Citrus Sinensis ID: 020791

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Local Sequence Feature Prediction

Residue Number Marker
--------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-
Protein Sequence
MFFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYKEPEKPIASASSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVPSLGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPVAEKEIKQELPEKKEEPKFRPFTGKKYSLKG
Secondary Structure (PSIPRED)
ccccccccccccccEEEEEEEcccccccccccccEEEEcHHHHHHHHHccccccEEEEEEccccccEEEEEEEEEEccccEEEEcHHHHHHcccccccEEEEEEEEccccEEEEEEEcccccccccccHHHHHccccccEEEccccEEEEEEccEEEEEEEEEEcccccEEEEEccEEEEEccccccccccccccccccHHHHHHccccccccccccccEEEEEEEccEEccccccccccccccccccccccccccccccccccccccccccEEEEEEccccccccccccccHHHcccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccEEEEEEEHHHccccccccccEEEccHHHHHHHHHccccccEEEEEEcccccccccccEEEEEcccccEEcHHHHHHHcccccccEEEEEEccccccEEEEEccccccHcccccHHHHHHHHHHHHHHHccccEEEEEEcccEEEEEEEEEcccccEEEEEEccEEEccccccccccccccccccccccHHccHHHcccccccccccccccEccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccEccc
Coil and Loop (DISEMBL)
mffdgygyhgtsfeqsyrcypasfiekpqiesgdkiimppsaLDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLqegdivrvknvtlpkgtyvklqphtkdfldisnpkAILETTLRnysclttgDSIMVAYNNKKYYIDIIetkpsnaisiietdcevdfappldykepekpiasaSSRATAKAEeasvetepkfspftgvarrldgkpltyqpppvpslgskdkqpatsngtgqpsagstsqnaarqsqgklvfgsnaslhpketqkpvAEKEIKqelpekkeepkfrpftgkkyslkg
Flexible Loop (DISEMBL)
mffdgygyhGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKgtyvklqphtkdfldisnPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYKEPEKPIASASSRATAKAeeasvetepkfspftgvARRLDGKPLTYQPPPVPSLGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFgsnaslhpketqkpvaekeikqelpekkeepkfrpftgkkyslkg
Low Complexity Region (SEG)
MFFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYKEPEKPIASASSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVPSLGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPVAekeikqelpekkeepkFRPFTGKKYSLKG
Disordered region (IsUnstruct)
**FDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAP******************************************************************************************************************************************
Disordered Region (DISOPRED)
*************EQSYRCYPASFI**********IIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPL***************************************************************************************KLVFGSN***********************************KKYSL**
Disordered Region (DISEMBL)
MFFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYKEPE***********************KFSPFTGVARRLDGKPLTYQPPPVP********************************GKLVFGSNASLHPKETQKPVAEKEIKQELPEKKEEPKFRPFTGKKYSLKG
Disordered Region (DISPRO)
*FF*GYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYKE************************************************************************************************************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYKEPEKPIASASSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVPSLGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPVAEKEIKQELPEKKEEPKFRPFTGKKYSLKG
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	321	2.2.26 [Sep-21-2011]
Q9ES53	307	Ubiquitin fusion degradat	yes	no	0.704	0.736	0.515	7e-67
P70362	307	Ubiquitin fusion degradat	yes	no	0.704	0.736	0.515	8e-67
Q92890	307	Ubiquitin fusion degradat	yes	no	0.704	0.736	0.510	5e-66
Q55BK0	330	Ubiquitin fusion degradat	yes	no	0.710	0.690	0.473	6e-63
Q9VTF9	316	Ubiquitin fusion degradat	yes	no	0.713	0.724	0.485	3e-61
O42915	342	Ubiquitin fusion degradat	yes	no	0.694	0.652	0.423	8e-53
P53044	361	Ubiquitin fusion degradat	yes	no	0.560	0.498	0.508	6e-51
Q19584	342	Ubiquitin fusion degradat	yes	no	0.694	0.652	0.403	1e-46

>sp|Q9ES53|UFD1_RAT Ubiquitin fusion degradation protein 1 homolog OS=Rattus norvegicus GN=Ufd1l PE=1 SV=1

 Score =  254 bits (648), Expect = 7e-67,   Method: Compositional matrix adjust.
 Identities = 119/231 (51%), Positives = 158/231 (68%), Gaps = 5/231 (2%)

Query: 13  FEQSYRCYPASFIEKPQ----IESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVS 68
           F   YRC+  S +  P     +E G KIIMPPSALD+L+ L+I YPMLF+L N  ++R++
Sbjct: 19  FSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 78

Query: 69  HCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNP 128
           HCGVLEF+A+EG+ Y+P+WMM+NLLL+EG +V+V++V L   TY K QP + DFLDI+NP
Sbjct: 79  HCGVLEFVADEGICYLPHWMMQNLLLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNP 138

Query: 129 KAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYK 188
           KA+LE  LRN++CLTTGD I + YN K Y + ++ETKP  A+SIIE D  VDF  PL YK
Sbjct: 139 KAVLENALRNFACLTTGDVIAINYNEKIYELRVMETKPDKAVSIIECDMNVDFDAPLGYK 198

Query: 189 EPEKPIASASSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
           EPE+P+    S    +A+ +    E  F  F+G   RLDGK    +P P P
Sbjct: 199 EPERPVQHEES-IEGEADHSGYAGEVGFRAFSGSGNRLDGKKKGVEPSPSP 248

Essential component of the ubiquitin-dependent proteolytic pathway which degrades ubiquitin fusion proteins. The ternary complex containing UFD1L, VCP and NPLOC4 binds ubiquitinated proteins and is necessary for the export of misfolded proteins from the ER to the cytoplasm, where they are degraded by the proteasome. The NPLOC4-UFD1L-VCP complex regulates spindle disassembly at the end of mitosis and is necessary for the formation of a closed nuclear envelope. It may be involved in the development of some ectoderm-derived structures.
Rattus norvegicus (taxid: 10116)

>sp|P70362|UFD1_MOUSE Ubiquitin fusion degradation protein 1 homolog OS=Mus musculus GN=Ufd1l PE=1 SV=2

 Score =  254 bits (648), Expect = 8e-67,   Method: Compositional matrix adjust.
 Identities = 119/231 (51%), Positives = 158/231 (68%), Gaps = 5/231 (2%)

Query: 13  FEQSYRCYPASFIEKPQ----IESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVS 68
           F   YRC+  S +  P     +E G KIIMPPSALD+L+ L+I YPMLF+L N  ++R++
Sbjct: 19  FSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 78

Query: 69  HCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNP 128
           HCGVLEF+A+EG+ Y+P+WMM+NLLL+EG +V+V++V L   TY K QP + DFLDI+NP
Sbjct: 79  HCGVLEFVADEGICYLPHWMMQNLLLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNP 138

Query: 129 KAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYK 188
           KA+LE  LRN++CLTTGD I + YN K Y + ++ETKP  A+SIIE D  VDF  PL YK
Sbjct: 139 KAVLENALRNFACLTTGDVIAINYNEKIYELRVMETKPDKAVSIIECDMNVDFDAPLGYK 198

Query: 189 EPEKPIASASSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
           EPE+P+    S    +A+ +    E  F  F+G   RLDGK    +P P P
Sbjct: 199 EPERPVQHEES-IEGEADHSGYAGEVGFRAFSGSGNRLDGKKKGVEPSPSP 248

Essential component of the ubiquitin-dependent proteolytic pathway which degrades ubiquitin fusion proteins. The ternary complex containing UFD1L, VCP and NPLOC4 binds ubiquitinated proteins and is necessary for the export of misfolded proteins from the ER to the cytoplasm, where they are degraded by the proteasome. The NPLOC4-UFD1L-VCP complex regulates spindle disassembly at the end of mitosis and is necessary for the formation of a closed nuclear envelope (By similarity). It may be involved in the development of some ectoderm-derived structures.

Mus musculus (taxid: 10090)

>sp|Q92890|UFD1_HUMAN Ubiquitin fusion degradation protein 1 homolog OS=Homo sapiens GN=UFD1L PE=1 SV=3

 Score =  251 bits (641), Expect = 5e-66,   Method: Compositional matrix adjust.
 Identities = 118/231 (51%), Positives = 157/231 (67%), Gaps = 5/231 (2%)

Query: 13  FEQSYRCYPASFIEKPQ----IESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVS 68
           F   YRC+  S +  P     +E G KIIMPPSALD+L+ L+I YPMLF+L N  ++R++
Sbjct: 19  FSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 78

Query: 69  HCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNP 128
           HCGVLEF+A+EG+ Y+P+WMM+NLLL+EG +V+V++V L   TY K QP + DFLDI+NP
Sbjct: 79  HCGVLEFVADEGICYLPHWMMQNLLLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNP 138

Query: 129 KAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYK 188
           KA+LE  LRN++CLTTGD I + YN K Y + ++ETKP  A+SIIE D  VDF  PL YK
Sbjct: 139 KAVLENALRNFACLTTGDVIAINYNEKIYELRVMETKPDKAVSIIECDMNVDFDAPLGYK 198

Query: 189 EPEKPIASASSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
           EPE+ +    S    +A+ +    E  F  F+G   RLDGK    +P P P
Sbjct: 199 EPERQVQHEES-TEGEADHSGYAGELGFRAFSGSGNRLDGKKKGVEPSPSP 248

Essential component of the ubiquitin-dependent proteolytic pathway which degrades ubiquitin fusion proteins. The ternary complex containing UFD1L, VCP and NPLOC4 binds ubiquitinated proteins and is necessary for the export of misfolded proteins from the ER to the cytoplasm, where they are degraded by the proteasome. The NPLOC4-UFD1L-VCP complex regulates spindle disassembly at the end of mitosis and is necessary for the formation of a closed nuclear envelope. It may be involved in the development of some ectoderm-derived structures.

Homo sapiens (taxid: 9606)

>sp|Q55BK0|UFD1_DICDI Ubiquitin fusion degradation protein 1 homolog OS=Dictyostelium discoideum GN=ufd1 PE=3 SV=1

 Score =  241 bits (614), Expect = 6e-63,   Method: Compositional matrix adjust.
 Identities = 124/262 (47%), Positives = 166/262 (63%), Gaps = 34/262 (12%)

Query: 8   YHGT--SFEQSYRCYPASFI--EKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNA 63
           +HG    +EQ ++ +P SF+  EK  +ESG KI++PPSAL+ L+ L+I YPMLFE+ N  
Sbjct: 18  HHGGPGRYEQKFKAFPISFLPKEKHSLESGGKILLPPSALNALSRLNIQYPMLFEISNPI 77

Query: 64  AERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFL 123
           + + SHCGVLEFIAEEG+ Y+P WMM+NL L+EG+ + +KN TL KGT+VK+QP T +F+
Sbjct: 78  SGKKSHCGVLEFIAEEGICYLPLWMMQNLQLKEGEFIDIKNATLAKGTFVKIQPRTSNFI 137

Query: 124 DISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAP 183
           DISNPKA+LE +LR ++ LT  D IM+ YNN KYY+ ++E KP+NAISIIE D  VDFAP
Sbjct: 138 DISNPKAVLENSLRKFATLTKDDEIMIDYNNTKYYLKVVELKPANAISIIEADVSVDFAP 197

Query: 184 PLDYKE---------------PEKPIASASSRATA------------KAEEASVETEPKF 216
           P+D KE               P K +    +  +A               ++  + EPKF
Sbjct: 198 PMDSKEATSPSTSSPGSHVSGPSKGLTFGPASTSAKPIPGGKKKKDESDSDSDSDDEPKF 257

Query: 217 SPFTGVARRLDGK---PLTYQP 235
             F G   RLDGK   PL   P
Sbjct: 258 KAFAGTGARLDGKVGTPLGTSP 279

Functions at a post-ubiquitation step in the ubiquitin fusion degradation (UFD) pathway.

Dictyostelium discoideum (taxid: 44689)

>sp|Q9VTF9|UFD1_DROME Ubiquitin fusion degradation protein 1 homolog OS=Drosophila melanogaster GN=Ufd1-like PE=2 SV=1

 Score =  235 bits (600), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 118/243 (48%), Positives = 155/243 (63%), Gaps = 14/243 (5%)

Query: 1   MF-FDGYGY---HGTSFEQSYRCYPASFI---EKPQIESGDKIIMPPSALDRLASLHIDY 53
           MF F G+      G +F  +Y+C+  S +   E+  +E G KIIMPPSALD L  L+++Y
Sbjct: 1   MFHFSGFNMMFPEGRNFHANYKCFSVSMLPGNERTDVEKGGKIIMPPSALDTLTRLNVEY 60

Query: 54  PMLFELRNNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYV 113
           PMLF+L N    R SH GVLEF+A+EG  Y+P+WMMENLLL EGDI+ +++V+LP  T+ 
Sbjct: 61  PMLFKLTNVKKSRSSHAGVLEFVADEGKCYLPHWMMENLLLGEGDILNIESVSLPVATFS 120

Query: 114 KLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISII 173
           K QPH+ DFLDI+NPKA+LE  LRN++CLT GD I + YN K Y + ++ETKP NA+SII
Sbjct: 121 KFQPHSTDFLDITNPKAVLENALRNFACLTRGDVIAIKYNKKVYELCVLETKPGNAVSII 180

Query: 174 ETDCEVDFAPPLDYKEPEKPIASASSR----ATAKAEEASVET---EPKFSPFTGVARRL 226
           E D  V+F  P+ YK+  +  AS S +     T   E A       E     F G   RL
Sbjct: 181 ECDMNVEFEAPVGYKDHSETQASGSGQQGAAGTVGGEIAGATNAILEEVVETFKGSGVRL 240

Query: 227 DGK 229
           DGK
Sbjct: 241 DGK 243

Functions at a post-ubiquitation step in the ubiquitin fusion degradation (UFD) pathway.

Drosophila melanogaster (taxid: 7227)

>sp|O42915|UFD1_SCHPO Ubiquitin fusion degradation protein 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ufd1 PE=2 SV=4

 Score =  207 bits (527), Expect = 8e-53,   Method: Compositional matrix adjust.
 Identities = 99/234 (42%), Positives = 148/234 (63%), Gaps = 11/234 (4%)

Query: 13  FEQSYRCYPASFI---EKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSH 69
           F+  YRCYP + I   E+P +  G K+I+PPSAL++L+ L++ YPMLF+  N AAE+ +H
Sbjct: 32  FDTRYRCYPVAMIPGEERPNVNYGGKVILPPSALEKLSRLNVSYPMLFDFENEAAEKKTH 91

Query: 70  CGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPK 129
            GVLEFIAEEG +Y+PYWMM  L L+ GD+VRV N  + +G+YVKLQP + +FLDI++ +
Sbjct: 92  GGVLEFIAEEGRVYLPYWMMTTLSLEPGDLVRVINTDIAQGSYVKLQPQSVNFLDITDHR 151

Query: 130 AILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNA---ISIIETDCEVDFAPPLD 186
           A+LE  LRN+S LT  D   + YN++ Y I +I+ +P ++   +S++ETD  VDF PP+ 
Sbjct: 152 AVLENALRNFSTLTKSDIFEILYNDQVYQIKVIDVQPDDSRHVVSVVETDLVVDFDPPIG 211

Query: 187 YKEP-----EKPIASASSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQP 235
           Y+E      ++ IA        K     +  +   +   G   +L+GK +   P
Sbjct: 212 YEESLQKNKQQNIAGVQGTMVTKIGYDELVRQGDSNLMKGTGTKLNGKEVAEVP 265

Functions at a post-ubiquitation step in the ubiquitin fusion degradation (UFD) pathway. It is required for vegetative growth.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|P53044|UFD1_YEAST Ubiquitin fusion degradation protein 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=UFD1 PE=1 SV=1

 Score =  201 bits (511), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 95/187 (50%), Positives = 128/187 (68%), Gaps = 7/187 (3%)

Query: 12  SFEQSYRCYPASF----IEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERV 67
           +FE+ +RCYP +     I K     G KI +PPSAL +L+ L+I YPMLF+L  N   RV
Sbjct: 20  TFEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANETGRV 79

Query: 68  SHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISN 127
           +H GVLEFIAEEG +Y+P WMME L +Q G ++++ +  +P G +VKL+P + DFLDIS+
Sbjct: 80  THGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDISD 139

Query: 128 PKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKP---SNAISIIETDCEVDFAPP 184
           PKA+LE  LRN+S LT  D I ++YN K + I I+E KP   S +I +IETD   DFAPP
Sbjct: 140 PKAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVTDFAPP 199

Query: 185 LDYKEPE 191
           + Y EP+
Sbjct: 200 VGYVEPD 206

Functions at a post-ubiquitation step in the ubiquitin fusion degradation (UFD) pathway. Has a role in the endoplasmic reticulum-associated degradation (ERAD) pathway. Required for the proteasome-dependent processing/activation of MGA2 and SPT23 transcription factors leading to the subsequent expression of OLE1. Has an additional role in the turnover of OLE1 where it targets ubiquitinated OLE1 and other proteins to the ERAD.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q19584|UFD1_CAEEL Ubiquitin fusion degradation protein 1 homolog OS=Caenorhabditis elegans GN=ufd-1 PE=2 SV=1

 Score =  187 bits (474), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 100/248 (40%), Positives = 141/248 (56%), Gaps = 25/248 (10%)

Query: 7   GYHGT-------SFEQSYRCYPASFI------EKPQIESGDKIIMPPSALDRLASLHIDY 53
           G HG        +++Q++  Y   F+      +  +I  G KI++P SAL+ L   +I  
Sbjct: 8   GLHGMQMGGRVGNYDQTFVVYGPVFLPNATQSKISEINYGGKILLPSSALNLLMQYNIPM 67

Query: 54  PMLFELRNNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYV 113
           PMLF+L N A +RV+HCGVLEF A EG   +P WMM+ L L +GD +R+++ TLPK T+ 
Sbjct: 68  PMLFKLTNMAVQRVTHCGVLEFSAPEGQAILPLWMMQQLGLDDGDTIRIESATLPKATFA 127

Query: 114 KLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISII 173
           KL+P + +FL+I+NPKA+LE  LR Y+CLT  D I  +Y  +     +++ KP+N++ II
Sbjct: 128 KLKPMSLEFLNITNPKAVLEVELRKYACLTKNDRIPTSYAGQTLEFLVVDLKPANSVCII 187

Query: 174 ETDCEVDFAPPLDYKE------------PEKPIASASSRATAKAEEASVETEPKFSPFTG 221
           E D  +DF PP  Y E            P  P ASA   A  KA  +    +   S F G
Sbjct: 188 ECDVNLDFDPPEGYVEQPRQVTPAVTAKPPAPDASAFIGAGQKAGGSGGTGQNATSVFGG 247

Query: 222 VARRLDGK 229
             RRLDGK
Sbjct: 248 AGRRLDGK 255

Functions at a post-ubiquitation step in the ubiquitin fusion degradation (UFD) pathway.

