo repeat, superhelical twi	95.66
2xpi_A		597	Anaphase-promoting complex subunit CUT9; cell cycl	95.54
3l9t_A		240	Putative uncharacterized protein SMU.31; hypotheti	95.35
2qk2_A		242	LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2	95.16
3nmw_A		354	APC variant protein; ARMADIILO repeats domain, cel	94.77
2xpi_A		597	Anaphase-promoting complex subunit CUT9; cell cycl	94.59
3mkr_A		291	Coatomer subunit epsilon; tetratricopeptide repeat	94.48
1xm9_A		457	Plakophilin 1; armadillo repeat, cell adhesion; 2.	94.44
3hym_B		330	Cell division cycle protein 16 homolog; APC, anaph	94.44
1xqr_A		296	HSPBP1 protein; armadillo repeat, superhelical twi	94.28
1lrv_A		244	LRV, leucine-rich repeat variant; leucine-rich rep	93.24
2qk2_A		242	LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2	93.21
3nmz_A		458	APC variant protein; protein-protein complex, arma	92.86
3nmw_A		354	APC variant protein; ARMADIILO repeats domain, cel	92.83
3opb_A		778	SWI5-dependent HO expression protein 4; heat and a	92.68
3tjz_B		355	Coatomer subunit gamma; protein trafficking, golgi	91.44
3nmz_A		458	APC variant protein; protein-protein complex, arma	91.23
2y4t_A		450	DNAJ homolog subfamily C member 3; chaperone, endo	90.69
3hym_B		330	Cell division cycle protein 16 homolog; APC, anaph	90.43
2qk1_A		249	Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, h	90.15
1w3b_A		388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	89.95
3l9t_A		240	Putative uncharacterized protein SMU.31; hypotheti	89.87
1lsh_A		1056	Lipovitellin (LV-1N, LV-1C); vitellogenin, lipopro	89.73
2gw1_A		514	Mitochondrial precursor proteins import receptor;	89.16
1fch_A		368	Peroxisomal targeting signal 1 receptor; protein-p	87.7
3tjz_B		355	Coatomer subunit gamma; protein trafficking, golgi	87.68
2y4t_A		450	DNAJ homolog subfamily C member 3; chaperone, endo	85.25
4a1s_A		411	PINS, partner of inscuteable; cell cycle, LGN, mit	85.25
1lsh_A		1056	Lipovitellin (LV-1N, LV-1C); vitellogenin, lipopro	85.05
3ieg_A		359	DNAJ homolog subfamily C member 3; TPR motif, chap	84.95
3opb_A		778	SWI5-dependent HO expression protein 4; heat and a	84.57
3ro2_A		338	PINS homolog, G-protein-signaling modulator 2; TPR	84.26
3mkq_B		177	Coatomer subunit alpha; beta-propeller, alpha-sole	83.45
2pl2_A		217	Hypothetical conserved protein TTC0263; TPR, prote	81.11
1fch_A		368	Peroxisomal targeting signal 1 receptor; protein-p	80.99

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N	Back alignment and structure

Probab=100.00  E-value=1.5e-128  Score=1139.78  Aligned_cols=606  Identities=19%  Similarity=0.295  Sum_probs=563.8

Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHhcCChhhhHHHhcc-------cChHHHHHHHHHhcccCCCCCcH--HHHHHHHHHH
Q 005098            2 ELVQEIVAFHMKHNAEPEAVDLLMEVEDLDLLVEHVDA-------TNFKRTCLYLTSAAKYLPGPDDM--LVLDIAYMIY   72 (714)
Q Consensus         2 ~lv~~iv~~~~~~n~e~~AvdlllE~~~ld~i~~~vd~-------~~~~ri~~Yl~~~~~~~~~~~~~--~vl~~~~~i~   72 (714)
                      .||++||+|||+||+|+||||||||++|||+|+++||+       +||.|+|+|+++|++++++|+++  +||++++++|
T Consensus       146 ~Lv~~iv~~cl~hnae~~AvdLalE~erLD~Le~~vd~~~~~~~~~n~~rvclYlls~v~~lv~p~~fr~~vLr~l~~Iy  225 (963)
T 4ady_A          146 SIFERMIEKCLKASELKLALGIALEGYRLDIIESALKSKLDQDSTSENVKIINYLLTLAITTVTNSKFRSSILRKSFDFL  225 (963)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHhhHHHHHHHHHhhccccccccHHHHHHHHHHHhhccCCChHHHHHHHHHHHHHH
Confidence            58999999999999999999999999999999999998       89999999999999999999985  7999999999


