Citrus Sinensis ID: 047222

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340--
AYENHHDAAFERKYRCYPISFIDKPHLENGDKIVMPPSALDRLAYLHIEYPMLFELSNTSAGRVTYCGVMEFIADEGLIYLPYWMMENMLLQEGDIVEVKNASLAKGSYVKLQPHTKDFLDISNPKAVLETTLRSYSCLTTGDTIMVPYNNKKYYINVVETKPSTAVSIIETDCEVDFIPPLDFKEPEKPSSSSLSNRTLPEVKEEPPLDFKGPEKPSSSSLSNRTPPEVKEEPPKKIAKFSPFTGSGRCLNGKSSTQPTVSPSSPLIDNPQQNAANGINGSKSSSASSRQKSGKLVFGSNANQSSNGTPKVLPKSSSGEPPQVEEKPKFQAFTGKKYSLRG
cccccccccccEEEEEEEEEcccccccccccEEEccHHHHHHHHHccccccEEEEEEccccccEEEEEEEEEEccccEEEccHHHHHHcccccccEEEEEEEEcccccEEEEEEcccccccccccHHHHHHcccccEEEEcccEEEEEEccEEEEEEEEEEccccEEEEEEccEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccccccc
cccccccccccEEEEEEEEEEEcccccccccEEEccHHHHHHHHHccccccEEEEEEcccccccccccEEEEEcccccEEcHHHHHHHcccccccEEEEEEccccccEEEEEccccccHcccccHHHHHHHHHHHHHHHccccEEEEEEcccEEEEEEEEEcccccEEEEEEccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccEccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccEcccccEccc
AYENHHDAAFerkyrcypisfidkphlengdkivmppsalDRLAYLHIEYPMLFelsntsagrvtYCGVMEFIadegliylpyWMMENMLlqegdivevknaslakgsyvklqphtkdfldisnpkAVLETTLRSysclttgdtimvpynnkKYYINVVETKPSTAVSIIEtdcevdfippldfkepekpsssslsnrtlpevkeeppldfkgpekpsssslsnrtppevkeeppkkiakfspftgsgrclngksstqptvspssplidnpqqnaangingsksssassrqksgklvfgsnanqssngtpkvlpksssgeppqveekpkfqaftgkkyslrg
ayenhhdaaferkyrcYPISFIDKPHLENGDKIVMPPSALDRLAYLHIEYPMLFELSNTSAGRVTYCGVMEFIADEGLIYLPYWMMENMLLQEGDIVEVKNASLAKGSYVklqphtkdfldisnPKAVLETTLRSYSClttgdtimvpynnKKYYINVVETKPSTAVSIIETDCEVDFIPPldfkepekpsssslsnrtlpevkeeppldfkgpekpsssslsnrtppevkeeppkkiakfspftgsgrcLNGKSSTQPTVSPSSPLIDNPQQNAANGINGSKSSSASSRQKSGKLvfgsnanqssngtpkvlpksssgeppqveekpkfqaftgkkyslrg
AYENHHDAAFERKYRCYPISFIDKPHLENGDKIVMPPSALDRLAYLHIEYPMLFELSNTSAGRVTYCGVMEFIADEGLIYLPYWMMENMLLQEGDIVEVKNASLAKGSYVKLQPHTKDFLDISNPKAVLETTLRSYSCLTTGDTIMVPYNNKKYYINVVETKPSTAVSIIETDCEVDFIPPLDFKEPEKPsssslsNRTLPEVKEEPPLDFKGPEKPSSSSLSNRTppevkeeppkkIAKFSPFTGSGRCLNGKsstqptvspsspLIDNPQQnaangingsksssassrqksgkLVFGSNANQSSNGTPKVLPKSSSGEPPQVEEKPKFQAFTGKKYSLRG
********AFERKYRCYPISFIDKPHLENGDKIVMPPSALDRLAYLHIEYPMLFELSNTSAGRVTYCGVMEFIADEGLIYLPYWMMENMLLQEGDIVEVKNASLAKGSYVKLQPHTKDFLDISNPKAVLETTLRSYSCLTTGDTIMVPYNNKKYYINVVETKPSTAVSIIETDCEVDFIPPL****************************************************************************************************************************************************************
**********ERKYRCYPISFI**********IVMPPSALDRLAYLHIEYPMLFELSNTSAGRVTYCGVMEFIADEGLIYLPYWMMENMLLQEGDIVEVKNASLAKGSYVKLQPHTKDFLDISNPKAVLETTLRSYSCLTTGDTIMVPYNNKKYYINVVETKPSTAVSIIETDCEVDFIPPL*************************************************************************************************************KSGKLVFGSNAN********************************KKYSL**
********AFERKYRCYPISFIDKPHLENGDKIVMPPSALDRLAYLHIEYPMLFELSNTSAGRVTYCGVMEFIADEGLIYLPYWMMENMLLQEGDIVEVKNASLAKGSYVKLQPHTKDFLDISNPKAVLETTLRSYSCLTTGDTIMVPYNNKKYYINVVETKPSTAVSIIETDCEVDFIPPLDFK**************************************************KKIAKFSPFTGSGRCLN************SPLIDNPQQNAAN*****************KLVFGSNA**************************KFQAFTGKKYSLRG
****HHDAAFERKYRCYPISFIDKPHLENGDKIVMPPSALDRLAYLHIEYPMLFELSNTSAGRVTYCGVMEFIADEGLIYLPYWMMENMLLQEGDIVEVKNASLAKGSYVKLQPHTKDFLDISNPKAVLETTLRSYSCLTTGDTIMVPYNNKKYYINVVETKPSTAVSIIETDCEVDFIPPLDFKE**************************************************************************************************SSASSRQKSGKLVFGSNAN***************************************
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AYENHHDAAFERKYRCYPISFIDKPHLENGDKIVMPPSALDRLAYLHIEYPMLFELSNTSAGRVTYCGVMEFIADEGLIYLPYWMMENMLLQEGDIVEVKNASLAKGSYVKLQPHTKDFLDISNPKAVLETTLRSYSCLTTGDTIMVPYNNKKYYINVVETKPSTAVSIIETDCEVDFIPPLDFKEPEKPSSSSLSNRTLPEVKEEPPLDFKGPEKPSSSSLSNRTPPEVKEEPPKKIAKFSPFTGSGRCLNGKSSTQPTVSPSSPLIDNPQQNAANGINGSKSSSASSRQKSGKLVFGSNANQSSNGTPKVLPKSSSGEPPQVEEKPKFQAFTGKKYSLRG
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query342 2.2.26 [Sep-21-2011]
Q55BK0330 Ubiquitin fusion degradat yes no 0.532 0.551 0.561 2e-61
Q9ES53307 Ubiquitin fusion degradat yes no 0.666 0.742 0.446 3e-60
P70362307 Ubiquitin fusion degradat yes no 0.666 0.742 0.446 4e-60
Q92890307 Ubiquitin fusion degradat yes no 0.666 0.742 0.446 8e-60
Q9VTF9316 Ubiquitin fusion degradat yes no 0.540 0.585 0.505 3e-54
O42915342 Ubiquitin fusion degradat yes no 0.543 0.543 0.458 7e-50
P53044361 Ubiquitin fusion degradat yes no 0.523 0.495 0.478 9e-48
Q19584342 Ubiquitin fusion degradat yes no 0.625 0.625 0.383 8e-38
>sp|Q55BK0|UFD1_DICDI Ubiquitin fusion degradation protein 1 homolog OS=Dictyostelium discoideum GN=ufd1 PE=3 SV=1 Back     alignment and function desciption
 Score =  236 bits (602), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 105/187 (56%), Positives = 148/187 (79%), Gaps = 5/187 (2%)