Caenorhabditis elegans (taxid: 6239)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	321
224103317	323	predicted protein [Populus trichocarpa]	1.0	0.993	0.857	1e-160
118488238	324	unknown [Populus trichocarpa]	0.996	0.987	0.857	1e-159
255543881	356	ubiquitin fusion degradaton protein, put	0.996	0.898	0.854	1e-154
357521303	320	Ubiquitin fusion degradation protein [Me	0.993	0.996	0.813	1e-150
449526164	321	PREDICTED: ubiquitin fusion degradation	0.996	0.996	0.804	1e-148
449464840	321	PREDICTED: ubiquitin fusion degradation	0.996	0.996	0.801	1e-147
297821317	319	hypothetical protein ARALYDRAFT_480987 [	0.990	0.996	0.782	1e-142
225427780	319	PREDICTED: ubiquitin fusion degradation	0.990	0.996	0.816	1e-140
255646036	316	unknown [Glycine max]	0.981	0.996	0.791	1e-138
356513060	316	PREDICTED: ubiquitin fusion degradation	0.981	0.996	0.795	1e-137

>gi|224103317|ref|XP_002313007.1| predicted protein [Populus trichocarpa] gi|222849415|gb|EEE86962.1| predicted protein [Populus trichocarpa]

 Score =  570 bits (1469), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 277/323 (85%), Positives = 295/323 (91%), Gaps = 2/323 (0%)

Query: 1   MFFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR 60
           MFFDGYGYHGTSFEQ+YRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFEL+
Sbjct: 1   MFFDGYGYHGTSFEQTYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELQ 60

Query: 61  NNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTK 120
           N+AAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGD VRVKNVTLPKG YVKLQPHTK
Sbjct: 61  NDAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDTVRVKNVTLPKGKYVKLQPHTK 120

Query: 121 DFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD 180
           DFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD
Sbjct: 121 DFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD 180

Query: 181 FAPPLDYKEPEKPIASA-SSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPP-V 238
           FAPPLDYKEPEKP+AS   S+AT++AEE   ETEPKF+PFTG  RRLDGKPL+YQPPP +
Sbjct: 181 FAPPLDYKEPEKPVASVPPSKATSQAEEVPAETEPKFNPFTGAGRRLDGKPLSYQPPPAL 240

Query: 239 PSLGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPVAEKEIKQ 298
            S  SKDKQPA ++G+ QPS GS+SQN AR+SQGKLVFGSN    PKETQ+  + KE KQ
Sbjct: 241 SSSVSKDKQPAVADGSRQPSLGSSSQNTARKSQGKLVFGSNTGRTPKETQREESGKETKQ 300

Query: 299 ELPEKKEEPKFRPFTGKKYSLKG 321
           E PEKKEEPKF+ FTGKKYSLKG
Sbjct: 301 EQPEKKEEPKFQAFTGKKYSLKG 323

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118488238|gb|ABK95938.1| unknown [Populus trichocarpa]

 Score =  568 bits (1463), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 276/322 (85%), Positives = 294/322 (91%), Gaps = 2/322 (0%)

Query: 2   FFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRN 61
           FFDGYGYHGTSFEQ+YRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFEL+N
Sbjct: 3   FFDGYGYHGTSFEQTYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELQN 62

Query: 62  NAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKD 121
           +AAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGD VRVKNVTLPKG YVKLQPHTKD
Sbjct: 63  DAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDTVRVKNVTLPKGKYVKLQPHTKD 122

Query: 122 FLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDF 181
           FLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDF
Sbjct: 123 FLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDF 182

Query: 182 APPLDYKEPEKPIASA-SSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPP-VP 239
           APPLDYKEPEKP+AS   S+AT++AEE   ETEPKF+PFTG  RRLDGKPL+YQPPP + 
Sbjct: 183 APPLDYKEPEKPVASVPPSKATSQAEEVPAETEPKFNPFTGAGRRLDGKPLSYQPPPALS 242

Query: 240 SLGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPVAEKEIKQE 299
           S  SKDKQPA ++G+ QPS GS+SQN AR+SQGKLVFGSN    PKETQ+  + KE KQE
Sbjct: 243 SSVSKDKQPAVADGSRQPSLGSSSQNTARKSQGKLVFGSNTGRTPKETQREESGKETKQE 302

Query: 300 LPEKKEEPKFRPFTGKKYSLKG 321
            PEKKEEPKF+ FTGKKYSLKG
Sbjct: 303 QPEKKEEPKFQAFTGKKYSLKG 324

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255543881|ref|XP_002513003.1| ubiquitin fusion degradaton protein, putative [Ricinus communis] gi|223548014|gb|EEF49506.1| ubiquitin fusion degradaton protein, putative [Ricinus communis]

 Score =  548 bits (1413), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 275/322 (85%), Positives = 290/322 (90%), Gaps = 2/322 (0%)

Query: 1   MFFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR 60
           MFFDGYGYHGTSFEQ+YRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR
Sbjct: 36  MFFDGYGYHGTSFEQTYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR 95

Query: 61  NNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTK 120
           N+AAER+SHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTK
Sbjct: 96  NDAAERISHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTK 155

Query: 121 DFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD 180
           DFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDI+ETKPSNAISIIETDCEVD
Sbjct: 156 DFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIVETKPSNAISIIETDCEVD 215

Query: 181 FAPPLDYKEPEKPIASA-SSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
           FAPPLDYKEPE+   S    +ATA+ EE   ETEPKF+PFTGVARRLDGKPL  QP PV 
Sbjct: 216 FAPPLDYKEPERTTPSIPQKKATAQVEEVPEETEPKFNPFTGVARRLDGKPLKQQPFPVS 275

Query: 240 SLGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPVAEKEIKQE 299
           S GSKDKQ A  +G GQPS  S+SQN+ARQSQGKLVFGSN +  PKETQK VA KE K E
Sbjct: 276 SQGSKDKQAAVPSGRGQPSLESSSQNSARQSQGKLVFGSNVNRAPKETQKEVA-KETKPE 334

Query: 300 LPEKKEEPKFRPFTGKKYSLKG 321
             +K EEPKF+PFTG+KYSLKG
Sbjct: 335 QSQKNEEPKFQPFTGRKYSLKG 356

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357521303|ref|XP_003630940.1| Ubiquitin fusion degradation protein [Medicago truncatula] gi|355524962|gb|AET05416.1| Ubiquitin fusion degradation protein [Medicago truncatula]

 Score =  537 bits (1384), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 262/322 (81%), Positives = 285/322 (88%), Gaps = 3/322 (0%)

Query: 1   MFFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR 60
           MFFDGYGYHGTSFEQ+YRCYPASFIEKPQ+ESGDKIIMPPSALDRLASLHIDYPMLFELR
Sbjct: 1   MFFDGYGYHGTSFEQTYRCYPASFIEKPQLESGDKIIMPPSALDRLASLHIDYPMLFELR 60

Query: 61  NNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTK 120
           N AAERVSHCGVLEFIAEEGMIYMPYWMMEN+LLQEGD+VRVKNVTLPKGTYVKLQPHTK
Sbjct: 61  NAAAERVSHCGVLEFIAEEGMIYMPYWMMENMLLQEGDVVRVKNVTLPKGTYVKLQPHTK 120

Query: 121 DFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD 180
           DFLDISNPKAILETTLRN+SCLTTGDSIMVAYNNKKYYIDI+E+KP+NAISIIETDCEVD
Sbjct: 121 DFLDISNPKAILETTLRNFSCLTTGDSIMVAYNNKKYYIDIVESKPANAISIIETDCEVD 180

Query: 181 FAPPLDYKEPEKPIASASSRATAKAE-EASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
           FAPPLDYKEPE+P+A  S+    +A+ EA  ETEPKF+PFTG  RRLDGKPL YQPPPV 
Sbjct: 181 FAPPLDYKEPERPVAPRSAGKAPEADKEAPAETEPKFNPFTGSGRRLDGKPLNYQPPPVS 240

Query: 240 SLGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPVAEKEIKQE 299
           S GSKDK PA  N   QPS  S+SQ+ A Q+QGKLVFGSN +   KET K   E + KQE
Sbjct: 241 SSGSKDKNPAAQNVNSQPSTASSSQSNAPQTQGKLVFGSNPN-RGKETGK-ATEAKAKQE 298

Query: 300 LPEKKEEPKFRPFTGKKYSLKG 321
            P++KEE KF+PFTGKKYSL+G
Sbjct: 299 PPKEKEEDKFQPFTGKKYSLRG 320

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449526164|ref|XP_004170084.1| PREDICTED: ubiquitin fusion degradation protein 1 homolog [Cucumis sativus]

 Score =  529 bits (1363), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 259/322 (80%), Positives = 282/322 (87%), Gaps = 2/322 (0%)

Query: 1   MFFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR 60
           MFFDGYGYHGTSFEQ+YRCYPASFIEKPQ+E+GDKIIMPPSALDRLASLHIDYPMLFELR
Sbjct: 1   MFFDGYGYHGTSFEQTYRCYPASFIEKPQLETGDKIIMPPSALDRLASLHIDYPMLFELR 60

Query: 61  NNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTK 120
           N+  ER+SHCGVLEFIAEEGMIYMPYWMMEN+LLQEGD+VRVKNVTLPKGTYVKLQPHTK
Sbjct: 61  NDVTERLSHCGVLEFIAEEGMIYMPYWMMENMLLQEGDVVRVKNVTLPKGTYVKLQPHTK 120

Query: 121 DFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD 180
           DFLDISNPKAILETTLRN+SCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD
Sbjct: 121 DFLDISNPKAILETTLRNFSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD 180

Query: 181 FAPPLDYKEPEKPIASA-SSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
           FAPPLDYKEPEKP+ S  + +A  + EE   E EPKF+PFTG  RRLDGKP   Q P   
Sbjct: 181 FAPPLDYKEPEKPVPSLPTGKAPVQDEEPPAEAEPKFNPFTGAGRRLDGKPSMQQAPLSW 240

Query: 240 SLGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPVAEKEIKQE 299
           +  SKDKQ  T   TGQPSAGSTS+NA+RQS+GKLVFG NAS  PKET+K   EK+ KQE
Sbjct: 241 TSISKDKQVDTRTVTGQPSAGSTSRNASRQSEGKLVFGGNASRTPKETKKE-GEKDGKQE 299

Query: 300 LPEKKEEPKFRPFTGKKYSLKG 321
             ++KEE KF+PF GKKYSL+G
Sbjct: 300 QTKEKEEAKFQPFGGKKYSLRG 321

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449464840|ref|XP_004150137.1| PREDICTED: ubiquitin fusion degradation protein 1 homolog [Cucumis sativus]

 Score =  528 bits (1360), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 258/322 (80%), Positives = 282/322 (87%), Gaps = 2/322 (0%)

Query: 1   MFFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR 60
           MFFDGYGYHGTSFEQ+YRCYPASFIEKPQ+E+GDKIIMPPSALDRLASLHIDYPMLFELR
Sbjct: 1   MFFDGYGYHGTSFEQTYRCYPASFIEKPQLETGDKIIMPPSALDRLASLHIDYPMLFELR 60

Query: 61  NNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTK 120
           N+  ER+SHCGVLEFIAEEGMIYMPYWMMEN+LLQEGD+VRVKNVTLPKGTYVKLQPHTK
Sbjct: 61  NDVTERLSHCGVLEFIAEEGMIYMPYWMMENMLLQEGDVVRVKNVTLPKGTYVKLQPHTK 120

Query: 121 DFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD 180
           DFLDISNPKAILETTLRN+SCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD
Sbjct: 121 DFLDISNPKAILETTLRNFSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD 180

Query: 181 FAPPLDYKEPEKPIASA-SSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
           FAPPLDYKEPEKP+ S  + +A  + EE   E EPKF+PFTG  RRLDGKP   Q P   
Sbjct: 181 FAPPLDYKEPEKPVPSLPTGKAPVQDEEPPAEAEPKFNPFTGAGRRLDGKPSMQQAPLSW 240

Query: 240 SLGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPVAEKEIKQE 299
           +  SKDKQ  T   TGQPS+GSTS+NA+RQS+GKLVFG NAS  PKET+K   EK+ KQE
Sbjct: 241 TSISKDKQVDTRTVTGQPSSGSTSRNASRQSEGKLVFGGNASRTPKETKKE-GEKDGKQE 299

Query: 300 LPEKKEEPKFRPFTGKKYSLKG 321
             ++KEE KF+PF GKKYSL+G
Sbjct: 300 QTKEKEEAKFQPFGGKKYSLRG 321

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297821317|ref|XP_002878541.1| hypothetical protein ARALYDRAFT_480987 [Arabidopsis lyrata subsp. lyrata] gi|297324380|gb|EFH54800.1| hypothetical protein ARALYDRAFT_480987 [Arabidopsis lyrata subsp. lyrata]

 Score =  511 bits (1316), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 252/322 (78%), Positives = 278/322 (86%), Gaps = 4/322 (1%)

Query: 1   MFFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR 60
           MFFDGY YHGT+FEQSYRCYPASFI+KPQIESGDKIIMPPSALDRLASLHIDYPMLFE+R
Sbjct: 1   MFFDGYHYHGTTFEQSYRCYPASFIDKPQIESGDKIIMPPSALDRLASLHIDYPMLFEVR 60

Query: 61  NNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTK 120
           N   ERV+HCGVLEFIAEEGMIYMPYWMM+NLLLQEGDIVRV+NVTLPKGTYVKLQPHT 
Sbjct: 61  NAGIERVTHCGVLEFIAEEGMIYMPYWMMQNLLLQEGDIVRVRNVTLPKGTYVKLQPHTT 120

Query: 121 DFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD 180
           DFLDISNPKAILET LRNYSCLTTGDSIMV YNNKKY+IDI+ETKP+NAISIIETDCEVD
Sbjct: 121 DFLDISNPKAILETALRNYSCLTTGDSIMVPYNNKKYFIDIVETKPANAISIIETDCEVD 180

Query: 181 FAPPLDYKEPEKPIASASSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVPS 240
           FAPPLDYKEPE+P A A+++  AKAEE   E EPKF+PFTG  RRLDG+PL Y+P P  S
Sbjct: 181 FAPPLDYKEPERPTAPAAAKGPAKAEEVVTEPEPKFNPFTGSGRRLDGRPLAYEPAPASS 240

Query: 241 LGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPV-AEKEIKQE 299
             SKDKQP  +NG GQ S  S+S+ A R +QGKLVFG+NA+  PKE    V A KE KQE
Sbjct: 241 --SKDKQPVVANGNGQSSVASSSEKATR-AQGKLVFGANANRAPKEAAPKVGAAKETKQE 297

Query: 300 LPEKKEEPKFRPFTGKKYSLKG 321
             EKK+EPKF+ F+GKKYSL+G
Sbjct: 298 EQEKKDEPKFQAFSGKKYSLRG 319

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225427780|ref|XP_002268781.1| PREDICTED: ubiquitin fusion degradation protein 1 homolog [Vitis vinifera]

 Score =  504 bits (1299), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 263/322 (81%), Positives = 286/322 (88%), Gaps = 4/322 (1%)

Query: 1   MFFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR 60
           M+F GYGYHG SFEQ YRCYPASFI+KPQIESG KIIMPPSALDRLASLHIDYPMLFEL 
Sbjct: 1   MYFGGYGYHGMSFEQKYRCYPASFIDKPQIESGGKIIMPPSALDRLASLHIDYPMLFELS 60

Query: 61  NNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTK 120
           N AA+RVSHCGVLEFIAEEGMIYMPYWMMEN+LLQEGD V+VKNVTLPKGTYVKLQPHT 
Sbjct: 61  NPAAQRVSHCGVLEFIAEEGMIYMPYWMMENMLLQEGDTVQVKNVTLPKGTYVKLQPHTT 120

Query: 121 DFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD 180
           DFLDISNPKAILETTLRN+SCLTTGDSIMVAYNNKKYYIDI+ETKPSNAISIIETDCEVD
Sbjct: 121 DFLDISNPKAILETTLRNFSCLTTGDSIMVAYNNKKYYIDIVETKPSNAISIIETDCEVD 180

Query: 181 FAPPLDYKEPEKPIASAS-SRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
           FAPPLD+KEPEKP+A     +A A+ +EA VE EPKF+PF GV RRLDGKP  Y+PPPV 
Sbjct: 181 FAPPLDFKEPEKPVAPVPLGKAAAEVQEAPVEPEPKFNPFCGVGRRLDGKPQKYEPPPVS 240

Query: 240 SLGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPVAEKEIKQE 299
           S GSKDKQP  + G+GQPSAGS+SQ+++RQSQGKLVFGSN +  PKETQK  A K  KQE
Sbjct: 241 SSGSKDKQP-VNRGSGQPSAGSSSQSSSRQSQGKLVFGSNVNRSPKETQKEAA-KATKQE 298

Query: 300 LPEKKEEPKFRPFTGKKYSLKG 321
            P KKEEPKF+PF+GKKYSLKG
Sbjct: 299 EP-KKEEPKFQPFSGKKYSLKG 319

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255646036|gb|ACU23505.1| unknown [Glycine max]

 Score =  496 bits (1276), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 255/322 (79%), Positives = 274/322 (85%), Gaps = 7/322 (2%)

Query: 1   MFFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR 60
           MFFDGYGYHGTSFEQ YRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR
Sbjct: 1   MFFDGYGYHGTSFEQIYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR 60

Query: 61  NNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTK 120
           N+AAERVSHCGVLEFIAEEGMIYMPYWMMEN+LLQEGDIV+VKNVTLPKGTYVKLQPHTK
Sbjct: 61  NDAAERVSHCGVLEFIAEEGMIYMPYWMMENMLLQEGDIVKVKNVTLPKGTYVKLQPHTK 120

Query: 121 DFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD 180
           DFLDIS+PKAILETTLRN+SCLTTGDSIMVAYNNKKYYIDIIETKP  AISIIETDCEVD
Sbjct: 121 DFLDISDPKAILETTLRNFSCLTTGDSIMVAYNNKKYYIDIIETKPDTAISIIETDCEVD 180

Query: 181 FAPPLDYKEPEKPIASASS-RATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
           FAPPLDYKEPEKP A  S+ +A   AE    E EPKF+PF+G  RRLDGKPL YQPPPV 
Sbjct: 181 FAPPLDYKEPEKPTAPLSAGKAAVAAEVIPAEDEPKFNPFSGTGRRLDGKPLNYQPPPVS 240

Query: 240 SLGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPVAEKEIKQE 299
             G KD++P   N   Q S   +SQ+ ARQSQGKLVFGSNA+   KET K    K     
Sbjct: 241 FSGFKDQKPDVVN--LQFSTAFSSQSNARQSQGKLVFGSNAN-RTKETGKAKESKPEPP- 296

Query: 300 LPEKKEEPKFRPFTGKKYSLKG 321
             ++KEEPKF+PF+GKKYSL+G
Sbjct: 297 --KEKEEPKFQPFSGKKYSLRG 316

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356513060|ref|XP_003525232.1| PREDICTED: ubiquitin fusion degradation protein 1 homolog [Glycine max]

 Score =  494 bits (1271), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 256/322 (79%), Positives = 274/322 (85%), Gaps = 7/322 (2%)

Query: 1   MFFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR 60
           MFFDGYGYHGTSFEQ YRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR
Sbjct: 1   MFFDGYGYHGTSFEQIYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR 60

Query: 61  NNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTK 120
           N+AAERVSHCGVLEFIAEEGMIYMPYWMMEN+LLQEGDIV+VKNVTLPKGTYVKLQPHTK
Sbjct: 61  NDAAERVSHCGVLEFIAEEGMIYMPYWMMENMLLQEGDIVKVKNVTLPKGTYVKLQPHTK 120

Query: 121 DFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD 180
           DFLDISNPKAILETTLRN+SCLTTGDSIMVAYNNKKYYIDIIETKP  AISIIETDCEVD
Sbjct: 121 DFLDISNPKAILETTLRNFSCLTTGDSIMVAYNNKKYYIDIIETKPDTAISIIETDCEVD 180

Query: 181 FAPPLDYKEPEKPIASASS-RATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
           FAPPLDYKEPEKP A  S+ +A   AE    E EPKF+PF+G  RRLDGKPL YQPPPV 
Sbjct: 181 FAPPLDYKEPEKPTAPLSAGKAAVAAEVIPAEDEPKFNPFSGTGRRLDGKPLNYQPPPVS 240

Query: 240 SLGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPVAEKEIKQE 299
           S GSKD++P   N     ++ S S   ARQSQGKLVFGSNA+   KET K    K     
Sbjct: 241 SSGSKDQKPDVVNLQSSTASSSQSN--ARQSQGKLVFGSNAN-RTKETGKAKESKPEPP- 296

Query: 300 LPEKKEEPKFRPFTGKKYSLKG 321
             ++KEEPKF+PF+GKKYSL+G
Sbjct: 297 --KEKEEPKFQPFSGKKYSLRG 316

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	321
TAIR|locus:2050054	340	UFD1 "AT2G21270" [Arabidopsis	0.990	0.935	0.736	7.8e-126
TAIR|locus:2120247	315	AT4G38930 "AT4G38930" [Arabido	0.968	0.987	0.689	4.9e-117
TAIR|locus:2066122	312	AT2G29070 [Arabidopsis thalian	0.950	0.977	0.593	2e-97
DICTYBASE|DDB_G0271122	330	ufd1 "ubiquitin fusion degrada	0.591	0.575	0.561	1.7e-67
MGI|MGI:109353	307	Ufd1l "ubiquitin fusion degrad	0.704	0.736	0.515	1.6e-61
RGD|619822	307	Ufd1l "ubiquitin fusion degrad	0.704	0.736	0.515	1.6e-61
ZFIN|ZDB-GENE-040718-150	308	ufd1l "ubiquitin fusion degrad	0.707	0.737	0.510	1.6e-61
UNIPROTKB|J9NYF2	307	UFD1L "Uncharacterized protein	0.704	0.736	0.515	4.3e-61
UNIPROTKB|F1RK61	307	UFD1L "Uncharacterized protein	0.704	0.736	0.519	4.3e-61
UNIPROTKB|Q92890	307	UFD1L "Ubiquitin fusion degrad	0.704	0.736	0.510	1.2e-60

TAIR|locus:2050054 UFD1 "AT2G21270" [Arabidopsis thaliana (taxid:3702)]

 Score = 1236 (440.2 bits), Expect = 7.8e-126, P = 7.8e-126
 Identities = 237/322 (73%), Positives = 264/322 (81%)

Query:     1 MFFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR 60
             MFFDGY YHGT+FEQSYRCYPASFI+KPQ+ESGDKIIMPPSALDRLASLHIDYPMLFELR
Sbjct:    22 MFFDGYHYHGTTFEQSYRCYPASFIDKPQLESGDKIIMPPSALDRLASLHIDYPMLFELR 81

Query:    61 NNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTK 120
             N   ERV+HCGVLEFIAEEGMIYMPYWMM+NLLLQEGDIVRV+NVTLPKGTYVKLQPHT 
Sbjct:    82 NAGIERVTHCGVLEFIAEEGMIYMPYWMMQNLLLQEGDIVRVRNVTLPKGTYVKLQPHTT 141

Query:   121 DFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD 180
             DFLDISNPKAILET LRNYSCLT+GDSIMV YNNKKY+IDI+ETKP+NAISIIETDCEVD
Sbjct:   142 DFLDISNPKAILETALRNYSCLTSGDSIMVPYNNKKYFIDIVETKPANAISIIETDCEVD 201

Query:   181 FAPPLDYKEPEKPIASASSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVPS 240
             FAPPLDYKEPE+P A ++++  AKAEE   E EPKF+PFTG  RRLDG+PL Y+P P  S
Sbjct:   202 FAPPLDYKEPERPTAPSAAKGPAKAEEVVDEPEPKFNPFTGSGRRLDGRPLAYEPAPASS 261