Q ss_pred             hccC--CHHHHHHHHHhcCChhHHHHHHhh---cchHHHHHHHHHHHhh---hcccccccCCCCCCcchHHHHHHHHcCc
Q 005098           73 LKFE--EFPNALQIALFLDNMQYVKQIFTS---CDDLLRKKQFCYILAR---HGITLELDDDMVPDDDDRYALQDIVNNV  144 (714)
Q Consensus        73 ~~~~--~~~~al~~al~l~d~~~i~~i~~~---~~d~~~~~Qlaf~lar---q~~~~~~~~~~~~~~~~~~~l~~il~n~  144 (714)
                      .+++  +|+++++|+++|||++.++++|++   |+|++++|||||+|+|   |+|+.++.+.... .+..+++.+||+|+
T Consensus       226 ~k~~~~dy~~a~~~ai~LnD~~li~~if~~l~~~~d~l~ayQiAFdL~~~~~Q~fL~~v~~~l~~-~e~~~kL~~ILsg~  304 (963)
T 4ady_A          226 MNMPNCDYLTLNKVVVNLNDAGLALQLFKKLKEENDEGLSAQIAFDLVSSASQQLLEILVTELTA-QGYDPALLNILSGL  304 (963)
T ss_dssp             HHSSSCCHHHHHHHHHHHTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH-TTCCHHHHHHTTSH
T ss_pred             HhCCchhHHHHHHHHHHcCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcccchHHHHHHHHhccc-cchhHHHHHHhCCC
Confidence            9987  999999999999999999999999   6899999999999996   5565544110000 11357899999999


Q ss_pred             CcchhHHHHHHHhhccCCCChhHHHHhhhccCCCCCCcchhhHHHhHHHHHHHHHHhhccCCCcccccCCCCCCCCCccc
Q 005098          145 KLSEGYLTLARDIEVMEPKSPEDIYKAHLLDGRASAGASVDSARQNLAATFVNAFVNAGFGQDKLMTVPSDASSGGSSGN  224 (714)
Q Consensus       145 ~l~~~~~~~~~~l~~~~~k~~~~iyk~~l~~~~~~~~~~~dsa~~~la~~~~na~~~aG~~~d~~l~~~~~~~~~~~~~~  224 (714)
                      .++++|++|+++++.+|+++|+++ |++++ +|        ++++|+|.+|+|||||+||++|+||+++.+         
T Consensus       305 ~~~~Lyl~FL~~~n~~d~~~l~~~-K~~ld-~r--------~s~~~~A~~f~Naf~naG~~~D~~l~~~~~---------  365 (963)
T 4ady_A          305 PTCDYYNTFLLNNKNIDIGLLNKS-KSSLD-GK--------FSLFHTAVSVANGFMHAGTTDNSFIKANLP---------  365 (963)
T ss_dssp             HHHHHHHHHHHHHCCCCHHHHHHH-HHHSC-TT--------SHHHHHHHHHHHHHHTTTTCCCHHHHHCHH---------
T ss_pred             ChHHHHHHHHHhccccchhhHHHH-Hhhhc-ch--------hhHHHHHHHHHHHHHhCCCCcchhhhcchh---------
Confidence            999999999999999999999987 99997 45        589999999999999999999999998766         


Q ss_pred             ccccccchhHHHHHHHhhhhhcccchhhHHhhhhhcc---CCCchhHHHHHHHHHHHhcCCCCChhhHHHHHHHhccCCC
Q 005098          225 WLFKNKEHGKMSAAASLGMILLWDVDSGLAQIDKYFH---STDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGRED  301 (714)
Q Consensus       225 wl~k~~~~~~~~a~aslGlI~~~~~~~~l~~l~~yL~---s~~~~~~~GAllaLGli~~G~~~e~d~~~~lL~~~L~~~~  301 (714)
                      |++|+++|+||+|++|||+||.||.++|+++|++||+   ++++++++||++|||++++|+.++   ++++|.++|.+++
T Consensus       366 Wl~k~~~~~k~sA~aSLGlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~---~~~lL~~~L~~~~  442 (963)
T 4ady_A          366 WLGKAQNWAKFTATASLGVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRD---TTDYLKNIIVENS  442 (963)
T ss_dssp             HHHHCCTHHHHHHHHHHHHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHH---HHHHHHHHHHHHS
T ss_pred             hhhccchHHHHHHHHHhhhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHH---HHHHHHHHHcCcc
Confidence            9999999999999999999999999999999999999   678999999999999999999753   8899999998655


Q ss_pred             --------hHHHHHHHHHHHHHhccCCCHhHHHHHHhhhcCCCChhHHHHHHHHHHHhHhcCCCCHHHHHHHHHHHhhcC
Q 005098          302 --------ACIRIGAIMGLGISYAGTQNDQIRHKLSTILNDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRS  373 (714)
Q Consensus       302 --------~~v~~gA~lGLGl~y~Gs~~~~i~e~L~~~l~d~~~~~e~~~~AalaLGLi~lGs~~~~~~e~Ll~~L~~~~  373 (714)
                              +.+|+||++|||++|+||+++++++.|+|.+.|++.  .+..+|++|||++|+||||+++++.|++++++  
T Consensus       443 ~~~~~~~~~~ir~gAaLGLGla~~GS~~eev~e~L~~~L~dd~~--~~~~~AalALGli~vGTgn~~ai~~LL~~~~e--  518 (963)
T 4ady_A          443 GTSGDEDVDVLLHGASLGIGLAAMGSANIEVYEALKEVLYNDSA--TSGEAAALGMGLCMLGTGKPEAIHDMFTYSQE--  518 (963)
T ss_dssp             SCCSCHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHTCCH--HHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHH--
T ss_pred             ccccccccHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCH--HHHHHHHHHHhhhhcccCCHHHHHHHHHHHhc--
Confidence                    789999999999999999999999999999986532  33458999999999999999999999999875  