Query: 5   HHDAA---FERKYRCYPISFI--DKPHLENGDKIVMPPSALDRLAYLHIEYPMLFELSNT 59
           HH      +E+K++ +PISF+  +K  LE+G KI++PPSAL+ L+ L+I+YPMLFE+SN 
Sbjct: 17  HHHGGPGRYEQKFKAFPISFLPKEKHSLESGGKILLPPSALNALSRLNIQYPMLFEISNP 76

Query: 60  SAGRVTYCGVMEFIADEGLIYLPYWMMENMLLQEGDIVEVKNASLAKGSYVKLQPHTKDF 119
            +G+ ++CGV+EFIA+EG+ YLP WMM+N+ L+EG+ +++KNA+LAKG++VK+QP T +F
Sbjct: 77  ISGKKSHCGVLEFIAEEGICYLPLWMMQNLQLKEGEFIDIKNATLAKGTFVKIQPRTSNF 136

Query: 120 LDISNPKAVLETTLRSYSCLTTGDTIMVPYNNKKYYINVVETKPSTAVSIIETDCEVDFI 179
           +DISNPKAVLE +LR ++ LT  D IM+ YNN KYY+ VVE KP+ A+SIIE D  VDF 
Sbjct: 137 IDISNPKAVLENSLRKFATLTKDDEIMIDYNNTKYYLKVVELKPANAISIIEADVSVDFA 196

Query: 180 PPLDFKE 186
           PP+D KE
Sbjct: 197 PPMDSKE 203
Functions at a post-ubiquitation step in the ubiquitin fusion degradation (UFD) pathway.
Dictyostelium discoideum (taxid: 44689)
>sp|Q9ES53|UFD1_RAT Ubiquitin fusion degradation protein 1 homolog OS=Rattus norvegicus GN=Ufd1l PE=1 SV=1 Back     alignment and function description
>sp|P70362|UFD1_MOUSE Ubiquitin fusion degradation protein 1 homolog OS=Mus musculus GN=Ufd1l PE=1 SV=2 Back     alignment and function description
>sp|Q92890|UFD1_HUMAN Ubiquitin fusion degradation protein 1 homolog OS=Homo sapiens GN=UFD1L PE=1 SV=3 Back     alignment and function description
>sp|Q9VTF9|UFD1_DROME Ubiquitin fusion degradation protein 1 homolog OS=Drosophila melanogaster GN=Ufd1-like PE=2 SV=1 Back     alignment and function description
>sp|O42915|UFD1_SCHPO Ubiquitin fusion degradation protein 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ufd1 PE=2 SV=4 Back     alignment and function description
>sp|P53044|UFD1_YEAST Ubiquitin fusion degradation protein 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=UFD1 PE=1 SV=1 Back     alignment and function description
>sp|Q19584|UFD1_CAEEL Ubiquitin fusion degradation protein 1 homolog OS=Caenorhabditis elegans GN=ufd-1 PE=2 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query342
255586174315 ubiquitin fusion degradaton protein, put 0.906 0.984 0.658 1e-124
118485222314 unknown [Populus trichocarpa] 0.909 0.990 0.65 1e-123
224059470306 predicted protein [Populus trichocarpa] 0.894 1.0 0.650 1e-121
356557947318 PREDICTED: ubiquitin fusion degradation 0.915 0.984 0.630 1e-117
42570967312 ubiquitin fusion degradation UFD1-like p 0.888 0.974 0.603 1e-109
297822635313 predicted protein [Arabidopsis lyrata su 0.900 0.984 0.603 1e-109
356547269316 PREDICTED: LOW QUALITY PROTEIN: ubiquiti 0.891 0.965 0.613 1e-108
357521303320 Ubiquitin fusion degradation protein [Me 0.897 0.959 0.587 1e-106
192911936320 ubiquitin fusion degradation protein [El 0.897 0.959 0.605 1e-106
118488238324 unknown [Populus trichocarpa] 0.900 0.950 0.583 1e-106
>gi|255586174|ref|XP_002533746.1| ubiquitin fusion degradaton protein, putative [Ricinus communis] gi|223526334|gb|EEF28633.1| ubiquitin fusion degradaton protein, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  451 bits (1160), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 222/337 (65%), Positives = 258/337 (76%), Gaps = 27/337 (8%)

Query: 5   HHDAAFERKYRCYPISFIDKPHLENGDKIVMPPSALDRLAYLHIEYPMLFELSNTSAGRV 64
           H+ + FER YRCYP SFIDKPHLE GDKI+MPPSALD+LA LHI+YPMLFEL N SA RV
Sbjct: 6   HNSSMFERSYRCYPGSFIDKPHLEKGDKIIMPPSALDQLASLHIDYPMLFELRNPSAERV 65

Query: 65  TYCGVMEFIADEGLIYLPYWMMENMLLQEGDIVEVKNASLAKGSYVKLQPHTKDFLDISN 124
           T+CGV+EF+ADEGLI+LPYWMMENMLLQEGD+V++KNASL KG+YVKLQPHT DFLDISN
Sbjct: 66  THCGVLEFVADEGLIFLPYWMMENMLLQEGDLVQLKNASLMKGTYVKLQPHTTDFLDISN 125

Query: 125 PKAVLETTLRSYSCLTTGDTIMVPYNNKKYYINVVETKPSTAVSIIETDCEVDFIPPLDF 184
           PKA+LET+LR+YSCLTTGDTIMV YNNKKYYI++VETKPS AVSIIETDCEVDF PPLD+
Sbjct: 126 PKAILETSLRNYSCLTTGDTIMVAYNNKKYYIDIVETKPSPAVSIIETDCEVDFAPPLDY 185

Query: 185 KEPEKPSSSSLSNRTLPEVKEEPPLDFKGPEKPSSSSLSNRTPPEVKEEPPKKIAKFSPF 244
           KEPEKPS S  SN+T P                           +V+EEP KKI KFSPF
Sbjct: 186 KEPEKPSPSPRSNQTRP---------------------------KVEEEPAKKIPKFSPF 218

Query: 245 TGSGRCLNGKSSTQPTVSPSSPLIDNPQQNAANGINGSKSSSASSRQKSGKLVFGSNANQ 304
           +G+ R L+GK STQP  + + P++   Q  A   I GSK S+A+SR  SGKL+FGSNANQ
Sbjct: 219 SGAARRLDGKLSTQPVAAVTEPVLKQHQSEAGTDIRGSKPSNAASRSHSGKLIFGSNANQ 278

Query: 305 SSNGTPKVLPKSSSGEPPQVEEKPKFQAFTGKKYSLR 341
             N   ++  K SS E PQ  E PKFQAFTGK+YSL+
Sbjct: 279 PQNEAREIAAKKSSPEAPQKAEPPKFQAFTGKRYSLK 315