Query:   241 LGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPV-AXXXXXXX 299
               SK KQP  +NG GQ S  S+S+ A R +QGKLVFG+N +  PKE    V A       
Sbjct:   262 --SKGKQPVVANGNGQSSVASSSEKATR-AQGKLVFGANGNRAPKEAAPKVGAAKETKKE 318

Query:   300 XXXXXXXXXFRPFTGKKYSLKG 321
                      F+ F+GKKYSL+G
Sbjct:   319 EQEKKDEPKFQAFSGKKYSLRG 340

GO:0003674 "molecular_function" evidence=ND

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2120247 AT4G38930 "AT4G38930" [Arabidopsis thaliana (taxid:3702)]

 Score = 1153 (410.9 bits), Expect = 4.9e-117, P = 4.9e-117
 Identities = 224/325 (68%), Positives = 257/325 (79%)

Query:     1 MFFDGYGYHGTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELR 60
             MF+DGY YHGT+FEQ+YRCYP+SFI+KPQIESGDKIIMPPSALDRLASL IDYPMLFELR
Sbjct:     1 MFYDGYAYHGTTFEQTYRCYPSSFIDKPQIESGDKIIMPPSALDRLASLQIDYPMLFELR 60

Query:    61 NNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTK 120
             N + +  SHCGVLEFIAEEG+IY+PYWMM+NLLLQEGD+VRV+NVTLPKGTYVKLQPHT 
Sbjct:    61 NASTDSFSHCGVLEFIAEEGVIYIPYWMMQNLLLQEGDMVRVRNVTLPKGTYVKLQPHTT 120

Query:   121 DFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD 180
             DFLDI+NPKAILET LRNYSCLT GDSIMV YNNKKY+IDI+E KPSN ISIIETDCEVD
Sbjct:   121 DFLDIANPKAILETALRNYSCLTVGDSIMVPYNNKKYFIDIVEAKPSNGISIIETDCEVD 180

Query:   181 FAPPLDYKEPEKPIASASSRATAKAEEASV-ETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
             FAPPLDYKEPE+P+A A ++  AKA+E  V E EPKF+PFTG  RRLDG+PL+Y+P P  
Sbjct:   181 FAPPLDYKEPERPVAPAPAKGEAKAKEVDVAEAEPKFNPFTGSGRRLDGRPLSYEPQP-- 238

Query:   240 SLGSKDKQPATSNGTGQPSAGSTS---QNAARQSQGKLVFGSNASLHPKETQKPVAXXXX 296
               G+     A SNG   P A S+S   + A +Q++GKLVFGSN     KET K V     
Sbjct:   239 --GA-----ANSNGQSHPVASSSSSGSEKATQQNRGKLVFGSNVERSTKETTK-VGAGKD 290

Query:   297 XXXXXXXXXXXXFRPFTGKKYSLKG 321
                         F+ F+GKKYSL+G
Sbjct:   291 RKQEEEAEKEAKFQAFSGKKYSLRG 315

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

TAIR|locus:2066122 AT2G29070 [Arabidopsis thaliana (taxid:3702)]

 Score = 968 (345.8 bits), Expect = 2.0e-97, P = 2.0e-97
 Identities = 187/315 (59%), Positives = 228/315 (72%)

Query:    10 GTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSH 69
             G+SFEQ YRCYP +FI+K  +E GDKIIMPPSALDRLASLHI+YPMLF+L N + E+ SH
Sbjct:     5 GSSFEQCYRCYPVTFIDKAHLEKGDKIIMPPSALDRLASLHIEYPMLFQLSNVSVEKTSH 64

Query:    70 CGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPK 129
             CGVLEF A+EG++Y+PYWMM+N+ L+EGD+++VKN++L KGTY+KLQPHT+DFLDISNPK
Sbjct:    65 CGVLEFTADEGLVYLPYWMMQNMSLEEGDVMQVKNISLVKGTYIKLQPHTQDFLDISNPK 124

Query:   130 AILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYKE 189
             AILETTLR+YSCLTTGD+IMV YNNK+YYI+++E KPS+A+SIIETDCEVDFAPPLDYKE
Sbjct:   125 AILETTLRSYSCLTTGDTIMVPYNNKQYYINVVEAKPSSAVSIIETDCEVDFAPPLDYKE 184

Query:   190 PEKP--IASASSRAT-AKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVPSLGSKDK 246
             PEKP  +  ++ R    K EE      PKF+PFTG  +RLDGK  T   P      +K +
Sbjct:   185 PEKPQKLTPSNKRPLQVKEEEEPASKVPKFTPFTGSGKRLDGKAQTQTEPE----DTKQQ 240

Query:   247 QPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPVAXXXXXXXXXXXXXX 306
             +  T NG        T+    RQ  GKLVFGSN+    KET K                 
Sbjct:   241 EKPTENGKDDEKLSVTTP---RQISGKLVFGSNSKSAAKETAKVDDPKNIVQESSTKSDE 297

Query:   307 XXFRPFTGKKYSLKG 321
               F+ FTGKKYSL G
Sbjct:   298 AKFKVFTGKKYSLNG 312

GO:0005634 "nucleus" evidence=ISM

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM

DICTYBASE|DDB_G0271122 ufd1 "ubiquitin fusion degradation protein UFD1 family protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 595 (214.5 bits), Expect = 1.7e-67, Sum P(3) = 1.7e-67
 Identities = 109/194 (56%), Positives = 146/194 (75%)

Query:     8 YHGTS--FEQSYRCYPASFI--EKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNA 63
             +HG    +EQ ++ +P SF+  EK  +ESG KI++PPSAL+ L+ L+I YPMLFE+ N  
Sbjct:    18 HHGGPGRYEQKFKAFPISFLPKEKHSLESGGKILLPPSALNALSRLNIQYPMLFEISNPI 77

Query:    64 AERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFL 123
             + + SHCGVLEFIAEEG+ Y+P WMM+NL L+EG+ + +KN TL KGT+VK+QP T +F+
Sbjct:    78 SGKKSHCGVLEFIAEEGICYLPLWMMQNLQLKEGEFIDIKNATLAKGTFVKIQPRTSNFI 137

Query:   124 DISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAP 183
             DISNPKA+LE +LR ++ LT  D IM+ YNN KYY+ ++E KP+NAISIIE D  VDFAP
Sbjct:   138 DISNPKAVLENSLRKFATLTKDDEIMIDYNNTKYYLKVVELKPANAISIIEADVSVDFAP 197

Query:   184 PLDYKEPEKPIASA 197
             P+D KE   P  S+
Sbjct:   198 PMDSKEATSPSTSS 211

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0005789 "endoplasmic reticulum membrane" evidence=ISS

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

GO:0044351 "macropinocytosis" evidence=RCA

MGI|MGI:109353 Ufd1l "ubiquitin fusion degradation 1 like" [Mus musculus (taxid:10090)]

 Score = 629 (226.5 bits), Expect = 1.6e-61, P = 1.6e-61
 Identities = 119/231 (51%), Positives = 158/231 (68%)

Query:    13 FEQSYRCYPASFIEKPQ----IESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVS 68
             F   YRC+  S +  P     +E G KIIMPPSALD+L+ L+I YPMLF+L N  ++R++
Sbjct:    19 FSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 78

Query:    69 HCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNP 128
             HCGVLEF+A+EG+ Y+P+WMM+NLLL+EG +V+V++V L   TY K QP + DFLDI+NP
Sbjct:    79 HCGVLEFVADEGICYLPHWMMQNLLLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNP 138

Query:   129 KAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYK 188
             KA+LE  LRN++CLTTGD I + YN K Y + ++ETKP  A+SIIE D  VDF  PL YK
Sbjct:   139 KAVLENALRNFACLTTGDVIAINYNEKIYELRVMETKPDKAVSIIECDMNVDFDAPLGYK 198

Query:   189 EPEKPIASASSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
             EPE+P+    S    +A+ +    E  F  F+G   RLDGK    +P P P
Sbjct:   199 EPERPVQHEES-IEGEADHSGYAGEVGFRAFSGSGNRLDGKKKGVEPSPSP 248

GO:0005102 "receptor binding" evidence=ISO

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0032403 "protein complex binding" evidence=ISO

RGD|619822 Ufd1l "ubiquitin fusion degradation 1 like (yeast)" [Rattus norvegicus (taxid:10116)]

 Score = 629 (226.5 bits), Expect = 1.6e-61, P = 1.6e-61
 Identities = 119/231 (51%), Positives = 158/231 (68%)

Query:    13 FEQSYRCYPASFIEKPQ----IESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVS 68
             F   YRC+  S +  P     +E G KIIMPPSALD+L+ L+I YPMLF+L N  ++R++
Sbjct:    19 FSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 78

Query:    69 HCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNP 128
             HCGVLEF+A+EG+ Y+P+WMM+NLLL+EG +V+V++V L   TY K QP + DFLDI+NP
Sbjct:    79 HCGVLEFVADEGICYLPHWMMQNLLLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNP 138

Query:   129 KAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYK 188
             KA+LE  LRN++CLTTGD I + YN K Y + ++ETKP  A+SIIE D  VDF  PL YK
Sbjct:   139 KAVLENALRNFACLTTGDVIAINYNEKIYELRVMETKPDKAVSIIECDMNVDFDAPLGYK 198

Query:   189 EPEKPIASASSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
             EPE+P+    S    +A+ +    E  F  F+G   RLDGK    +P P P
Sbjct:   199 EPERPVQHEES-IEGEADHSGYAGEVGFRAFSGSGNRLDGKKKGVEPSPSP 248

GO:0005102 "receptor binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISO

GO:0005829 "cytosol" evidence=IEA

GO:0032403 "protein complex binding" evidence=IPI

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

ZFIN|ZDB-GENE-040718-150 ufd1l "ubiquitin fusion degradation 1-like" [Danio rerio (taxid:7955)]

 Score = 629 (226.5 bits), Expect = 1.6e-61, P = 1.6e-61
 Identities = 118/231 (51%), Positives = 157/231 (67%)

Query:    13 FEQSYRCYPASFIEKPQ----IESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVS 68
             F   YRCY  S +  P     +E G KIIMPPSALD+L+ L+I YPMLF+L N  ++R++
Sbjct:    19 FSTQYRCYSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 78

Query:    69 HCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNP 128
             HCGVLEF+A+EG  Y+P+WMM+NLLL+EG +V+V++V L   TY K QP + DFLDI+NP
Sbjct:    79 HCGVLEFVADEGFCYLPHWMMQNLLLEEGGLVQVESVNLMVATYSKFQPQSPDFLDITNP 138

Query:   129 KAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYK 188
             KA+LE  LRN++CLTTGD I + YN K Y + ++ETKP  A+SIIE D  VDF  PL YK
Sbjct:   139 KAVLENALRNFACLTTGDVIAINYNEKIYELRVMETKPDKAVSIIECDMNVDFDAPLGYK 198

Query:   189 EPEKPIASASSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
             EPE+ +      A  + + ++ + +  F  FTG   RLDGK    +P P P
Sbjct:   199 EPERHMQHPEEPAEEETDPSNYDMDLGFRAFTGSGNRLDGKKKGIEPSPAP 249

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0042221 "response to chemical stimulus" evidence=IDA

UNIPROTKB|J9NYF2 UFD1L "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 625 (225.1 bits), Expect = 4.3e-61, P = 4.3e-61
 Identities = 119/231 (51%), Positives = 158/231 (68%)

Query:    13 FEQSYRCYPASFIEKPQ----IESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVS 68
             F   YRC+  S +  P     +E G KIIMPPSALD+L+ L+I YPMLF+L N  ++R++
Sbjct:    19 FSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 78

Query:    69 HCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNP 128
             HCGVLEF+A+EG+ Y+P+WMM+NLLL+EG +V+V++V L   TY K QP + DFLDI+NP
Sbjct:    79 HCGVLEFVADEGICYLPHWMMQNLLLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNP 138

Query:   129 KAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYK 188
             KA+LE  LRN++CLTTGD I + YN K Y + ++ETKP  A+SIIE D  VDF  PL YK
Sbjct:   139 KAVLENALRNFACLTTGDVIAINYNEKIYELRVMETKPDKAVSIIECDMNVDFDAPLGYK 198

Query:   189 EPEKPIASASSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
             EPE+ +    S A  +A+ +    E  F  F+G   RLDGK    +P P P
Sbjct:   199 EPERQVQHEES-AEGEADHSGYAGELGFRAFSGSGNRLDGKKKGVEPSPSP 248

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

UNIPROTKB|F1RK61 UFD1L "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 625 (225.1 bits), Expect = 4.3e-61, P = 4.3e-61
 Identities = 120/231 (51%), Positives = 157/231 (67%)

Query:    13 FEQSYRCYPASFIEKPQ----IESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVS 68
             F   YRC+  S +  P     +E G KIIMPPSALD+L+ L+I YPMLF+L N  ++R++
Sbjct:    19 FSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 78

Query:    69 HCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNP 128
             HCGVLEF+A+EG+ Y+P+WMM+NLLL+EG +V+V++V L   TY K QP + DFLDI+NP
Sbjct:    79 HCGVLEFVADEGICYLPHWMMQNLLLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNP 138

Query:   129 KAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYK 188
             KA+LE  LRN++CLTTGD I + YN K Y + ++ETKP  A+SIIE D  VDF  PL YK
Sbjct:   139 KAVLENALRNFACLTTGDVIAINYNEKIYELRVMETKPDKAVSIIECDMNVDFDAPLGYK 198

Query:   189 EPEKPIASASSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
             EPE+ I    S A  +A+      E  F  F+G   RLDGK    +P P P
Sbjct:   199 EPERQIQHEES-AEGEADHGGYAGELGFRAFSGSGNRLDGKKKGVEPSPSP 248

GO:0005737 "cytoplasm" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

UNIPROTKB|Q92890 UFD1L "Ubiquitin fusion degradation protein 1 homolog" [Homo sapiens (taxid:9606)]

 Score = 621 (223.7 bits), Expect = 1.2e-60, P = 1.2e-60
 Identities = 118/231 (51%), Positives = 157/231 (67%)

Query:    13 FEQSYRCYPASFIEKPQ----IESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVS 68
             F   YRC+  S +  P     +E G KIIMPPSALD+L+ L+I YPMLF+L N  ++R++
Sbjct:    19 FSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 78

Query:    69 HCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNP 128
             HCGVLEF+A+EG+ Y+P+WMM+NLLL+EG +V+V++V L   TY K QP + DFLDI+NP
Sbjct:    79 HCGVLEFVADEGICYLPHWMMQNLLLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNP 138

Query:   129 KAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYK 188
             KA+LE  LRN++CLTTGD I + YN K Y + ++ETKP  A+SIIE D  VDF  PL YK
Sbjct:   139 KAVLENALRNFACLTTGDVIAINYNEKIYELRVMETKPDKAVSIIECDMNVDFDAPLGYK 198

Query:   189 EPEKPIASASSRATAKAEEASVETEPKFSPFTGVARRLDGKPLTYQPPPVP 239
             EPE+ +    S    +A+ +    E  F  F+G   RLDGK    +P P P
Sbjct:   199 EPERQVQHEES-TEGEADHSGYAGELGFRAFSGSGNRLDGKKKGVEPSPSP 248

GO:0005102 "receptor binding" evidence=IEA

GO:0032403 "protein complex binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

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

GO:0005515 "protein binding" evidence=IPI

GO:0001501 "skeletal system development" evidence=TAS

GO:0004843 "ubiquitin-specific protease activity" evidence=TAS

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

---

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)
Q9ES53	UFD1_RAT	No assigned EC number	0.5151	0.7040	0.7361	yes	no
Q92890	UFD1_HUMAN	No assigned EC number	0.5108	0.7040	0.7361	yes	no
P70362	UFD1_MOUSE	No assigned EC number	0.5151	0.7040	0.7361	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	Length	Definition	E-value
Query	321
pfam03152	176	pfam03152, UFD1, Ubiquitin fusion degradation prot	1e-119
COG5140	331	COG5140, UFD1, Ubiquitin fusion-degradation protei	2e-71
PLN03086	567	PLN03086, PLN03086, PRLI-interacting factor K; Pro	2e-33

>gnl|CDD|217391 pfam03152, UFD1, Ubiquitin fusion degradation protein UFD1

 Score =  340 bits (875), Expect = e-119
 Identities = 120/176 (68%), Positives = 149/176 (84%), Gaps = 3/176 (1%)

Query: 12  SFEQSYRCYPASFI---EKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVS 68
            FEQ+YRCYP SF+   E+  IE G KII+PPSALDRL+ L+I+YPMLFEL+N A ++V+
Sbjct: 1   RFEQTYRCYPVSFLPGNEREDIEYGGKIILPPSALDRLSRLNIEYPMLFELQNPANKKVT 60

Query: 69  HCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNP 128
           HCGVLEFIAEEG IY+PYWMM+NL L+EGD+V++ + +LPKGT+VKLQP + DFLDISNP
Sbjct: 61  HCGVLEFIAEEGTIYLPYWMMQNLGLEEGDLVQITSASLPKGTFVKLQPQSTDFLDISNP 120

Query: 129 KAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPP 184
           KA+LE  LRN+S LT GD+I++ YN+K Y IDI+E KP+NAISIIETD EVDFAPP
Sbjct: 121 KAVLENALRNFSTLTKGDTIVINYNDKIYEIDILEVKPANAISIIETDLEVDFAPP 176

Post-translational ubiquitin-protein conjugates are recognised for degradation by the ubiquitin fusion degradation (UFD) pathway. Several proteins involved in this pathway have been identified. This family includes UFD1, a 40kD protein that is essential for vegetative cell viability. The human UFD1 gene is expressed at high levels during embryogenesis, especially in the eyes and in the inner ear primordia and is thought to be important in the determination of ectoderm-derived structures, including neural crest cells. In addition, this gene is deleted in the CATCH-22 (cardiac defects, abnormal facies, thymic hypoplasia, cleft palate and hypocalcaemia with deletions on chromosome 22) syndrome. This clinical syndrome is associated with a variety of developmental defects, all characterized by microdeletions on 22q11.2. Two such developmental defects are the DiGeorge syndrome OMIM:188400, and the velo-cardio- facial syndrome OMIM:145410. Several of the abnormalities associated with these conditions are thought to be due to defective neural crest cell differentiation. Length = 176

>gnl|CDD|227469 COG5140, UFD1, Ubiquitin fusion-degradation protein [Posttranslational modification, protein turnover, chaperones]

 Score =  224 bits (571), Expect = 2e-71
 Identities = 99/258 (38%), Positives = 135/258 (52%), Gaps = 18/258 (6%)

Query: 2   FFDGYGYHGT---SFEQSYRCYPASFI---EKPQIESGDKIIMPPSALDRLASLHIDYPM 55
           F  G G+       F +  RCYP +      +     G K+I+PPSAL +L+SL+I YPM
Sbjct: 8   FGGGNGFLNDLFQLFGEKPRCYPRAMKFDGCRQNANFGGKVILPPSALVKLSSLNIQYPM 67

Query: 56  LFELRNNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKL 115
           LFE+ ++     +H GVLEFIAEEG +Y+P WMM+ L ++ GD+V ++    P G +VKL
Sbjct: 68  LFEISHSDGIYRTHGGVLEFIAEEGRVYLPSWMMQTLSMEPGDLVVLRYTDFPLGKFVKL 127

Query: 116 QPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKP---SNAISI 172
            P + DFLDI +PKA+LE  LRN+S LT GD I + YN++   I      P   +NAI +
Sbjct: 128 IPQSVDFLDIEDPKAVLENCLRNFSTLTEGDEIEIQYNDEVGSIKFTVVHPEPSANAIYV 187

Query: 173 IETDCEVDFAPPLDYKEP-----EKPIASASSRATAKAEEASVETEPKFSPFTGVARRLD 227
           +ETD  VDF PP+ YKE      E+             E      + K     G+   L 
Sbjct: 188 VETDLVVDFLPPIGYKEKAQQDKERNSFGVQGTMATYIEYIDSSHDVKPILMKGLGLYLY 247

Query: 228 GKPLTYQPPPVPSLGSKD 245
           GK         P    KD
Sbjct: 248 GK----VDKAEPKQDIKD 261

Length = 331

>gnl|CDD|178635 PLN03086, PLN03086, PRLI-interacting factor K; Provisional

 Score =  128 bits (323), Expect = 2e-33
 Identities = 63/169 (37%), Positives = 96/169 (56%), Gaps = 16/169 (9%)

Query: 32  SGDKIIMPPSALDRLASL-HIDY-PMLFEL-----------RNNAAERVSHCGVLEFIAE 78
           +GDKI +PPS    L+     D  P+ F L           ++  +++ +H GVLEF AE
Sbjct: 90  NGDKIKLPPSCFTELSDQGAFDKGPLYFRLSVVHQEGSGEMKDTDSQKTTHSGVLEFTAE 149

Query: 79  EGMIYMPYWMMENLLLQ---EGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETT 135
           EG + +P  +  NL      +  +V V+ + LPKGTY KLQP    F D+ N KA+LET 
Sbjct: 150 EGSVGLPPHVWSNLFPSDPPDVPLVEVRYIWLPKGTYAKLQPDGVGFSDLPNHKAVLETA 209

Query: 136 LRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFAPP 184
           LR ++ L+  D ++V Y    Y + ++E KP++++S++ETD EVD   P
Sbjct: 210 LRQHATLSEDDVLVVNYGQLTYKLKVLELKPASSVSVLETDIEVDIVGP 258

Length = 567

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	321
KOG1816	308	consensus Ubiquitin fusion-degradation protein [Po	100.0
PF03152	176	UFD1: Ubiquitin fusion degradation protein UFD1; I	100.0
COG5140	331	UFD1 Ubiquitin fusion-degradation protein [Posttra	100.0
PLN03086	567	PRLI-interacting factor K; Provisional	100.0
PF02933	64	CDC48_2: Cell division protein 48 (CDC48), domain	96.21
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.18
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.84
PF09262	80	PEX-1N: Peroxisome biogenesis factor 1, N-terminal	91.73
TIGR01439	43	lp_hng_hel_AbrB looped-hinge helix DNA binding dom	83.61
PF02359	87	CDC48_N: Cell division protein 48 (CDC48), N-termi	81.59
PF02359	87	CDC48_N: Cell division protein 48 (CDC48), N-termi	80.09

>KOG1816 consensus Ubiquitin fusion-degradation protein [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.2e-102  Score=732.58  Aligned_cols=296  Identities=55%  Similarity=0.938  Sum_probs=250.6

Q ss_pred             CCcCCCCCCCCccceeeEEeecccccC---CCCCCCCeEecCHHHHHHHHhCCCCCCeeEEEEeCCCCCEEEEEEeeeEe
Q 020791            1 MFFDGYGYHGTSFEQSYRCYPASFIEK---PQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIA   77 (321)
Q Consensus         1 ~~f~~~~~~~~~F~~~yrcyp~s~~~k---~~~~~GdKIiLPpSaL~~L~~l~i~~PmlFel~n~~~~r~thcGVLEF~A   77 (321)
                      |+|++|++++..|+++|||||++|+..   +++++|||||||||||++|+++||.|||+|+|+|.+..|+||||||||+|
T Consensus         2 ~~f~~~~~~g~~f~~~yrcy~~~~l~~~~~s~~~~GgKIilPPSaL~~Ls~lnI~yPMlFkLtn~~~~r~THcGVLEF~A   81 (308)
T KOG1816|consen    2 MFFDGFGPRGFQFETSYRCYPVSFLPGPDRSDVNKGGKIILPPSALDRLSSLNITYPMLFKLTNVDVDRVTHCGVLEFTA   81 (308)
T ss_pred             ccccccCcCCcceeeeeEecccccccCccccccccCCeEEeCHHHHHHHHHhcCCCceEEEEeccccceeeeeeEEEEEe
Confidence            689999988899999999999999954   49999999999999999999999999999999999999999999999999


Q ss_pred             CCCeEeccHHHHHHcCCCCCCeEEEEEeecCCcceEEEeeCCcCcCCccccHHHHHhhcccceecccCCEEEEEECCEEE
Q 020791           78 EEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKY  157 (321)
Q Consensus        78 ~EG~i~LP~WMm~~L~l~egd~V~v~~~~LPkGt~vkLqP~s~~FldIsnpKavLE~~LRnys~LT~GD~I~I~yn~k~Y  157 (321)
                      |||.||||+|||++|+|+|||+|+|+|++||+||||||||||.|||||+|||||||++||||+|||+||+|+|+||++.|
T Consensus        82 eEG~vyLP~WMmq~L~le~gdlv~i~~v~lpkgtyvKLqP~s~dFLDItNpKAvLE~~LRn~acLT~gDvi~i~Yn~k~y  161 (308)
T KOG1816|consen   82 EEGRVYLPYWMMQNLLLEEGDLVRIRSVTLPKGTYVKLQPHSVDFLDITNPKAVLENALRNYACLTTGDVILINYNEKTY  161 (308)
T ss_pred             cCceEEeehHhhhhccCCCCCeEEEEEeeccccceeeeccCCCCccccCChHHHHHHHHhhccccccCCEEEEecCCeEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEecCCCeeEEEeCceeeeecCCCCCCCCCCcccCcccch-hhhhhhccc----CCCCcccceeeeccccCCccCC
Q 020791          158 YIDIIETKPSNAISIIETDCEVDFAPPLDYKEPEKPIASASSRA-TAKAEEASV----ETEPKFSPFTGVARRLDGKPLT  232 (321)
Q Consensus       158 ~l~V~e~kP~~aVsIIeTDleVDF~pPldy~ep~~~~~~~~~~~-~~~~~~~~~----~~~~~~~~F~G~G~rLdGK~~~  232 (321)
                      +|+|+|+||++|||||||||+|||+||+||+||+++.++..... .++..+.-+    .-+++|.+|+|+|+|||||+..
T Consensus       162 ~i~V~e~kPa~aVsIiEtD~~VDF~pP~gyke~~~~~~~~~~~k~~~~~v~~~ag~~~~~e~~~~~f~gsg~rLdgK~~~  241 (308)
T KOG1816|consen  162 ELKVVETKPANAVSIIETDLNVDFDPPLGYKEPERQVAPAEKAKGEAEVVGSYAGYKNVIENKVEPFTGSGRRLDGKKKV  241 (308)
T ss_pred             EEEEEEecCCceeEEEEcceeecccCCcCccCcccccChhhcccccceeeccccccccccccceeeeccccceecccccc
Confidence            99999999999999999999999999999999999865543221 111111001    1178899999999999999887


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccCcCCeEEEccCCCCCCCCCCCchhhhhhcccCccccCCCCcccc
Q 020791          233 YQPPPVPSLGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPVAEKEIKQELPEKKEEPKFRPF  312 (321)
Q Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gkl~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~aF  312 (321)
                      .++++  .|+..   .     .   ...++.++. +++.|+|+||||....    ++      ..++.+. ...++|++|
T Consensus       242 ~e~~~--~pv~~---~-----~---~~~~~~~~~-d~~~G~l~F~~~~~~~----~~------~~~E~~a-~k~~~~~~F  296 (308)
T KOG1816|consen  242 EEVSK--HPVKN---G-----D---LIQRGVPNH-DFKLGKLVFGRNVDPL----KK------ESEEKEA-GKDSKFEAF  296 (308)
T ss_pred             cccCC--CcccC---c-----c---cccCCCCcc-ccCCceEEEecCCCcc----cc------ccchhhc-ccccceeEe
Confidence            66533  22221   0     0   112455555 9999999999996422    11      1111111 223899999


Q ss_pred             ccCccccCC
Q 020791          313 TGKKYSLKG  321 (321)
Q Consensus       313 ~G~~~sL~~  321 (321)
                      +|+|||||+
T Consensus       297 ~G~~~slr~  305 (308)
T KOG1816|consen  297 SGAGYSLRK  305 (308)
T ss_pred             cCCceeccc
Confidence            999999986

>PF03152 UFD1: Ubiquitin fusion degradation protein UFD1; InterPro: IPR004854 Post-translational ubiquitin-protein conjugates are recognised for degradation by the ubiquitin fusion degradation (UFD) pathway

Probab=100.00  E-value=2.3e-74  Score=513.93  Aligned_cols=173  Identities=66%  Similarity=1.166  Sum_probs=150.0

Q ss_pred             ccceeeEEeecccc---cCCCCCCCCeEecCHHHHHHHHhCCCCCCeeEEEEeCCCCCEEEEEEeeeEeCCCeEeccHHH
Q 020791           12 SFEQSYRCYPASFI---EKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIAEEGMIYMPYWM   88 (321)
Q Consensus        12 ~F~~~yrcyp~s~~---~k~~~~~GdKIiLPpSaL~~L~~l~i~~PmlFel~n~~~~r~thcGVLEF~A~EG~i~LP~WM   88 (321)
                      .|+++|||||++|+   +++++++||||+||||||++|.+++++|||+|+|+|..+++.||||||||+|+||+||||+||
T Consensus         1 ~f~~~~~~~~~~~~~~~~~~~~~~gdKiiLP~s~L~~L~~~~~~~P~~F~i~n~~~~~~th~GVlEFsA~eG~i~lP~wm   80 (176)
T PF03152_consen    1 KFDQTYRCYPVSFLPGADRPELEYGDKIILPPSALDELSRLNIPYPMLFEISNPDNGKRTHCGVLEFSAEEGTIYLPPWM   80 (176)
T ss_dssp             -EEEEEEEEECCCSSTTS-CCCCCTTEEEE-HHHHHHHHHTT--SS-EEEEEETTTTEEEEEEEEEE--CTTEEEE-CHH
T ss_pred             CccceEEEEeEEeecCCCCcccCCCCeEEcCHHHHHHHHhccCCCCEEEEEecCCCCcEEEEEEEEeEcCCCeEEeCccH
Confidence            48999999999999   899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCCCCeEEEEEeecCCcceEEEeeCCcCcCCccccHHHHHhhcccceecccCCEEEEEECCEEEEEEEEEecCCC
Q 020791           89 MENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSN  168 (321)
Q Consensus        89 m~~L~l~egd~V~v~~~~LPkGt~vkLqP~s~~FldIsnpKavLE~~LRnys~LT~GD~I~I~yn~k~Y~l~V~e~kP~~  168 (321)
                      |++|++++||.|+|++++||||||||||||+.+|++|+|||||||++||||+|||+||+|.|+|+++.|+|+|+|++|++
T Consensus        81 m~~L~l~~g~~V~v~~~~LPkgt~vkLqP~~~~F~~i~n~KavLE~~Lr~ystLT~Gd~I~i~~~~~~y~l~V~e~kP~~  160 (176)
T PF03152_consen   81 MQNLGLQEGDIVRVEYVSLPKGTFVKLQPQSSDFLDISNPKAVLERALRNYSTLTKGDTISIEYNNKTYELDVVEVKPEN  160 (176)
T ss_dssp             HHHHT--TTEEEEEEEEE----SEEEEEESCHHHHCSS-HHHHHHHHHCC-SEEETTSEEEEECTTEEEEEEEEEECSSS
T ss_pred             HhhcCCCCCCEEEEEEeECCCCCEEEEeECCCccccccchHHHHHhhcccCceeecCCEEEEEeCCEEEEEEEEEEcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeEEEeCceeeeecCC
Q 020791          169 AISIIETDCEVDFAPP  184 (321)
Q Consensus       169 aVsIIeTDleVDF~pP  184 (321)
                      |||||||||+|||++|
T Consensus       161 aV~IidTDl~vDf~~P  176 (176)
T PF03152_consen  161 AVSIIDTDLEVDFEPP  176 (176)
T ss_dssp             CEE-SSS-SEEEE---
T ss_pred             EEEEEeCceEEEecCC
Confidence            9999999999999997

Several proteins involved in this pathway have been identified []. This family includes UFD1, a 40kDa protein that is essential for vegetative cell viability []. The human UFD1 gene is expressed at high levels during embryogenesis, especially in the eyes and in the inner ear primordia and is thought to be important in the determination of ectoderm-derived structures, including neural crest cells. In addition, this gene is deleted in the CATCH-22 (cardiac defects, abnormal facies, thymic hypoplasia, cleft palate and hypocalcaemia with deletions on chromosome 22) syndrome. This clinical syndrome is associated with a variety of developmental defects, all characterised by microdeletions on 22q11.2. Two such developmental defects are the DiGeorge syndrome OMIM:188400, and the velo-cardio- facial syndrome OMIM:145410. Several of the abnormalities associated with these conditions are thought to be due to defective neural crest cell differentiation []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1ZC1_A 2YUJ_A.

>COG5140 UFD1 Ubiquitin fusion-degradation protein [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.7e-73  Score=528.99  Aligned_cols=280  Identities=37%  Similarity=0.592  Sum_probs=229.5

Q ss_pred             CccceeeEEeecccc---cCCCCCCCCeEecCHHHHHHHHhCCCCCCeeEEEEeCCCCCEEEEEEeeeEeCCCeEeccHH
Q 020791           11 TSFEQSYRCYPASFI---EKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIAEEGMIYMPYW   87 (321)
Q Consensus        11 ~~F~~~yrcyp~s~~---~k~~~~~GdKIiLPpSaL~~L~~l~i~~PmlFel~n~~~~r~thcGVLEF~A~EG~i~LP~W   87 (321)
                      +.|.+.|||||++|+   .|++.++|+|||||||||..|+++||.|||+|+|++.++.+.||||||||+|+||.||||+|
T Consensus        20 q~F~e~~rcyp~am~~d~~r~n~NfGGKvilPpSaL~kLs~lni~yPmlF~~s~~~~~~~THgGVLEFiaEEGrVylP~W   99 (331)
T COG5140          20 QLFGEKPRCYPRAMKFDGCRQNANFGGKVILPPSALVKLSSLNIQYPMLFEISHSDGIYRTHGGVLEFIAEEGRVYLPSW   99 (331)
T ss_pred             hhhccCccceeeecccCccccCCCcCceEEcCHHHHHHHHhhccCCceEEEEecccceeEecccEEEEeecCCcEeehHH
Confidence            679999999999998   46789999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCCCCCeEEEEEeecCCcceEEEeeCCcCcCCccccHHHHHhhcccceecccCCEEEEEECCEEEEEEEEEecCC
Q 020791           88 MMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPS  167 (321)
Q Consensus        88 Mm~~L~l~egd~V~v~~~~LPkGt~vkLqP~s~~FldIsnpKavLE~~LRnys~LT~GD~I~I~yn~k~Y~l~V~e~kP~  167 (321)
                      ||+.|.+++||+|+|+|.++|.|+||||+|||.|||||+|||||||++||||+|||+||+|.|.||++.|.|++++++|+
T Consensus       100 Mm~tLs~epgdlv~~~~td~plG~fVKL~PqSVdFLdI~dpkavLEn~LRNfstLt~~D~iei~ynd~v~~Ik~~~v~pe  179 (331)
T COG5140         100 MMQTLSMEPGDLVVLRYTDFPLGKFVKLIPQSVDFLDIEDPKAVLENCLRNFSTLTEGDEIEIQYNDEVGSIKFTVVHPE  179 (331)
T ss_pred             HHHhccCCCCcEEEEEeccccccceEEecccccceEeccChHHHHHHHHhhccccccCCEEEEEECCeeeEEEEEEeccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999995


Q ss_pred             ---CeeEEEeCceeeeecCCCCCCCCCCcccCcccchhhhhhh-----cccCCCCcccceeeeccccCCccCCCCCCCCC
Q 020791          168 ---NAISIIETDCEVDFAPPLDYKEPEKPIASASSRATAKAEE-----ASVETEPKFSPFTGVARRLDGKPLTYQPPPVP  239 (321)
Q Consensus       168 ---~aVsIIeTDleVDF~pPldy~ep~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~F~G~G~rLdGK~~~~~~~~~~  239 (321)
                         ++|||||||+.|||+||+||+|+..+-+....-.....+.     .......+-.--.|.|..|.||..+..+...-
T Consensus       180 ~S~~~i~vveTDLvvDF~pPiGy~e~~qq~ke~n~~gvqgtm~t~I~y~~~~~~~~~~lmKg~G~~l~gk~~~~~pk~~i  259 (331)
T COG5140         180 PSANAIYVVETDLVVDFLPPIGYKEKAQQDKERNSFGVQGTMATYIEYIDSSHDVKPILMKGLGLYLYGKVDKAEPKQDI  259 (331)
T ss_pred             CCcceEEEEecceeeeccCCccccchhhhhhhhccccccceeEEEEeeeccccccchhhhhcccceecccccccccccch
Confidence               8999999999999999999999843311110000000111     11222233355669999999998876554321


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCcccCcCCeEEEccCCCCCCCCCCCchhhhhhcccCccccCCCCccccccCcccc
Q 020791          240 SLGSKDKQPATSNGTGQPSAGSTSQNAARQSQGKLVFGSNASLHPKETQKPVAEKEIKQELPEKKEEPKFRPFTGKKYSL  319 (321)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gkl~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~aF~G~~~sL  319 (321)
                      -.+.                -.+.|.....+-|+|+||..-..+    +        ..  |+.+..+.-|.|.|.|-||
T Consensus       260 ~d~~----------------~~~~pa~l~lp~g~~ffg~p~~~p----~--------~d--ees~~~~~~~~fqg~g~sl  309 (331)
T COG5140         260 KDMK----------------IDGEPAKLDLPEGQLFFGFPMVLP----K--------ED--EESAAKSSEQNFQGQGISL  309 (331)
T ss_pred             hhhh----------------ccCCcccccccCcceEeccccccC----c--------cc--hhhccCchhhccccCceee
Confidence            1111                134566778999999999886532    1        11  1112234558899999999


Q ss_pred             C
Q 020791          320 K  320 (321)
Q Consensus       320 ~  320 (321)
                      |
T Consensus       310 r  310 (331)
T COG5140         310 R  310 (331)
T ss_pred             e
Confidence            7

>PLN03086 PRLI-interacting factor K; Provisional

Probab=100.00  E-value=3.7e-60  Score=481.80  Aligned_cols=173  Identities=38%  Similarity=0.648  Sum_probs=161.5

Q ss_pred             CCccceeeEEeecccccCCCCCCCCeEecCHHHHHHHHhCCC--CCCeeEEEEeC-----------CCCCEEEEEEeeeE
Q 020791           10 GTSFEQSYRCYPASFIEKPQIESGDKIIMPPSALDRLASLHI--DYPMLFELRNN-----------AAERVSHCGVLEFI   76 (321)
Q Consensus        10 ~~~F~~~yrcyp~s~~~k~~~~~GdKIiLPpSaL~~L~~l~i--~~PmlFel~n~-----------~~~r~thcGVLEF~   76 (321)
                      |-.|.+.+..  ++|.     ..|||||||||||++|+++||  .|||+|+|+|.           ..+++||||||||+
T Consensus        75 g~~~~~~~~~--~~~~-----~~GdKI~LPpSaL~~L~~~~~~~~~Pm~F~l~~~~~~~~~~~~~~~~~~~th~GVlEF~  147 (567)
T PLN03086         75 GIVFSRIFEA--VSFQ-----GNGDKIKLPPSCFTELSDQGAFDKGPLYFRLSVVHQEGSGEMKDTDSQKTTHSGVLEFT  147 (567)
T ss_pred             CeEEEEEeec--cccC-----CCCCeEEcCHHHHHHHHhcCCCCCCCeEEEEeccccccccccccccCCcEEEEEEEEEE
Confidence            4557666665  5666     599999999999999999998  89999999984           34799999999999


Q ss_pred             eCCCeEeccHHHHHHcCCCC---CCeEEEEEeecCCcceEEEeeCCcCcCCccccHHHHHhhcccceecccCCEEEEEEC
Q 020791           77 AEEGMIYMPYWMMENLLLQE---GDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYN  153 (321)
Q Consensus        77 A~EG~i~LP~WMm~~L~l~e---gd~V~v~~~~LPkGt~vkLqP~s~~FldIsnpKavLE~~LRnys~LT~GD~I~I~yn  153 (321)
                      |+||.||||+|||++|++.+   |++|+|++++||||||||||||+.+|+||+|||||||++||||+|||+||+|.|+||
T Consensus       148 A~EG~v~lP~wm~~~L~~~~~~~~~~v~v~~~~Lpkgt~vklqP~~~~f~di~npKavLE~~Lr~~stLT~Gd~i~i~~~  227 (567)
T PLN03086        148 AEEGSVGLPPHVWSNLFPSDPPDVPLVEVRYIWLPKGTYAKLQPDGVGFSDLPNHKAVLETALRQHATLSEDDVLVVNYG  227 (567)
T ss_pred             cCCCeEEcCHHHHhhcCCCCCCCCCeEEEEEeecCCCCEEEEeeccCCcCCcccHHHHHHHHhhcCccccCCCEEEEecC
Confidence            99999999999999999975   899999999999999999999999999999999999999999999999999999999


Q ss_pred             CEEEEEEEEEecCCCeeEEEeCceeeeecCCCCCCC
Q 020791          154 NKKYYIDIIETKPSNAISIIETDCEVDFAPPLDYKE  189 (321)
Q Consensus       154 ~k~Y~l~V~e~kP~~aVsIIeTDleVDF~pPldy~e  189 (321)
                      ++.|+|+|+|++|++|||||||||+|||+||.++.+
T Consensus       228 ~~~y~~~V~ev~P~~aVsiieTDi~VDf~~p~~~~~  263 (567)
T PLN03086        228 QLTYKLKVLELKPASSVSVLETDIEVDIVGPDSVSN  263 (567)
T ss_pred             CEEEEEEEEEEcCCCeeEEEeCceEEEeccCCcchh
Confidence            999999999999999999999999999999999743

>PF02933 CDC48_2: Cell division protein 48 (CDC48), domain 2; InterPro: IPR004201 This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains

Probab=96.21  E-value=0.026  Score=42.36  Aligned_cols=48  Identities=23%  Similarity=0.479  Sum_probs=35.9

Q ss_pred             HHhhcccceecccCCEEEEEECCEEEEEEEEEecCCCeeEEE-eCceeee
Q 020791          132 LETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISII-ETDCEVD  180 (321)
Q Consensus       132 LE~~LRnys~LT~GD~I~I~yn~k~Y~l~V~e~kP~~aVsII-eTDleVD  180 (321)
                      |-+.|.+ --|++||+|.|.+.++.+.|.|.+++|.++|.|- +|.+++.
T Consensus        10 ~~~~l~~-~pv~~Gd~i~~~~~~~~~~~~V~~~~P~~~v~it~~T~i~i~   58 (64)
T PF02933_consen   10 FKRQLEG-RPVTKGDTIVFPFFGQALPFKVVSTEPSGPVIITEDTEIEIK   58 (64)
T ss_dssp             HHHHHTT-EEEETT-EEEEEETTEEEEEEEEEECSSSEEEEETTSEEEES
T ss_pred             HHHHHcC-CCccCCCEEEEEeCCcEEEEEEEEEEcCCCEEECCCcEEEEc
Confidence            3344444 4599999999999999999999999999877555 3445554

Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C terminus. The VAT-N domain found in AAA ATPases (IPR003959 from INTERPRO) is a substrate 185-residue recognition domain [].; GO: 0005524 ATP binding; PDB: 1QDN_B 1QCS_A 1CR5_C 3QQ8_A 3HU2_A 3HU1_E 3HU3_A 3QWZ_A 3TIW_B 3QQ7_A ....

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.18  E-value=0.074  Score=57.78  Aligned_cols=146  Identities=19%  Similarity=0.203  Sum_probs=112.3

Q ss_pred             EecCHHHHHHHHhCCCCCCeeEEEEeCCCCCEEEEEEeeeE-eCCCeEeccHHHHHHcCCCCCCeEEEEEe-ecCCcceE
Q 020791           36 IIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFI-AEEGMIYMPYWMMENLLLQEGDIVRVKNV-TLPKGTYV  113 (321)
Q Consensus        36 IiLPpSaL~~L~~l~i~~PmlFel~n~~~~r~thcGVLEF~-A~EG~i~LP~WMm~~L~l~egd~V~v~~~-~LPkGt~v  113 (321)
                      |.||-+.+..|....-.|++.-........+.-..|  -++ ..|..|-+=.-..+.|+|.+|+.|.++-+ ..+.++-|
T Consensus        17 v~lP~ql~~ai~~~~~~~av~~v~~~~~~~~s~~~g--~~s~~se~~ieIn~~~A~~l~L~e~~~V~l~~~~~v~~~~~V   94 (952)
T KOG0735|consen   17 VNLPEQLLEAISEPVQNYAVQAVVSKNPIKKSWVFG--HGSGSSENVIEINRVYAHTLGLAENQEVKLSIIDHVHEATQV   94 (952)
T ss_pred             hccHHHHHHHHhccccCceeEEEEcCCChhheeecc--cCCCCccceEEeehhhHhhccCCCCCeEEEEEcCCccceeEE
Confidence            578999999888776556655433222222233344  333 33667778888999999999999999966 79999999


Q ss_pred             EEeeCCcCcCCccccHHH-HHhhcc-cceecccCCEEEEEECCE-EEEEEEEEecCCCeeEEEeCceeeeecCC
Q 020791          114 KLQPHTKDFLDISNPKAI-LETTLR-NYSCLTTGDSIMVAYNNK-KYYIDIIETKPSNAISIIETDCEVDFAPP  184 (321)
Q Consensus       114 kLqP~s~~FldIsnpKav-LE~~LR-nys~LT~GD~I~I~yn~k-~Y~l~V~e~kP~~aVsIIeTDleVDF~pP  184 (321)
                      ...|.++|=|+|-+--|+ ||..|- .+--+|. ....|+++.. .-.|.|..+.|+..+.=|+++-+|=++|-
T Consensus        95 ~VeP~TsdDWEIiElnA~~~e~~lL~Q~RIv~~-~~f~iwl~~~t~i~fqv~rl~Ps~~~gRl~~~Tev~VaPK  167 (952)
T KOG0735|consen   95 EVEPVTSDDWEIIELNAEWLEENLLVQTRIVTP-EIFIIWLPSGTVIQFQVDRLIPSMLYGRLLRGTEVLVAPK  167 (952)
T ss_pred             EEeeccCccHHHHHhhHHHHhhhhhhheeeccc-ceeEEEEcCccEEEEEEeeeecccceeeecCCceEEEecC
Confidence            999999998898776665 677666 6888999 7888888865 55789999999999999999999988773

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.84  E-value=0.2  Score=53.58  Aligned_cols=133  Identities=16%  Similarity=0.189  Sum_probs=94.2

Q ss_pred             CCCeEecCHHHHHHHHhCCCCCCeeEEEEeCCCCCEEEEEEee-eE--eCCCeEeccHHHHHHcCCCCCCeEEEEEeecC
Q 020791           32 SGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLE-FI--AEEGMIYMPYWMMENLLLQEGDIVRVKNVTLP  108 (321)
Q Consensus        32 ~GdKIiLPpSaL~~L~~l~i~~PmlFel~n~~~~r~thcGVLE-F~--A~EG~i~LP~WMm~~L~l~egd~V~v~~~~LP  108 (321)
                      ..+.+-|.++++++|.   +..==.-+|..  ..|.+.|-|+. ..  ...|.|.|..-+.+|+++..||.|.|+-+.++
T Consensus        15 ~~~~~~~~~~~~~~~~---~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (733)
T TIGR01243        15 GRGIVRIDRQTAARLG---VEPGDFVEIEK--GDRSVVAIVWPLRPDDEGRGIIRMDGYLRANAGVTIGDTVTVERAEVK   89 (733)
T ss_pred             CCCeEeeCHHHHHhcC---CCCCCEEEEec--CCCceeEEEEecCccccCCCEEeecHHHHhhcCCCCCCeEEEeecCCC
Confidence            4577889999988763   32222445542  34456666664 22  24689999999999999999999999999999


Q ss_pred             CcceEEEeeCCcCcCCccccHHHHHhhcccceecccCCEEEEEECCEEEEEEEEEecCCCeeE
Q 020791          109 KGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAIS  171 (321)
Q Consensus       109 kGt~vkLqP~s~~FldIsnpKavLE~~LRnys~LT~GD~I~I~yn~k~Y~l~V~e~kP~~aVs  171 (321)
                      .+..|.+.|.. ....-.+...++...|.+ ..|++||.|.+.+....+.+.|+++.|...+.
T Consensus        90 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~-~~~~~g~~~~~~~~~~~~~~~v~~~~p~~~~~  150 (733)
T TIGR01243        90 EAKKVVLAPTQ-PIRFGRDFVDYVKEFLLG-KPISKGETVIVPVLEGALPFVVVSTQPAGFVY  150 (733)
T ss_pred             ccceEeecccc-ccccccchHHHHHHHHcC-CCCCCCCEEEecccCcceeEEEEecCCCCcEE
Confidence            99999999953 111011223334444443 46899999999988888899999999965443

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>PF09262 PEX-1N: Peroxisome biogenesis factor 1, N-terminal ; InterPro: IPR015342 This domain adopts a double psi beta-barrel fold, similar in structure to the Cdc48 N-terminal domain

Probab=91.73  E-value=0.18  Score=40.40  Aligned_cols=74  Identities=23%  Similarity=0.308  Sum_probs=49.0

Q ss_pred             cceEEEeeCCcCcCC-ccccHHHHHhhcc-cceecccCCEEEEEE-CCEEEEEEEEEecCCCe---eEEEeCceeeeecC
Q 020791          110 GTYVKLQPHTKDFLD-ISNPKAILETTLR-NYSCLTTGDSIMVAY-NNKKYYIDIIETKPSNA---ISIIETDCEVDFAP  183 (321)
Q Consensus       110 Gt~vkLqP~s~~Fld-IsnpKavLE~~LR-nys~LT~GD~I~I~y-n~k~Y~l~V~e~kP~~a---VsIIeTDleVDF~p  183 (321)
                      ++.|.+.|.+.|=++ |+..-..||..|- +-.+++.|.++.|+- ++..-.|.|..+.|...   ...+..|.||=++|
T Consensus         1 A~~V~veP~T~dDWEIlEl~A~~lE~~lL~QiRvv~~~~~~~v~v~~~~~i~~~V~~i~p~~~~~~~~~L~~~TEv~VaP   80 (80)
T PF09262_consen    1 AKSVEVEPLTSDDWEILELHAEFLEDQLLSQIRVVFPGQVFPVWVSQNTVIKFKVVSIEPSSSAEGCARLSPDTEVIVAP   80 (80)
T ss_dssp             -SEEEEEESSHHHHHHHHHS-SSHHHHHHHH--EE-TT-EEEEESSSS-EEEEEEEEEES--S---SEE--TT-EEEE--
T ss_pred             CcEEEEEcCCccHHHHHHHhHHHHHHHHHHhheeecCCCEEEEEEcCCeEEEEEEEEccCCCCceeEEEeCCCcEEEECC
Confidence            467889999987666 4555566777766 588999999999998 56788999999999866   78999999887765

It has been suggested that this domain may be involved in interactions with ubiquitin, ubiquitin-like protein modifiers, or ubiquitin-like domains, such as Ubx. Furthermore, the domain may possess a putative adaptor or substrate binding site, allowing for peroxisomal biogenesis, membrane fusion and protein translocation []. ; GO: 0005524 ATP binding, 0007031 peroxisome organization, 0005777 peroxisome; PDB: 1WLF_A.

>TIGR01439 lp_hng_hel_AbrB looped-hinge helix DNA binding domain, AbrB family

Probab=83.61  E-value=4.8  Score=27.05  Aligned_cols=39  Identities=33%  Similarity=0.461  Sum_probs=31.1

Q ss_pred             eCCCeEeccHHHHHHcCCCCCCeEEEEEeecCCcceEEEeeC
Q 020791           77 AEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPH  118 (321)
Q Consensus        77 A~EG~i~LP~WMm~~L~l~egd~V~v~~~~LPkGt~vkLqP~  118 (321)
                      .+.|.|.||.=+.+.|++.+||.+.+...  +. .-+.|.|.
T Consensus         4 ~~kgri~iP~~~r~~l~~~~gd~~~i~~~--~~-~~l~l~p~   42 (43)
T TIGR01439         4 DKKGQIVIPKEIREKLGLKEGDRLEVIRV--ED-GEIILRPA   42 (43)
T ss_pred             CcCCeEEecHHHHHHcCcCCCCEEEEEEe--CC-CEEEEEEC
Confidence            45799999999999999999999988853  33 34666664

This DNA-binding domain family includes AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. This model excludes members of family TIGR02609.

>PF02359 CDC48_N: Cell division protein 48 (CDC48), N-terminal domain; InterPro: IPR003338 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=81.59  E-value=17  Score=28.59  Aligned_cols=68  Identities=16%  Similarity=0.130  Sum_probs=51.0

Q ss_pred             CCCeEecCHHHHHHHHhCCCCCCeeEEEEeCCCCCEEEEEEeeeEe---CCCeEeccHHHHHHcCCCCCCeEEEEEe
Q 020791           32 SGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIA---EEGMIYMPYWMMENLLLQEGDIVRVKNV  105 (321)
Q Consensus        32 ~GdKIiLPpSaL~~L~~l~i~~PmlFel~n~~~~r~thcGVLEF~A---~EG~i~LP~WMm~~L~l~egd~V~v~~~  105 (321)
                      ..+-++|.|..++   .+++..--+-.|..   .+.|+|=|+---.   +.|.|-|-.-+-+|+++.-||.|.|+-+
T Consensus        14 ~~n~v~v~~~~m~---~l~l~~gd~v~i~g---~~~tv~~v~~~~~~~~~~g~I~l~~~~R~n~~v~igd~V~V~~~   84 (87)
T PF02359_consen   14 GTNCVRVSPEDME---ELGLFPGDVVLISG---KRKTVAFVFPDRPDDSPPGVIRLSGIQRKNAGVSIGDRVTVRPY   84 (87)
T ss_dssp             CTTEEEEEHHHHH---CTTT-TTEEEEEET---TTEEEEEEEEECCSTTCTTEEEE-HHHHHHCT--TTSEEEEEEE
T ss_pred             CCCEEEEcHHHHH---HcCCCCccEEEEeC---CceEEEEEEECCCCCCCCCEEEECHHHHhhCCcCCCCEEEEEEC
Confidence            5678999999986   45566666777874   4458888876543   3799999999999999999999999865

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The VAT protein of the archaebacterium Thermoplasma acidophilum, like all other members of the Cdc48/p97 family of AAA ATPases, has two ATPase domains and a 185-residue amino-terminal substrate-recognition domain, VAT-N. VAT shows activity in protein folding and unfolding and thus shares the common function of these ATPases in disassembly and/or degradation of protein complexes. VAT-N is composed of two equally sized subdomains. The amino-terminal subdomain VAT-Nn forms a double-psi beta-barrel whose pseudo-twofold symmetry is mirrored by an internal sequence repeat of 42 residues. The carboxy-terminal subdomain VAT-Nc forms a novel six-stranded beta-clam fold []. Together, VAT-Nn and VAT-Nc form a kidney-shaped structure, in close agreement with results from electron microscopy. VAT-Nn is related to numerous proteins including prokaryotic transcription factors, metabolic enzymes, the protease cofactors UFD1 and PrlF, and aspartic proteinases. ; GO: 0005524 ATP binding; PDB: 1CZ4_A 1CZ5_A 3CF3_C 3CF1_A 3CF2_A 1S3S_D 1E32_A 1R7R_A 2PJH_B 1CR5_B ....

>PF02359 CDC48_N: Cell division protein 48 (CDC48), N-terminal domain; InterPro: IPR003338 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=80.09  E-value=1.6  Score=34.48  Aligned_cols=69  Identities=23%  Similarity=0.235  Sum_probs=46.6

Q ss_pred             CCCeEeccHHHHHHcCCCCCCeEEEEEeecCCcceEEEeeCCcCcCCccccHHHHHhhcccceecccCCEEEEE
Q 020791           78 EEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVA  151 (321)
Q Consensus        78 ~EG~i~LP~WMm~~L~l~egd~V~v~~~~LPkGt~vkLqP~s~~FldIsnpKavLE~~LRnys~LT~GD~I~I~  151 (321)
                      ..|.++|..-.|+.|++.+||.|.|...   +-|.+.+.|...+  +...=.--|-...|...-+..||.|.|.
T Consensus        14 ~~n~v~v~~~~m~~l~l~~gd~v~i~g~---~~tv~~v~~~~~~--~~~~g~I~l~~~~R~n~~v~igd~V~V~   82 (87)
T PF02359_consen   14 GTNCVRVSPEDMEELGLFPGDVVLISGK---RKTVAFVFPDRPD--DSPPGVIRLSGIQRKNAGVSIGDRVTVR   82 (87)
T ss_dssp             CTTEEEEEHHHHHCTTT-TTEEEEEETT---TEEEEEEEEECCS--TTCTTEEEE-HHHHHHCT--TTSEEEEE
T ss_pred             CCCEEEEcHHHHHHcCCCCccEEEEeCC---ceEEEEEEECCCC--CCCCCEEEECHHHHhhCCcCCCCEEEEE
Confidence            4689999999999999999999999872   2267777765332  1111111145677888888999999986

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The VAT protein of the archaebacterium Thermoplasma acidophilum, like all other members of the Cdc48/p97 family of AAA ATPases, has two ATPase domains and a 185-residue amino-terminal substrate-recognition domain, VAT-N. VAT shows activity in protein folding and unfolding and thus shares the common function of these ATPases in disassembly and/or degradation of protein complexes. VAT-N is composed of two equally sized subdomains. The amino-terminal subdomain VAT-Nn forms a double-psi beta-barrel whose pseudo-twofold symmetry is mirrored by an internal sequence repeat of 42 residues. The carboxy-terminal subdomain VAT-Nc forms a novel six-stranded beta-clam fold []. Together, VAT-Nn and VAT-Nc form a kidney-shaped structure, in close agreement with results from electron microscopy. VAT-Nn is related to numerous proteins including prokaryotic transcription factors, metabolic enzymes, the protease cofactors UFD1 and PrlF, and aspartic proteinases. ; GO: 0005524 ATP binding; PDB: 1CZ4_A 1CZ5_A 3CF3_C 3CF1_A 3CF2_A 1S3S_D 1E32_A 1R7R_A 2PJH_B 1CR5_B ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	321
2yuj_A	190	Solution Structure Of Human Ubiquitin Fusion Degrad		1e-56
1zc1_A	208	Ufd1 Exhibits The Aaa-Atpase Fold With Two Distinct		9e-51

>pdb|2YUJ|A Chain A, Solution Structure Of Human Ubiquitin Fusion Degradation Protein 1 Homolog Ufd1 Length = 190

Iteration: 1
 Score =  216 bits (551), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 97/173 (56%), Positives = 129/173 (74%), Gaps = 4/173 (2%)
Query: 13  FEQSYRCYPASFIEKPQ----IESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVS 68
           F   YRC+  S +  P     +E G KIIMPPSALD+L+ L+I YPMLF+L N  ++R++
Sbjct: 16  FSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 75
Query: 69  HCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNP 128
           HCGVLEF+A+EG+ Y+P+WMM+NLLL+EG +V+V++V L   TY K QP + DFLDI+NP
Sbjct: 76  HCGVLEFVADEGICYLPHWMMQNLLLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNP 135
Query: 129 KAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDF 181
           KA+LE  LRN++CLTTGD I + YN K Y + ++ETKP  A+SIIE D  VDF
Sbjct: 136 KAVLENALRNFACLTTGDVIAINYNEKIYELRVMETKPDKAVSIIECDMNVDF 188

>pdb|1ZC1|A Chain A, Ufd1 Exhibits The Aaa-Atpase Fold With Two Distinct Ubiquitin Interaction Sites Length = 208

Iteration: 1
 Score =  197 bits (500), Expect = 9e-51,   Method: Compositional matrix adjust.
 Identities = 95/187 (50%), Positives = 128/187 (68%), Gaps = 7/187 (3%)
Query: 12  SFEQSYRCYPASF----IEKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERV 67
           +FE+ +RCYP +     I K     G KI +PPSAL +L+ L+I YPMLF+L  N   RV
Sbjct: 20  TFEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANETGRV 79
Query: 68  SHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISN 127
           +H GVLEFIAEEG +Y+P WMME L +Q G ++++ +  +P G +VKL+P + DFLDIS+
Sbjct: 80  THGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDISD 139
Query: 128 PKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKP---SNAISIIETDCEVDFAPP 184
           PKA+LE  LRN+S LT  D I ++YN K + I I+E KP   S +I +IETD   DFAPP
Sbjct: 140 PKAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVTDFAPP 199
Query: 185 LDYKEPE 191
           + Y EP+
Sbjct: 200 VGYVEPD 206

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	321
1zc1_A	208	Ubiquitin fusion degradation protein 1; UFD1, doub	4e-93
2yuj_A	190	Ubiquitin fusion degradation 1-like; ubiquitin-dep	1e-88
3tiw_A	187	Transitional endoplasmic reticulum ATPase; beta-ba	1e-08
1wlf_A	179	PEX1, peroxisome biogenesis factor 1; N-terminal d	3e-08
1cz4_A	185	VCP-like ATPase; double-PSI beta-barrel, beta-CLAM	7e-05
3qwz_A	211	Transitional endoplasmic reticulum ATPase; UBX, P9	8e-05
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	8e-04

>1zc1_A Ubiquitin fusion degradation protein 1; UFD1, double-PSI-beta-barrel, protein turnover; NMR {Saccharomyces cerevisiae} Length = 208

 Score =  274 bits (702), Expect = 4e-93
 Identities = 98/201 (48%), Positives = 132/201 (65%), Gaps = 9/201 (4%)

Query: 1   MFFDGYGYHGT--SFEQSYRCYPASF----IEKPQIESGDKIIMPPSALDRLASLHIDYP 54
            F  G G+     +FE+ +RCYP +     I K     G KI +PPSAL +L+ L+I YP
Sbjct: 7   SFGGGNGFVNMPQTFEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYP 66

Query: 55  MLFELRNNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVK 114
           MLF+L  N   RV+H GVLEFIAEEG +Y+P WMME L +Q G ++++ +  +P G +VK
Sbjct: 67  MLFKLTANETGRVTHGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVK 126

Query: 115 LQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKP---SNAIS 171
           L+P + DFLDIS+PKA+LE  LRN+S LT  D I ++YN K + I I+E KP   S +I 
Sbjct: 127 LEPQSVDFLDISDPKAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSIC 186

Query: 172 IIETDCEVDFAPPLDYKEPEK 192
           +IETD   DFAPP+ Y EP+ 
Sbjct: 187 VIETDLVTDFAPPVGYVEPDY 207

>2yuj_A Ubiquitin fusion degradation 1-like; ubiquitin-dependent proteolytic, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 190

 Score =  262 bits (671), Expect = 1e-88
 Identities = 96/186 (51%), Positives = 130/186 (69%), Gaps = 4/186 (2%)

Query: 1   MFFDGYGYHGTSFEQSYRCYPASFI----EKPQIESGDKIIMPPSALDRLASLHIDYPML 56
                       F   YRC+  S +    ++  +E G KIIMPPSALD+L+ L+I YPML
Sbjct: 4   GSSGIPRVFQNRFSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPML 63

Query: 57  FELRNNAAERVSHCGVLEFIAEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQ 116
           F+L N  ++R++HCGVLEF+A+EG+ Y+P+WMM+NLLL+EG +V+V++V L   TY K Q
Sbjct: 64  FKLTNKNSDRMTHCGVLEFVADEGICYLPHWMMQNLLLEEGGLVQVESVNLQVATYSKFQ 123

Query: 117 PHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETD 176
           P + DFLDI+NPKA+LE  LRN++CLTTGD I + YN K Y + ++ETKP  A+SIIE D
Sbjct: 124 PQSPDFLDITNPKAVLENALRNFACLTTGDVIAINYNEKIYELRVMETKPDKAVSIIECD 183

Query: 177 CEVDFA 182
             VDF 
Sbjct: 184 MNVDFD 189

>3tiw_A Transitional endoplasmic reticulum ATPase; beta-barrel alpha-helix, transport protein ATPase ubiquitin ubiquitin, phosphorylation; 1.80A {Homo sapiens} PDB: 3qq8_A 3qq7_A 3qc8_A Length = 187

 Score = 53.1 bits (127), Expect = 1e-08
 Identities = 19/109 (17%), Positives = 40/109 (36%), Gaps = 5/109 (4%)

Query: 77  AEEGMIYMPYWMMENLLLQEGDIVRVKNVT-LPKGTYVKLQPHTKDFLDISNP--KAILE 133
             +  I M   +  NL ++ GD++ ++    +  G  + + P       I+    +  L+
Sbjct: 77  CSDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPIDDTVEGITGNLFEVYLK 136

Query: 134 TTLR-NYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIE-TDCEVD 180
                 Y  +  GD  +V    +     ++ET PS    +   T    +
Sbjct: 137 PYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIHCE 185

>1wlf_A PEX1, peroxisome biogenesis factor 1; N-terminal domain, protein transport; 2.05A {Mus musculus} SCOP: b.52.2.3 d.31.1.1 Length = 179

 Score = 51.8 bits (124), Expect = 3e-08
 Identities = 18/110 (16%), Positives = 47/110 (42%), Gaps = 4/110 (3%)

Query: 78  EEGMIYMPYWMMENLLLQEGDIVRVKNVT-LPKGTYVKLQPHTKDFLDI--SNPKAILET 134
            E +  +   + + L L  GD V ++  + +     V+++P + D  +I   +  ++ + 
Sbjct: 68  SENVAEINRQVGQKLGLSSGDQVFLRPCSHVVSCQQVEVEPLSADDWEILELHAISLEQH 127

Query: 135 TLRNYSCLTTGDSIMVAYNNKKY-YIDIIETKPSNAISIIETDCEVDFAP 183
            L     +     + +  + + Y +I I+   P+     +ET+ ++   P
Sbjct: 128 LLDQIRIVFPKAVVPIWVDQQTYIFIQIVTLMPAAPYGRLETNTKLLIQP 177

>1cz4_A VCP-like ATPase; double-PSI beta-barrel, beta-CLAM, substrate recognition DOM hydrolase; NMR {Thermoplasma acidophilum} SCOP: b.52.2.3 d.31.1.1 PDB: 1cz5_A Length = 185

 Score = 41.8 bits (98), Expect = 7e-05
 Identities = 28/130 (21%), Positives = 44/130 (33%), Gaps = 11/130 (8%)

Query: 65  ERVSHCGVLEFIAE---EGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKD 121
            R +   V     E   +G++ +   M  N     GD V+V+ V       V L P  + 
Sbjct: 47  VRKTVGRVYRARPEDENKGIVRIDSVMRNNCGASIGDKVKVRKVRTEIAKKVTLAPIIRK 106

Query: 122 FLDISNPKAILETTLRNYSC--LTTGDSIMV----AYNNKKYYIDIIETKPSNAISII-- 173
              +   + I E   R      +   D+I V              +++T PS     I  
Sbjct: 107 DQRLKFGEGIEEYVQRALIRRPMLEQDNISVPGLTLAGQTGLLFKVVKTLPSKVPVEIGE 166

Query: 174 ETDCEVDFAP 183
           ET  E+   P
Sbjct: 167 ETKIEIREEP 176

>3qwz_A Transitional endoplasmic reticulum ATPase; UBX, P97 binding, transport protein; HET: MLY; 2.00A {Homo sapiens} PDB: 2pjh_B Length = 211

 Score = 42.0 bits (98), Expect = 8e-05
 Identities = 19/112 (16%), Positives = 40/112 (35%), Gaps = 5/112 (4%)

Query: 77  AEEGMIYMPYWMMENLLLQEGDIVRVKNVT-LPKGTYVKLQPHTKDFLDISNP--KAILE 133
             +  I M   +  NL ++ GD++ ++    +  G  + + P       I+    +  L+
Sbjct: 80  CSDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPIDDTVEGITGNLFEVYLK 139

Query: 134 TTLRNYSC-LTTGDSIMVAYNNKKYYIDIIETKPSNAISIIE-TDCEVDFAP 183
                    +  GD  +V    +     ++ET PS    +   T    +  P
Sbjct: 140 PYFLEAYRPIRKGDIFLVRGGMRAVEFXVVETDPSPYCIVAPDTVIHCEGEP 191

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	321
1zc1_A	208	Ubiquitin fusion degradation protein 1; UFD1, doub	100.0
2yuj_A	190	Ubiquitin fusion degradation 1-like; ubiquitin-dep	100.0
3qwz_A	211	Transitional endoplasmic reticulum ATPase; UBX, P9	99.46
1cz4_A	185	VCP-like ATPase; double-PSI beta-barrel, beta-CLAM	99.45
3tiw_A	187	Transitional endoplasmic reticulum ATPase; beta-ba	99.45
1wlf_A	179	PEX1, peroxisome biogenesis factor 1; N-terminal d	99.11
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.66
2jv2_A	83	Putative uncharacterized protein PH1500; AAA ATPas	97.35
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.13
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	96.65
1yfb_A	59	Transition state regulatory protein ABRB; , homodi	90.47
2glw_A	92	PHS018, 92AA long hypothetical protein; RIFT barre	90.19
1cz4_A	185	VCP-like ATPase; double-PSI beta-barrel, beta-CLAM	89.03
3tiw_A	187	Transitional endoplasmic reticulum ATPase; beta-ba	88.03
1qcs_A	211	N-ethylmaleimide sensitive factor (NSF-N); double-	87.5
1cr5_A	189	SEC18P (residues 22 - 210); double-PSI beta barrel	86.05
2l66_A	53	SSO7C4, transcriptional regulator, ABRB family; DN	85.54
3qwz_A	211	Transitional endoplasmic reticulum ATPase; UBX, P9	84.96

>1zc1_A Ubiquitin fusion degradation protein 1; UFD1, double-PSI-beta-barrel, protein turnover; NMR {Saccharomyces cerevisiae}

Probab=100.00  E-value=2.3e-80  Score=563.17  Aligned_cols=184  Identities=51%  Similarity=0.933  Sum_probs=180.1

Q ss_pred             CCccceeeEEeecccc----cCCCCCCCCeEecCHHHHHHHHhCCCCCCeeEEEEeCCCCCEEEEEEeeeEeCCCeEecc
Q 020791           10 GTSFEQSYRCYPASFI----EKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIAEEGMIYMP   85 (321)
Q Consensus        10 ~~~F~~~yrcyp~s~~----~k~~~~~GdKIiLPpSaL~~L~~l~i~~PmlFel~n~~~~r~thcGVLEF~A~EG~i~LP   85 (321)
                      .++|+++|||||++|+    +|+++++||||+||||||++|+++|++|||+|+|+|..++++||||||||+|+||+||||
T Consensus        18 ~~~f~~~~rc~~~~~~p~~~~r~~~~~GdKIiLP~SaL~~L~~~~i~~Pm~F~l~n~~~~~~th~GVlEF~A~EG~v~lP   97 (208)
T 1zc1_A           18 PQTFEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANETGRVTHGGVLEFIAEEGRVYLP   97 (208)
T ss_dssp             CEEEEEEEEEEEGGGSCTTTSCHHHHHSSEEEECHHHHHHHHHTTCCSSCCEEEECTTTCCEEEEEEEEECCSSCEEEEC
T ss_pred             cccccceEEEEEEEeccCcccccccCCCCeEECCHHHHHHHHHCCCCcCEEEEEEeCCCCCEEEEEEEEEEcCCCeEEcC
Confidence            3789999999999996    888999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCCCCCeEEEEEeecCCcceEEEeeCCcCcCCccccHHHHHhhcccceecccCCEEEEEECCEEEEEEEEEec
Q 020791           86 YWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETK  165 (321)
Q Consensus        86 ~WMm~~L~l~egd~V~v~~~~LPkGt~vkLqP~s~~FldIsnpKavLE~~LRnys~LT~GD~I~I~yn~k~Y~l~V~e~k  165 (321)
                      +|||++|+|++||+|+|++++||||||||||||+.+|++|+|||||||++||||+|||+||+|.|+||++.|+|+|+|+|
T Consensus        98 ~wmm~~L~l~~gd~V~i~~~~LPkgt~vklqP~~~~Fldi~npKavLE~~LRnfstLT~Gd~I~i~~~~~~y~l~V~e~k  177 (208)
T 1zc1_A           98 QWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDISDPKAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVK  177 (208)
T ss_dssp             HHHHHHHTCCTTCEEEEEEEECCCCSEEEEECCHHHHHTSSCHHHHHHHHHHHCSCEESSSEEEEEETTEEEEEEEEEEE
T ss_pred             HHHHHhcCCCCCCEEEEEEeEcCCCCEEEEeECccccccccCHHHHHHHHhhcCccccCCCEEEEEeCCEEEEEEEEEEc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCC---eeEEEeCceeeeecCCCCCCCCCCc
Q 020791          166 PSN---AISIIETDCEVDFAPPLDYKEPEKP  193 (321)
Q Consensus       166 P~~---aVsIIeTDleVDF~pPldy~ep~~~  193 (321)
                      |++   |||||||||+|||+||+||+||+++
T Consensus       178 P~~~~~aV~IidTDleVDf~~p~~y~ep~~~  208 (208)
T 1zc1_A          178 PESSSKSICVIETDLVTDFAPPVGYVEPDYK  208 (208)
T ss_dssp             CSSTTCEECCSSSCSEEEECCCCCCCCCCCC
T ss_pred             CCCCCceEEEEeCceEEEecCCCCCcCCCCC
Confidence            998   9999999999999999999999864

>2yuj_A Ubiquitin fusion degradation 1-like; ubiquitin-dependent proteolytic, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=100.00  E-value=9.9e-76  Score=526.65  Aligned_cols=173  Identities=55%  Similarity=1.051  Sum_probs=169.4

Q ss_pred             CccceeeEEeecccc----cCCCCCCCCeEecCHHHHHHHHhCCCCCCeeEEEEeCCCCCEEEEEEeeeEeCCCeEeccH
Q 020791           11 TSFEQSYRCYPASFI----EKPQIESGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIAEEGMIYMPY   86 (321)
Q Consensus        11 ~~F~~~yrcyp~s~~----~k~~~~~GdKIiLPpSaL~~L~~l~i~~PmlFel~n~~~~r~thcGVLEF~A~EG~i~LP~   86 (321)
                      .+|+++|||||+||+    +|+++++||||+||||||++|+++|++|||+|+|+|..++|+||||||||+|+||+||||+
T Consensus        14 ~~f~~~~~cy~~s~~~~~~~r~~~~~GdKI~LP~SaL~~L~~~~i~~Pm~F~l~n~~~~r~th~GVlEFsA~EG~i~lP~   93 (190)
T 2yuj_A           14 NRFSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMTHCGVLEFVADEGICYLPH   93 (190)
T ss_dssp             SSCEEEEEEECSTTSSSSSCCSTTTTTTEEECCHHHHHHHHHTTCCSSCEEEEEETTTTEEEEEEEEECCCBTTBEECCS
T ss_pred             ccccceEEEEehhHcCCcccccccCCCCeEECcHHHHHHHHHCCCCcCeEEEEecCCCCceEEEEEEEEecCCCeEEeCH
Confidence            349999999999997    4799999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCCCCeEEEEEeecCCcceEEEeeCCcCcCCccccHHHHHhhcccceecccCCEEEEEECCEEEEEEEEEecC
Q 020791           87 WMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKP  166 (321)
Q Consensus        87 WMm~~L~l~egd~V~v~~~~LPkGt~vkLqP~s~~FldIsnpKavLE~~LRnys~LT~GD~I~I~yn~k~Y~l~V~e~kP  166 (321)
                      |||++|+|++||.|+|++++||||||||||||+++|++|+|||||||++||||+|||+||+|.|+||++.|+|+|+|+||
T Consensus        94 wmm~~L~l~~gd~V~v~~~~LPkgt~vklqP~~~~Fl~i~npKavLE~~LrnfstLT~Gd~I~I~~~~~~y~l~V~e~kP  173 (190)
T 2yuj_A           94 WMMQNLLLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNPKAVLENALRNFACLTTGDVIAINYNEKIYELRVMETKP  173 (190)
T ss_dssp             HHHHHHTCCTTEEEEEEEECCCCCSEEEEEESSHHHHHSSCHHHHHHHHHTTCCEECTTCEEEEESSSCEEEEEEEEESS
T ss_pred             HHHHhcCCCCCCEEEEEEeecCCCcEEEEEECCccccccccHHHHHHHHHhcCcccccCCEEEEEeCCEEEEEEEEEEcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeeEEEeCceeeeecC
Q 020791          167 SNAISIIETDCEVDFAP  183 (321)
Q Consensus       167 ~~aVsIIeTDleVDF~p  183 (321)
                      ++|||||||||+|||+|
T Consensus       174 ~~aV~IidTDl~vDf~p  190 (190)
T 2yuj_A          174 DKAVSIIECDMNVDFDA  190 (190)
T ss_dssp             SSSEECSSCCCEEEECC
T ss_pred             CCeEEEEeCCEEEEecC
Confidence            99999999999999986

>3qwz_A Transitional endoplasmic reticulum ATPase; UBX, P97 binding, transport protein; HET: MLY; 2.00A {Homo sapiens} PDB: 2pjh_B

Probab=99.46  E-value=7.6e-13  Score=120.28  Aligned_cols=145  Identities=19%  Similarity=0.281  Sum_probs=121.1

Q ss_pred             CCeEecCHHHHHHHHhCCCCCCeeEEEEeCCCCCEEEEEEeee-EeCCCeEeccHHHHHHcCCCCCCeEEEEEe-ecCCc
Q 020791           33 GDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEF-IAEEGMIYMPYWMMENLLLQEGDIVRVKNV-TLPKG  110 (321)
Q Consensus        33 GdKIiLPpSaL~~L~~l~i~~PmlFel~n~~~~r~thcGVLEF-~A~EG~i~LP~WMm~~L~l~egd~V~v~~~-~LPkG  110 (321)
                      .+.+.|+|+++++|.-.   .==+.+|+. ...+.|+|-|+.. ..++|.|.|..|+++||++..||.|.|+-+ .++.|
T Consensus        39 rgivrl~p~~m~~Lgl~---~GD~V~I~G-kr~k~Tva~v~~~~~~~~g~Irid~~~R~N~gV~iGD~V~V~~~~~v~~A  114 (211)
T 3qwz_A           39 NSVVSLSQPKMDELQLF---RGDTVLLKG-XKRREAVCIVLSDDTCSDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYG  114 (211)
T ss_dssp             TTEEEECHHHHHHHTCC---BTCEEEEEC-STTCEEEEEEEECTTSCTTEEEECHHHHHHTTCCTTCEEEEEECTTCCBC
T ss_pred             CcEEEECHHHHHHcCCC---CCCEEEEeC-CCCCcEEEEEEeCCCCCCCEEEeCHHHHhhcCCCCCCEEEEEECCCCCCc
Confidence            77899999999877533   222678884 3344899999864 456899999999999999999999999999 89999


Q ss_pred             ceEEEeeCCcCcCCccc--cHHHHHhhcc-cceecccCCEEEEEECCEEEEEEEEEecCCCeeEEEeCceeeeec
Q 020791          111 TYVKLQPHTKDFLDISN--PKAILETTLR-NYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFA  182 (321)
Q Consensus       111 t~vkLqP~s~~FldIsn--pKavLE~~LR-nys~LT~GD~I~I~yn~k~Y~l~V~e~kP~~aVsIIeTDleVDF~  182 (321)
                      +.|.|.|.+..+-.|+.  ....|...|. +|-.|++||+|.|.+.++.++|.|++++|. .+|+|..|-+|++.
T Consensus       115 ~~V~LaP~~~~i~~i~~~~~~~~lk~~l~~~~rPV~~GD~i~v~~~~~~v~f~Vv~t~P~-g~viV~~~T~I~~~  188 (211)
T 3qwz_A          115 KRIHVLPIDDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFXVVETDPS-PYCIVAPDTVIHCE  188 (211)
T ss_dssp             SEEEEEEBGGGCTTCCSCHHHHTTHHHHTTCCEEEETTCEEECCCTTSCCEEEEEEEESS-SEEEECTTCEEECC
T ss_pred             eEEEEeccCcchhccCchhHHHHHHHHHhhCCceeecCCEEEEccCCcEEEEEEEeecCC-CCEEECCCcEEEEc
Confidence            99999998655544543  3677888887 489999999999999999999999999997 58899888888884

>1cz4_A VCP-like ATPase; double-PSI beta-barrel, beta-CLAM, substrate recognition DOM hydrolase; NMR {Thermoplasma acidophilum} SCOP: b.52.2.3 d.31.1.1 PDB: 1cz5_A

Probab=99.45  E-value=5.5e-13  Score=118.50  Aligned_cols=143  Identities=17%  Similarity=0.180  Sum_probs=119.1

Q ss_pred             CCeEecCHHHHHHHHhCCCCCCeeEEEEeCCCCCEEEEEEee-eEeC--CCeEeccHHHHHHcCCCCCCeEEEEEeecCC
Q 020791           33 GDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLE-FIAE--EGMIYMPYWMMENLLLQEGDIVRVKNVTLPK  109 (321)
Q Consensus        33 GdKIiLPpSaL~~L~~l~i~~PmlFel~n~~~~r~thcGVLE-F~A~--EG~i~LP~WMm~~L~l~egd~V~v~~~~LPk  109 (321)
                      -+.+.|+|++|++|.   +..==+.+|+   ..|.|+|-|+. +..+  .|.|.|..|+++|+++..||.|.|+-+.++.
T Consensus        21 r~ivrl~p~~m~~Lg---l~~GD~V~I~---G~r~t~a~v~~~~~ed~~~g~Irid~~~R~N~gv~iGD~V~V~~~~~~~   94 (185)
T 1cz4_A           21 MSRVRLDESSRRLLD---AEIGDVVEIE---KVRKTVGRVYRARPEDENKGIVRIDSVMRNNCGASIGDKVKVRKVRTEI   94 (185)
T ss_dssp             SSEEEECHHHHHTTC---CCTTCEEEEE---SSSEEEEEEEECSSTTTTTSEEECCHHHHHHHTCCTTCEEEEEEECCCB
T ss_pred             CCEEEECHHHHHHcC---CCCCCEEEEE---cCCeEEEEEEEcCcCcCCCCEEEeCHHHHhccCCCCCCEEEEEECCCCC
Confidence            356999999998665   3332347776   35789999986 3334  6899999999999999999999999999999


Q ss_pred             cceEEEeeCC---cCcCCccccHHHHHhhcccceecccCCEEEEEE---CCE-EEEEEEEEecCCCeeEEEeCceeeeec
Q 020791          110 GTYVKLQPHT---KDFLDISNPKAILETTLRNYSCLTTGDSIMVAY---NNK-KYYIDIIETKPSNAISIIETDCEVDFA  182 (321)
Q Consensus       110 Gt~vkLqP~s---~~FldIsnpKavLE~~LRnys~LT~GD~I~I~y---n~k-~Y~l~V~e~kP~~aVsIIeTDleVDF~  182 (321)
                      |+.|.|.|.+   ..+.-..|....|...|+++. |++||+|.+.+   .++ ...|.|++++|+.++|+|..|-+|++.
T Consensus        95 A~~V~l~P~~~~~~~~~~~~~~~~~l~~~l~~rp-v~~Gd~v~v~~~~~~g~~~~~f~Vv~t~P~~~~v~Vt~~T~I~i~  173 (185)
T 1cz4_A           95 AKKVTLAPIIRKDQRLKFGEGIEEYVQRALIRRP-MLEQDNISVPGLTLAGQTGLLFKVVKTLPSKVPVEIGEETKIEIR  173 (185)
T ss_dssp             CSEEEEEEECSTTCCSCCCSSHHHHHHHHHTTCE-ECTTCEECCSSCCCSSCCCCEEEEEEESSSSSCEECCTTCEEEEC
T ss_pred             ccEEEEecccccccccccccchHHHHHHHHCCCc-ccCCCEEEEeeeccCCCeEEEEEEEEEcCCCceEEEcCCeEEEEC
Confidence            9999999985   444323577888999999985 99999999986   667 899999999998878899999999985

>3tiw_A Transitional endoplasmic reticulum ATPase; beta-barrel alpha-helix, transport protein ATPase ubiquitin ubiquitin, phosphorylation; 1.80A {Homo sapiens} PDB: 3qq8_A 3qq7_A 3qc8_A

Probab=99.45  E-value=1.8e-12  Score=115.82  Aligned_cols=144  Identities=19%  Similarity=0.284  Sum_probs=115.5

Q ss_pred             CCeEecCHHHHHHHHhCCCCCCeeEEEEeCCCCCEEEEEEeee-EeCCCeEeccHHHHHHcCCCCCCeEEEEEe-ecCCc
Q 020791           33 GDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEF-IAEEGMIYMPYWMMENLLLQEGDIVRVKNV-TLPKG  110 (321)
Q Consensus        33 GdKIiLPpSaL~~L~~l~i~~PmlFel~n~~~~r~thcGVLEF-~A~EG~i~LP~WMm~~L~l~egd~V~v~~~-~LPkG  110 (321)
                      .+.+.|+|+++++|.-.   .==+.+|+. ...+.|+|-|+.- ..++|.|.|..|+.+||++..||.|.|+-+ .++.|
T Consensus        36 ~givrl~p~~m~~Lgl~---~GD~V~I~G-kr~k~Tva~v~~~~~~~~g~Irid~~~R~N~gV~iGD~V~V~~~~~v~~A  111 (187)
T 3tiw_A           36 NSVVSLSQPKMDELQLF---RGDTVLLKG-KKRREAVCIVLSDDTCSDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYG  111 (187)
T ss_dssp             TTEEEECHHHHHHHTCC---TTCEEEEEC-STTCEEEEEEEECTTSCTTEEEECHHHHHHTTCCTTCEEEEEECTTCEEC
T ss_pred             CcEEEECHHHHHHcCCC---CCCEEEEEC-CCCCeEEEEEEECCCCCCCEEEeCHHHHhhcCCCCCCEEEEEECCCCCCc
Confidence            67899999999987633   222578874 2345899999875 456899999999999999999999999999 89999


Q ss_pred             ceEEEeeCCcCcCCccc--cHHHHHhhcc-cceecccCCEEEEEECCEEEEEEEEEecCCCeeEEEeCceeeee
Q 020791          111 TYVKLQPHTKDFLDISN--PKAILETTLR-NYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDF  181 (321)
Q Consensus       111 t~vkLqP~s~~FldIsn--pKavLE~~LR-nys~LT~GD~I~I~yn~k~Y~l~V~e~kP~~aVsIIeTDleVDF  181 (321)
                      +.|.|.|.+...-.|+.  ....|...|. +|-.+++||+|.|.+.++.++|.|++++|+ .+|+|..|-+|..
T Consensus       112 ~~V~LaP~~~~i~~i~~~~~~~~lk~~l~~~~rpV~~GD~i~v~~~~~~v~f~Vv~t~P~-~~v~V~~~T~I~~  184 (187)
T 3tiw_A          112 KRIHVLPIDDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPS-PYCIVAPDTVIHC  184 (187)
T ss_dssp             SEEEEEECCCC-----CCHHHHTHHHHHTTTCCEEETTCEEEEECSSSEEEEEEEEEESS-SEEECCTTCEEEC
T ss_pred             eEEEEeccccchhhccchhHHHHHHHHhccCCceeeCCCEEEEccCCCEEEEEEEEecCC-CCEEECCCcEEEe
Confidence            99999998644323442  3677888888 499999999999999999999999999997 6677766666654

>1wlf_A PEX1, peroxisome biogenesis factor 1; N-terminal domain, protein transport; 2.05A {Mus musculus} SCOP: b.52.2.3 d.31.1.1

Probab=99.11  E-value=2.5e-10  Score=100.88  Aligned_cols=147  Identities=16%  Similarity=0.165  Sum_probs=121.5

Q ss_pred             CCCeEecCHHHHHHHHhCCCCCCeeEEEEeCCCCCEEEEEEeeeEe----CCCeEeccHHHHHHcCCCCCCeEEEEE-ee
Q 020791           32 SGDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLEFIA----EEGMIYMPYWMMENLLLQEGDIVRVKN-VT  106 (321)
Q Consensus        32 ~GdKIiLPpSaL~~L~~l~i~~PmlFel~n~~~~r~thcGVLEF~A----~EG~i~LP~WMm~~L~l~egd~V~v~~-~~  106 (321)
                      ..+-+-||++++++|.   +..=-.-+|+-  ..++.++|...+..    ..+.|-|..-+.+||++..||.|.|+- ..
T Consensus        23 ~~~~vrL~~~~~~~L~---~~~gd~VeI~g--~~~t~~~~w~~~~~~~d~~~~~I~Id~~~r~n~gv~~Gd~V~V~~~~~   97 (179)
T 1wlf_A           23 RDCFLHLPRRLVAQLH---LLQNQAIEVAS--DHQPTYLSWVEGRHFNDQSENVAEINRQVGQKLGLSSGDQVFLRPCSH   97 (179)
T ss_dssp             SSSCEEECHHHHHHTT---CCTTCCEEEES--SSCCEEECEEECSSCC---CCEEEEEHHHHHHTTCCTTCEEEEEECSC
T ss_pred             CCcEEECCHHHHHHcC---CCCCcEEEEEe--CCeeEEEEEECCCCcccCCCCEEEECHHHHhHCCCCCCCEEEEEECCC
Confidence            5567899999998875   33334678873  34577888888765    478999999999999999999999998 79


Q ss_pred             cCCcceEEEeeCCcCcCCc-cccHHHHHhhccc-ceecccCCEEEEEECC-EEEEEEEEEecCCCeeEEEeCceeeeecC
Q 020791          107 LPKGTYVKLQPHTKDFLDI-SNPKAILETTLRN-YSCLTTGDSIMVAYNN-KKYYIDIIETKPSNAISIIETDCEVDFAP  183 (321)
Q Consensus       107 LPkGt~vkLqP~s~~FldI-snpKavLE~~LRn-ys~LT~GD~I~I~yn~-k~Y~l~V~e~kP~~aVsIIeTDleVDF~p  183 (321)
                      .+.|+-|.|.|.+.|-++| .+.-..||..|.+ +-++++||+|.|+..+ ....|.|+.+.|...+++|..|-+|.++|
T Consensus        98 ~~~A~~V~laP~~~dD~ei~e~~a~~le~~Ll~QiR~v~~G~~i~v~~~g~~~i~f~V~~~~P~~~~v~It~~TeI~v~p  177 (179)
T 1wlf_A           98 VVSCQQVEVEPLSADDWEILELHAISLEQHLLDQIRIVFPKAVVPIWVDQQTYIFIQIVTLMPAAPYGRLETNTKLLIQP  177 (179)
T ss_dssp             CEECSEEEEEESSHHHHHHHHHSCSSHHHHHHHHCCEECTTCEEEEESSSSCEEEEEEEEEESCCSSEECCTTCEEEECC
T ss_pred             CccceEEEEEcCCcCCeEEehhHHHHHHHHHhcCceeccCCCEEEEEecCCeEEEEEEEEeeCCCCeEEECCCcEEEEec
Confidence            9999999999998764554 5556678888885 8899999999999766 88999999999977789999999998865

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.66  E-value=0.00038  Score=73.85  Aligned_cols=142  Identities=18%  Similarity=0.244  Sum_probs=100.3

Q ss_pred             CeEecCHHHHHHHHhCCCCCCeeEEEEeCCCCCEEEEEEee-eEeCCCeEeccHHHHHHcCCCCCCeEEEEEe-ecCCcc
Q 020791           34 DKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLE-FIAEEGMIYMPYWMMENLLLQEGDIVRVKNV-TLPKGT  111 (321)
Q Consensus        34 dKIiLPpSaL~~L~~l~i~~PmlFel~n~~~~r~thcGVLE-F~A~EG~i~LP~WMm~~L~l~egd~V~v~~~-~LPkGt  111 (321)
                      .-|.|.|..+++|.   +..==+-+|+... .+.+.|-++. =..+.|.|.|..-+.+||++..||.|.|+-+ .++.++
T Consensus        37 ~~~~~~~~~~~~l~---~~~gd~v~i~g~~-~~~~~~~~~~~~~~~~~~i~~~~~~r~n~~v~~gd~V~v~~~~~~~~a~  112 (806)
T 3cf2_A           37 SVVSLSQPKMDELQ---LFRGDTVLLKGKK-RREAVCIVLSDDTCSDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYGK  112 (806)
T ss_dssp             TEEEECHHHHHHTT---CCSSCEEEEECGG-GCBCCEEEEECTTSBTTBCEECHHHHHTTTCCTTCEEEEEECCCCCBCS
T ss_pred             CEEEECHHHHHHcC---CCCCCEEEEEcCC-CceEEEEEcCCCCCCCCEEEeCHHHHHhcCCCCCCEEEEEECCCCCcCC
Confidence            45889999998765   3322245665322 2233343331 1345799999999999999999999999988 799999


Q ss_pred             eEEEeeCCcCcCCc--cccHHHHHhhcc-cceecccCCEEEEEECCEEEEEEEEEecCCCeeEEE-eCceee
Q 020791          112 YVKLQPHTKDFLDI--SNPKAILETTLR-NYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISII-ETDCEV  179 (321)
Q Consensus       112 ~vkLqP~s~~FldI--snpKavLE~~LR-nys~LT~GD~I~I~yn~k~Y~l~V~e~kP~~aVsII-eTDleV  179 (321)
                      .|.|.|.+...-.+  ......|...|. .+-.+++||+|.|.+.+....|.|++++|...+.|- +|.+.+
T Consensus       113 ~v~l~p~~~~~~~~~~~~~~~~l~~~~~~~~~~v~~gd~~~v~~~~~~~~f~V~~~~P~~~~~v~~~T~i~~  184 (806)
T 3cf2_A          113 RIHVLPIDDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIHC  184 (806)
T ss_dssp             BEEEEEBTTTSTTCCSCHHHHTHHHHHTTTCCEEETTCEEEECCTTSCEEEEEEEESSSSEEECCTTSBCCB
T ss_pred             EEEEeccccchhccchhHHHHHHHHHHHhcCCcccCCCEEEEecCCcEEEEEEEEEeCCCCeEECCCcEEEE
Confidence            99999975332222  223444555554 467899999999999999999999999998754433 344443

>2jv2_A Putative uncharacterized protein PH1500; AAA ATPase NC-domain-like, unknown function; NMR {Pyrococcus horikoshii}

Probab=97.35  E-value=0.00078  Score=53.01  Aligned_cols=68  Identities=18%  Similarity=0.301  Sum_probs=55.0

Q ss_pred             CcceEEEeeCCcCcCCc-cccHHHHHhhcccceecccCCEEEEEECCEEEEEEEEEecCCCeeEEEeCceeeee
Q 020791          109 KGTYVKLQPHTKDFLDI-SNPKAILETTLRNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDF  181 (321)
Q Consensus       109 kGt~vkLqP~s~~FldI-snpKavLE~~LRnys~LT~GD~I~I~yn~k~Y~l~V~e~kP~~aVsIIeTDleVDF  181 (321)
                      -|+-|.|.|.+  -+.+ .|.-..|-+.|+++. +++||+|.|..-++...|.|++++|.  +++|.-|-++++
T Consensus        11 ~A~kVvLAP~~--~i~~~~~~~~~lk~~L~grP-V~~GD~I~i~~~G~~i~F~Vv~t~P~--~V~Vt~~T~I~i   79 (83)
T 2jv2_A           11 IMSELKLKPLP--KVELPPDFVDVIRIKLQGKT-VRTGDVIGISILGKEVKFKVVQAYPS--PLRVEDRTKITL   79 (83)
T ss_dssp             CCCEEEEEESS--SCCCCHHHHHHHHHHHTTSE-ECTTCEEEEEETTEEEEEEEEEEESS--SEECCTTSEEEE
T ss_pred             EEEEEEEcCCC--ceecCccHHHHHHHHHCCCC-ccCCCEEEEeeCCCEEEEEEEEecCc--cEEECCCcEEEE
Confidence            47889999984  2334 455667778888855 99999999998889999999999998  778877777776

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=96.65  E-value=0.079  Score=52.66  Aligned_cols=143  Identities=18%  Similarity=0.267  Sum_probs=102.8

Q ss_pred             CCeEecCHHHHHHHHhCCCCCCeeEEEEeCCCCCEEEEEEee-eEeCCCeEeccHHHHHHcCCCCCCeEEEEEe-ecCCc
Q 020791           33 GDKIIMPPSALDRLASLHIDYPMLFELRNNAAERVSHCGVLE-FIAEEGMIYMPYWMMENLLLQEGDIVRVKNV-TLPKG  110 (321)
Q Consensus        33 GdKIiLPpSaL~~L~~l~i~~PmlFel~n~~~~r~thcGVLE-F~A~EG~i~LP~WMm~~L~l~egd~V~v~~~-~LPkG  110 (321)
                      .+.|.|.|+++++|.   +..==+-+|.. ...+.|.|.|+- -.-+.|.|-|..-+.+|+++.-||.|.|+-+ .+|.|
T Consensus        36 ~~~~~~~~~~~~~l~---~~~gd~v~~~g-~~~~~~~~~~~~~~~~~~~~i~~~~~~r~n~~~~~gd~v~v~~~~~~~~a  111 (489)
T 3hu3_A           36 NSVVSLSQPKMDELQ---LFRGDTVLLKG-KKRREAVCIVLSDDTCSDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYG  111 (489)
T ss_dssp             TTEEEECHHHHHHHT---CCTTCEEEEEC-STTCEEEEEEEECTTSCTTEEECCHHHHHHTTCCTTCEEEEEECTTCCBC
T ss_pred             CCEEEECHHHHHHcC---CCCCCEEEEec-CccCcEEEEEeeCCCCCCCEEEecHHHHhhcCCCCCCEEEEEECCCCCcc
Confidence            489999999998775   33333456663 334578999862 2234789999999999999999999999999 99999


Q ss_pred             ceEEEeeCCcCcCCcccc-HHHHHhhc--ccceecccCCEEEEEECCEEEEEEEEEecCCCeeEEEeCceeee
Q 020791          111 TYVKLQPHTKDFLDISNP-KAILETTL--RNYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVD  180 (321)
Q Consensus       111 t~vkLqP~s~~FldIsnp-KavLE~~L--Rnys~LT~GD~I~I~yn~k~Y~l~V~e~kP~~aVsIIeTDleVD  180 (321)
                      +-|.|.|-+..--.+..- -..|+.-+  ..+-.+..||.+.+.-..+.+++.+++++|...+ ++..+-.+.
T Consensus       112 ~~v~~~~~~~av~a~~~ga~d~~~Kp~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~t~~~  183 (489)
T 3hu3_A          112 KRIHVLPIDDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVHGGMRAVEFKVVETDPSPYC-IVAPDTVIH  183 (489)
T ss_dssp             SEEEEEEBGGGSSSCCSCHHHHTHHHHHTTTCEEEETTCEEEEEETTEEEEEEEEEEESSSEE-EECTTCEEE
T ss_pred             CEEEEcCCCcccccccchhHHHHhHHHHhhcCcccccCCEEEecCCCceEEEEEEeecCCCce-EEcCCeEEE
Confidence            999999976543223221 11222222  1366778899999999999999999999986543 333343333

>1yfb_A Transition state regulatory protein ABRB; , homodimer, bioinformatics, swapped-hairpin barrel, transcription; NMR {Bacillus subtilis} SCOP: b.129.1.3 PDB: 1ysf_A 2k1n_A* 1z0r_A 2ro4_A 2fy9_A 2ro3_A

Probab=90.47  E-value=0.67  Score=33.95  Aligned_cols=39  Identities=18%  Similarity=0.198  Sum_probs=32.5

Q ss_pred             eCCCeEeccHHHHHHcCCCCCCeEEEEEeecCCcceEEEeeCC
Q 020791           77 AEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHT  119 (321)
Q Consensus        77 A~EG~i~LP~WMm~~L~l~egd~V~v~~~~LPkGt~vkLqP~s  119 (321)
                      ...|.|.||.=+.+.|+|++||.|.|...    +.-+.|+|..
T Consensus        19 ~~kGqItIPkeiR~~Lgi~~Gd~l~i~~~----~~~IiL~p~~   57 (59)
T 1yfb_A           19 DELGRVVIPIELRRTLGIAEKDALEIYVD----DEKIILKKYK   57 (59)
T ss_dssp             CTTCEEECCHHHHHHTTCCTTCEEEEEEE----TTEEEEEECC
T ss_pred             CCCCEEEeCHHHHHHcCCCCCCEEEEEEE----CCEEEEEECC
Confidence            46799999999999999999999988764    2358888864

>2glw_A PHS018, 92AA long hypothetical protein; RIFT barrel, bioinformatics, transcription; NMR {Pyrococcus horikoshii}

Probab=90.19  E-value=1  Score=35.67  Aligned_cols=68  Identities=21%  Similarity=0.230  Sum_probs=47.8

Q ss_pred             CCCeEeccHHHHHHcCCCCCCeEEEEEeecCCcc----eEEEeeCCcCcCCccccHHHHHhhcccceecccCCEEEEEE
Q 020791           78 EEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGT----YVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAY  152 (321)
Q Consensus        78 ~EG~i~LP~WMm~~L~l~egd~V~v~~~~LPkGt----~vkLqP~s~~FldIsnpKavLE~~LRnys~LT~GD~I~I~y  152 (321)
                      ..|.|-+|..+-+.|+|.+||.|.++.+.+..|.    +....=  +.--+|.=||.+-|.     --|..||.+.+.-
T Consensus        13 ~~gqvtiP~~iR~~LgI~~GD~V~v~~i~~~~g~~~~~~~~~~v--~~kGqitIPkeiR~~-----lgi~~Gd~l~~~~   84 (92)
T 2glw_A           13 RIGRIIIPAGTRKFYGIEQGDFVEIKIVKYEGEEPKEGTFTARV--GEQGSVIIPKALRDV-----IGIKPGEVIEVLL   84 (92)
T ss_dssp             GGGEEECCHHHHHHHTCCTTCEEEEEEEEEETTEEEEEEEEEEC--CGGGEEECCHHHHHH-----HTCCTTCEEEEEE
T ss_pred             CCCEEEecHHHHHHcCCCCCCEEEEEEEEecCCccceeEEEEEE--CcCceEECcHHHHHH-----cCCCCCCEEEEEE
Confidence            4799999999999999999999999876666555    111110  122345667765443     4788999998864

>1cz4_A VCP-like ATPase; double-PSI beta-barrel, beta-CLAM, substrate recognition DOM hydrolase; NMR {Thermoplasma acidophilum} SCOP: b.52.2.3 d.31.1.1 PDB: 1cz5_A

Probab=89.03  E-value=0.31  Score=42.83  Aligned_cols=83  Identities=14%  Similarity=0.195  Sum_probs=59.4

Q ss_pred             CCeEeccHHHHHHcCCCCCCeEEEEEeecCCcceEEEeeCCcCcCCccccHHHHHhhcccceecccCCEEEEEECCEEEE
Q 020791           79 EGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKYY  158 (321)
Q Consensus        79 EG~i~LP~WMm~~L~l~egd~V~v~~~~LPkGt~vkLqP~s~~FldIsnpKavLE~~LRnys~LT~GD~I~I~yn~k~Y~  158 (321)
                      -|.|+|+.=.|+.|+|.+||.|.|+.   .+.+.++.-|...+  ++.+-.--|-..+|+-.-+..||.+.|.-      
T Consensus        21 r~ivrl~p~~m~~Lgl~~GD~V~I~G---~r~t~a~v~~~~~e--d~~~g~Irid~~~R~N~gv~iGD~V~V~~------   89 (185)
T 1cz4_A           21 MSRVRLDESSRRLLDAEIGDVVEIEK---VRKTVGRVYRARPE--DENKGIVRIDSVMRNNCGASIGDKVKVRK------   89 (185)
T ss_dssp             SSEEEECHHHHHTTCCCTTCEEEEES---SSEEEEEEEECSST--TTTTSEEECCHHHHHHHTCCTTCEEEEEE------
T ss_pred             CCEEEECHHHHHHcCCCCCCEEEEEc---CCeEEEEEEEcCcC--cCCCCEEEeCHHHHhccCCCCCCEEEEEE------
Confidence            37799999999999999999999975   56788888886322  11111222345566667789999999863      


Q ss_pred             EEEEEecCCCeeEEEeC
Q 020791          159 IDIIETKPSNAISIIET  175 (321)
Q Consensus       159 l~V~e~kP~~aVsIIeT  175 (321)
                         .+++++.-|.+--+
T Consensus        90 ---~~~~~A~~V~l~P~  103 (185)
T 1cz4_A           90 ---VRTEIAKKVTLAPI  103 (185)
T ss_dssp             ---ECCCBCSEEEEEEE
T ss_pred             ---CCCCCccEEEEecc
Confidence               35777777766533

>3tiw_A Transitional endoplasmic reticulum ATPase; beta-barrel alpha-helix, transport protein ATPase ubiquitin ubiquitin, phosphorylation; 1.80A {Homo sapiens} PDB: 3qq8_A 3qq7_A 3qc8_A

Probab=88.03  E-value=0.35  Score=42.85  Aligned_cols=71  Identities=20%  Similarity=0.242  Sum_probs=53.0

Q ss_pred             CCCeEeccHHHHHHcCCCCCCeEEEEEeecCCcceEEEeeCCcCcCCccccHHHHHhhcccceecccCCEEEEEEC
Q 020791           78 EEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYN  153 (321)
Q Consensus        78 ~EG~i~LP~WMm~~L~l~egd~V~v~~~~LPkGt~vkLqP~s~~FldIsnpKavLE~~LRnys~LT~GD~I~I~yn  153 (321)
                      +.|.+.|+.-.|+.|+|.+||.|.|+..+ -+-|.++..|.. +   ...-+--|-..+|+-..+..||.+.|.--
T Consensus        35 D~givrl~p~~m~~Lgl~~GD~V~I~Gkr-~k~Tva~v~~~~-~---~~~g~Irid~~~R~N~gV~iGD~V~V~~~  105 (187)
T 3tiw_A           35 DNSVVSLSQPKMDELQLFRGDTVLLKGKK-RREAVCIVLSDD-T---CSDEKIRMNRVVRNNLRVRLGDVISIQPC  105 (187)
T ss_dssp             CTTEEEECHHHHHHHTCCTTCEEEEECST-TCEEEEEEEECT-T---SCTTEEEECHHHHHHTTCCTTCEEEEEEC
T ss_pred             CCcEEEECHHHHHHcCCCCCCEEEEECCC-CCeEEEEEEECC-C---CCCCEEEeCHHHHhhcCCCCCCEEEEEEC
Confidence            47899999999999999999999999742 124777888763 2   22222334566777788999999998643

>1qcs_A N-ethylmaleimide sensitive factor (NSF-N); double-PSI beta barrel alpha beta roll, fusion protein; 1.90A {Cricetulus griseus} SCOP: b.52.2.3 d.31.1.1 PDB: 1qdn_A

Probab=87.50  E-value=2.1  Score=38.11  Aligned_cols=88  Identities=13%  Similarity=0.222  Sum_probs=62.1

Q ss_pred             CCCeEeccHHHHHHcCCCCCCeEEEEEeecCCc-ceEEEeeCCcCcCC--c-----cccHHHHHhhcccce--ecccCCE
Q 020791           78 EEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKG-TYVKLQPHTKDFLD--I-----SNPKAILETTLRNYS--CLTTGDS  147 (321)
Q Consensus        78 ~EG~i~LP~WMm~~L~l~egd~V~v~~~~LPkG-t~vkLqP~s~~Fld--I-----snpKavLE~~LRnys--~LT~GD~  147 (321)
                      +.|+|.|-.-.-+.+++.-||.|.|+.-..+.. .|+-.-=.+.||+.  -     -|-..+-..-+++|.  .||.|..
T Consensus        60 ~~G~Igls~~QR~wa~lsl~~~v~V~~y~~~~~~~~l~si~lEidf~~k~~~~~~~~D~dela~~f~~~F~~Qift~gQ~  139 (211)
T 1qcs_A           60 VPGSVAFSLPQRKWAGLSIGQEIEVALYSFDKAKQCIGTMTIEIDFLQKKNIDSNPYDTDKMAAEFIQQFNNQAFSVGQQ  139 (211)
T ss_dssp             CTTEEEECHHHHHHHTCCTTCEEEEEEECCCHHHHBEEEEEEEEEESCGGGCCCCEEEHHHHHHHHHHHHTTCEEETTCE
T ss_pred             CCCEeecCHHHHhhhcccCCCcEEEEEecCCCCCceEEEEEEEEEehhcCCCCCcccCHHHHHHHHHHHHcCCCCCCCCE
Confidence            689999998888888999999999987654421 23322223345542  1     233444444555666  5999999


Q ss_pred             EEEEECCEEEEEEEEEec
Q 020791          148 IMVAYNNKKYYIDIIETK  165 (321)
Q Consensus       148 I~I~yn~k~Y~l~V~e~k  165 (321)
                      |.+.|++..|.|.|.+++
T Consensus       140 l~f~~~g~~l~l~V~~v~  157 (211)
T 1qcs_A          140 LVFSFNDKLFGLLVKDIE  157 (211)
T ss_dssp             EEEEETTEEEEEEEEEEE
T ss_pred             EEEEECCcEEEEEEeEEE
Confidence            999999999999888754

>1cr5_A SEC18P (residues 22 - 210); double-PSI beta barrel, vesicle fusion, endocytosis/exocytosis complex; 2.30A {Saccharomyces cerevisiae} SCOP: b.52.2.3 d.31.1.1

Probab=86.05  E-value=3  Score=36.56  Aligned_cols=88  Identities=13%  Similarity=0.102  Sum_probs=61.5

Q ss_pred             CCCeEeccHHHHHHcCCCCCCeEEEEEeecC----CcceEEEeeCCcCcCC------c-cccHHHHHhhcccce--eccc
Q 020791           78 EEGMIYMPYWMMENLLLQEGDIVRVKNVTLP----KGTYVKLQPHTKDFLD------I-SNPKAILETTLRNYS--CLTT  144 (321)
Q Consensus        78 ~EG~i~LP~WMm~~L~l~egd~V~v~~~~LP----kGt~vkLqP~s~~Fld------I-snpKavLE~~LRnys--~LT~  144 (321)
                      +.|+|.|-.-.-+.+++.-||.|.|+.-..|    ...++-.-=.+.+|+.      . -|-..+-..-+++|.  .||.
T Consensus        54 ~~G~I~ls~~QR~wa~lsl~~~v~V~~y~p~~~~~~~~~l~si~lEidf~~k~~~~~~~~D~dela~~f~~~F~~Qift~  133 (189)
T 1cr5_A           54 PPGTIGFNGNQRTWGGWSLNQDVQAKAFDLFKYSGKQSYLGSIDIDISFRARGKAVSTVFDQDELAKQFVRCYESQIFSP  133 (189)
T ss_dssp             CTTEEEECHHHHHHHTCCTTCEEEEEECCHHHHHTTCCEEEEEEEEEEECC-------CCCHHHHHHHHHHHHTTCEECT
T ss_pred             CCCEEecCHHHHHhhcccCCCeEEEEEeCCccCCCCcceEEEEEEEEEehhcCCCCCCccCHHHHHHHHHHHHcCCCCCC
Confidence            6899999988888889999999999977542    1133322223334441      1 234444445555666  6999


Q ss_pred             CCEEEEEECCEEEEEEEEEec
Q 020791          145 GDSIMVAYNNKKYYIDIIETK  165 (321)
Q Consensus       145 GD~I~I~yn~k~Y~l~V~e~k  165 (321)
                      |..|.+.|++..|.|.|.++.
T Consensus       134 gQ~l~f~~~g~~l~l~V~~i~  154 (189)
T 1cr5_A          134 TQYLIMEFQGHFFDLKIRNVQ  154 (189)
T ss_dssp             TCEEEEEETTEEEEEEEEEEE
T ss_pred             CCEEEEEECCcEEEEEEEEEE
Confidence            999999999999999987764

>2l66_A SSO7C4, transcriptional regulator, ABRB family; DNA binding protein, transcription regulator; NMR {Sulfolobus solfataricus}

Probab=85.54  E-value=0.66  Score=32.73  Aligned_cols=38  Identities=16%  Similarity=0.263  Sum_probs=30.4

Q ss_pred             eCCCeEeccHHHHHHcCCCCCCeEEEEEeecCCcceEEEeeC
Q 020791           77 AEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPH  118 (321)
Q Consensus        77 A~EG~i~LP~WMm~~L~l~egd~V~v~~~~LPkGt~vkLqP~  118 (321)
                      ...|.|.+|.=+.+.|+|++||.|.+...   .+. +.|+|.
T Consensus         9 ~~kgqi~IPk~ir~~lgi~~Gd~v~i~~~---~~~-ivl~p~   46 (53)
T 2l66_A            9 SRNYQVTIPAKVRQKFQIKEGDLVKVTFD---ESE-GVVKIQ   46 (53)
T ss_dssp             CSSSCBCCCHHHHHHSCCCTTCEEEEEEC---SSS-CCEEEE
T ss_pred             CCCCEEEeCHHHHHHcCcCCCCEEEEEEE---CCE-EEEEEC
Confidence            46799999999999999999999988753   232 666664

>3qwz_A Transitional endoplasmic reticulum ATPase; UBX, P97 binding, transport protein; HET: MLY; 2.00A {Homo sapiens} PDB: 2pjh_B

Probab=84.96  E-value=0.57  Score=42.25  Aligned_cols=85  Identities=19%  Similarity=0.254  Sum_probs=60.0

Q ss_pred             CCCeEeccHHHHHHcCCCCCCeEEEEEeecCCcceEEEeeCCcCcCCccccHHHHHhhcccceecccCCEEEEEECCEEE
Q 020791           78 EEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVAYNNKKY  157 (321)
Q Consensus        78 ~EG~i~LP~WMm~~L~l~egd~V~v~~~~LPkGt~vkLqP~s~~FldIsnpKavLE~~LRnys~LT~GD~I~I~yn~k~Y  157 (321)
                      +.|.|.|+.-.|+.|+|.+||.|.|+..+ -+-|.+...|.. +   ...-+--|-..+|+-..+..||.+.|.--.   
T Consensus        38 Drgivrl~p~~m~~Lgl~~GD~V~I~Gkr-~k~Tva~v~~~~-~---~~~g~Irid~~~R~N~gV~iGD~V~V~~~~---  109 (211)
T 3qwz_A           38 DNSVVSLSQPKMDELQLFRGDTVLLKGXK-RREAVCIVLSDD-T---CSDEKIRMNRVVRNNLRVRLGDVISIQPCP---  109 (211)
T ss_dssp             CTTEEEECHHHHHHHTCCBTCEEEEECST-TCEEEEEEEECT-T---SCTTEEEECHHHHHHTTCCTTCEEEEEECT---
T ss_pred             CCcEEEECHHHHHHcCCCCCCEEEEeCCC-CCcEEEEEEeCC-C---CCCCEEEeCHHHHhhcCCCCCCEEEEEECC---
Confidence            47899999999999999999999999742 224777777753 2   222223345667777889999999986321   


Q ss_pred             EEEEEEecCCCeeEEEeC
Q 020791          158 YIDIIETKPSNAISIIET  175 (321)
Q Consensus       158 ~l~V~e~kP~~aVsIIeT  175 (321)
                           +++++.-|.+.=+
T Consensus       110 -----~v~~A~~V~LaP~  122 (211)
T 3qwz_A          110 -----DVKYGKRIHVLPI  122 (211)
T ss_dssp             -----TCCBCSEEEEEEB
T ss_pred             -----CCCCceEEEEecc
Confidence                 4566666666544

---

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	Length	Definition	Probability
Query	321
d1e32a3	94	Membrane fusion atpase p97 domain 2, P97-Nc {Mouse	96.58
d1cz5a2	94	C-terminal domain of VAT-N, VAT-Nc {Archaeon Therm	94.33
d1wlfa1	80	Peroxisome biogenesis factor 1 (PEX-1), domain 2 {	92.63
d1e32a1	86	Membrane fusion ATPase p97 N-terminal domain , P97	90.47
d1cz5a1	91	N-terminal domain of VAT-N, VAT-Nn {Archaeon Therm	80.1

>d1e32a3 d.31.1.1 (A:107-200) Membrane fusion atpase p97 domain 2, P97-Nc {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Cdc48 domain 2-like
superfamily: Cdc48 domain 2-like
family: Cdc48 domain 2-like
domain: Membrane fusion atpase p97 domain 2, P97-Nc
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.58  E-value=0.0072  Score=46.91  Aligned_cols=76  Identities=20%  Similarity=0.313  Sum_probs=57.1

Q ss_pred             ecCCcceEEEeeCCcCcCCcc-c-cHHHHHhhcc-cceecccCCEEEEEECCEEEEEEEEEecCCCeeEEEeCceeeeec
Q 020791          106 TLPKGTYVKLQPHTKDFLDIS-N-PKAILETTLR-NYSCLTTGDSIMVAYNNKKYYIDIIETKPSNAISIIETDCEVDFA  182 (321)
Q Consensus       106 ~LPkGt~vkLqP~s~~FldIs-n-pKavLE~~LR-nys~LT~GD~I~I~yn~k~Y~l~V~e~kP~~aVsIIeTDleVDF~  182 (321)
                      .+|-|+.|.+-|-+..--.|+ | .+.+|.-.+. +|--|++||++.|....+.-+++|++++|++ .|||-.|-.+.-.
T Consensus         1 di~~~krV~vlP~~DTieglsgnlf~~ylkPYf~~~yrPv~~gD~f~v~g~~r~VEFKVv~~dp~~-~~iV~~~T~I~~e   79 (94)
T d1e32a3           1 DVKYGKRIHVLPIDDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSP-YCIVAPDTVIHCE   79 (94)
T ss_dssp             TCCBCSCEEEEEBGGGTTTCBSCHHHHTHHHHHTTSCEEEETTCEEEEEETTEEEEEEEEEESSSS-EEEECTTCCCBCC
T ss_pred             CCCcccEEEEEecccccCCCCccHHHHHHhHHHhhcCccccCCCEEEEccCCeeEEEEEEeecCCC-ceEEcCCCEEEeC
Confidence            368889999999764443333 1 3445555555 6889999999999999999999999999998 5777666555544

>d1cz5a2 d.31.1.1 (A:92-185) C-terminal domain of VAT-N, VAT-Nc {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Cdc48 domain 2-like
superfamily: Cdc48 domain 2-like
family: Cdc48 domain 2-like
domain: C-terminal domain of VAT-N, VAT-Nc
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=94.33  E-value=0.031  Score=42.76  Aligned_cols=73  Identities=15%  Similarity=0.195  Sum_probs=52.4

Q ss_pred             CcceEEEeeCCcCcCCc---cccHHHHHhhcccceecccCCEEEEEE----CCEEEEEEEEEecCCCeeEEEeCceeeee
Q 020791          109 KGTYVKLQPHTKDFLDI---SNPKAILETTLRNYSCLTTGDSIMVAY----NNKKYYIDIIETKPSNAISIIETDCEVDF  181 (321)
Q Consensus       109 kGt~vkLqP~s~~FldI---snpKavLE~~LRnys~LT~GD~I~I~y----n~k~Y~l~V~e~kP~~aVsIIeTDleVDF  181 (321)
                      .|+-|.|.|-...-..|   .|.-..|-+.|..+ -+++||+|.|..    .++...|.|++++|....++|.-|=++++
T Consensus         3 ~A~kVvLAP~~~~~~~i~~~~~~~~ylk~~L~gr-PV~~GD~i~v~~~~~~g~~~i~F~Vv~t~P~g~~ViIt~~TeI~i   81 (94)
T d1cz5a2           3 IAKKVTLAPIIRKDQRLKFGEGIEEYVQRALIRR-PMLEQDNISVPGLTLAGQTGLLFKVVKTLPSKVPVEIGEETKIEI   81 (94)
T ss_dssp             BCSEEEEEECSCTTTTCCCCSSHHHHHHHHHSSC-EECTTCEECCSSCCCSSCCCCSEEEEEESSSSSCEECCTTCEEEE
T ss_pred             cccEEEECcCCCccceEEEcCCHHHHHHHHHcCC-CCcCCCEEEEeeccccCCceEeEEEEEEeCCCCeEEECCCeEEEE
Confidence            47889999964333333   36667777788774 689999999954    34778899999999986556655555555


Q ss_pred             c
Q 020791          182 A  182 (321)
Q Consensus       182 ~  182 (321)
                      .
T Consensus        82 ~   82 (94)
T d1cz5a2          82 R   82 (94)
T ss_dssp             C
T ss_pred             e
Confidence            3

>d1wlfa1 d.31.1.1 (A:100-179) Peroxisome biogenesis factor 1 (PEX-1), domain 2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Cdc48 domain 2-like
superfamily: Cdc48 domain 2-like
family: Cdc48 domain 2-like
domain: Peroxisome biogenesis factor 1 (PEX-1), domain 2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.63  E-value=0.03  Score=42.03  Aligned_cols=75  Identities=17%  Similarity=0.239  Sum_probs=62.0

Q ss_pred             CcceEEEeeCCcCcCCc-cccHHHHHhhcc-cceecccCCEEEEEEC-CEEEEEEEEEecCCCeeEEEeCceeeeecC
Q 020791          109 KGTYVKLQPHTKDFLDI-SNPKAILETTLR-NYSCLTTGDSIMVAYN-NKKYYIDIIETKPSNAISIIETDCEVDFAP  183 (321)
Q Consensus       109 kGt~vkLqP~s~~FldI-snpKavLE~~LR-nys~LT~GD~I~I~yn-~k~Y~l~V~e~kP~~aVsIIeTDleVDF~p  183 (321)
                      +++.|-+.|.+.|=++| +-.-..||..|- .-.+++.|.+|.++-+ +..-.|.|..++|......+..|-||=++|
T Consensus         3 ~~~~V~veP~T~dDWEIiEl~a~~lE~~LL~QiRiV~~~~~~~v~v~~~~~~~~~V~~i~P~~~~~~L~~~TEv~VaP   80 (80)
T d1wlfa1           3 SCQQVEVEPLSADDWEILELHAISLEQHLLDQIRIVFPKAVVPIWVDQQTYIFIQIVTLMPAAPYGRLETNTKLLIQP   80 (80)
T ss_dssp             ECSEEEEEESSHHHHHHHHHSCSSHHHHHHHHCCEECTTCEEEEESSSSCEEEEEEEEEESCCSSEECCTTCEEEECC
T ss_pred             ceEEEEEecCChhhHHHHHHHHHHHHHHHHhheeeccCCCEEEEEECCCcEEEEEEEEecCCCeeEEecCCCEEEeCC
Confidence            57889999999876663 455566777776 5889999999999987 477889999999998888999999987765

>d1e32a1 b.52.2.3 (A:21-106) Membrane fusion ATPase p97 N-terminal domain , P97-Nn {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: Double psi beta-barrel
superfamily: ADC-like
family: Cdc48 N-terminal domain-like
domain: Membrane fusion ATPase p97 N-terminal domain , P97-Nn
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.47  E-value=0.1  Score=39.10  Aligned_cols=70  Identities=23%  Similarity=0.258  Sum_probs=47.9

Q ss_pred             eCCCeEeccHHHHHHcCCCCCCeEEEEEeecCCcceEEEeeCCcCcCCccccHHHHHhhcccceecccCCEEEEE
Q 020791           77 AEEGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTKDFLDISNPKAILETTLRNYSCLTTGDSIMVA  151 (321)
Q Consensus        77 A~EG~i~LP~WMm~~L~l~egd~V~v~~~~LPkGt~vkLqP~s~~FldIsnpKavLE~~LRnys~LT~GD~I~I~  151 (321)
                      .+.|.+.|..=.|+.|+|.+||.|.|+-.   +.+-...-|...+  +...=.--|-...|+=..++.||++.|.
T Consensus        14 ~D~~iarl~p~~m~~Lgl~~GD~V~I~Gk---r~t~av~~~~~~~--d~~~g~Irid~~~R~Nagv~iGD~V~V~   83 (86)
T d1e32a1          14 EDNSVVSLSQPKMDELQLFRGDTVLLKGK---KRREAVCIVLSDD--TCSDEKIRMNRVVRNNLRVRLGDVISIQ   83 (86)
T ss_dssp             CCTTEEEECHHHHHHTTCCTTCEEEEECS---TTCEEEEEEEECT--TSCSSEEEECHHHHHHTTCCTTCEEEEE
T ss_pred             CCCCEEEECHHHHHHcCCCCCCEEEEEcC---CceeEEEEEeccC--CCCCCEEEecHHHHhhcCcCCCCEEEEE
Confidence            35789999999999999999999999876   3444444443222  1111112244566666788999999885

>d1cz5a1 b.52.2.3 (A:1-91) N-terminal domain of VAT-N, VAT-Nn {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: All beta proteins
fold: Double psi beta-barrel
superfamily: ADC-like
family: Cdc48 N-terminal domain-like
domain: N-terminal domain of VAT-N, VAT-Nn
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=80.10  E-value=0.52  Score=35.56  Aligned_cols=67  Identities=18%  Similarity=0.180  Sum_probs=47.7

Q ss_pred             CCeEeccHHHHHHcCCCCCCeEEEEEeecCCcceEEEeeCCc-CcCCccccHHHHHhhcccceecccCCEEEEE
Q 020791           79 EGMIYMPYWMMENLLLQEGDIVRVKNVTLPKGTYVKLQPHTK-DFLDISNPKAILETTLRNYSCLTTGDSIMVA  151 (321)
Q Consensus        79 EG~i~LP~WMm~~L~l~egd~V~v~~~~LPkGt~vkLqP~s~-~FldIsnpKavLE~~LRnys~LT~GD~I~I~  151 (321)
                      -|.+.|+.-.|+.|+|.+||.|.|+..   +-|.++.-|... |.-+   -.--|-..+|+=.-...||.+.|.
T Consensus        21 rgiari~~~~m~~Lgl~~GD~V~I~Gk---r~t~a~v~~~~~~d~~~---g~IriDg~~R~Nagv~iGD~V~V~   88 (91)
T d1cz5a1          21 MSRVRLDESSRRLLDAEIGDVVEIEKV---RKTVGRVYRARPEDENK---GIVRIDSVMRNNCGASIGDKVKVR   88 (91)
T ss_dssp             SSEEEECHHHHHTTSCCTTCEEEEESS---SEEEEEEEECSSTTTTT---SEEECCHHHHHHHTCCTTCCEEEE
T ss_pred             CcEEEECHHHHHHcCCCCCCEEEEEcC---ceEEEEEEecCcccCCC---CEEEEcHHHHHhCCCCCCCEEEEE
Confidence            489999999999999999999999975   458888877643 3321   011123344555567788888875