Q ss_pred             ccccCchhHhHHHHHHhHhhcCChhhHHHHHHHHhhchhhhhhhhHHHHHHHHhhcCCCHHHHHHHHhhccccCCCCccc
Q 005098          374 ESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTFNEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAY  453 (714)
Q Consensus       374 ~~~l~~~~~r~a~l~lgLi~lG~~e~~~~ll~~L~~~~~~~~r~~~~~~~glayaGtGn~~~i~~LL~~~~~~~~~~~~v  453 (714)
                       ++ +++++|++++||||+++|+++.++.+++.|..+++|+.||++++++||||+||||+.+|++|||.|.++.++  +|
T Consensus       519 -~~-~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~~d--~V  594 (963)
T 4ady_A          519 -TQ-HGNITRGLAVGLALINYGRQELADDLITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDSND--DV  594 (963)
T ss_dssp             -CS-CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCSCH--HH
T ss_pred             -cC-cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCCcH--HH
Confidence             34 889999999999999999999999999999999999999999999999999999999999999999998876  89


Q ss_pred             cchhHHHHHHhhcccchhhhhHHHHHHHHHhcCCHHHHhhHHHHHhhhccCCCcHHHHHHHHHhhcCCchHHHHHHHHHH
Q 005098          454 QGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNIRRAVPLALGLLCISNPKVNVMDTLSRLSHDTDSEVAMAAVISL  533 (714)
Q Consensus       454 rr~avl~lalI~~~~~~~~~~~~~~l~~L~~~~~~~vr~g~~lALGl~~aGt~~~~ai~~L~~l~~D~~~~Vr~~AiiAl  533 (714)
                      ||+|++|||+|+++++   +++++++++|++++||+||+|+|+|||++++|||+++++++|+++++|+|++||++|++||
T Consensus       595 RraAViaLGlI~~g~~---e~v~rlv~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d~~Vrq~Ai~AL  671 (963)
T 4ady_A          595 RRAAVIALGFVLLRDY---TTVPRIVQLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQAAMIAL  671 (963)
T ss_dssp             HHHHHHHHHHHTSSSC---SSHHHHTTTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCCHHHHHHHHHHH
Confidence            9999999999999999   8999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCCch---HHHHHHHHHHhhhc---cChhHHHHHHHHHhhhhcCCCcccccccCCCCCCCChHHHHHHHHHHHhh
Q 005098          534 GLIGSGTNNA---RIAGMLRNLSSYYY---KDANLLFCVRIAQGLVHMGKGLLTLNPYHSDRFLLSPTALAGIVTTLFAC  607 (714)
Q Consensus       534 GlV~aGt~n~---rv~~~lr~l~~~~~---~d~~~~~~~~lA~Gll~~G~g~~tls~~~sd~~~~~~~a~agLl~~l~~~  607 (714)
                      |+|++||||+   ||++++|+|+++++   +|++++||+++||||+||||||+||||+||||+++|++|++||++|+++|
T Consensus       672 G~Ig~gtnna~~~rva~~l~~L~~~~~dk~~d~~~~fga~iAqGll~aG~~n~tis~~~s~~~~~~~~a~~Gl~~f~q~w  751 (963)
T 4ady_A          672 SMILIQQTEKLNPQVADINKNFLSVITNKHQEGLAKFGACVAQGIMNAGGRNVTIQLENADTGTLDTKSVVGLVMFSQFW  751 (963)
T ss_dssp             HHHSTTCCTTTCTTHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHTTGGGTEEECSBCTTTCCBCHHHHHHHHHHTTTT
T ss_pred             HHHhcCCccccchHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhcCCCceEEEeeeccCCCCCHHHHHHHHHHHHHH
Confidence            9999999987   99999999999985   58999999999999999999999999999999999999999999999775


Q ss_pred             ccccccccCchhHHHHHHhhhccccEeEeecC-CCCcceeeEEe
Q 005098          608 LDMKAVIVGKYHYVLYFLVLAMQPRMLLTVDE-NLKPLSVPVRV  650 (714)
Q Consensus       608 ~~~~~~~~~~~h~l~~~l~lA~~Pr~li~~d~-~l~~~~v~vrv  650 (714)
                               -||||+||+++||+|||+||+|+ |||+|++.++.
T Consensus       752 ---------yw~pl~~~lsla~~Pt~li~l~e~dL~~p~~~~~~  786 (963)
T 4ady_A          752 ---------YWFPLAHFLSLSFTPTTVIGIRGSDQAIPKFQMNC  786 (963)
T ss_dssp             ---------TCGGGGGGGGGGEEECBEEEEETTTTBEECCEEEE
T ss_pred             ---------HHHHHHHHHHHhcCCcEEEEecccccCCCceEEee
Confidence                     23359999999999999999999 99999888865

PyMOL of 4ady

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N	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	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	Back alignment and structure

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

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}	Back alignment and structure

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

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}	Back alignment and structure

>1b3u_A Protein (protein phosphatase PP2A); scaffold protein, phosphorylation, heat repeat; 2.30A {Homo sapiens} SCOP: a.118.1.2 PDB: 2ie4_A* 2ie3_A* 2npp_A* 3k7v_A* 3k7w_A* 3fga_A* 2pf4_A 2iae_A 2nym_A* 2nyl_A* 3dw8_A* 2pkg_A 3c5w_A	Back alignment and structure

>1b3u_A Protein (protein phosphatase PP2A); scaffold protein, phosphorylation, heat repeat; 2.30A {Homo sapiens} SCOP: a.118.1.2 PDB: 2ie4_A* 2ie3_A* 2npp_A* 3k7v_A* 3k7w_A* 3fga_A* 2pf4_A 2iae_A 2nym_A* 2nyl_A* 3dw8_A* 2pkg_A 3c5w_A	Back alignment and structure

>2jdq_A Importin alpha-1 subunit; transport, PB2 subunit, nuclear protein, protein transport, armadillo repeats; 2.2A {Homo sapiens} PDB: 3tj3_A	Back alignment and structure

>2jdq_A Importin alpha-1 subunit; transport, PB2 subunit, nuclear protein, protein transport, armadillo repeats; 2.2A {Homo sapiens} PDB: 3tj3_A	Back alignment and structure

>2vgl_B AP-2 complex subunit beta-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Homo sapiens} SCOP: i.23.1.1 PDB: 2jkt_B 2jkr_B* 2xa7_B 1w63_B	Back alignment and structure

>2vgl_B AP-2 complex subunit beta-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Homo sapiens} SCOP: i.23.1.1 PDB: 2jkt_B 2jkr_B* 2xa7_B 1w63_B	Back alignment and structure

>4b8j_A Importin subunit alpha-1A; transport protein, nuclear localization signal; 2.00A {Oryza sativa japonica group} PDB: 4b8o_A 2yns_A 4b8p_A	Back alignment and structure

>1wa5_B Importin alpha subunit; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1un0_A 2c1t_A 1bk5_A 1ee5_A 1bk6_A 1ee4_A	Back alignment and structure

>1w63_A Adapter-related protein complex 1 gamma 1 subunit; endocytosis, clathrin adaptor, transport, coated PITS; 4.0A {Mus musculus} SCOP: i.23.1.1	Back alignment and structure

>1wa5_B Importin alpha subunit; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1un0_A 2c1t_A 1bk5_A 1ee5_A 1bk6_A 1ee4_A	Back alignment and structure

>4b8j_A Importin subunit alpha-1A; transport protein, nuclear localization signal; 2.00A {Oryza sativa japonica group} PDB: 4b8o_A 2yns_A 4b8p_A	Back alignment and structure

>4hxt_A De novo protein OR329; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 1.95A {Artificial gene}	Back alignment and structure

>3ul1_B Importin subunit alpha-2; arm repeat, armadillo repeat, nuclear transport, nuclear LOC signal binding, importin beta binding; 1.90A {Mus musculus} PDB: 3ukx_B 3uky_B 3ukz_B 3ukw_B 3ul0_B 3oqs_A 3rz9_A 3rzx_A 3uvu_A 1q1s_C 1q1t_C 3knd_A 1ejy_I 1iq1_C 1ejl_I 1pjn_B 1pjm_B 3q5u_A 3fey_C 3fex_C ...	Back alignment and structure

>3tpo_A Importin subunit alpha-2; nuclear import, protein transport; 2.10A {Mus musculus} PDB: 1qgk_B 1qgr_B	Back alignment and structure

>4fdd_A Transportin-1; heat repeats, karyopherin, nuclear import, protein transport importin, transportin, transport protein; 2.30A {Homo sapiens} PDB: 2ot8_A 2h4m_A 2z5k_A 2z5j_A 2qmr_A 2z5m_A 2z5n_A 2z5o_A 1qbk_B*	Back alignment and structure

>1w63_A Adapter-related protein complex 1 gamma 1 subunit; endocytosis, clathrin adaptor, transport, coated PITS; 4.0A {Mus musculus} SCOP: i.23.1.1	Back alignment and structure

>1te4_A Conserved protein MTH187; methanobacterium thermoautotrophicum, structural proteomics, heat-like repeat; NMR {Methanothermobacterthermautotrophicus} SCOP: a.118.1.16	Back alignment and structure

>4fdd_A Transportin-1; heat repeats, karyopherin, nuclear import, protein transport importin, transportin, transport protein; 2.30A {Homo sapiens} PDB: 2ot8_A 2h4m_A 2z5k_A 2z5j_A 2qmr_A 2z5m_A 2z5n_A 2z5o_A 1qbk_B*	Back alignment and structure

>2z6g_A B-catenin; FULL-length, beta-catenin, cell adhesion; 3.40A {Danio rerio}	Back alignment and structure

>3ul1_B Importin subunit alpha-2; arm repeat, armadillo repeat, nuclear transport, nuclear LOC signal binding, importin beta binding; 1.90A {Mus musculus} PDB: 3ukx_B 3uky_B 3ukz_B 3ukw_B 3ul0_B 3oqs_A 3rz9_A 3rzx_A 3uvu_A 1q1s_C 1q1t_C 3knd_A 1ejy_I 1iq1_C 1ejl_I 1pjn_B 1pjm_B 3q5u_A 3fey_C 3fex_C ...	Back alignment and structure

>1jdh_A Beta-catenin; beta-catenin, protein-protein complex, transcription; 1.90A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qz7_A 1g3j_A 1th1_A* 1i7w_A* 1i7x_A 1jpp_A 1m1e_A 1v18_A* 3oux_A 3ouw_A 1jpw_A 3tx7_A* 2gl7_A 1t08_A 1luj_A 2bct_A 3bct_A* 3ifq_A* 3sla_A 3sl9_A	Back alignment and structure

>4db8_A Armadillo-repeat protein; solenoid repeat, de novo protein; 2.50A {Synthetic construct}	Back alignment and structure

>2z6g_A B-catenin; FULL-length, beta-catenin, cell adhesion; 3.40A {Danio rerio}	Back alignment and structure

>1qgr_A Protein (importin beta subunit); transport receptor, nuclear import, heat motif, NLS-binding; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qgk_A 2p8q_A 2q5d_A 3lww_A 1ukl_A 2qna_A	Back alignment and structure

>2z6h_A Catenin beta-1, beta-catenin; C-terminal domain, activator, alternative splicing, cell adhesion, cytoplasm, cytoskeleton, disease mutation, nucleus; 2.20A {Homo sapiens}	Back alignment and structure

>1ibr_B P95, importin beta-1 subunit, nuclear factor; small GTPase, nuclear transport receptor, cell cycle, translation; HET: GNP; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1m5n_S 1gcj_A 1f59_A 1o6o_A 1o6p_A	Back alignment and structure

>1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger, ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A	Back alignment and structure

>3tpo_A Importin subunit alpha-2; nuclear import, protein transport; 2.10A {Mus musculus} PDB: 1qgk_B 1qgr_B	Back alignment and structure

>4db6_A Armadillo repeat protein; solenoid repeat, armadillo repeat motif, de novo protein; 1.80A {Synthetic construct} PDB: 4db9_A 4dba_A	Back alignment and structure

>4hxt_A De novo protein OR329; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 1.95A {Artificial gene}	Back alignment and structure

>3now_A UNC-45 protein, SD10334P; armadillo repeat, HSP90, myosin, tetra-tricopeptide repeat, binding protein required for myosin function; 2.99A {Drosophila melanogaster}	Back alignment and structure

>1jdh_A Beta-catenin; beta-catenin, protein-protein complex, transcription; 1.90A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qz7_A 1g3j_A 1th1_A* 1i7w_A* 1i7x_A 1jpp_A 1m1e_A 1v18_A* 3oux_A 3ouw_A 1jpw_A 3tx7_A* 2gl7_A 1t08_A 1luj_A 2bct_A 3bct_A* 3ifq_A* 3sla_A 3sl9_A	Back alignment and structure

>2z6h_A Catenin beta-1, beta-catenin; C-terminal domain, activator, alternative splicing, cell adhesion, cytoplasm, cytoskeleton, disease mutation, nucleus; 2.20A {Homo sapiens}	Back alignment and structure

>3now_A UNC-45 protein, SD10334P; armadillo repeat, HSP90, myosin, tetra-tricopeptide repeat, binding protein required for myosin function; 2.99A {Drosophila melanogaster}	Back alignment and structure

>4db6_A Armadillo repeat protein; solenoid repeat, armadillo repeat motif, de novo protein; 1.80A {Synthetic construct} PDB: 4db9_A 4dba_A	Back alignment and structure

>2bpt_A Importin beta-1 subunit; nuclear transport, nucleocytoplasmic transport, nuclear trafficking, importin- beta, complex; 1.99A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 2bku_B 3ea5_B* 3nd2_A	Back alignment and structure

>4db8_A Armadillo-repeat protein; solenoid repeat, de novo protein; 2.50A {Synthetic construct}	Back alignment and structure

>2bpt_A Importin beta-1 subunit; nuclear transport, nucleocytoplasmic transport, nuclear trafficking, importin- beta, complex; 1.99A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 2bku_B 3ea5_B* 3nd2_A	Back alignment and structure

>1te4_A Conserved protein MTH187; methanobacterium thermoautotrophicum, structural proteomics, heat-like repeat; NMR {Methanothermobacterthermautotrophicus} SCOP: a.118.1.16	Back alignment and structure

>1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger, ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A	Back alignment and structure

>2vgl_A Adaptor protein complex AP-2, alpha 2 subunit; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Rattus norvegicus} PDB: 2xa7_A 2jkr_A 2jkt_A	Back alignment and structure

>1qgr_A Protein (importin beta subunit); transport receptor, nuclear import, heat motif, NLS-binding; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qgk_A 2p8q_A 2q5d_A 3lww_A 1ukl_A 2qna_A	Back alignment and structure

>1xm9_A Plakophilin 1; armadillo repeat, cell adhesion; 2.80A {Homo sapiens} SCOP: a.118.1.24	Back alignment and structure

>3l6x_A Catenin delta-1; catenin, armadillo, ARM, JMD, CE adhesion, complex, cell-CELL adhesion, ARVCF, delta-catenin DP120, JAC-1, cell membrane, membrane; 2.40A {Homo sapiens} PDB: 3l6y_A	Back alignment and structure

>2qk1_A Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, heat repeat, microtubule plus END, +TIP, protein binding; 1.70A {Saccharomyces cerevisiae}	Back alignment and structure

>3l6x_A Catenin delta-1; catenin, armadillo, ARM, JMD, CE adhesion, complex, cell-CELL adhesion, ARVCF, delta-catenin DP120, JAC-1, cell membrane, membrane; 2.40A {Homo sapiens} PDB: 3l6y_A	Back alignment and structure

>1ibr_B P95, importin beta-1 subunit, nuclear factor; small GTPase, nuclear transport receptor, cell cycle, translation; HET: GNP; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1m5n_S 1gcj_A 1f59_A 1o6o_A 1o6p_A	Back alignment and structure

>2vgl_A Adaptor protein complex AP-2, alpha 2 subunit; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Rattus norvegicus} PDB: 2xa7_A 2jkr_A 2jkt_A	Back alignment and structure

>1xqr_A HSPBP1 protein; armadillo repeat, superhelical twist, chaperone; 2.10A {Homo sapiens} SCOP: a.118.1.21 PDB: 1xqs_A*	Back alignment and structure

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}	Back alignment and structure

>3l9t_A Putative uncharacterized protein SMU.31; hypothetical protein, unknown function; HET: EPE; 2.21A {Streptococcus mutans}	Back alignment and structure

>2qk2_A LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2, heat repeat, micro plus END, +TIP, protein binding; 2.10A {Drosophila melanogaster}	Back alignment and structure

>3nmw_A APC variant protein; ARMADIILO repeats domain, cell adhesion-cell cycle complex; 1.60A {Homo sapiens} PDB: 3nmx_A 3t7u_A 3au3_A 3qhe_A	Back alignment and structure

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}	Back alignment and structure

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}	Back alignment and structure

>1xm9_A Plakophilin 1; armadillo repeat, cell adhesion; 2.80A {Homo sapiens} SCOP: a.118.1.24	Back alignment and structure

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}	Back alignment and structure

>1xqr_A HSPBP1 protein; armadillo repeat, superhelical twist, chaperone; 2.10A {Homo sapiens} SCOP: a.118.1.21 PDB: 1xqs_A*	Back alignment and structure

>1lrv_A LRV, leucine-rich repeat variant; leucine-rich repeats, repetitive structure, iron sulfur proteins, nitrogen fixation; 2.60A {Azotobacter vinelandii} SCOP: a.118.1.5	Back alignment and structure

>2qk2_A LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2, heat repeat, micro plus END, +TIP, protein binding; 2.10A {Drosophila melanogaster}	Back alignment and structure

>3nmz_A APC variant protein; protein-protein complex, armadillo repeats, cell adhesion-CE complex; 3.01A {Homo sapiens}	Back alignment and structure

>3nmw_A APC variant protein; ARMADIILO repeats domain, cell adhesion-cell cycle complex; 1.60A {Homo sapiens} PDB: 3nmx_A 3t7u_A 3au3_A 3qhe_A	Back alignment and structure

>3opb_A SWI5-dependent HO expression protein 4; heat and arm fold, myosin folding and function, myosin bindi protein, protein binding; 2.90A {Saccharomyces cerevisiae}	Back alignment and structure

>3tjz_B Coatomer subunit gamma; protein trafficking, golgi membrane, protein transport-prote binding complex; HET: GNP; 2.90A {Bos taurus}	Back alignment and structure

>3nmz_A APC variant protein; protein-protein complex, armadillo repeats, cell adhesion-CE complex; 3.01A {Homo sapiens}	Back alignment and structure

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A	Back alignment and structure

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}	Back alignment and structure

>2qk1_A Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, heat repeat, microtubule plus END, +TIP, protein binding; 1.70A {Saccharomyces cerevisiae}	Back alignment and structure

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1	Back alignment and structure

>3l9t_A Putative uncharacterized protein SMU.31; hypothetical protein, unknown function; HET: EPE; 2.21A {Streptococcus mutans}	Back alignment and structure

>1lsh_A Lipovitellin (LV-1N, LV-1C); vitellogenin, lipoprotein, plasma apolipoprote apolipoprotein B, APOB; HET: PLD UPL; 1.90A {Ichthyomyzon unicuspis} SCOP: a.118.4.1 f.7.1.1 f.7.1.1	Back alignment and structure

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}	Back alignment and structure

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A	Back alignment and structure

>3tjz_B Coatomer subunit gamma; protein trafficking, golgi membrane, protein transport-prote binding complex; HET: GNP; 2.90A {Bos taurus}	Back alignment and structure

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A	Back alignment and structure

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}	Back alignment and structure

>1lsh_A Lipovitellin (LV-1N, LV-1C); vitellogenin, lipoprotein, plasma apolipoprote apolipoprotein B, APOB; HET: PLD UPL; 1.90A {Ichthyomyzon unicuspis} SCOP: a.118.4.1 f.7.1.1 f.7.1.1	Back alignment and structure

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}	Back alignment and structure

>3opb_A SWI5-dependent HO expression protein 4; heat and arm fold, myosin folding and function, myosin bindi protein, protein binding; 2.90A {Saccharomyces cerevisiae}	Back alignment and structure

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}	Back alignment and structure

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}	Back alignment and structure

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}	Back alignment and structure

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		714
d1oyza_		276	Hypothetical protein YibA {Escherichia coli [TaxId	98.66
d1oyza_		276	Hypothetical protein YibA {Escherichia coli [TaxId	98.56
d1b3ua_		588	Constant regulatory domain of protein phosphatase	98.47
d1b3ua_		588	Constant regulatory domain of protein phosphatase	98.27
d1te4a_		111	MTH187 {Archaeon Methanobacterium thermoautotrophi	97.85
d2vglb_		579	Adaptin beta subunit N-terminal fragment {Human (H	97.84
d2vglb_		579	Adaptin beta subunit N-terminal fragment {Human (H	97.77
d1q1sc_		434	Importin alpha {Mouse (Mus musculus) [TaxId: 10090	97.49
d1te4a_		111	MTH187 {Archaeon Methanobacterium thermoautotrophi	97.48
d1u6gc_		1207	Cullin-associated NEDD8-dissociated protein 1 (Tip	97.06
d1wa5b_		503	Karyopherin alpha {Baker's yeast (Saccharomyces ce	96.76
d1q1sc_		434	Importin alpha {Mouse (Mus musculus) [TaxId: 10090	96.57
d1u6gc_		1207	Cullin-associated NEDD8-dissociated protein 1 (Tip	96.49
d1jdha_		529	beta-Catenin {Human (Homo sapiens) [TaxId: 9606]}	96.45
d1qbkb_		888	Karyopherin beta2 {Human (Homo sapiens) [TaxId: 96	96.34
d1xqra1		264	Hsp70-binding protein 1 (HspBP1) {Human (Homo sapi	96.1
d1jdha_		529	beta-Catenin {Human (Homo sapiens) [TaxId: 9606]}	96.06
d1wa5b_		503	Karyopherin alpha {Baker's yeast (Saccharomyces ce	95.81
d1qbkb_		888	Karyopherin beta2 {Human (Homo sapiens) [TaxId: 96	95.68
d2vgla_		584	Adaptin alpha C subunit N-terminal fragment {Mouse	95.54
d2vgla_		584	Adaptin alpha C subunit N-terminal fragment {Mouse	95.46
d1lsha1		336	Lipovitellin-phosvitin complex, superhelical domai	94.76
d1ibrb_		458	Importin beta {Human (Homo sapiens) [TaxId: 9606]}	94.02
d1lsha1		336	Lipovitellin-phosvitin complex, superhelical domai	93.59
d1ibrb_		458	Importin beta {Human (Homo sapiens) [TaxId: 9606]}	93.2
d1xqra1		264	Hsp70-binding protein 1 (HspBP1) {Human (Homo sapi	93.13
d1xm9a1		457	Plakophilin 1 {Human (Homo sapiens) [TaxId: 9606]}	88.22
d2bpta1		861	Importin beta {Baker's yeast (Saccharomyces cerevi	87.79
d1qgra_		876	Importin beta {Human (Homo sapiens) [TaxId: 9606]}	87.48
d1lrva_		233	Leucine-rich repeat variant {Azotobacter vinelandi	82.77
d1hz4a_		366	Transcription factor MalT domain III {Escherichia	82.32

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

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: PBS lyase HEAT-like repeat
domain: Hypothetical protein YibA
species: Escherichia coli [TaxId: 562]

Probab=98.66  E-value=1.6e-06  Score=85.23  Aligned_cols=250  Identities=12%  Similarity=0.073  Sum_probs=133.5

Q ss_pred             HHhhhhhccCCCchhHHHHHHHHHHHhcCCCCChhhHHHHHHHhccCCChHHHHHHHHHHHHHhccCCC-HhHHHHHHhh
Q 005098          253 LAQIDKYFHSTDNHVIAGALLGVGIVNCGIRNDCDPALALLSEYVGREDACIRIGAIMGLGISYAGTQN-DQIRHKLSTI  331 (714)
Q Consensus       253 l~~l~~yL~s~~~~~~~GAllaLGli~~G~~~e~d~~~~lL~~~L~~~~~~v~~gA~lGLGl~y~Gs~~-~~i~e~L~~~  331 (714)
                      ...|.+.|.++++.+|.-|+.+||.+  |.    +.++..|...++++++.+|..|+.+||-....... ..+...|...
T Consensus        21 ~~~L~~~L~d~~~~vR~~A~~~L~~~--~~----~~~~~~l~~~l~d~~~~vr~~a~~aL~~l~~~~~~~~~~~~~l~~~   94 (276)
T d1oyza_          21 DDELFRLLDDHNSLKRISSARVLQLR--GG----QDAVRLAIEFCSDKNYIRRDIGAFILGQIKICKKCEDNVFNILNNM   94 (276)
T ss_dssp             HHHHHHHTTCSSHHHHHHHHHHHHHH--CC----HHHHHHHHHHHTCSSHHHHHHHHHHHHHSCCCTTTHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHhh--CC----HhHHHHHHHHHcCCCHHHHHHHHHHHHHhccccccccchHHHHHHH
Confidence            34566778888888888888888864  42    33677777888888888888888888765433332 2344444444


Q ss_pred             h-cCCCChhHHHHHHHHHHHhHhcCCCCHHHHHHHHHHHhhcCccccCchhHhHHHHHHhHhhcCChhhHHHHHHHHhhc
Q 005098          332 L-NDAKSPLDVIAFSAISLGLIYVGSCNEEVAQAIIFALMDRSESELGEPLTRLIPLGLGLLYLGKQESVEATAEVSKTF  410 (714)
Q Consensus       332 l-~d~~~~~e~~~~AalaLGLi~lGs~~~~~~e~Ll~~L~~~~~~~l~~~~~r~a~l~lgLi~lG~~e~~~~ll~~L~~~  410 (714)
                      + .|+  +.++...|..+||-+.-+.  ......+++.+....... +..+.+.++  .++..++.+.....++..+...
T Consensus        95 ~l~d~--~~~vr~~a~~aL~~~~~~~--~~~~~~~~~~l~~~~~d~-~~~vr~~a~--~~l~~~~~~~~~~~l~~l~~~~  167 (276)
T d1oyza_          95 ALNDK--SACVRATAIESTAQRCKKN--PIYSPKIVEQSQITAFDK-STNVRRATA--FAISVINDKATIPLLINLLKDP  167 (276)
T ss_dssp             HHHCS--CHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHTTCS-CHHHHHHHH--HHHHTC---CCHHHHHHHHTCS
T ss_pred             HhcCC--ChhHHHHHHHHHHHHcccc--chhhHHHHHHHHHHhcCc-chHHHHHHH--HHHhhcchHHHHHHHHHhcccc
Confidence            3 344  3455567778888664332  222233344332211111 222333333  3344566666666555554433


Q ss_pred             hhhhhhhhHHHHHHHHhhcCCCHHHHHHHHhhccccCCCCccccchhHHHHHHhhcccchhhhhHHHHHHHHHhcCCHHH
Q 005098          411 NEKIRKYCDMTLLSCAYAGTGNVLKVQNLLGHCAQHHEKGEAYQGPAVLGIAMVAMAEELGLEMAIRSLEHLLQYGEQNI  490 (714)
Q Consensus       411 ~~~~~r~~~~~~~glayaGtGn~~~i~~LL~~~~~~~~~~~~vrr~avl~lalI~~~~~~~~~~~~~~l~~L~~~~~~~v  490 (714)
                       ++..+.....+.  .....+....+..++....+. +  ..++..+..+++-+  +.+   +.++.++..+ +  ++.|
T Consensus       168 -~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~-~--~~~~~~~~~al~~~--~~~---~~~~~L~~~l-~--d~~v  233 (276)
T d1oyza_         168 -NGDVRNWAAFAI--NINKYDNSDIRDCFVEMLQDK-N--EEVRIEAIIGLSYR--KDK---RVLSVLCDEL-K--KNTV  233 (276)
T ss_dssp             -SHHHHHHHHHHH--HHHTCCCHHHHHHHHHHTTCS-C--HHHHHHHHHHHHHT--TCG---GGHHHHHHHH-T--SSSC
T ss_pred             -cchhhhhHHHHH--Hhhhccccccchhhhhhhhhh-h--hhhhhhhccccchh--hhh---hhHHHHHHHh-C--ChHH
Confidence             333333333332  334455555555555554322 2  14555555555544  332   2333333332 3  3467


Q ss_pred             HhhHHHHHhhhccCCCcHHHHHHHHHhhcC-CchHHHHHHHHHH
Q 005098          491 RRAVPLALGLLCISNPKVNVMDTLSRLSHD-TDSEVAMAAVISL  533 (714)
Q Consensus       491 r~g~~lALGl~~aGt~~~~ai~~L~~l~~D-~~~~Vr~~AiiAl  533 (714)
                      |..++.+||-+    |+++++..|..++.+ .|..||+.|+=++
T Consensus       234 r~~a~~aL~~i----g~~~~~~~L~~~l~~~~d~~vr~~A~~~L  273 (276)
T d1oyza_         234 YDDIIEAAGEL----GDKTLLPVLDTMLYKFDDNEIITSAIDKL  273 (276)
T ss_dssp             CHHHHHHHHHH----CCGGGHHHHHHHHTTSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHc----CCHHHHHHHHHHHccCCCHHHHHHHHHHH
Confidence            77777777765    356677777665544 4566777766554

PyMOL of d1oyza_

>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

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

>d1te4a_ a.118.1.16 (A:) MTH187 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}	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

>d1u6gc_ a.118.1.2 (C:) Cullin-associated NEDD8-dissociated protein 1 (Tip120) {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

>d1q1sc_ a.118.1.1 (C:) Importin alpha {Mouse (Mus musculus) [TaxId: 10090]}	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

>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

>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

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

>d1qbkb_ a.118.1.1 (B:) Karyopherin beta2 {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

>d1ibrb_ a.118.1.1 (B:) Importin beta {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

>d1ibrb_ a.118.1.1 (B:) Importin beta {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

>d1xm9a1 a.118.1.24 (A:244-700) Plakophilin 1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2bpta1 a.118.1.1 (A:1-861) Importin beta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1qgra_ a.118.1.1 (A:) Importin beta {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

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

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}	Back information, alignment and structure