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|118485222|gb|ABK94471.1| unknown [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224059470|ref|XP_002299862.1| predicted protein [Populus trichocarpa] gi|222847120|gb|EEE84667.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356557947|ref|XP_003547271.1| PREDICTED: ubiquitin fusion degradation protein 1 homolog [Glycine max] Back     alignment and taxonomy information
>gi|42570967|ref|NP_973557.1| ubiquitin fusion degradation UFD1-like protein [Arabidopsis thaliana] gi|44917441|gb|AAS49045.1| At2g29070 [Arabidopsis thaliana] gi|45773886|gb|AAS76747.1| At2g29070 [Arabidopsis thaliana] gi|111609944|gb|ABH11522.1| UFD1c [synthetic construct] gi|330253112|gb|AEC08206.1| ubiquitin fusion degradation UFD1-like protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297822635|ref|XP_002879200.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297325039|gb|EFH55459.1| predicted protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|356547269|ref|XP_003542038.1| PREDICTED: LOW QUALITY PROTEIN: ubiquitin fusion degradation protein 1 homolog [Glycine max] Back     alignment and taxonomy information
>gi|357521303|ref|XP_003630940.1| Ubiquitin fusion degradation protein [Medicago truncatula] gi|355524962|gb|AET05416.1| Ubiquitin fusion degradation protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|192911936|gb|ACF06576.1| ubiquitin fusion degradation protein [Elaeis guineensis] Back     alignment and taxonomy information
>gi|118488238|gb|ABK95938.1| unknown [Populus trichocarpa] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query342
TAIR|locus:2066122312 AT2G29070 [Arabidopsis thalian 0.608 0.666 0.730 1.5e-83
TAIR|locus:2050054340 UFD1 "AT2G21270" [Arabidopsis 0.646 0.65 0.669 5.2e-81
TAIR|locus:2120247315 AT4G38930 "AT4G38930" [Arabido 0.543 0.590 0.720 2.4e-76
DICTYBASE|DDB_G0271122330 ufd1 "ubiquitin fusion degrada 0.722 0.748 0.468 6.9e-63
MGI|MGI:109353307 Ufd1l "ubiquitin fusion degrad 0.529 0.589 0.556 8.8e-59
RGD|619822307 Ufd1l "ubiquitin fusion degrad 0.529 0.589 0.556 8.8e-59
UNIPROTKB|F1NVD8307 UFD1L "Uncharacterized protein 0.526 0.586 0.559 1.4e-58
ZFIN|ZDB-GENE-040718-150308 ufd1l "ubiquitin fusion degrad 0.526 0.584 0.559 9.9e-58
UNIPROTKB|Q92890307 UFD1L "Ubiquitin fusion degrad 0.526 0.586 0.554 9.9e-58
UNIPROTKB|J9NYF2307 UFD1L "Uncharacterized protein 0.526 0.586 0.554 3.3e-57
TAIR|locus:2066122 AT2G29070 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 837 (299.7 bits), Expect = 1.5e-83, P = 1.5e-83
 Identities = 152/208 (73%), Positives = 179/208 (86%)

Query:     8 AAFERKYRCYPISFIDKPHLENGDKIVMPPSALDRLAYLHIEYPMLFELSNTSAGRVTYC 67
             ++FE+ YRCYP++FIDK HLE GDKI+MPPSALDRLA LHIEYPMLF+LSN S  + ++C
Sbjct:     6 SSFEQCYRCYPVTFIDKAHLEKGDKIIMPPSALDRLASLHIEYPMLFQLSNVSVEKTSHC 65

Query:    68 GVMEFIADEGLIYLPYWMMENMLLQEGDIVEVKNASLAKGSYVKLQPHTKDFLDISNPKA 127
             GV+EF ADEGL+YLPYWMM+NM L+EGD+++VKN SL KG+Y+KLQPHT+DFLDISNPKA
Sbjct:    66 GVLEFTADEGLVYLPYWMMQNMSLEEGDVMQVKNISLVKGTYIKLQPHTQDFLDISNPKA 125

Query:   128 VLETTLRSYSCLTTGDTIMVPYNNKKYYINVVETKPSTAVSIIETDCEVDFIPPLDFKEP 187
             +LETTLRSYSCLTTGDTIMVPYNNK+YYINVVE KPS+AVSIIETDCEVDF PPLD+KEP
Sbjct:   126 ILETTLRSYSCLTTGDTIMVPYNNKQYYINVVEAKPSSAVSIIETDCEVDFAPPLDYKEP 185

Query:   188 EKPXXXXXXNRTLPEVKEEPPLDFKGPE 215
             EKP      N+   +VKEE     K P+
Sbjct:   186 EKPQKLTPSNKRPLQVKEEEEPASKVPK 213
GO:0005634 "nucleus" evidence=ISM
GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS
GO:0009507 "chloroplast" evidence=ISM
TAIR|locus:2050054 UFD1 "AT2G21270" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2120247 AT4G38930 "AT4G38930" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0271122 ufd1 "ubiquitin fusion degradation protein UFD1 family protein" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
MGI|MGI:109353 Ufd1l "ubiquitin fusion degradation 1 like" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|619822 Ufd1l "ubiquitin fusion degradation 1 like (yeast)" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|F1NVD8 UFD1L "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040718-150 ufd1l "ubiquitin fusion degradation 1-like" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|Q92890 UFD1L "Ubiquitin fusion degradation protein 1 homolog" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|J9NYF2 UFD1L "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
gw1.I.1211.1
SubName- Full=Putative uncharacterized protein; (306 aa)
(Populus trichocarpa)
Predicted Functional Partners:
eugene3.00160841
hypothetical protein (803 aa)
     •  0.800
eugene3.00120808
hypothetical protein (800 aa)
     •  0.800
estExt_fgenesh4_pm.C_280088
hypothetical protein (810 aa)
     •  0.800
estExt_fgenesh4_pg.C_LG_XV0552
hypothetical protein (814 aa)
     •  0.800

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query342
pfam03152176 pfam03152, UFD1, Ubiquitin fusion degradation prot 1e-111
COG5140331 COG5140, UFD1, Ubiquitin fusion-degradation protei 2e-63
PLN03086 567 PLN03086, PLN03086, PRLI-interacting factor K; Pro 3e-32
pfam0293361 pfam02933, CDC48_2, Cell division protein 48 (CDC4 0.002
>gnl|CDD|217391 pfam03152, UFD1, Ubiquitin fusion degradation protein UFD1 Back     alignment and domain information 
 Score =  319 bits (820), Expect = e-111
 Identities = 110/176 (62%), Positives = 143/176 (81%), Gaps = 3/176 (1%)

Query: 9   AFERKYRCYPISFIDKPH---LENGDKIVMPPSALDRLAYLHIEYPMLFELSNTSAGRVT 65
            FE+ YRCYP+SF+       +E G KI++PPSALDRL+ L+IEYPMLFEL N +  +VT
Sbjct: 1   RFEQTYRCYPVSFLPGNEREDIEYGGKIILPPSALDRLSRLNIEYPMLFELQNPANKKVT 60

Query: 66  YCGVMEFIADEGLIYLPYWMMENMLLQEGDIVEVKNASLAKGSYVKLQPHTKDFLDISNP 125
           +CGV+EFIA+EG IYLPYWMM+N+ L+EGD+V++ +ASL KG++VKLQP + DFLDISNP
Sbjct: 61  HCGVLEFIAEEGTIYLPYWMMQNLGLEEGDLVQITSASLPKGTFVKLQPQSTDFLDISNP 120

Query: 126 KAVLETTLRSYSCLTTGDTIMVPYNNKKYYINVVETKPSTAVSIIETDCEVDFIPP 181
           KAVLE  LR++S LT GDTI++ YN+K Y I+++E KP+ A+SIIETD EVDF PP
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] Back     alignment and domain information
>gnl|CDD|178635 PLN03086, PLN03086, PRLI-interacting factor K; Provisional Back     alignment and domain information
>gnl|CDD|202475 pfam02933, CDC48_2, Cell division protein 48 (CDC48), domain 2 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 342
KOG1816308 consensus Ubiquitin fusion-degradation protein [Po 100.0
COG5140331 UFD1 Ubiquitin fusion-degradation protein [Posttra 100.0
PF03152176 UFD1: Ubiquitin fusion degradation protein UFD1; I 100.0
PLN03086 567 PRLI-interacting factor K; Provisional 100.0
KOG0735 952 consensus AAA+-type ATPase [Posttranslational modi 96.11
PF0293364 CDC48_2: Cell division protein 48 (CDC48), domain 96.1
TIGR01243 733 CDC48 AAA family ATPase, CDC48 subfamily. This sub 95.5
PF0926280 PEX-1N: Peroxisome biogenesis factor 1, N-terminal 91.54
TIGR0143943 lp_hng_hel_AbrB looped-hinge helix DNA binding dom 83.36
>KOG1816 consensus Ubiquitin fusion-degradation protein [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information 
Probab=100.00  E-value=1.7e-98  Score=711.44  Aligned_cols=293  Identities=51%  Similarity=0.875  Sum_probs=241.6

Q ss_pred             ccccccccEEEeeeecccCC---CCCCCCeEecCHHHHHHHHhcCCCCCeEEEEEeCCCCCEEEEEEeeeeeCCCcEecc
Q 047222            6 HDAAFERKYRCYPISFIDKP---HLENGDKIVMPPSALDRLAYLHIEYPMLFELSNTSAGRVTYCGVMEFIADEGLIYLP   82 (342)
Q Consensus         6 ~~~~F~~~~rcyp~s~~~k~---~~~~GdKIiLPpSaL~~L~~l~i~~PmlF~L~n~~~~r~th~GVLEF~AeEG~i~LP   82 (342)
                      +|..|+++|||||++|+..+   ++++|||||||||||++|+++||.|||+|+|+|.+..|+||||||||+||||+||||
T Consensus        10 ~g~~f~~~yrcy~~~~l~~~~~s~~~~GgKIilPPSaL~~Ls~lnI~yPMlFkLtn~~~~r~THcGVLEF~AeEG~vyLP   89 (308)
T KOG1816|consen   10 RGFQFETSYRCYPVSFLPGPDRSDVNKGGKIILPPSALDRLSSLNITYPMLFKLTNVDVDRVTHCGVLEFTAEEGRVYLP   89 (308)
T ss_pred             CCcceeeeeEecccccccCccccccccCCeEEeCHHHHHHHHHhcCCCceEEEEeccccceeeeeeEEEEEecCceEEee
Confidence            46779999999999999654   999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCCCCCEEEEEEeecCCcceEEEeeCCcCcCCcCCcHHHHHHhhccCeeccCCCEEEEeeCCEEEEEEEEeec
Q 047222           83 YWMMENMLLQEGDIVEVKNASLAKGSYVKLQPHTKDFLDISNPKAVLETTLRSYSCLTTGDTIMVPYNNKKYYINVVETK  162 (342)
Q Consensus        83 ~WMm~~L~l~~gd~V~i~~~~LPkGt~vkLqP~s~~FldisnpKavLE~~LRnystLT~Gd~I~I~yn~~~y~l~V~e~k  162 (342)
                      +|||++|+|+|||+|+|++++||+||||||||||.|||||+|||||||++||||+|||+||+|+|+||++.|+|+|+|+|
T Consensus        90 ~WMmq~L~le~gdlv~i~~v~lpkgtyvKLqP~s~dFLDItNpKAvLE~~LRn~acLT~gDvi~i~Yn~k~y~i~V~e~k  169 (308)
T KOG1816|consen   90 YWMMQNLLLEEGDLVRIRSVTLPKGTYVKLQPHSVDFLDITNPKAVLENALRNYACLTTGDVILINYNEKTYELKVVETK  169 (308)
T ss_pred             hHhhhhccCCCCCeEEEEEeeccccceeeeccCCCCccccCChHHHHHHHHhhccccccCCEEEEecCCeEEEEEEEEec
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCeeEEEecceeEeecCCCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccc
Q 047222          163 PSTAVSIIETDCEVDFIPPLDFKEPEKPSSSSLSNRTLPEVKEEPPLDFKGPEKPSSSSLSNRTPPEVKEEPPKKIAKFS  242 (342)
Q Consensus       163 P~~aVsIIdTDleVDf~pPldy~ep~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~  242 (342)
                      |++|||||||||+|||+||+||+||+++.++....++..++           .        ..  +.......  +.+|+
T Consensus       170 Pa~aVsIiEtD~~VDF~pP~gyke~~~~~~~~~~~k~~~~~-----------v--------~~--~ag~~~~~--e~~~~  226 (308)
T KOG1816|consen  170 PANAVSIIETDLNVDFDPPLGYKEPERQVAPAEKAKGEAEV-----------V--------GS--YAGYKNVI--ENKVE  226 (308)
T ss_pred             CCceeEEEEcceeecccCCcCccCcccccChhhccccccee-----------e--------cc--cccccccc--cccee
Confidence            99999999999999999999999999985443220000000           0        00  11101111  67899


Q ss_pred             cceeeceecCCCcCCCCCCCCCCCCCCCcccCcCCCCCCCCCCCCCCCCCCCeEEEccCCCCCCCCCCcccCCCCCCCCC
Q 047222          243 PFTGSGRCLNGKSSTQPTVSPSSPLIDNPQQNAANGINGSKSSSASSRQKSGKLVFGSNANQSSNGTPKVLPKSSSGEPP  322 (342)
Q Consensus       243 ~F~G~G~rLdGK~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gkl~Fg~~~~~~~~~~~~~~~~~~~~~~~  322 (342)
                      +|+|+|+|||||+...+.++  .|+...         ......+..++++.|+|+||+|.....+         ..+|++
T Consensus       227 ~f~gsg~rLdgK~~~~e~~~--~pv~~~---------~~~~~~~~~~d~~~G~l~F~~~~~~~~~---------~~~E~~  286 (308)
T KOG1816|consen  227 PFTGSGRRLDGKKKVEEVSK--HPVKNG---------DLIQRGVPNHDFKLGKLVFGRNVDPLKK---------ESEEKE  286 (308)
T ss_pred             eeccccceecccccccccCC--CcccCc---------ccccCCCCccccCCceEEEecCCCcccc---------ccchhh
Confidence            99999999999988766432  222111         0112344556999999999999532211         122212


Q ss_pred             CCCCCCCcccccccccccCC
Q 047222          323 QVEEKPKFQAFTGKKYSLRG  342 (342)
Q Consensus       323 ~~~~~~~f~aF~G~g~sLr~  342 (342)
                       ....++|++|+|+|+||||
T Consensus       287 -a~k~~~~~~F~G~~~slr~  305 (308)
T KOG1816|consen  287 -AGKDSKFEAFSGAGYSLRK  305 (308)
T ss_pred             -cccccceeEecCCceeccc
Confidence             2333899999999999996

>COG5140 UFD1 Ubiquitin fusion-degradation protein [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>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 Back     alignment and domain information
>PLN03086 PRLI-interacting factor K; Provisional Back     alignment and domain information
>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>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 Back     alignment and domain information
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily Back     alignment and domain information
>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 Back     alignment and domain information
>TIGR01439 lp_hng_hel_AbrB looped-hinge helix DNA binding domain, AbrB family Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query342
2yuj_A190 Solution Structure Of Human Ubiquitin Fusion Degrad 4e-56
1zc1_A208 Ufd1 Exhibits The Aaa-Atpase Fold With Two Distinct 3e-47
>pdb|2YUJ|A Chain A, Solution Structure Of Human Ubiquitin Fusion Degradation Protein 1 Homolog Ufd1 Length = 190 Back     alignment and structure 
Iteration: 1

 Score =  214 bits (546), Expect = 4e-56,   Method: Compositional matrix adjust.
 Identities = 96/173 (55%), Positives = 133/173 (76%), Gaps = 4/173 (2%)
Query: 10  FERKYRCYPISFI----DKPHLENGDKIVMPPSALDRLAYLHIEYPMLFELSNTSAGRVT 65
           F  +YRC+ +S +    D+  +E G KI+MPPSALD+L+ L+I YPMLF+L+N ++ R+T
Sbjct: 16  FSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 75
Query: 66  YCGVMEFIADEGLIYLPYWMMENMLLQEGDIVEVKNASLAKGSYVKLQPHTKDFLDISNP 125
           +CGV+EF+ADEG+ YLP+WMM+N+LL+EG +V+V++ +L   +Y K QP + DFLDI+NP
Sbjct: 76  HCGVLEFVADEGICYLPHWMMQNLLLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNP 135
Query: 126 KAVLETTLRSYSCLTTGDTIMVPYNNKKYYINVVETKPSTAVSIIETDCEVDF 178
           KAVLE  LR+++CLTTGD I + YN K Y + V+ETKP  AVSIIE 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 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query342
1zc1_A208 Ubiquitin fusion degradation protein 1; UFD1, doub 2e-85
2yuj_A190 Ubiquitin fusion degradation 1-like; ubiquitin-dep 3e-83
3tiw_A187 Transitional endoplasmic reticulum ATPase; beta-ba 2e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-07
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-06
1cz4_A185 VCP-like ATPase; double-PSI beta-barrel, beta-CLAM 2e-05
3qwz_A211 Transitional endoplasmic reticulum ATPase; UBX, P9 2e-05
1ypw_A 806 Transitional endoplasmic reticulum ATPase; AAA, P9 4e-05
>1zc1_A Ubiquitin fusion degradation protein 1; UFD1, double-PSI-beta-barrel, protein turnover; NMR {Saccharomyces cerevisiae} Length = 208 Back     alignment and structure
 Score =  255 bits (653), Expect = 2e-85
 Identities = 88/188 (46%), Positives = 125/188 (66%), Gaps = 7/188 (3%)

Query: 9   AFERKYRCYPISF----IDKPHLENGDKIVMPPSALDRLAYLHIEYPMLFELSNTSAGRV 64
            FE  +RCYPI+     I K     G KI +PPSAL +L+ L+I YPMLF+L+    GRV
Sbjct: 20  TFEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANETGRV 79

Query: 65  TYCGVMEFIADEGLIYLPYWMMENMLLQEGDIVEVKNASLAKGSYVKLQPHTKDFLDISN 124
           T+ GV+EFIA+EG +YLP WMME + +Q G ++++ +  +  G +VKL+P + DFLDIS+
Sbjct: 80  THGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDISD 139

Query: 125 PKAVLETTLRSYSCLTTGDTIMVPYNNKKYYINVVETKPST---AVSIIETDCEVDFIPP 181
           PKAVLE  LR++S LT  D I + YN K + I ++E KP +   ++ +IETD   DF PP
Sbjct: 140 PKAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVTDFAPP 199

Query: 182 LDFKEPEK 189
           + + EP+ 
Sbjct: 200 VGYVEPDY 207
>2yuj_A Ubiquitin fusion degradation 1-like; ubiquitin-dependent proteolytic, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 190 Back     alignment and structure
>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 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>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 Back     alignment and structure
>3qwz_A Transitional endoplasmic reticulum ATPase; UBX, P97 binding, transport protein; HET: MLY; 2.00A {Homo sapiens} PDB: 2pjh_B Length = 211 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query342
1zc1_A208 Ubiquitin fusion degradation protein 1; UFD1, doub 100.0
2yuj_A190 Ubiquitin fusion degradation 1-like; ubiquitin-dep 100.0
1cz4_A185 VCP-like ATPase; double-PSI beta-barrel, beta-CLAM 99.44
3qwz_A211 Transitional endoplasmic reticulum ATPase; UBX, P9 99.42
3tiw_A187 Transitional endoplasmic reticulum ATPase; beta-ba 99.41
1wlf_A179 PEX1, peroxisome biogenesis factor 1; N-terminal d 99.07
3cf2_A 806 TER ATPase, transitional endoplasmic reticulum ATP 97.63
2jv2_A83 Putative uncharacterized protein PH1500; AAA ATPas 97.31
1ypw_A 806 Transitional endoplasmic reticulum ATPase; AAA, P9 97.1
3hu3_A 489 Transitional endoplasmic reticulum ATPase; VCP, tr 96.55
1yfb_A59 Transition state regulatory protein ABRB; , homodi 90.28
1cr5_A189 SEC18P (residues 22 - 210); double-PSI beta barrel 89.16
2glw_A92 PHS018, 92AA long hypothetical protein; RIFT barre 88.7
1cz4_A185 VCP-like ATPase; double-PSI beta-barrel, beta-CLAM 87.42
1qcs_A211 N-ethylmaleimide sensitive factor (NSF-N); double- 87.4
3tiw_A187 Transitional endoplasmic reticulum ATPase; beta-ba 85.37
2l66_A53 SSO7C4, transcriptional regulator, ABRB family; DN 84.96
3qwz_A211 Transitional endoplasmic reticulum ATPase; UBX, P9 81.47
>1zc1_A Ubiquitin fusion degradation protein 1; UFD1, double-PSI-beta-barrel, protein turnover; NMR {Saccharomyces cerevisiae} Back     alignment and structure
Probab=100.00  E-value=1.2e-78  Score=556.28  Aligned_cols=184  Identities=47%  Similarity=0.901  Sum_probs=180.1

Q ss_pred             cccccccEEEeeeecc----cCCCCCCCCeEecCHHHHHHHHhcCCCCCeEEEEEeCCCCCEEEEEEeeeeeCCCcEecc
Q 047222            7 DAAFERKYRCYPISFI----DKPHLENGDKIVMPPSALDRLAYLHIEYPMLFELSNTSAGRVTYCGVMEFIADEGLIYLP   82 (342)
Q Consensus         7 ~~~F~~~~rcyp~s~~----~k~~~~~GdKIiLPpSaL~~L~~l~i~~PmlF~L~n~~~~r~th~GVLEF~AeEG~i~LP   82 (342)
                      .++|+++|||||++|+    +|+++++||||+||||||++|+++|++|||+|+|+|..++++||||||||+|+||+||||
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            4789999999999996    888999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCCCCCEEEEEEeecCCcceEEEeeCCcCcCCcCCcHHHHHHhhccCeeccCCCEEEEeeCCEEEEEEEEeec
Q 047222           83 YWMMENMLLQEGDIVEVKNASLAKGSYVKLQPHTKDFLDISNPKAVLETTLRSYSCLTTGDTIMVPYNNKKYYINVVETK  162 (342)
Q Consensus        83 ~WMm~~L~l~~gd~V~i~~~~LPkGt~vkLqP~s~~FldisnpKavLE~~LRnystLT~Gd~I~I~yn~~~y~l~V~e~k  162 (342)
                      +|||++|+|++||.|+|++++||||||||||||+.+|+||+|||||||++||||+|||+||+|.|+||++.|+|+|+|+|
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 047222          163 PST---AVSIIETDCEVDFIPPLDFKEPEKP  190 (342)
Q Consensus       163 P~~---aVsIIdTDleVDf~pPldy~ep~~~  190 (342)
                      |++   |||||||||+|||+||+||+||+++
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            997   9999999999999999999999873
>2yuj_A Ubiquitin fusion degradation 1-like; ubiquitin-dependent proteolytic, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>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 Back     alignment and structure
>3qwz_A Transitional endoplasmic reticulum ATPase; UBX, P97 binding, transport protein; HET: MLY; 2.00A {Homo sapiens} PDB: 2pjh_B Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>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* Back     alignment and structure
>2jv2_A Putative uncharacterized protein PH1500; AAA ATPase NC-domain-like, unknown function; NMR {Pyrococcus horikoshii} Back     alignment and structure
>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>2glw_A PHS018, 92AA long hypothetical protein; RIFT barrel, bioinformatics, transcription; NMR {Pyrococcus horikoshii} Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>2l66_A SSO7C4, transcriptional regulator, ABRB family; DNA binding protein, transcription regulator; NMR {Sulfolobus solfataricus} Back     alignment and structure
>3qwz_A Transitional endoplasmic reticulum ATPase; UBX, P97 binding, transport protein; HET: MLY; 2.00A {Homo sapiens} PDB: 2pjh_B Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query342
d1e32a394 Membrane fusion atpase p97 domain 2, P97-Nc {Mouse 96.55
d1cz5a294 C-terminal domain of VAT-N, VAT-Nc {Archaeon Therm 94.26
d1wlfa180 Peroxisome biogenesis factor 1 (PEX-1), domain 2 { 92.33
d1e32a186 Membrane fusion ATPase p97 N-terminal domain , P97 88.56
>d1e32a3 d.31.1.1 (A:107-200) Membrane fusion atpase p97 domain 2, P97-Nc {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
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=96.55  E-value=0.0061  Score=47.69  Aligned_cols=76  Identities=22%  Similarity=0.319  Sum_probs=57.5

Q ss_pred             ecCCcceEEEeeCCcCcCCcC-C-cHHHHHHhhc-cCeeccCCCEEEEeeCCEEEEEEEEeecCCCeeEEEecceeEeec
Q 047222          103 SLAKGSYVKLQPHTKDFLDIS-N-PKAVLETTLR-SYSCLTTGDTIMVPYNNKKYYINVVETKPSTAVSIIETDCEVDFI  179 (342)
Q Consensus       103 ~LPkGt~vkLqP~s~~Fldis-n-pKavLE~~LR-nystLT~Gd~I~I~yn~~~y~l~V~e~kP~~aVsIIdTDleVDf~  179 (342)
                      ++|-|+.|.+-|-+..--.++ | .+.+|.-.+. +|--|++||++.|....+.-+|+|++++|++ .|||-.|-.+.-.
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            368889999999764433332 2 3556666666 5889999999999999999999999999998 5777666555443
>d1cz5a2 d.31.1.1 (A:92-185) C-terminal domain of VAT-N, VAT-Nc {Archaeon Thermoplasma acidophilum [TaxId: 2303]} Back     information, alignment and structure
>d1wlfa1 d.31.1.1 (A:100-179) Peroxisome biogenesis factor 1 (PEX-1), domain 2 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1e32a1 b.52.2.3 (A:21-106) Membrane fusion ATPase p97 N-terminal domain , P97-Nn {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure