Citrus Sinensis ID: 012602

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460
MRSSSEGINIAASAQRLDVDNRIALRYYYRIADNILKQADIFREEKNIIDLYVMLLRFSSLVTETIPCHRDYLASFKSQKLYLKKKLLNALSELEELQPAVQQKINELNRKKTNQVTGWSHASQNSTLEWPSLKKQTLTNYDVTKALRLPSRELAYQGSIPQQLAYTRPVDEQFRRMSLNFPRPNAETLSRHSLLGPNGLYGHWQPPKSDKLVKYPNNIDLTPIEIPSLRQPSESSIKIKTDSSNVEPEKSSVQSISTPNDEIEIHRTEEPCSMISFETSEAPNSADVIRQPSPPPVLTEVQDLIAAMSPQVTETECQVGNSLSDAFDRSEPLQLHISTTMMDNFMKLAKSNTDKNLETCGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEEIFEVQDKRSLFPLGWIHTHPTQSCFMSSIDVHTHYSYQVNVVPDARSCWKKRGEIGRKRNAIIC
cccccccccHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccHHHHHHHHHHHHHcccccccccccccccccccEEEEEEEEEccccccccccccccHHHHHHHHHccccEEEEcccccccccccccHHHHHHHHcccccccccEEEEcccccccccEEEcccc
cccccccEEEHHHcccccccccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccHcccccHHHccccHHHHHHHcHHHHHHHHccHHHHHHHHHHccccccccccccHHHcccccccccccccccccccccccccccccHccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEcHHHHHHHHHHHHHHHHccccEHHEEEccccccEEEEEEEEEEcccccccccccccHHHHHHHHHccccEEEEEEcccccccEEEccccHcccHHHHHHHcHcEEEEcccccccccEEEEEEc
MRSSSEGINIAASAQRLDVDNRIALRYYYRIADNILKQADIFREEKNIIDLYVMLLRFSSlvtetipchRDYLASFKSQKLYLKKKLLNALSELEELQPAVQQKINELNrkktnqvtgwshasqnstlewpslkkqtltnydvtkalrlpsrelayqgsipqqlaytrpvDEQFRRmslnfprpnaetlsrhsllgpnglyghwqppksdklvkypnnidltpieipslrqpsessikiktdssnvepekssvqsistpndeieihrteepcsmisfetseapnsadvirqpspppvlTEVQDLIAAmspqvtetecqvgnslsdafdrseplqlhISTTMMDNFMKLAKSntdknletcGILAGSLKNRKFYITALiipkqestsdscqatnEEEIFevqdkrslfplgwihthptqscfmssidvhthYSYQVNVVPDARSCwkkrgeigrkrnaiic
mrssseginiaasaqrldvdnrIALRYYYRIADNILKQADIFREEKNIIDLYVMLLRFSSLVTETIPCHRDYLASFKSQKLYLKKKLLNALSELEELQPAVQQKINELNrkktnqvtgwshasqnstlewpslkkqtLTNYDVTKALRLPSRelayqgsipqqlaYTRPVDEQFRRMSLNFPRPNAETLSRHSLLGPNGLYGHWQPPKSDKLVKYPNNIDLTpieipslrqpsessikiktdssnvepekssvqsistpndeieIHRTEEPCSMISFETSEAPNSADVIRQPSPPPVLTEVQDLIAAMSPQVTETECQVGNSLSDAFDRSEPLQLHISTTMMDNFMKLAKSNTDKNLETCGILAGSLKNRKFYITALIipkqestsdsCQATNEEEIFEVQDKRSLFPLGWIHTHPTQSCFMSSIDVHTHYSYQVnvvpdarscwkkrgeigrkrnaiic
MRSSSEGINIAASAQRLDVDNRIALRYYYRIADNILKQADIFREEKNIIDLYVMLLRFSSLVTETIPCHRDYLASFKSQklylkkkllNALSELEELQPAVQQKINELNRKKTNQVTGWSHASQNSTLEWPSLKKQTLTNYDVTKALRLPSRELAYQGSIPQQLAYTRPVDEQFRRMSLNFPRPNAETLSRHSLLGPNGLYGHWQPPKSDKLVKYPNNIDLTPIEIPSLRQPSESSIKIKTDSSNVEPEKSSVQSISTPNDEIEIHRTEEPCSMISFETSEAPNSADVIRQPSPPPVLTEVQDLIAAMSPQVTETECQVGNSLSDAFDRSEPLQLHISTTMMDNFMKLAKSNTDKNLETCGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEEIFEVQDKRSLFPLGWIHTHPTQSCFMSSIDVHTHYSYQVNVVPDARSCWKKRGEIGRKRNAIIC
*************AQRLDVDNRIALRYYYRIADNILKQADIFREEKNIIDLYVMLLRFSSLVTETIPCHRDYLASFKSQKLYLKKKLLNALSEL***********************************WPSLKKQTLTNYDVTKALRLPSRELAYQGSIPQQLAYT***************************LGPNGLYGHWQ******LVKYPNNIDL*****************************************************************************************************************LHISTTMMDNFMKLAKSNTDKNLETCGILAGSLKNRKFYITALIIP****************IFEVQDKRSLFPLGWIHTHPTQSCFMSSIDVHTHYSYQVNVVPDARSCWKKRGEI*********
************SAQRLDVDNRIALRYYYRIADNILKQADIFREEKNIIDLYVMLLRFSSLVTETIPCHRD*************KKLLNALSELEELQPAVQQKI**********************************************************************************************************************************************************************************************************************************PLQLHISTTMMDNFMKLAKSNTDKNLETCGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEEIFEVQDKRSLFPLGWIHTHPTQSCFMSSIDVHTHYSYQVNVVPDARSCWKKRGEIGRKRNAIIC
MRSSSEGINIAASAQRLDVDNRIALRYYYRIADNILKQADIFREEKNIIDLYVMLLRFSSLVTETIPCHRDYLASFKSQKLYLKKKLLNALSELEELQPAVQQKINELNRKK************NSTLEWPSLKKQTLTNYDVTKALRLPSRELAYQGSIPQQLAYTRPVDEQFRRMSLNFPRPNAETLSRHSLLGPNGLYGHWQPPKSDKLVKYPNNIDLTPIEIPSLRQPS**************************NDEIEIHRTEEPCSMISFETSEAPNSADVIRQPSPPPVLTEVQDLIAAMSPQVTETECQVGNSLSDAFDRSEPLQLHISTTMMDNFMKLAKSNTDKNLETCGILAGSLKNRKFYITALIIPKQ**********NEEEIFEVQDKRSLFPLGWIHTHPTQSCFMSSIDVHTHYSYQVNVVPDARSCWKKRGEIGRKRNAIIC
*****EGINIAASAQRLDVDNRIALRYYYRIADNILKQADIFREEKNIIDLYVMLLRFSSLVTETIPCHRDYLASFKSQKLYLKKKLLNALSELEELQPAVQQKINELNRKKTNQ**********************************************QQLAYTRPVDEQFRRMSLNFP****ETLSRHSLLGPNGLYGHWQPPK*************************************************************************************************************************SEPLQLHISTTMMDNFMKLAKSNTDKNLETCGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEEIFEVQDKRSLFPLGWIHTHPTQSCFMSSIDVHTHYSYQVNVVPDARSCWKKRGEIGRKRNAIIC
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MRSSSEGINIAASAQRLDVDNRIALRYYYRIADNILKQADIFREEKNIIDLYVMLLRFSSLVTETIPCHRDYLASFKSQKLYLKKKLLNAxxxxxxxxxxxxxxxxxxxxxKTNQVTGWSHASQNSTLEWPSLKKQTLTNYDVTKALRLPSRELAYQGSIPQQLAYTRPVDEQFRRMSLNFPRPNAETLSRHSLLGPNGLYGHWQPPKSDKLVKYPNNIDLTPIEIPSLRQPSESSIKIKTDSSNVEPEKSSVQSISTPNDEIEIHRTEEPCSMISFETSEAPNSADVIRQPSPPPVLTEVQDLIAAMSPQVTETECQVGNSLSDAFDRSEPLQLHISTTMMDNFMKLAKSNTDKNLETCGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEEIFEVQDKRSLFPLGWIHTHPTQSCFMSSIDVHTHYSYQVNVVPDARSCWKKRGEIGRKRNAIIC
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 ?
Query460 2.2.26 [Sep-21-2011]
Q8VYB5507 AMSH-like ubiquitin thioe yes no 0.95 0.861 0.628 1e-154
Q5PNU3507 AMSH-like ubiquitin thioe no no 0.930 0.844 0.459 1e-101
Q6NKP9223 AMSH-like ubiquitin thioe no no 0.230 0.475 0.626 7e-37
Q9P371435 AMSH-like protease sst2 O yes no 0.75 0.793 0.297 2e-34
Q96FJ0436 AMSH-like protease OS=Hom yes no 0.765 0.807 0.263 1e-30
Q5R558436 AMSH-like protease OS=Pon yes no 0.704 0.743 0.263 5e-30
Q54Q40715 Probable ubiquitin thioes yes no 0.280 0.180 0.476 1e-29
Q6TH47418 STAM-binding protein-like yes no 0.263 0.289 0.475 2e-27
O95630424 STAM-binding protein OS=H no no 0.232 0.252 0.518 5e-27
Q76N33436 AMSH-like protease OS=Mus yes no 0.25 0.263 0.474 1e-26
>sp|Q8VYB5|AMSH1_ARATH AMSH-like ubiquitin thioesterase 1 OS=Arabidopsis thaliana GN=AMSH1 PE=2 SV=1 Back     alignment and function desciption
 Score =  544 bits (1401), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 278/442 (62%), Positives = 336/442 (76%), Gaps = 5/442 (1%)

Query: 1   MRSSSEGINIAASAQRLDVDNRIALRYYYRIADNILKQADIFREEKNIIDLYVMLLRFSS 60
           M SS E I+IA SA+R+ VDNRI+L++Y+RIADNILKQA+IFR EKN+IDLYVMLLRFSS
Sbjct: 1   MGSSFETIDIATSARRIGVDNRISLKFYFRIADNILKQANIFRAEKNVIDLYVMLLRFSS 60

Query: 61  LVTETIPCHRDYLASFKSQKLYLKKKLLNALSELEELQPAVQQKINELNRKKTNQVTGWS 120
           L  ETIP HRDY  S KS K YL+ +LL+ L+ELE+L+P VQQ+I+EL  K   +    +
Sbjct: 61  LALETIPSHRDYRTSLKSNKEYLRMRLLDVLTELEKLKPVVQQRIDELYPKLKPRYNVQA 120

Query: 121 HASQNSTLEWPSLKKQTLTNYDVTKALRLPSRELAYQGSIPQQLAYTRPVDEQFRRMSLN 180
           H + N +L W S  K +  +YD  K    P     Y GS  QQ     P++E+FR+MS+N
Sbjct: 121 HPA-NGSLGWSSAVKPSFNSYDHAKVRNPPGHNSGYMGSRGQQFLNAAPLEERFRKMSVN 179

Query: 181 FPRPNAETLSRHSLLGPNGLYGHWQPPKSDKLVKYPNNIDLTPIEIPSLRQPSESSIKIK 240
           F RPN ETLS+HS+LGP GL   WQPPK D  V+YP+NID +P+ IPS +Q  +S   I 
Sbjct: 180 F-RPNEETLSKHSILGPGGLSAQWQPPKYDTKVQYPSNIDFSPVVIPSFQQLVDSKPMI- 237

Query: 241 TDSSNVEPEKSSVQSISTPNDEIEIHRTEEPCSMISFETSEAPNSADVIRQPSPPPVLTE 300
           T+ SN EPEK  V+     N++I+ + TEE  SMISFE  E+ N  ++IRQPSPPPVL E
Sbjct: 238 TNGSNDEPEKPIVEPSVASNEKIQKNYTEELSSMISFEEPESVNENNLIRQPSPPPVLAE 297

Query: 301 VQDLIAAMSPQVTETECQVGNSLSDAFDRSE-PLQLHISTTMMDNFMKLAKSNTDKNLET 359
           VQDL+ A+ P+V E EC + NSL D   RSE PL+LHI+T+MMD FM+LAKSNT KNLET
Sbjct: 298 VQDLVPALCPEVREPECMIENSLPDESLRSESPLELHIATSMMDTFMRLAKSNTKKNLET 357

Query: 360 CGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEEIFEVQDKRSLFPLGWIHTHPTQS 419
           CGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEEIFEVQDK+SLFPLGWIHTHPTQS
Sbjct: 358 CGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEEIFEVQDKQSLFPLGWIHTHPTQS 417

Query: 420 CFMSSIDVHTHYSYQVNVVPDA 441
           CFMSSIDVHTHYSYQ+ ++P+A
Sbjct: 418 CFMSSIDVHTHYSYQI-MLPEA 438
Zinc metalloprotease that cleaves 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 4EC: .EC: 1EC: 9EC: .EC: -
>sp|Q5PNU3|AMSH3_ARATH AMSH-like ubiquitin thioesterase 3 OS=Arabidopsis thaliana GN=AMSH3 PE=1 SV=2 Back     alignment and function description
>sp|Q6NKP9|AMSH2_ARATH AMSH-like ubiquitin thioesterase 2 OS=Arabidopsis thaliana GN=AMSH2 PE=2 SV=1 Back     alignment and function description
>sp|Q9P371|SST2_SCHPO AMSH-like protease sst2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=sst2 PE=1 SV=1 Back     alignment and function description
>sp|Q96FJ0|STALP_HUMAN AMSH-like protease OS=Homo sapiens GN=STAMBPL1 PE=1 SV=2 Back     alignment and function description
>sp|Q5R558|STALP_PONAB AMSH-like protease OS=Pongo abelii GN=STAMBPL1 PE=2 SV=1 Back     alignment and function description
>sp|Q54Q40|D1039_DICDI Probable ubiquitin thioesterase DG1039 OS=Dictyostelium discoideum GN=DG1039 PE=3 SV=1 Back     alignment and function description
>sp|Q6TH47|STBPA_DANRE STAM-binding protein-like A OS=Danio rerio GN=stambpa PE=2 SV=3 Back     alignment and function description
>sp|O95630|STABP_HUMAN STAM-binding protein OS=Homo sapiens GN=STAMBP PE=1 SV=1 Back     alignment and function description
>sp|Q76N33|STALP_MOUSE AMSH-like protease OS=Mus musculus GN=Stambpl1 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 ?
Query460
255586071514 amsh, putative [Ricinus communis] gi|223 0.945 0.846 0.722 1e-179
225455974506 PREDICTED: AMSH-like ubiquitin thioleste 0.947 0.861 0.658 1e-166
224133090497 predicted protein [Populus trichocarpa] 0.917 0.849 0.664 1e-162
356513064509 PREDICTED: AMSH-like ubiquitin thioleste 0.95 0.858 0.644 1e-159
449439413499 PREDICTED: AMSH-like ubiquitin thioester 0.932 0.859 0.640 1e-157
449516695503 PREDICTED: AMSH-like ubiquitin thioester 0.932 0.852 0.634 1e-155
356531196520 PREDICTED: AMSH-like ubiquitin thioleste 0.930 0.823 0.643 1e-154
357500307513 STAM-binding protein [Medicago truncatul 0.945 0.847 0.624 1e-153
297852504507 mov34 family protein [Arabidopsis lyrata 0.95 0.861 0.633 1e-153
356520605519 PREDICTED: AMSH-like ubiquitin thioleste 0.945 0.838 0.640 1e-152
>gi|255586071|ref|XP_002533700.1| amsh, putative [Ricinus communis] gi|223526395|gb|EEF28683.1| amsh, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  635 bits (1637), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 318/440 (72%), Positives = 361/440 (82%), Gaps = 5/440 (1%)

Query: 1   MRSSSE--GINIAASAQRLDVDNRIALRYYYRIADNILKQADIFREEKNIIDLYVMLLRF 58
           MRSSS    INIA SAQ++DVDNRI+LR+YYRIADNILKQADIFREEKNIIDLY+MLLRF
Sbjct: 1   MRSSSAPGRINIATSAQKIDVDNRISLRFYYRIADNILKQADIFREEKNIIDLYIMLLRF 60

Query: 59  SSLVTETIPCHRDYLASFKSQKLYLKKKLLNALSELEELQPAVQQKINELNRKKTNQVTG 118
           SSLV+ETIPCHRDY  S +S+K+YLK+KLLNA+ ELE+L+PAVQQKINELNRK T+QV G
Sbjct: 61  SSLVSETIPCHRDYRTSQQSKKIYLKQKLLNAVKELEQLKPAVQQKINELNRKHTHQVNG 120

Query: 119 WSHASQNSTLEWPSLKKQTLTNYD--VTKALRLPSRELAYQGSIPQQLAYTRPVDEQFRR 176
           W   +QN +LEWP +KK+TLT YD   TKA+   +RE  Y GS  QQL+Y RPV EQFR+
Sbjct: 121 WGSVNQNDSLEWPPVKKKTLTGYDAGATKAVIPAAREFVYHGSRTQQLSYARPVGEQFRK 180

Query: 177 MSLNFPRPNAETLSRHSLLGPNGLYGHWQPPKSDKLVKYPNNIDLTPIEIPSLRQPSESS 236
           MSLNFP+P  ETLSRHS+LGPNGL G WQPPKSDK V YP+NIDL+P+EIP      E+ 
Sbjct: 181 MSLNFPQPKEETLSRHSILGPNGLQGQWQPPKSDKGVWYPSNIDLSPVEIPRFDSSLENG 240

Query: 237 IKIKTDSSNVEPEKSSVQSISTPNDEIEIHRTEEPCSMISFETSEAPNSADVIRQPSPPP 296
           + +K DSS+ E E  S QS+ T ND  +  R EE   MISFET+E P   D+IRQPSPP 
Sbjct: 241 LALKLDSSSSELETLSSQSVLTVNDNSQTSRVEELSPMISFETTETPVQTDLIRQPSPPA 300

Query: 297 VLTEVQDLIAAMSPQVTETECQVGNSLSDAFDRSE-PLQLHISTTMMDNFMKLAKSNTDK 355
           VL EVQDLI AMSPQ TE E ++  S  D   RSE PLQLHISTTMM+NFMKLAK+NTD+
Sbjct: 301 VLAEVQDLIPAMSPQATEAENKMDISSPDDIVRSESPLQLHISTTMMENFMKLAKANTDR 360

Query: 356 NLETCGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEEIFEVQDKRSLFPLGWIHTH 415
           NLETCG+LAGSLKNRKFY+TALIIPKQESTSDSCQ TNEEEIFEVQDKRSLFPLGWIHTH
Sbjct: 361 NLETCGVLAGSLKNRKFYVTALIIPKQESTSDSCQTTNEEEIFEVQDKRSLFPLGWIHTH 420

Query: 416 PTQSCFMSSIDVHTHYSYQV 435
           PTQSCFMSSIDVHTHYSYQ+
Sbjct: 421 PTQSCFMSSIDVHTHYSYQI 440

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225455974|ref|XP_002278560.1| PREDICTED: AMSH-like ubiquitin thiolesterase 1 [Vitis vinifera] gi|297734223|emb|CBI15470.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|224133090|ref|XP_002321479.1| predicted protein [Populus trichocarpa] gi|222868475|gb|EEF05606.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356513064|ref|XP_003525234.1| PREDICTED: AMSH-like ubiquitin thiolesterase 1-like [Glycine max] Back     alignment and taxonomy information
>gi|449439413|ref|XP_004137480.1| PREDICTED: AMSH-like ubiquitin thioesterase 1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449516695|ref|XP_004165382.1| PREDICTED: AMSH-like ubiquitin thioesterase 1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356531196|ref|XP_003534164.1| PREDICTED: AMSH-like ubiquitin thiolesterase 1-like [Glycine max] Back     alignment and taxonomy information
>gi|357500307|ref|XP_003620442.1| STAM-binding protein [Medicago truncatula] gi|355495457|gb|AES76660.1| STAM-binding protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|297852504|ref|XP_002894133.1| mov34 family protein [Arabidopsis lyrata subsp. lyrata] gi|297339975|gb|EFH70392.1| mov34 family protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|356520605|ref|XP_003528952.1| PREDICTED: AMSH-like ubiquitin thiolesterase 1-like [Glycine max] 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 ?
Query460
TAIR|locus:2008184507 AMSH1 "AT1G48790" [Arabidopsis 0.95 0.861 0.617 1.3e-137
TAIR|locus:504955440507 AMSH3 "associated molecule wit 0.928 0.842 0.455 6.8e-95
POMBASE|SPAC19B12.10435 sst2 "human AMSH/STAMBP protei 0.497 0.526 0.366 4.6e-42
DICTYBASE|DDB_G0284037715 DDB_G0284037 "MPN/PAD-1 domain 0.280 0.180 0.476 8.8e-39
TAIR|locus:2019903223 AMSH2 "AT1G10600" [Arabidopsis 0.319 0.659 0.490 5.7e-36
UNIPROTKB|Q17QR2423 STAMBP "STAM binding protein" 0.363 0.394 0.407 9.2e-36
UNIPROTKB|F1SLF9424 STAMBP "Uncharacterized protei 0.365 0.396 0.396 2.5e-35
MGI|MGI:1917777424 Stambp "STAM binding protein" 0.573 0.622 0.314 1.4e-33
UNIPROTKB|O95630424 STAMBP "STAM-binding protein" 0.306 0.332 0.425 7e-33
ZFIN|ZDB-GENE-040426-1551418 stambpa "STAM binding protein 0.256 0.282 0.471 7.7e-33
TAIR|locus:2008184 AMSH1 "AT1G48790" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1347 (479.2 bits), Expect = 1.3e-137, P = 1.3e-137
 Identities = 273/442 (61%), Positives = 329/442 (74%)

Query:     1 MRSSSEGINIAASAQRLDVDNRIALRYYYRIADNILKQADIFREEKNIIDLYVMLLRFSS 60
             M SS E I+IA SA+R+ VDNRI+L++Y+RIADNILKQA+IFR EKN+IDLYVMLLRFSS
Sbjct:     1 MGSSFETIDIATSARRIGVDNRISLKFYFRIADNILKQANIFRAEKNVIDLYVMLLRFSS 60

Query:    61 LVTETIPCHRDYLASFKSQXXXXXXXXXNALSELEELQPAVQQKINELNRKKTNQVTGWS 120
             L  ETIP HRDY  S KS          + L+ELE+L+P VQQ+I+EL  K   +    +
Sbjct:    61 LALETIPSHRDYRTSLKSNKEYLRMRLLDVLTELEKLKPVVQQRIDELYPKLKPRYNVQA 120

Query:   121 HASQNSTLEWPSLKKQTLTNYDVTKALRLPSRELAYQGSIPQQLAYTRPVDEQFRRMSLN 180
             H + N +L W S  K +  +YD  K    P     Y GS  QQ     P++E+FR+MS+N
Sbjct:   121 HPA-NGSLGWSSAVKPSFNSYDHAKVRNPPGHNSGYMGSRGQQFLNAAPLEERFRKMSVN 179

Query:   181 FPRPNAETLSRHSLLGPNGLYGHWQPPKSDKLVKYPNNIDLTPIEIPSLRQPSESSIKIK 240
             F RPN ETLS+HS+LGP GL   WQPPK D  V+YP+NID +P+ IPS +Q  +S   I 
Sbjct:   180 F-RPNEETLSKHSILGPGGLSAQWQPPKYDTKVQYPSNIDFSPVVIPSFQQLVDSKPMI- 237

Query:   241 TDSSNVEPEKSSVQSISTPNDEIEIHRTEEPCSMISFETSEAPNSADVIRQPSPPPVLTE 300
             T+ SN EPEK  V+     N++I+ + TEE  SMISFE  E+ N  ++IRQPSPPPVL E
Sbjct:   238 TNGSNDEPEKPIVEPSVASNEKIQKNYTEELSSMISFEEPESVNENNLIRQPSPPPVLAE 297

Query:   301 VQDLIAAMSPQVTETECQVGNSLSDAFDRSE-PLQLHISTTMMDNFMKLAKSNTDKNLET 359
             VQDL+ A+ P+V E EC + NSL D   RSE PL+LHI+T+MMD FM+LAKSNT KNLET
Sbjct:   298 VQDLVPALCPEVREPECMIENSLPDESLRSESPLELHIATSMMDTFMRLAKSNTKKNLET 357

Query:   360 CGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEEIFEVQDKRSLFPLGWIHTHPTQS 419
             CGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEEIFEVQDK+SLFPLGWIHTHPTQS
Sbjct:   358 CGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEEIFEVQDKQSLFPLGWIHTHPTQS 417

Query:   420 CFMSSIDVHTHYSYQVNVVPDA 441
             CFMSSIDVHTHYSYQ+ ++P+A
Sbjct:   418 CFMSSIDVHTHYSYQI-MLPEA 438
GO:0003674 "molecular_function" evidence=ND
GO:0005634 "nucleus" evidence=ISM
GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=ISS
GO:0006623 "protein targeting to vacuole" evidence=RCA
GO:0016192 "vesicle-mediated transport" evidence=RCA
TAIR|locus:504955440 AMSH3 "associated molecule with the SH3 domain of STAM 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
POMBASE|SPAC19B12.10 sst2 "human AMSH/STAMBP protein homolog, ubiquitin specific-protease" [Schizosaccharomyces pombe (taxid:4896)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0284037 DDB_G0284037 "MPN/PAD-1 domain-containing protein" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
TAIR|locus:2019903 AMSH2 "AT1G10600" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q17QR2 STAMBP "STAM binding protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1SLF9 STAMBP "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
MGI|MGI:1917777 Stambp "STAM binding protein" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|O95630 STAMBP "STAM-binding protein" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040426-1551 stambpa "STAM binding protein a" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q8VYB5AMSH1_ARATH3, ., 4, ., 1, 9, ., -0.62890.950.8619yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer3.4.19LOW CONFIDENCE prediction!
3rd Layer3.4.17.n1LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00017706001
SubName- Full=Chromosome chr17 scaffold_16, whole genome shotgun sequence; (506 aa)
(Vitis vinifera)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

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 ?
Query460
cd08066173 cd08066, MPN_AMSH_like, Mov34/MPN/PAD-1 family 4e-66
cd08058119 cd08058, MPN_euk_mb, Mpr1p, Pad1p N-terminal (MPN) 1e-22
pfam01398117 pfam01398, JAB, JAB1/Mov34/MPN/PAD-1 ubiquitin pro 2e-19
cd07767116 cd07767, MPN, Mpr1p, Pad1p N-terminal (MPN) domain 1e-17
smart00232135 smart00232, JAB_MPN, JAB/MPN domain 9e-15
cd08069 268 cd08069, MPN_RPN11_CSN5, Mov34/MPN/PAD-1 family: p 2e-06
pfam1446498 pfam14464, Prok-JAB, Prokaryotic homologs of the J 0.001
>gnl|CDD|163697 cd08066, MPN_AMSH_like, Mov34/MPN/PAD-1 family Back     alignment and domain information 
 Score =  209 bits (534), Expect = 4e-66
 Identities = 64/102 (62%), Positives = 80/102 (78%)

Query: 334 QLHISTTMMDNFMKLAKSNTDKNLETCGILAGSLKNRKFYITALIIPKQESTSDSCQATN 393
           Q+ +   +MD F++LA+ NT +NLETCGIL G L N  F+IT LIIPKQ  TSDSCQ TN
Sbjct: 3   QVVVPADLMDKFLQLAEPNTSRNLETCGILCGKLSNNAFFITHLIIPKQSGTSDSCQTTN 62

Query: 394 EEEIFEVQDKRSLFPLGWIHTHPTQSCFMSSIDVHTHYSYQV 435
           EEE+F+ QD+  L  LGWIHTHPTQ+CF+SS+D+HTH SYQ+
Sbjct: 63  EEELFDFQDQHDLITLGWIHTHPTQTCFLSSVDLHTHCSYQL 104

AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM (signal-transducing adapter molecule, also known as STAMBP)) and AMSH-like proteins (AMSH-LP) are members of JAMM/MPN+ deubiquitinases (DUBs), with Zn2+-dependent ubiquitin isopeptidase activity. AMSH specifically cleaves Lys 63 and not Lys48-linked polyubiquitin (poly-Ub) chains, thus facilitating the recycling and subsequent trafficking of receptors to the cell surface. AMSH and AMSH-LP are anchored on the early endosomal membrane via interaction with the clathrin coat. AMSH shares a common SH3-binding site with another endosomal DUB, UBPY (ubiquitin-specific protease Y; also known as USP8), the latter being a cysteine protease that does not discriminate between Lys48 and Lys63-linked ubiquitin. AMSH is involved in the degradation of EGF receptor (EGFR) and possibly other ubiquitinated endocytosed proteins. AMSH also interacts with CHMP1, CHMP2, and CHMP3 proteins, all of which are components of ESCRT-III, suggested to be required for EGFR down-regulation. The function of AMSH-LP has not been elucidated; however, it exhibits two fundamentally distinct features from AMSH: first, there is a substitution in the critical amino acid residue in the SH3-binding motif (SBM) in the human AMSH-LP, but not in its mouse ortholog, and lacks STAM-binding ability; second, AMSH-LP lacks the ability to interact with CHMP proteins. It is therefore likely that AMSH and AMSH-LP play different roles on early endosomes. Length = 173
>gnl|CDD|163689 cd08058, MPN_euk_mb, Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); eukaryotic Back     alignment and domain information
>gnl|CDD|216478 pfam01398, JAB, JAB1/Mov34/MPN/PAD-1 ubiquitin protease Back     alignment and domain information
>gnl|CDD|163686 cd07767, MPN, Mpr1p, Pad1p N-terminal (MPN) domains Back     alignment and domain information
>gnl|CDD|214573 smart00232, JAB_MPN, JAB/MPN domain Back     alignment and domain information
>gnl|CDD|163700 cd08069, MPN_RPN11_CSN5, Mov34/MPN/PAD-1 family: proteasomal regulatory protein Rpn11 and signalosome complex subunit CSN5 Back     alignment and domain information
>gnl|CDD|222766 pfam14464, Prok-JAB, Prokaryotic homologs of the JAB domain Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 460
KOG2880424 consensus SMAD6 interacting protein AMSH, contains 100.0
KOG1554 347 consensus COP9 signalosome, subunit CSN5 [Posttran 99.97
cd08066173 MPN_AMSH_like Mov34/MPN/PAD-1 family. AMSH (associ 99.95
cd08067187 MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deu 99.95
cd08069 268 MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal 99.95
cd08058119 MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains w 99.92
cd08068244 MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subun 99.91
PF08969115 USP8_dimer: USP8 dimerisation domain; InterPro: IP 99.9
cd08056252 MPN_PRP8 Mpr1p, Pad1p N-terminal (MPN) domains wit 99.85
PF01398114 JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; Inte 99.83
cd07767116 MPN Mpr1p, Pad1p N-terminal (MPN) domains. MPN (al 99.82
KOG1555 316 consensus 26S proteasome regulatory complex, subun 99.82
smart00232135 JAB_MPN JAB/MPN domain. Domain in Jun kinase activ 99.79
cd08065 266 MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains wi 99.71
cd08070128 MPN_like Mpr1p, Pad1p N-terminal (MPN) domains wit 99.6
COG1310134 Predicted metal-dependent protease of the PAD1/JAB 99.48
cd08057157 MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domai 99.37
cd08072117 MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1 99.32
PF14464104 Prok-JAB: Prokaryotic homologs of the JAB domain; 99.29
cd08062 280 MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains w 99.23
cd08073108 MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains 99.07
cd08064 265 MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains wi 99.04
KOG1560 339 consensus Translation initiation factor 3, subunit 98.96
cd08061 274 MPN_NPL4 Mov34/MPN/PAD-1 family: nuclear protein l 98.92
TIGR02256131 ICE_VC0181 integrative and conjugative element pro 98.87
cd08060182 MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family 98.84
TIGR03735192 PRTRC_A PRTRC system protein A. A novel genetic sy 98.73
cd08059101 MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains 98.51
cd08063 288 MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains wit 98.4
PLN03246 303 26S proteasome regulatory subunit; Provisional 98.18
PF05021 306 NPL4: NPL4 family; InterPro: IPR007717 The HRD4 ge 97.9
KOG1556 309 consensus 26S proteasome regulatory complex, subun 97.54
PF03665196 UPF0172: Uncharacterised protein family (UPF0172); 97.34
PF0421269 MIT: MIT (microtubule interacting and transport) d 96.61
cd0268475 MIT_2 MIT: domain contained within Microtubule Int 96.49
smart0074577 MIT Microtubule Interacting and Trafficking molecu 96.47
cd0267875 MIT_VPS4 MIT: domain contained within Microtubule 96.46
cd0268377 MIT_1 MIT: domain contained within Microtubule Int 96.42
cd0268176 MIT_calpain7_1 MIT: domain contained within Microt 96.37
cd0267775 MIT_SNX15 MIT: domain contained within Microtubule 95.85
cd0265675 MIT MIT: domain contained within Microtubule Inter 95.72
KOG2975 288 consensus Translation initiation factor 3, subunit 95.69
cd0268075 MIT_calpain7_2 MIT: domain contained within Microt 94.53
KOG1795 2321 consensus U5 snRNP spliceosome subunit [RNA proces 93.56
cd0268275 MIT_AAA_Arch MIT: domain contained within Microtub 93.48
KOG2834 510 consensus Nuclear pore complex, rNpl4 component (s 93.43
KOG0739439 consensus AAA+-type ATPase [Posttranslational modi 91.2
KOG3289199 consensus Uncharacterized conserved protein encode 91.15
cd08071113 MPN_DUF2466 Mov34/MPN/PAD-1 family. Mov34 DUF2466 88.2
PF14220123 DUF4329: Domain of unknown function (DUF4329) 85.47
COG5178 2365 PRP8 U5 snRNP spliceosome subunit [RNA processing 85.36
>KOG2880 consensus SMAD6 interacting protein AMSH, contains JAB/MPN/Mov34 domain [Signal transduction mechanisms] Back     alignment and domain information 
Probab=100.00  E-value=9.6e-79  Score=604.23  Aligned_cols=369  Identities=35%  Similarity=0.523  Sum_probs=242.9

Q ss_pred             CCchhhhhHHH---hhcCcccCCCCcHHHHHHHHHHHHHHHHHHHHhcChhhHHHHHHHHHHHHhccCCCCcccccccHH
Q 012602            2 RSSSEGINIAA---SAQRLDVDNRIALRYYYRIADNILKQADIFREEKNIIDLYVMLLRFSSLVTETIPCHRDYLASFKS   78 (460)
Q Consensus         2 ~~~~~~~~l~~---~a~~~evn~~iplr~Y~Rsa~~llr~A~iy~~egn~e~AYily~Ry~~LvlekLpkHpdyk~~~~~   78 (460)
                      -+|.+.++.+.   .+..++||.|||+|+|||+|++|+|||.||++|||+|+|||||+||++||+||||+||||++.. .
T Consensus         2 ~~S~~p~er~~~lsr~G~i~~n~~IplkryfRsg~ei~rmA~VY~~EgN~enafvLy~ry~tLfiEkipkHrDy~s~k-~   80 (424)
T KOG2880|consen    2 DGSLEPEERVRALSRLGAIEVNKNIPLKRYFRSGTEILRMANVYLEEGNVENAFVLYLRYITLFIEKIPKHRDYRSVK-P   80 (424)
T ss_pred             CCCcChHHHHHHHHhcCceeecCCCCHHHhhhhhHHHHHHHHHHHhcCCcchhhhHHHHHHHHHHHhcccCcchhhhc-h
Confidence            34555554443   4445899999999999999999999999999999999999999999999999999999999554 7


Q ss_pred             HHHHHHHHHHHH-HHHHHhhcHHHHHHHHHHHHhhhhccccCcccCCCCCccccchhccccCchhhhhhhccchhhhhhc
Q 012602           79 QKLYLKKKLLNA-LSELEELQPAVQQKINELNRKKTNQVTGWSHASQNSTLEWPSLKKQTLTNYDVTKALRLPSRELAYQ  157 (460)
Q Consensus        79 ~k~~l~~~l~~v-l~~lE~LK~~L~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~av~~~~~~~~~~  157 (460)
                      +++++.++|+.+ ++.+|+||++|.++|+.+++.+-..+....             .+.      .+.+  .-|++.+.+
T Consensus        81 ek~d~~~klk~~~~p~~deL~~~ll~rY~~eyn~y~~~K~k~~-------------~E~------~k~l--e~~~~~E~e  139 (424)
T KOG2880|consen   81 EKEDIRKKLKEEAFPRIDELKAKLLKRYNVEYNEYDHSKKKNL-------------AER------FKKL--EVQREEETE  139 (424)
T ss_pred             hHHHHHHHHHHHhhhhHHHHHHHHHHHHhhHHHHHHHHHhhhH-------------HHH------HHHh--hcchhhHHH
Confidence            888888887765 899999999999999988764422110000             000      0111  113334444


Q ss_pred             CCchhhhhccchhHHHHhhhccCCCCCcchhhccccccCCCCCCCCCCCCCCcccccCCCCCCCCCCCCCCCCCCCcccc
Q 012602          158 GSIPQQLAYTRPVDEQFRRMSLNFPRPNAETLSRHSLLGPNGLYGHWQPPKSDKLVKYPNNIDLTPIEIPSLRQPSESSI  237 (460)
Q Consensus       158 ~~~~~~~~~r~~~~~~~r~~~~~~~~~~e~~l~r~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  237 (460)
                      ++|.+|..+++....+|..                                               .+.+++.|....+.
T Consensus       140 ~kr~aq~k~Q~l~~~~f~~-----------------------------------------------~~~~~~~q~~~s~~  172 (424)
T KOG2880|consen  140 RKRSAQTKQQQLESSQFSP-----------------------------------------------LEPPSFKQLLDSGP  172 (424)
T ss_pred             HHHHHHHhhhcCCcccCCc-----------------------------------------------cCchHHHhhhcccC
Confidence            4444444443333333322                                               11111111111111


Q ss_pred             cccCCCCCCCCCcCcccccCCCCCccccCCCCCCCCCCCccCCCCCCCccccCCCCCCCccchhhhhhhccCCCcccccc
Q 012602          238 KIKTDSSNVEPEKSSVQSISTPNDEIEIHRTEEPCSMISFETSEAPNSADVIRQPSPPPVLTEVQDLIAAMSPQVTETEC  317 (460)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~p~pPpv~~~~~~~~~~~~p~~~~~~~  317 (460)
                      ... ..+.+........+.++....+...-+....+..+|++.+.......++   +|++++..       .|.+.+   
T Consensus       173 m~s-~~~~gl~e~~~~~~~~p~~~~~~~~~s~~l~~~~s~ep~~s~~~n~~~k---~p~~~r~l-------~p~a~~---  238 (424)
T KOG2880|consen  173 MPS-NQSNGLPEQPIGEPLVPSNESRSLNYSELLSVLSSPEPSDSCTTNVTIK---SPSVDRVL-------KPGATD---  238 (424)
T ss_pred             CCc-CCCCCCcCCCcCCCCcccccccccCCchhhhhccCCCcccccccccccc---CCCCCccc-------cccccc---
Confidence            100 0000000000000001000000000010111222222222222222222   23332222       111100   


Q ss_pred             ccCCCCCCCCCCCC-CeEEEeCHHHHHHHHHHhhccCCCCeeeEEEeeeeEeCCeEEEEEEeecCCCCCCCccccCCHHH
Q 012602          318 QVGNSLSDAFDRSE-PLQLHISTTMMDNFMKLAKSNTDKNLETCGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEE  396 (460)
Q Consensus       318 ~~~~~~~~~~~~~~-~~~V~is~~~~~~fl~hA~~nt~~~~E~cGiL~G~~~~~~~~It~~~~p~q~~t~d~c~~~~E~e  396 (460)
                      .   ........+. ++.|+||.+++..||.+|.+||.+|+||||||||++..|.|+|||++||+|++|+|+|+++||++
T Consensus       239 n---~~~~~~~~~k~lr~v~ip~~l~~~Fl~la~~NT~knlETCGiL~g~L~~n~f~IThliiPkQeatsd~C~t~neee  315 (424)
T KOG2880|consen  239 N---SNHGESSEGKILRDVHIPERLMEVFLQLAKSNTKKNLETCGILAGKLERNEFYITHLIIPKQEATSDSCNTMNEEE  315 (424)
T ss_pred             c---cccccccCCccceEEEecHHHHHHHHHHHhhcccccchHHHHhhhHhhcCcEEEEEEEeecccCCCccccccCHHH
Confidence            0   0000111122 89999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCCCccceeeccCCCCCCCCChhHHhhhhhhccccCCCceEEEecCCccCCccceee
Q 012602          397 IFEVQDKRSLFPLGWIHTHPTQSCFMSSIDVHTHYSYQVNVVPDARSCWKKRGEIGRKRNAII  459 (460)
Q Consensus       397 i~~~~~~~~l~~vGWyHSHP~~t~flSsvDl~Tq~~yQ~m~~pe~iAIV~sP~~t~~~~~~~~  459 (460)
                      +|++||+++|.+|||||||||||||||||||||||+||+| +||+|||||+|+  .++.+||.
T Consensus       316 lF~vQdq~~L~tlGWIHTHPTQt~FmSSVDlHTHcSYQiM-lPEAiAIV~aPk--~~~tGiFr  375 (424)
T KOG2880|consen  316 LFEVQDQHELLTLGWIHTHPTQTCFMSSVDLHTHCSYQIM-LPEAIAIVCAPK--SKTTGIFR  375 (424)
T ss_pred             HheecccccceeeeeeecCCccchhheeccccccceeeee-cchheeEEeccc--cCCcceEE
Confidence            9999999999999999999999999999999999999999 999999999999  56666663

>KOG1554 consensus COP9 signalosome, subunit CSN5 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms] Back     alignment and domain information
>cd08066 MPN_AMSH_like Mov34/MPN/PAD-1 family Back     alignment and domain information
>cd08067 MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase Back     alignment and domain information
>cd08069 MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal regulatory protein Rpn11 and signalosome complex subunit CSN5 Back     alignment and domain information
>cd08058 MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); eukaryotic Back     alignment and domain information
>cd08068 MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subunit of BRCA1-A complex Back     alignment and domain information
>PF08969 USP8_dimer: USP8 dimerisation domain; InterPro: IPR015063 This domain is predominantly found in the amino terminal region of Ubiquitin carboxyl-terminal hydrolase 8 (USP8) Back     alignment and domain information
>cd08056 MPN_PRP8 Mpr1p, Pad1p N-terminal (MPN) domains without isopeptidase activity found in splicing factor Prp8 Back     alignment and domain information
>PF01398 JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; InterPro: IPR000555 Members of this family are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors Back     alignment and domain information
>cd07767 MPN Mpr1p, Pad1p N-terminal (MPN) domains Back     alignment and domain information
>KOG1555 consensus 26S proteasome regulatory complex, subunit RPN11 [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>smart00232 JAB_MPN JAB/MPN domain Back     alignment and domain information
>cd08065 MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF2h Back     alignment and domain information
>cd08070 MPN_like Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) Back     alignment and domain information
>COG1310 Predicted metal-dependent protease of the PAD1/JAB1 superfamily [General function prediction only] Back     alignment and domain information
>cd08057 MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity (non metal-binding); eukaryotic Back     alignment and domain information
>cd08072 MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1/MPN/Mov34 metalloenzyme Back     alignment and domain information
>PF14464 Prok-JAB: Prokaryotic homologs of the JAB domain; PDB: 1OI0_A 1R5X_B 2KKS_A 2KCQ_A Back     alignment and domain information
>cd08062 MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in 19S proteasomal subunits Rpn7 and Rpn8 Back     alignment and domain information
>cd08073 MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains Back     alignment and domain information
>cd08064 MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF3f Back     alignment and domain information
>KOG1560 consensus Translation initiation factor 3, subunit h (eIF-3h) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>cd08061 MPN_NPL4 Mov34/MPN/PAD-1 family: nuclear protein localization-4 (Npl4) domain Back     alignment and domain information
>TIGR02256 ICE_VC0181 integrative and conjugative element protein, VC0181 family Back     alignment and domain information
>cd08060 MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family of unknown function includes neighbor of COX4 (Noc4p) Back     alignment and domain information
>TIGR03735 PRTRC_A PRTRC system protein A Back     alignment and domain information
>cd08059 MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); prokaryotic Back     alignment and domain information
>cd08063 MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in COP9 signalosome complex subunit 6 Back     alignment and domain information
>PLN03246 26S proteasome regulatory subunit; Provisional Back     alignment and domain information
>PF05021 NPL4: NPL4 family; InterPro: IPR007717 The HRD4 gene is identical to NPL4, a gene previously implicated in nuclear transport Back     alignment and domain information
>KOG1556 consensus 26S proteasome regulatory complex, subunit RPN8/PSMD7 [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PF03665 UPF0172: Uncharacterised protein family (UPF0172); InterPro: IPR005366 This is a small family of proteins of unknown function Back     alignment and domain information
>PF04212 MIT: MIT (microtubule interacting and transport) domain; InterPro: IPR007330 The MIT domain is found in vacuolar sorting proteins, spastin (probable ATPase involved in the assembly or function of nuclear protein complexes), and a sorting nexin, which may play a role in intracellular trafficking Back     alignment and domain information
>cd02684 MIT_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>smart00745 MIT Microtubule Interacting and Trafficking molecule domain Back     alignment and domain information
>cd02678 MIT_VPS4 MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>cd02683 MIT_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>cd02681 MIT_calpain7_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>cd02677 MIT_SNX15 MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>cd02656 MIT MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>KOG2975 consensus Translation initiation factor 3, subunit f (eIF-3f) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>cd02680 MIT_calpain7_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>KOG1795 consensus U5 snRNP spliceosome subunit [RNA processing and modification] Back     alignment and domain information
>cd02682 MIT_AAA_Arch MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>KOG2834 consensus Nuclear pore complex, rNpl4 component (sc Npl4) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG3289 consensus Uncharacterized conserved protein encoded by sequence overlapping the COX4 gene [General function prediction only] Back     alignment and domain information
>cd08071 MPN_DUF2466 Mov34/MPN/PAD-1 family Back     alignment and domain information
>PF14220 DUF4329: Domain of unknown function (DUF4329) Back     alignment and domain information
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification] 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 ?
Query460
3rzu_A187 The Crystal Structure Of The Catalytic Domain Of Am 8e-28
2znr_A178 Crystal Structure Of The Dub Domain Of Human Amsh-L 1e-27
3rzv_A211 The Crystal Structure Of A E280a Mutant Of The Cata 3e-27
2znv_A178 Crystal Structure Of Human Amsh-Lp Dub Domain In Co 6e-27
4b4t_V 306 Near-Atomic Resolution Structural Model Of The Yeas 6e-04
2xze_A146 Structural Basis For Amsh-Escrt-Iii Chmp3 Interacti 7e-04
>pdb|3RZU|A Chain A, The Crystal Structure Of The Catalytic Domain Of Amsh Length = 187 Back     alignment and structure 
Iteration: 1

 Score =  121 bits (303), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 57/110 (51%), Positives = 78/110 (70%), Gaps = 3/110 (2%)
Query: 345 FMKLAKSNTDKNLETCGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEEIFEVQDKR 404
           F++LA +NT + +ETCGIL G L   +F IT ++IPKQ + SD C   NEEE+F +QD++
Sbjct: 30  FLQLASANTARGVETCGILCGKLMRNEFTITHVLIPKQSAGSDYCNTENEEELFLIQDQQ 89
Query: 405 SLFPLGWIHTHPTQSCFMSSIDVHTHYSYQVNVVPD--ARSCWKKRGEIG 452
            L  LGWIHTHPTQ+ F+SS+D+HTH SYQ+ ++P+  A  C  K  E G
Sbjct: 90  GLITLGWIHTHPTQTAFLSSVDLHTHCSYQM-MLPESVAIVCSPKFQETG 138
>pdb|2ZNR|A Chain A, Crystal Structure Of The Dub Domain Of Human Amsh-Lp Length = 178 Back     alignment and structure
>pdb|3RZV|A Chain A, The Crystal Structure Of A E280a Mutant Of The Catalytic Domain Of Amsh Length = 211 Back     alignment and structure
>pdb|2ZNV|A Chain A, Crystal Structure Of Human Amsh-Lp Dub Domain In Complex With Lys63-Linked Ubiquitin Dimer Length = 178 Back     alignment and structure
>pdb|4B4T|V Chain V, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 306 Back     alignment and structure
>pdb|2XZE|A Chain A, Structural Basis For Amsh-Escrt-Iii Chmp3 Interaction Length = 146 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 ?
Query460
3rzv_A211 STAM-binding protein; ubiquitin hydrolase, endosom 3e-42
2znr_A178 AMSH-like protease; metal binding protein, alterna 2e-36
2og4_A254 PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN 1e-24
2xze_A146 STAM-binding protein; hydrolase-protein transport 3e-22
3sbg_A565 PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain, 2e-20
2p8r_A 273 PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, t 9e-19
2a9u_A144 Ubiquitin carboxyl-terminal hydrolase 8; coil-COIL 5e-09
2kks_A146 Uncharacterized protein; NESG, structural genomics 4e-07
2kcq_A153 MOV34/MPN/PAD-1 family; NESG, structure, structura 2e-04
>3rzv_A STAM-binding protein; ubiquitin hydrolase, endosome-associated deubiquitinat enzyme, hydrolase; 1.67A {Homo sapiens} PDB: 3rzu_A Length = 211 Back     alignment and structure
 Score =  147 bits (373), Expect = 3e-42
 Identities = 56/155 (36%), Positives = 82/155 (52%), Gaps = 13/155 (8%)

Query: 282 APNSADVIRQPSPPPVLTEVQDLIAAMSPQVTETECQVGNSLSDAFDRSEPLQLHISTTM 341
             +      +P+ PPV+          S +             D         + +   +
Sbjct: 4   GSSDCHTTVRPAKPPVVDR--------SLKPGALSNSESIPTIDGLR-----HVVVPGRL 50

Query: 342 MDNFMKLAKSNTDKNLETCGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEEIFEVQ 401
              F++LA +NT + + TCGIL G L   +F IT ++IPKQ + SD C   NEEE+F +Q
Sbjct: 51  CPQFLQLASANTARGVATCGILCGKLMRNEFTITHVLIPKQSAGSDYCNTENEEELFLIQ 110

Query: 402 DKRSLFPLGWIHTHPTQSCFMSSIDVHTHYSYQVN 436
           D++ L  LGWIHTHPTQ+ F+SS+D+HTH SYQ+ 
Sbjct: 111 DQQGLITLGWIHTHPTQTAFLSSVDLHTHCSYQMM 145
>2znr_A AMSH-like protease; metal binding protein, alternative splicing, hydrolase, metal-binding, metalloprotease, UBL conjugation pathway, zinc; 1.20A {Homo sapiens} PDB: 2znv_A Length = 178 Back     alignment and structure
>2og4_A PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN domain, protein-PR interaction, PRP8P, pseudoenzyme, spliceosome activation; 2.00A {Saccharomyces cerevisiae} Length = 254 Back     alignment and structure
>2xze_A STAM-binding protein; hydrolase-protein transport complex; 1.75A {Homo sapiens} Length = 146 Back     alignment and structure
>3sbg_A PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain, JAB1/MPN domain; 3.28A {Saccharomyces cerevisiae} Length = 565 Back     alignment and structure
>2p8r_A PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, translation; 2.10A {Caenorhabditis elegans} PDB: 2p87_A Length = 273 Back     alignment and structure
>2a9u_A Ubiquitin carboxyl-terminal hydrolase 8; coil-COIL, protease, SH3-binding, thiol protease, UBL conjugation pathway, structural genomics; 2.10A {Homo sapiens} SCOP: a.118.23.1 Length = 144 Back     alignment and structure
>2kks_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein structure initiati northeast structural genomics consortium; NMR {Desulfitobacterium hafniense} Length = 146 Back     alignment and structure
>2kcq_A MOV34/MPN/PAD-1 family; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Salinibacter ruber dsm 13855} Length = 153 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query460
3rzv_A211 STAM-binding protein; ubiquitin hydrolase, endosom 100.0
2znr_A178 AMSH-like protease; metal binding protein, alterna 99.97
4b4t_V 306 26S proteasome regulatory subunit RPN11; hydrolase 99.95
2xze_A146 STAM-binding protein; hydrolase-protein transport 99.94
2og4_A254 PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN 99.94
2p8r_A 273 PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, t 99.91
2a9u_A144 Ubiquitin carboxyl-terminal hydrolase 8; coil-COIL 99.91
2kks_A146 Uncharacterized protein; NESG, structural genomics 99.81
2kcq_A153 MOV34/MPN/PAD-1 family; NESG, structure, structura 99.81
3sbg_A565 PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain, 99.72
2o95_A187 26S proteasome non-ATPase regulatory subunit 7; PS 99.67
1oi0_A124 AF2198, hypothetical protein AF2198; proteasome, d 99.65
4e0q_A141 COP9 signalosome complex subunit 6; MPN (MPR1P and 99.59
4b4t_U 338 RPN8, 26S proteasome regulatory subunit RPN8; hydr 98.76
2cpt_A117 SKD1 protein, vacuolar sorting protein 4B; MIT, he 96.7
4a5x_A86 MITD1, MIT domain-containing protein 1; protein tr 96.59
1wfd_A93 Hypothetical protein 1500032H18; MIT domain, struc 96.51
2v6x_A85 Vacuolar protein sorting-associated protein 4; pro 96.29
2w2u_A83 Hypothetical P60 katanin; hydrolase transport comp 96.04
2v6y_A83 AAA family ATPase, P60 katanin; MIT, VPS4, archaea 95.75
2ymb_A257 MITD1, MIT domain-containing protein 1; protein tr 94.45
2qlc_A126 DNA repair protein RADC homolog; MCSG, structural 85.41
2zan_A444 Vacuolar protein sorting-associating protein 4B; S 85.38
>3rzv_A STAM-binding protein; ubiquitin hydrolase, endosome-associated deubiquitinat enzyme, hydrolase; 1.67A {Homo sapiens} PDB: 3rzu_A Back     alignment and structure
Probab=100.00  E-value=1.8e-33  Score=268.65  Aligned_cols=119  Identities=43%  Similarity=0.751  Sum_probs=115.8

Q ss_pred             CeEEEeCHHHHHHHHHHhhccCCCCeeeEEEeeeeEeCCeEEEEEEeecCCCCCCCccccCCHHHHHHHhhcCCCcccee
Q 012602          332 PLQLHISTTMMDNFMKLAKSNTDKNLETCGILAGSLKNRKFYITALIIPKQESTSDSCQATNEEEIFEVQDKRSLFPLGW  411 (460)
Q Consensus       332 ~~~V~is~~~~~~fl~hA~~nt~~~~E~cGiL~G~~~~~~~~It~~~~p~q~~t~d~c~~~~E~ei~~~~~~~~l~~vGW  411 (460)
                      |++|.||.+++.+|+.||..||.+++|+||+|+|++.++.+.|+++|+|+|.+++++|++.+++++|++++.+++.+|||
T Consensus        41 lr~v~Ipk~ll~kfL~~A~~~tp~~~EvcGlL~Gk~~~~~~~I~~v~~ppq~gt~~~v~~~~~~e~~~~~~~~~l~~vGW  120 (211)
T 3rzv_A           41 LRHVVVPGRLCPQFLQLASANTARGVATCGILCGKLMRNEFTITHVLIPKQSAGSDYCNTENEEELFLIQDQQGLITLGW  120 (211)
T ss_dssp             BCCEEEETTHHHHHHHHHHHHHHTTCCCEEEEEEEEETTEEEEEEEEECCEEECSSCEEECCHHHHHHHHHHHTCEEEEE
T ss_pred             cEEEEECHHHHHHHHHHHHhCCCCCceEEEEEEeEcCCCCEEEEEEEeCCccCCCCceeccChHHHHHHHhhCCCEEEEE
Confidence            89999999999999999999988899999999999999999999999999999999999999999999999999999999


Q ss_pred             eccCCCCCCCCChhHHhhhhhhccccCCCceEEEecCCcc
Q 012602          412 IHTHPTQSCFMSSIDVHTHYSYQVNVVPDARSCWKKRGEI  451 (460)
Q Consensus       412 yHSHP~~t~flSsvDl~Tq~~yQ~m~~pe~iAIV~sP~~t  451 (460)
                      |||||+++||||++|++||++||.| +|++|||||||.++
T Consensus       121 yHSHP~~~~~pS~~Dl~tq~~~q~~-~~~~I~IVvsP~~~  159 (211)
T 3rzv_A          121 IHTHPTQTAFLSSVDLHTHCSYQMM-LPESVAIVCSPKFQ  159 (211)
T ss_dssp             EEECTTSCSCCCHHHHHHHHHHHHH-CTTCEEEEEETTTT
T ss_pred             EeCCCCCCCCCCHHHHHHHHHHHhc-CCCeEEEEEcCCCC
Confidence            9999999999999999999999999 99999999999965
>2znr_A AMSH-like protease; metal binding protein, alternative splicing, hydrolase, metal-binding, metalloprotease, UBL conjugation pathway, zinc; 1.20A {Homo sapiens} PDB: 2znv_A Back     alignment and structure
>4b4t_V 26S proteasome regulatory subunit RPN11; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
>2xze_A STAM-binding protein; hydrolase-protein transport complex; 1.75A {Homo sapiens} Back     alignment and structure
>2og4_A PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN domain, protein-PR interaction, PRP8P, pseudoenzyme, spliceosome activation; 2.00A {Saccharomyces cerevisiae} Back     alignment and structure
>2p8r_A PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, translation; 2.10A {Caenorhabditis elegans} PDB: 2p87_A Back     alignment and structure
>2a9u_A Ubiquitin carboxyl-terminal hydrolase 8; coil-COIL, protease, SH3-binding, thiol protease, UBL conjugation pathway, structural genomics; 2.10A {Homo sapiens} SCOP: a.118.23.1 Back     alignment and structure
>2kks_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein structure initiati northeast structural genomics consortium; NMR {Desulfitobacterium hafniense} Back     alignment and structure
>2kcq_A MOV34/MPN/PAD-1 family; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Salinibacter ruber dsm 13855} Back     alignment and structure
>3sbg_A PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain, JAB1/MPN domain; 3.28A {Saccharomyces cerevisiae} Back     alignment and structure
>2o95_A 26S proteasome non-ATPase regulatory subunit 7; PSMD7, MOV34, JAB1/MPN, metal-free dimer, UN function; HET: SO4 12P ETE PG4 PGE; 1.95A {Homo sapiens} PDB: 2o96_A Back     alignment and structure
>1oi0_A AF2198, hypothetical protein AF2198; proteasome, deubiquitination, archaea, hydrolase; 1.5A {Archaeoglobus fulgidus} SCOP: c.97.3.1 PDB: 1r5x_A Back     alignment and structure
>4e0q_A COP9 signalosome complex subunit 6; MPN (MPR1P and PAD1P N-terminal) domain, unknown function; 2.50A {Drosophila melanogaster} Back     alignment and structure
>4b4t_U RPN8, 26S proteasome regulatory subunit RPN8; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
>2cpt_A SKD1 protein, vacuolar sorting protein 4B; MIT, helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.7.14.1 Back     alignment and structure
>4a5x_A MITD1, MIT domain-containing protein 1; protein transport, ESCRT, cytokinesis, midbody; HET: P15; 1.91A {Homo sapiens} Back     alignment and structure
>1wfd_A Hypothetical protein 1500032H18; MIT domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: a.7.14.1 Back     alignment and structure
>2v6x_A Vacuolar protein sorting-associated protein 4; protein transport, vacuole, endosome, transport, ESCRT-III, VPS2, VPS4, SKD1, VPS4B, VPS4A; 1.98A {Saccharomyces cerevisiae} Back     alignment and structure
>2w2u_A Hypothetical P60 katanin; hydrolase transport complex, nucleotide-binding, ESCRT, AAA-ATPase, cytokinesis, ATP-binding; 2.20A {Sulfolobus acidocaldarius} Back     alignment and structure
>2v6y_A AAA family ATPase, P60 katanin; MIT, VPS4, archaea, AAA-ATPase, ATP-binding, microtubule INT and trafficking domain, nucleotide-binding; HET: SRT; 2.40A {Sulfolobus solfataricus} PDB: 2v6y_B* Back     alignment and structure
>2ymb_A MITD1, MIT domain-containing protein 1; protein transport, membrane, PLD; 3.40A {Homo sapiens} Back     alignment and structure
>2qlc_A DNA repair protein RADC homolog; MCSG, structural genomics, PSI-2, structure initiative; HET: DNA; 2.30A {Chlorobium tepidum tls} Back     alignment and structure
>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 460
d2a9ua1134 a.118.23.1 (A:6-139) Ubiquitin carboxyl-terminal h 6e-19
d1oi0a_121 c.97.3.1 (A:) Hypothetical protein AF2198 {Archaeo 2e-09
>d2a9ua1 a.118.23.1 (A:6-139) Ubiquitin carboxyl-terminal hydrolase 8, USH8 {Human (Homo sapiens) [TaxId: 9606]} Length = 134 Back     information, alignment and structure

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: USP8 N-terminal domain-like
family: USP8 N-terminal domain-like
domain: Ubiquitin carboxyl-terminal hydrolase 8, USH8
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 80.7 bits (199), Expect = 6e-19
 Identities = 17/97 (17%), Positives = 40/97 (41%), Gaps = 2/97 (2%)

Query: 20  DNRIALRYYYRIADNILKQADIFREEKNIIDLYVMLLRFSSLVTETIPCHRDY-LASFKS 78
             +I+ + Y   A  I K A+  R +++    YV+ +++ ++    I    D+       
Sbjct: 23  PEKISTKSYVHSALKIFKTAEECRLDRDEERAYVLYMKYVTVY-NLIKKRPDFKQQQDYF 81

Query: 79  QKLYLKKKLLNALSELEELQPAVQQKINELNRKKTNQ 115
             +     +  A+ E E L  +++ +  E   +K  +
Sbjct: 82  HSILGPGNIKKAVEEAERLSESLKLRYEEAEVRKKLE 118
>d1oi0a_ c.97.3.1 (A:) Hypothetical protein AF2198 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 121 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query460
d2a9ua1134 Ubiquitin carboxyl-terminal hydrolase 8, USH8 {Hum 99.93
d1oi0a_121 Hypothetical protein AF2198 {Archaeon Archaeoglobu 99.54
d1wfda_93 Hypothetical protein 1500032H18Rik {Mouse (Mus mus 96.88
d1wr0a177 Vacuolar sorting protein 4b (VPS4B, SKD1 protein) 96.05
>d2a9ua1 a.118.23.1 (A:6-139) Ubiquitin carboxyl-terminal hydrolase 8, USH8 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: USP8 N-terminal domain-like
family: USP8 N-terminal domain-like
domain: Ubiquitin carboxyl-terminal hydrolase 8, USH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=1.4e-26  Score=204.78  Aligned_cols=103  Identities=18%  Similarity=0.297  Sum_probs=92.3

Q ss_pred             hHHHhhcCcccCC-CCcHHHHHHHHHHHHHHHHHHHHhcChhhHHHHHHHHHHHHhccCCCCcccccccHHHHHHH-HHH
Q 012602            9 NIAASAQRLDVDN-RIALRYYYRIADNILKQADIFREEKNIIDLYVMLLRFSSLVTETIPCHRDYLASFKSQKLYL-KKK   86 (460)
Q Consensus         9 ~l~~~a~~~evn~-~iplr~Y~Rsa~~llr~A~iy~~egn~e~AYily~Ry~~LvlekLpkHpdyk~~~~~~k~~l-~~~   86 (460)
                      +|.++++.++||+ +||+++|||||++|+++|++|++|||+|+||||||||++|| ++|++||||+......+..+ .++
T Consensus        11 sl~dL~k~~e~~~~~i~~k~y~rsa~~l~~~A~~y~~egd~E~AYily~Ry~~L~-eki~kHpdyk~~~~~~~~~l~~~~   89 (134)
T d2a9ua1          11 SLKDLNKKTEVKPEKISTKSYVHSALKIFKTAEECRLDRDEERAYVLYMKYVTVY-NLIKKRPDFKQQQDYFHSILGPGN   89 (134)
T ss_dssp             SHHHHHGGGCCCGGGSCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-HHHTTSHHHHHTHHHHHHHHCHHH
T ss_pred             hHHHHHHhhccCcccCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-HHHHcCcccccchhHHHHHHhhhh
Confidence            5788999999997 59999999999999999999999999999999999999998 99999999997654444433 477


Q ss_pred             HHHHHHHHHhhcHHHHHHHHHHHHhh
Q 012602           87 LLNALSELEELQPAVQQKINELNRKK  112 (460)
Q Consensus        87 l~~vl~~lE~LK~~L~~~Y~~~~~~~  112 (460)
                      ++.+|+++|.||+.|+++|+++++..
T Consensus        90 ~~~~l~~~E~Lk~~L~~rYe~~~~~~  115 (134)
T d2a9ua1          90 IKKAVEEAERLSESLKLRYEEAEVRK  115 (134)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999987644
>d1oi0a_ c.97.3.1 (A:) Hypothetical protein AF2198 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1wfda_ a.7.14.1 (A:) Hypothetical protein 1500032H18Rik {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1wr0a1 a.7.14.1 (A:5-81) Vacuolar sorting protein 4b (VPS4B, SKD1 protein) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure