Citrus Sinensis ID: 017653

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------37
Protein Sequence
MATTEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAISTPKSPVKSSSSGRRSKPVPKKTLVQEEYTSPIEEPIKDVEDPPELSSEPLCRNTQTKRQILSAAESSIQHTPDKGTEDIARPFDGKSDLWKPLNVLVEAATRPRKSLGRPKKAAVSAGLNVSAQAVVDTNQRFDGRFGPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSYGRKAQPP
Secondary Structure (PSIPRED)
ccccccEEEEcccccccccccHHHHHcccccccccccccHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHcccccccccccHHHcccccccccccccccccccccccccEEEEEcccccccccccccccccEEEEEcccccHHHHHHHHHHHHccccccEEEEEEccccccccccHHHHHHHHHcccccccccccccccccccEEEEEEEccccccc
Secondary Structure Prediction (SSPRO)
ccccccEEEEEHHHcccccEcHHcccHHHcHHHHHHHHHHHHHHHHHHHHcccccccccccEEEEccccHHHccccccHHHHHHHHccHHHHHHHccccccccccccccccccccccEEccccccccccccccccHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHcccccHccccccccccccccccccccccHHHccccHHHHHHHccccccccccccccccccccccccccccHHHHccccccccEEEEEEEccccccccccccccccEEEEccccccHHHHHHHHHHHcccccccEEEEEEccccccccccHHHHHHHHHHccccccccccEccccHHHHEEEEEcccccccc
Coil and Loop (DISEMBL)
MATTEQTLKVNREKLvacmtcplcsklfrdATTISECLHSFCRKCIYEKiteeeidscpvcntdlgcapleklradhnlqdlrikifpskrrnldapdsvssvplparrkeislsslaistpkspvkssssgrrskpvpkktlvqeeytspieepikdvedppelsseplcrntqTKRQILSAAEssiqhtpdkgtediarpfdgksdlwkpLNVLVEAatrprkslgrpkkaaVSAGLNVSAqavvdtnqrfdgrfgpIWFSLVasdeqegdeplpqisscylrvkdgrlpVSFIKRYIVKKLNLISEAEVEislrgqpvlstlELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSygrkaqpp
Flexible Loop (DISEMBL)
matteqtlkvnreklvaCMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKifpskrrnldapdsvssvplparrkeislsslaistpkspvkssssgrrskpvpkktlvqeeytspieepikdvedppelssEPLCRNTQTKRQILSAaessiqhtpdkgtEDIARPfdgksdlwkpLNVLVEaatrprkslgrpkkaavsaglnvsaqavVDTNQRFDGRFGPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSygrkaqpp
Low Complexity Region (SEG)
MATTEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAISTpkspvkssssgrrskpvpkkTLVQEEYTSPIEEPIKDVEDPPELSSEPLCRNTQTKRQILSAAESSIQHTPDKGTEDIARPFDGKSDLWKPLNVLVEAATRPRKSLGRPKKAAVSAGLNVSAQAVVDTNQRFDGRFGPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSYGRKAQPP
Disordered region (IsUnstruct)
*********VNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIF*************************************************************************************************************************LWKPLNVLVE*******************GLNVSAQAVVDTNQRFDGRFGPIWFSLVA***********QISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSY*******
Disordered Region (DISOPRED)
************EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIF****************************************************************************************************************************************************************************IW****************QISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQ*****************DFVMVL**GR*****
Disordered Region (DISEMBL)
MATTEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAI**********************TLVQEEYTSPIEEPIKDVEDPPELSSEPLCRNTQTKRQILSAAESSIQHTPDKGTEDIARPFDGKSDLWKPLNVLVEAAT****************GLNVSAQAVVDTNQRFDGRFGPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSYGRKAQPP
Disordered Region (DISPRO)
*****QTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVS**********************SPVKSSSSGRRSKPVPKKTLVQE***********DVEDPPELSSEPLCRNTQTKRQI**********************FDGKSDLWKPLNVLVEAAT**********************************RFGPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSYGRK****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MATTEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAISTPKSPVKSSSSGRRSKPVPKKTLVQEEYTSPIEEPIKDVEDPPELSSEPLCRNTQTKRQILSAAESSIQHTPDKGTEDIARPFDGKSDLWKPLNVLVEAATRPRKSLGRPKKAAVSAGLNVSAQAVVDTNQRFDGRFGPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSYGRKAQPP
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	368	2.2.26 [Sep-21-2011]
Q94AY3	420	E3 ubiquitin protein liga	yes	no	0.961	0.842	0.449	8e-89
Q9M9Y4	421	E3 ubiquitin protein liga	no	no	0.961	0.840	0.375	3e-64
Q9LS86	480	Probable E3 ubiquitin pro	no	no	0.290	0.222	0.504	1e-24
Q4QR06	259	Polycomb group RING finge	N/A	no	0.247	0.351	0.372	5e-11
Q28H21	259	Polycomb group RING finge	yes	no	0.247	0.351	0.372	6e-11
P35227	344	Polycomb group RING finge	yes	no	0.266	0.284	0.351	2e-10
P23798	342	Polycomb group RING finge	yes	no	0.266	0.286	0.351	3e-10
Q5SDR3	326	Polycomb complex protein	no	no	0.236	0.266	0.377	6e-10
Q7T3E6	324	Polycomb complex protein	no	no	0.236	0.268	0.377	6e-10
P25916	324	Polycomb complex protein	no	no	0.236	0.268	0.377	7e-10

>sp|Q94AY3|DRIP2_ARATH E3 ubiquitin protein ligase DRIP2 OS=Arabidopsis thaliana GN=DRIP2 PE=1 SV=1

 Score =  327 bits (838), Expect = 8e-89,   Method: Compositional matrix adjust.
 Identities = 184/409 (44%), Positives = 246/409 (60%), Gaps = 55/409 (13%)

Query: 9   KVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCA 68
           KV RE +VACMTCPLC KL RDATTISECLH+FCRKCIYEKITE+EI+SCPVC+ DLG  
Sbjct: 8   KVKRETVVACMTCPLCDKLLRDATTISECLHTFCRKCIYEKITEDEIESCPVCDIDLGGT 67

Query: 69  PLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAISTPKSPVKS 128
           PLEKLR DH LQDLR K+FP KR+   AP+ VSS+ LPA+RKE S+SSL +STP+   ++
Sbjct: 68  PLEKLRPDHILQDLRAKLFPLKRKKERAPEVVSSISLPAKRKERSISSLVVSTPRVSAQA 127

Query: 129 SSSGRRSKPVPKKTLVQE----EYTSPIEEPIKDVEDPPELSSEPLCRNTQTKRQILSAA 184
            ++G+R+K   +K +       + T   EE   D       S E L + TQ KRQ  S+ 
Sbjct: 128 GTTGKRTKAATRKDVRGSGSFTKRTVKKEEEFGDDHVESASSPETLKKFTQNKRQ--SSY 185

Query: 185 ESSIQHTPDKGTEDIARPFDGKSDLWKPLNVLVEAAT---RPRKSLGRPKKAAV------ 235
            +  Q   ++  +D+  P+D K  LWKPLN LV+ A     P+  LG      V      
Sbjct: 186 ANPNQSLSNRRNKDVDEPWDSKLHLWKPLNFLVDVANGTKDPKSELGNASHNDVQGSKTK 245

Query: 236 ------------------------SAGLNVSAQAVVDTNQRF-DGRF------------- 257
                                   +A L  + +     +  F D R              
Sbjct: 246 TKDHKRKCKLEEEISNNGDPTTSETATLKRTRRTRRKRSSTFGDSRIPLLPGAASLKQER 305

Query: 258 --GPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEIS 315
             G +WFSLVAS  QEG+  LPQI + YLR++DG +PVSFI++Y+++KL+L SE EVEI+
Sbjct: 306 RNGHVWFSLVASSNQEGEASLPQIPANYLRIRDGNIPVSFIQKYLMRKLDLKSEDEVEIT 365

Query: 316 LRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSYGRK 364
             G+PV+ TL+LH+L++ W++T+S  +R+   +GSSAK+FVMVL Y RK
Sbjct: 366 CMGEPVIPTLQLHSLVDLWLETTSKHQRVAASIGSSAKEFVMVLVYSRK 414

E3 ubiquitin-protein ligase that acts as a negative regulator of the response to water stress. Mediates ubiquitination and subsequent proteasomal degradation of the drought-induced transcriptional activator DREB2A. Functionally redundant with DRIP1.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9M9Y4|DRIP1_ARATH E3 ubiquitin protein ligase DRIP1 OS=Arabidopsis thaliana GN=DRIP1 PE=1 SV=2

 Score =  246 bits (627), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 156/416 (37%), Positives = 227/416 (54%), Gaps = 62/416 (14%)

Query: 8   LKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGC 67
           +KV +E + AC++C +C  + RDATTISECLH+FCRKCIYEKITE+EI++CPVCN DLG 
Sbjct: 3   IKVKKETMRACLSCSICDNILRDATTISECLHTFCRKCIYEKITEDEIETCPVCNIDLGS 62

Query: 68  APLEKLRADHNLQDLRIKIF---------------PSKRRNLDAPDSVSSVPLPA----- 107
            PLEKLR DHNLQDLR KIF               P KR+       V S P+ +     
Sbjct: 63  TPLEKLRPDHNLQDLRAKIFALKRRKVKAPGIVSLPGKRKERSISSLVVSTPMVSAQAGT 122

Query: 108 --------RRKEISLSSLA-----------------ISTPKSPVKSSSSGRRSKPVPKKT 142
                    RKE+   SLA                  S+P +  K + + R+SK   K++
Sbjct: 123 TRRRTKAPTRKELRNGSLAERTVKKEESSGDELLESTSSPDTLNKFTQNKRQSKKSCKES 182

Query: 143 LVQEEYTSPIEEPIKDVEDPPELS--------SEPL----CRNTQTKRQILSAAESSIQH 190
           +  +E     +EP     D   L+        ++PL     + + +K +  + + +  Q 
Sbjct: 183 ISNKENKDG-DEPWDSKMDWKPLNFLVEVANGTKPLKSSASQGSGSKSEHANVSRNQFQG 241

Query: 191 TPDKGTEDIARPF--DGKSDLWKPLNVLVEAATRPRKSLGRPKKAAVSAGLNVSAQAVVD 248
           +  K      +    D KS+   P     E  T  R    + K++A + G + +     +
Sbjct: 242 SKTKTKNKKRKCKREDDKSNNGDP--TTSETVTPKRMRTTQRKRSATTLGDSRNLPQPDE 299

Query: 249 TNQRFDGRFGPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLIS 308
           ++ + + R GP+WFSLVAS++QEG   LPQI + +LR++DG   VSFI++Y+++KL+L S
Sbjct: 300 SSAKQERRNGPVWFSLVASNDQEGGTSLPQIPANFLRIRDGNTTVSFIQKYLMRKLDLES 359

Query: 309 EAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSYGRK 364
           E E+EI   G+ V+ TL L+NL++ W+Q SS  +R   +VGSSAKDF MVL Y RK
Sbjct: 360 ENEIEIKCMGEAVIPTLTLYNLVDLWLQKSSNHQRFAALVGSSAKDFTMVLVYARK 415

E3 ubiquitin-protein ligase that acts as a negative regulator of the response to water stress. Mediates ubiquitination and subsequent proteasomal degradation of the drought-induced transcriptional activator DREB2A. Functionally redundant with DRIP2.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9LS86|DRIPH_ARATH Probable E3 ubiquitin protein ligase DRIPH OS=Arabidopsis thaliana GN=At3g23060 PE=2 SV=1

 Score =  114 bits (285), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 54/107 (50%), Positives = 74/107 (69%)

Query: 258 GPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLR 317
            P+WFSL  S  Q  +  LP I++C +RVKD  + VS++K+Y++ KL L SE +VEI LR
Sbjct: 363 NPVWFSLKPSKTQNIEMLLPPITACCIRVKDSNMTVSYLKKYLMVKLGLESEDQVEIWLR 422

Query: 318 GQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSYGRK 364
            +PV S+L LHNL++WWVQT+   ER   +VGSSA +F+M L Y  K
Sbjct: 423 DEPVCSSLTLHNLVDWWVQTTPLPERQSAMVGSSAAEFIMDLYYSFK 469

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q4QR06|PCGF1_XENLA Polycomb group RING finger protein 1 OS=Xenopus laevis GN=pcgf1 PE=2 SV=2

 Score = 68.9 bits (167), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 35/94 (37%), Positives = 55/94 (58%), Gaps = 3/94 (3%)

Query: 4   TEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNT 63
            E+ +KV  ++L   + C LC+  F DATTI+ECLH+FC+ CI + +   +   CP+CN 
Sbjct: 28  NEEVVKVKIKELNEHIVCYLCAGYFIDATTITECLHTFCKSCIVKYLQTSK--YCPLCNI 85

Query: 64  DLG-CAPLEKLRADHNLQDLRIKIFPSKRRNLDA 96
            +    PL  L+ D  +QD+  K+ P  + N D+
Sbjct: 86  KIHETQPLLNLKLDRVMQDIVYKLVPGLQENEDS 119

Component of Polycomb group (PcG) multiprotein complexes; the complex class is required to maintain the transcriptionally repressive state of some genes.

Xenopus laevis (taxid: 8355)

>sp|Q28H21|PCGF1_XENTR Polycomb group RING finger protein 1 OS=Xenopus tropicalis GN=pcgf1 PE=2 SV=1

 Score = 68.6 bits (166), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 35/94 (37%), Positives = 54/94 (57%), Gaps = 3/94 (3%)

Query: 4   TEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNT 63
            E+ +KV  ++L   + C LC+  F DATTI+ECLH+FC+ CI + +   +   CP+CN 
Sbjct: 28  NEEVVKVKIKELNEHIVCYLCAGYFIDATTITECLHTFCKSCIVKYLQTSK--YCPLCNI 85

Query: 64  DLG-CAPLEKLRADHNLQDLRIKIFPSKRRNLDA 96
            +    PL  L+ D  +QD+  K+ P  + N D 
Sbjct: 86  KIHETQPLLNLKLDRVMQDIVYKLVPGLQENEDG 119

Component of Polycomb group (PcG) multiprotein complexes; the complex class is required to maintain the transcriptionally repressive state of some genes.

Xenopus tropicalis (taxid: 8364)

>sp|P35227|PCGF2_HUMAN Polycomb group RING finger protein 2 OS=Homo sapiens GN=PCGF2 PE=1 SV=1

 Score = 67.0 bits (162), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/108 (35%), Positives = 56/108 (51%), Gaps = 10/108 (9%)

Query: 5   EQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTD 64
            +T ++   +L   + C LC   F DATTI ECLHSFC+ CI   +  E    CP+C+  
Sbjct: 2   HRTTRIKITELNPHLMCALCGGYFIDATTIVECLHSFCKTCIVRYL--ETNKYCPMCDVQ 59

Query: 65  LG-CAPLEKLRADHNLQDLRIKIFPS-------KRRNLDAPDSVSSVP 104
           +    PL  +R+D  LQD+  K+ P        +RR+  A   ++ VP
Sbjct: 60  VHKTRPLLSIRSDKTLQDIVYKLVPGLFKDEMKRRRDFYAAYPLTEVP 107

Transcriptional repressor. Binds specifically to the DNA sequence 5'-GACTNGACT-3'. Has tumor suppressor activity. May play a role in control of cell proliferation and/or neural cell development. Regulates proliferation of early T progenitor cells by maintaining expression of HES1. Also plays a role in antero-posterior specification of the axial skeleton and negative regulation of the self-renewal activity of hematopoietic stem cells. Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A 'Lys-119', rendering chromatin heritably changed in its expressibility. Is not functionally redundant with Bmi1; unlike Bmi1 does not stimulate the E3 ubiquitin-protein ligase activity in a reconstituted PRC1-like complex.

Homo sapiens (taxid: 9606)

>sp|P23798|PCGF2_MOUSE Polycomb group RING finger protein 2 OS=Mus musculus GN=Pcgf2 PE=1 SV=2

 Score = 66.2 bits (160), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 38/108 (35%), Positives = 56/108 (51%), Gaps = 10/108 (9%)

Query: 5   EQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTD 64
            +T ++   +L   + C LC   F DATTI ECLHSFC+ CI   +  E    CP+C+  
Sbjct: 2   HRTTRIKITELNPHLMCALCGGYFIDATTIVECLHSFCKTCIVRYL--ETNKYCPMCDVQ 59

Query: 65  LG-CAPLEKLRADHNLQDLRIKIFPS-------KRRNLDAPDSVSSVP 104
           +    PL  +R+D  LQD+  K+ P        +RR+  A   ++ VP
Sbjct: 60  VHKTRPLLSIRSDKTLQDIVYKLVPGLFKDEMKRRRDFYAAYPLTEVP 107

Transcriptional repressor. Binds specifically to the DNA sequence 5'-GACTNGACT-3'. Has tumor suppressor activity. May play a role in control of cell proliferation and/or neural cell development. Regulates proliferation of early T progenitor cells by maintaining expression of HES1. Also plays a role in antero-posterior specification of the axial skeleton and negative regulation of the self-renewal activity of hematopoietic stem cells. Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A 'Lys-119', rendering chromatin heritably changed in its expressibility. Is not functionally redundant with Bmi1; unlike Bmi1 does not stimulate the E3 ubiquitin-protein ligase activity in a reconstituted PRC1-like complex.

Mus musculus (taxid: 10090)

>sp|Q5SDR3|BMI1_CHICK Polycomb complex protein BMI-1 OS=Gallus gallus GN=BMI1 PE=2 SV=1

 Score = 65.5 bits (158), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 34/90 (37%), Positives = 49/90 (54%), Gaps = 3/90 (3%)

Query: 5  EQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTD 64
           +T ++   +L   + C LC   F DATTI ECLHSFC+ CI   +  E    CP+C+  
Sbjct: 2  HRTTRIKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYL--ETSKYCPICDVQ 59

Query: 65 LG-CAPLEKLRADHNLQDLRIKIFPSKRRN 93
          +    PL  +R+D  LQD+  K+ P   +N
Sbjct: 60 VHKTRPLLNIRSDKTLQDIVYKLVPGLFKN 89

Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A 'Lys-119', rendering chromatin heritably changed in its expressibility. In the PRC1 complex, it is required to stimulate the E3 ubiquitin-protein ligase activity of RNF2/RING2.

Gallus gallus (taxid: 9031)

>sp|Q7T3E6|BMI1B_DANRE Polycomb complex protein BMI-1-B OS=Danio rerio GN=bmi1b PE=2 SV=1

 Score = 65.5 bits (158), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 34/90 (37%), Positives = 49/90 (54%), Gaps = 3/90 (3%)

Query: 5  EQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTD 64
           +T ++   +L   + C LC   F DATTI ECLHSFC+ CI   +  E    CP+C+  
Sbjct: 2  HRTTRIKITELNPHLMCVLCGGYFIDATTIVECLHSFCKMCIVRYL--ETSKYCPICDVQ 59

Query: 65 LG-CAPLEKLRADHNLQDLRIKIFPSKRRN 93
          +    PL  +R+D  LQD+  K+ P   +N
Sbjct: 60 VHKTKPLLNIRSDKTLQDIVYKLVPGLFKN 89

Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A 'Lys-119', rendering chromatin heritably changed in its expressibility. In the PRC1 complex, it is required to stimulate the E3 ubiquitin-protein ligase activity of rnf2.

Danio rerio (taxid: 7955)

>sp|P25916|BMI1_MOUSE Polycomb complex protein BMI-1 OS=Mus musculus GN=Bmi1 PE=1 SV=1

 Score = 65.5 bits (158), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 34/90 (37%), Positives = 49/90 (54%), Gaps = 3/90 (3%)

Query: 5  EQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTD 64
           +T ++   +L   + C LC   F DATTI ECLHSFC+ CI   +  E    CP+C+  
Sbjct: 2  HRTTRIKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYL--ETSKYCPICDVQ 59

Query: 65 LG-CAPLEKLRADHNLQDLRIKIFPSKRRN 93
          +    PL  +R+D  LQD+  K+ P   +N
Sbjct: 60 VHKTRPLLNIRSDKTLQDIVYKLVPGLFKN 89

Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A 'Lys-119', rendering chromatin heritably changed in its expressibility. In the PRC1 complex, it is required to stimulate the E3 ubiquitin-protein ligase activity of RNF2/RING2.

Mus musculus (taxid: 10090)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	368
224111060	419	predicted protein [Populus trichocarpa]	0.964	0.847	0.536	1e-110
255551951	434	ring finger protein, putative [Ricinus c	0.994	0.843	0.513	1e-107
147772496	391	hypothetical protein VITISV_032146 [Viti	0.975	0.918	0.525	1e-101
224131246	406	predicted protein [Populus trichocarpa]	0.978	0.886	0.492	8e-94
225437241	430	PREDICTED: E3 ubiquitin protein ligase D	0.991	0.848	0.452	1e-91
359477378	429	PREDICTED: E3 ubiquitin protein ligase D	0.961	0.825	0.462	1e-89
18402394	420	E3 ubiquitin protein ligase DRIP2 [Arabi	0.961	0.842	0.449	5e-87
297822773	420	zinc finger family protein [Arabidopsis	0.961	0.842	0.440	3e-85
224066301	436	predicted protein [Populus trichocarpa]	0.970	0.818	0.457	1e-84
224099889	415	predicted protein [Populus trichocarpa]	0.847	0.751	0.495	3e-83

>gi|224111060|ref|XP_002315733.1| predicted protein [Populus trichocarpa] gi|222864773|gb|EEF01904.1| predicted protein [Populus trichocarpa]

 Score =  404 bits (1039), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 227/423 (53%), Positives = 279/423 (65%), Gaps = 68/423 (16%)

Query: 6   QTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
           Q +KV RE++ ACMTCPLC+KLFRDATTISECLH+FCRKCIY+KIT+EE+DSCPVC+T+L
Sbjct: 5   QVVKVQREEIAACMTCPLCNKLFRDATTISECLHTFCRKCIYKKITDEELDSCPVCDTEL 64

Query: 66  GCAPLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAISTPKSP 125
           GC+PLEKLRADH+ QDLR KIF S R+    P++VS VP      E SLSSL +STPK  
Sbjct: 65  GCSPLEKLRADHSWQDLRAKIFLSNRKKAKEPETVSLVP----EDERSLSSLVVSTPKKS 120

Query: 126 VKSSSSGRRSKPVPKKTLVQEEYTSPIEEPIKDVEDPPE-LSS-EPLCRNTQTKRQILSA 183
           VKS  +G+RSKP+ +K     E    I+E +K V+D  E LSS E L +  QTKRQ  S 
Sbjct: 121 VKSFLTGKRSKPIARK----RESPVLIKELVKKVDDYYESLSSPETLSKIAQTKRQNSST 176

Query: 184 AESSIQHTPDK----------GTEDIARPFD--------GKSDLWKPLNVLVE------- 218
           AES  QH P+K          G  D  +P +         KS+  +   +LV+       
Sbjct: 177 AESPKQHKPNKVSEDGVKPCKGKADFWKPLNCSVEGSSKTKSNKSELQEILVQIKKLDAQ 236

Query: 219 -------------------------------AATRPRKSLG-RPKKAAVSAGLNVSAQAV 246
                                           + + R+  G + K+AA S GLN+ AQ +
Sbjct: 237 EKAQSLKTSVKEHGDKSKVNGEESNSTSWPSVSVKSRRLQGMQQKRAAPSEGLNIPAQTI 296

Query: 247 VDTNQRFDGRFGPIWFSLVASD-EQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLN 305
           VD N + D R  PIWFSLVASD EQ G  PLPQISSCYLRVKDG LPVS+IK+Y+ +KL 
Sbjct: 297 VDANSKCDTRLSPIWFSLVASDHEQGGSAPLPQISSCYLRVKDGSLPVSYIKKYLAQKLG 356

Query: 306 LISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSYGRKA 365
           L+ EAEVEIS+RGQPV+STL+LHNL++WW+QT+SASERI+T VGSSAKDFVMVLSYGRKA
Sbjct: 357 LVREAEVEISMRGQPVVSTLQLHNLVDWWLQTASASERIRTTVGSSAKDFVMVLSYGRKA 416

Query: 366 QPP 368
            PP
Sbjct: 417 HPP 419

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255551951|ref|XP_002517020.1| ring finger protein, putative [Ricinus communis] gi|223543655|gb|EEF45183.1| ring finger protein, putative [Ricinus communis]

 Score =  394 bits (1012), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 224/436 (51%), Positives = 276/436 (63%), Gaps = 70/436 (16%)

Query: 1   MATTEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPV 60
           M TT Q +KV REKL  CMTCPLC+KLFRDATTISECLH+FCRKCIY KIT+EE D+CPV
Sbjct: 1   MTTTRQVVKVEREKLETCMTCPLCNKLFRDATTISECLHTFCRKCIYRKITDEEFDNCPV 60

Query: 61  CNTDLGCAPLEKLRADHNLQDLRIKIFPSKRRNLDAP-------DSVSSVPLPARRKEIS 113
           CN DLGC+PLEKLRADH+L+DL+ K FPSKR+   AP       + V SV LPARRKEIS
Sbjct: 61  CNIDLGCSPLEKLRADHSLEDLKTKFFPSKRQKAKAPAVMPLVPEPVPSVLLPARRKEIS 120

Query: 114 LSSLAISTPKSPVKSSSSGRRSKPVPKKTLVQEEYTSPIEEPIKDVEDPPELSSEP--LC 171
           LSSL +STPK   KS    +R K + +K     E    IEE IK ++   E  S P  + 
Sbjct: 121 LSSLVVSTPKVSSKSVLPRKRLKAIARKNPALRESIL-IEESIKKLDRLHESLSSPETIT 179

Query: 172 RNTQTKRQILSAAESSIQHTPDKGTEDIARPFDGKSDLWK------------------PL 213
           +  Q+ RQ  S+ +SS QH  +K  ED A P + K+DLWK                  P 
Sbjct: 180 KIAQSIRQN-SSPDSSKQHKKEKDAEDSAEPCESKADLWKPLNFLVEVANKSKLTKLNPQ 238

Query: 214 NVLVE----------------------------------------AATRPRKSLG-RPKK 232
           + LV+                                        ++ + RKS G R ++
Sbjct: 239 DTLVQMQLPDPAENEPDEVVKNNDDHGNRSKANGNANELVPSPSKSSVKTRKSQGLRQRR 298

Query: 233 AAVSAGLNVSAQAVVDTNQRFDGRFGPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLP 292
           AA   G  V A+AV D + +  G F PIWFSL+AS++Q+ D PLPQI+SCYLRVKDG LP
Sbjct: 299 AAELEGSTVPAKAVTDASSKCCGEFSPIWFSLIASNDQKVDAPLPQITSCYLRVKDGSLP 358

Query: 293 VSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSA 352
           VSFIK+Y+V+KL L SEAEVEI L+G+PV+STL L N+++WW++ +  SERIQT VGSSA
Sbjct: 359 VSFIKKYLVQKLGLNSEAEVEIGLQGKPVVSTLPLQNIVDWWLKMAPTSERIQTTVGSSA 418

Query: 353 KDFVMVLSYGRKAQPP 368
           KDFVMVLSYGRKAQPP
Sbjct: 419 KDFVMVLSYGRKAQPP 434

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147772496|emb|CAN60778.1| hypothetical protein VITISV_032146 [Vitis vinifera]

 Score =  375 bits (964), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 203/386 (52%), Positives = 261/386 (67%), Gaps = 27/386 (6%)

Query: 9   KVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCA 68
           KV RE+L ACMTC +C+KLF DATTISECLH+FCRKCI++KITE+E+D CPVCNT+LGCA
Sbjct: 7   KVPRERLAACMTCRICNKLFDDATTISECLHTFCRKCIFDKITEDELDYCPVCNTNLGCA 66

Query: 69  PLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAISTPKSPVKS 128
           PLEKLR DHNLQDL  KIFPS++  + AP+ V+SVPLPARRKE SLSSL +STP+   ++
Sbjct: 67  PLEKLRPDHNLQDLTAKIFPSEKSKVVAPEEVASVPLPARRKERSLSSLGVSTPRVSSQT 126

Query: 129 SSSGRRSKPVPKKTLVQEEYTSPIEEPIKDVEDPPELSSEP--LCRNTQTKRQI---LSA 183
             +G+R+K   ++     E T P+EEPIK  ED PE  S P  L +  Q K+ +    S+
Sbjct: 127 VMTGKRTKSAARRLSAARESTFPVEEPIKKEEDYPENPSSPEILNKRAQNKKNLKENYSS 186

Query: 184 AESSIQHTPDKGTEDIARPFD----------------GKSDLWKPLNVLVE---AATRPR 224
           AESS QH  +KG+   + P                  GK       N        + +PR
Sbjct: 187 AESSKQHI-NKGSLAKSTPSHVDDKEAHVPKAKLKERGKLKFQDEENGTTHVPSGSVKPR 245

Query: 225 KSLGRPKKAAVSAGLNVSAQAVVDTNQRFDGRFGPIWFSLVASDEQEGDEPLPQISSCYL 284
              GR KKAA   G ++ A A  D N + + R  P+WFSLVASD QEGD PLPQI S YL
Sbjct: 246 IRGGRQKKAATPEGFSIPALAENDGNSKCNIRACPVWFSLVASDNQEGDAPLPQIPSSYL 305

Query: 285 RVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTS--SASE 342
           R++DG LPVSF+++Y+V+KL+L SE+EVEI+LRGQPV+ TL+L +L++ W Q +  + SE
Sbjct: 306 RMRDGHLPVSFLQKYLVQKLHLNSESEVEITLRGQPVVPTLQLQSLVDLWFQAAAPTTSE 365

Query: 343 RIQTVVGSSAKDFVMVLSYGRKAQPP 368
             Q  +GSSAK+FVMVLSYGRK + P
Sbjct: 366 ATQPPIGSSAKEFVMVLSYGRKPKTP 391

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224131246|ref|XP_002328491.1| predicted protein [Populus trichocarpa] gi|222838206|gb|EEE76571.1| predicted protein [Populus trichocarpa]

 Score =  350 bits (897), Expect = 8e-94,   Method: Compositional matrix adjust.
 Identities = 198/402 (49%), Positives = 255/402 (63%), Gaps = 42/402 (10%)

Query: 6   QTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
           Q +KV RE L ACMTCPLC+KL ++ATTI  CLH+FCRKCIYEK+++EE+D CPVCN +L
Sbjct: 4   QIVKVKREILEACMTCPLCNKLLKEATTIFSCLHTFCRKCIYEKLSDEEVDCCPVCNMNL 63

Query: 66  GCAPLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAISTPKSP 125
           GC P++KLRADHNLQD+R KIFP KRR + AP+ + S+ LPA+RKE SLSSL +ST K P
Sbjct: 64  GCLPVDKLRADHNLQDIRAKIFPFKRRKVKAPEIIPSIALPAKRKERSLSSLVVSTSKVP 123

Query: 126 VKSSSSGRRSKPVPKKTLVQEEYTSPIEEPIKDVEDPPELSS--EPLCRNTQTKRQILSA 183
           +++  +GRRSK   +K       +  +EE   +      LSS   P+ ++ Q +R   S 
Sbjct: 124 IQTGLTGRRSKAGARKAAALRGCSFTVEESKNEDSAKDNLSSPGSPV-KSIQKRRLDSSV 182

Query: 184 AESSIQHTP-DKGTEDIARPFDGKSDLWKPLNVLVEAATRP------------------- 223
           AE S +  P D G +D  +  +GK+DLW PLN LVEAA R                    
Sbjct: 183 AEPSTEQRPNDDGEDDDVQMIEGKADLWTPLNCLVEAANRTKSSNDIYMAKTKNEHGQGI 242

Query: 224 ------------------RKSLGRPKKAAVSAGLNVS-AQAVVDTNQRFDGRFGPIWFSL 264
                             R+     K+AA+S GL  S    V     + + R GPIWFSL
Sbjct: 243 RVLDDKNGTNSLPVSVKRRRLTAAQKRAAMSEGLGASAQAMVDAAAAKSNRRNGPIWFSL 302

Query: 265 VASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLST 324
           VAS++Q+ D  LPQIS+CYLR++DG++PVSFI++Y+VKKL+L SE EVEI  RGQPV  T
Sbjct: 303 VASEDQKRDASLPQISACYLRIQDGKMPVSFIQKYLVKKLDLGSETEVEIMCRGQPVSPT 362

Query: 325 LELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSYGRKAQ 366
           L L NL+N W  T S S+++   VGSSAKDFVMVLSY RK Q
Sbjct: 363 LRLQNLVNLWFCTGSTSKKVSASVGSSAKDFVMVLSYCRKVQ 404

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225437241|ref|XP_002275598.1| PREDICTED: E3 ubiquitin protein ligase DRIP2 [Vitis vinifera] gi|297735508|emb|CBI17948.3| unnamed protein product [Vitis vinifera]

 Score =  342 bits (878), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 194/429 (45%), Positives = 259/429 (60%), Gaps = 64/429 (14%)

Query: 4   TEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNT 63
           + Q +KV RE + ACMTCPLC+KL RDATTISECLH+FCRKCIY KI++EE++ CP+CNT
Sbjct: 2   SNQVVKVRRETIAACMTCPLCNKLLRDATTISECLHTFCRKCIYNKISDEELECCPICNT 61

Query: 64  DLGCAPLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAISTPK 123
           DLGC PLEKLR DHNLQD+R KIFP KRR + AP+ V  V LP +RKE SLSSL +STP+
Sbjct: 62  DLGCVPLEKLRPDHNLQDVRAKIFPFKRRKVKAPEVVLPVTLPVKRKERSLSSLVVSTPR 121

Query: 124 SPVKSSSSGRRSKPVPKKTLVQEEYTSPIEEPIKDVEDP----PELSSEP--LCRNTQTK 177
              +++ +GRR+K V +K          IE+ IK  ED     P  SS P  L + TQ  
Sbjct: 122 VSTQTTMTGRRTKSVARKATALRGSGFSIEKLIKKEEDSVGERPASSSSPETLNKFTQNI 181

Query: 178 RQILSAAESSIQHTPDK----------GTEDIARPFD-----------------GKSDLW 210
           RQ   +AE SI  TP+K          G  D+ +P +                 G +   
Sbjct: 182 RQNSPSAEPSIHSTPNKETENGAESWEGKFDLWKPLNCLVEVANRTKSLKFNSQGSAVKS 241

Query: 211 KPLNV------------------------------LVEAATRPRKSLGRPKKAAVSAG-L 239
           +P++V                              +   + +P+K     ++ A + G L
Sbjct: 242 EPMHVPDGESQVRKTKVKEHGRKSKVQDEKISTTPVSAESVKPKKLCRVRRRRAAAFGEL 301

Query: 240 NVSAQAVVDTNQRFDGRFGPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRY 299
            +S QAV++       R G IWFSLVAS++QEGD  LPQISS +LR+KD  +PVSFI++Y
Sbjct: 302 GISPQAVLNAVNNHKRRTGSIWFSLVASEDQEGDASLPQISSNFLRIKDVNVPVSFIQKY 361

Query: 300 IVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMVL 359
           +++KL+L SE EVEI   GQPVL TL+LHNL++ W+QT+S S+R+   +GSS K+FVMVL
Sbjct: 362 LMRKLDLTSETEVEIKCMGQPVLPTLQLHNLVDLWLQTASTSQRVPASIGSSGKEFVMVL 421

Query: 360 SYGRKAQPP 368
           +Y R+   P
Sbjct: 422 AYARRLLDP 430

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359477378|ref|XP_002280186.2| PREDICTED: E3 ubiquitin protein ligase DRIP2-like [Vitis vinifera]

 Score =  336 bits (861), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 198/428 (46%), Positives = 258/428 (60%), Gaps = 74/428 (17%)

Query: 9   KVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCA 68
           KV RE+L ACMTC +C+KLF DATTISECLH+FCRKCI++KITE+E+D CPVCNT+LGCA
Sbjct: 8   KVPRERLAACMTCRICNKLFDDATTISECLHTFCRKCIFDKITEDELDYCPVCNTNLGCA 67

Query: 69  PLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAISTPKSPVKS 128
           PLEKLR DHNLQDL  KIFPS++  + A + V+SVPLPARRKE SLSSL +STP+   ++
Sbjct: 68  PLEKLRPDHNLQDLTAKIFPSEKSKVVATEEVASVPLPARRKERSLSSLGVSTPRVSSQT 127

Query: 129 SSSGRRSKPVPKKTLVQEEYTSPIEEPIKDVEDPPELSSEP--LCRNTQTKRQI---LSA 183
             +G+R+K   ++     E T P+EEPIK  ED PE  S P  L +  Q K+ +    S+
Sbjct: 128 VMTGKRTKSAARRLSAARESTFPVEEPIKKEEDYPENPSSPEILNKRAQNKKNLKENYSS 187

Query: 184 AESSIQHTPDKGTEDIARPFDGKSDLWKPLNVLVEAATRPRKSLGRPKKAAVSAGLNVSA 243
           AESS QH  +KG E+ +     K D+WKPLN LVEA      S  +  K  +   L  S 
Sbjct: 188 AESSKQHI-NKGKEENSETLKEKDDMWKPLNCLVEAC-----SGTKSNKLNLQGSLAKST 241

Query: 244 QAVVDTNQ--------------RFDG-----------------RFG-------PIWFSLV 265
            + VD  +              +F                   R G       P  FS+ 
Sbjct: 242 PSHVDDKEAHVPKAKLKERGKLKFQDEENGTTHVPSGSVKPRIRGGRQKKAATPEGFSIP 301

Query: 266 ASDEQEGDE-----------------------PLPQISSCYLRVKDGRLPVSFIKRYIVK 302
           A  E +G+                        PLPQI S YLR++DG LPVSF+++Y+V+
Sbjct: 302 ALAENDGNSKCNIRACPVWFSLVASDNQEGDAPLPQIPSSYLRMRDGHLPVSFLQKYLVQ 361

Query: 303 KLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTS--SASERIQTVVGSSAKDFVMVLS 360
           KL+L SE+EVEI+LRGQPV+ TL+L +L++ W Q +  + SE  Q  +GSSAK+FVMVLS
Sbjct: 362 KLHLNSESEVEITLRGQPVVPTLQLQSLVDLWFQAAAPTTSEATQPPIGSSAKEFVMVLS 421

Query: 361 YGRKAQPP 368
           YGRK + P
Sbjct: 422 YGRKPKTP 429

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18402394|ref|NP_565702.1| E3 ubiquitin protein ligase DRIP2 [Arabidopsis thaliana] gi|75306338|sp|Q94AY3.1|DRIP2_ARATH RecName: Full=E3 ubiquitin protein ligase DRIP2; AltName: Full=DREB2A-interacting protein 2 gi|15010634|gb|AAK73976.1| At2g30580/T6B20.7 [Arabidopsis thaliana] gi|20198328|gb|AAB63079.2| putative C3HC4 zinc finger protein [Arabidopsis thaliana] gi|23308209|gb|AAN18074.1| At2g30580/T6B20.7 [Arabidopsis thaliana] gi|330253317|gb|AEC08411.1| E3 ubiquitin protein ligase DRIP2 [Arabidopsis thaliana]

 Score =  327 bits (838), Expect = 5e-87,   Method: Compositional matrix adjust.
 Identities = 184/409 (44%), Positives = 246/409 (60%), Gaps = 55/409 (13%)

Query: 9   KVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCA 68
           KV RE +VACMTCPLC KL RDATTISECLH+FCRKCIYEKITE+EI+SCPVC+ DLG  
Sbjct: 8   KVKRETVVACMTCPLCDKLLRDATTISECLHTFCRKCIYEKITEDEIESCPVCDIDLGGT 67

Query: 69  PLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAISTPKSPVKS 128
           PLEKLR DH LQDLR K+FP KR+   AP+ VSS+ LPA+RKE S+SSL +STP+   ++
Sbjct: 68  PLEKLRPDHILQDLRAKLFPLKRKKERAPEVVSSISLPAKRKERSISSLVVSTPRVSAQA 127

Query: 129 SSSGRRSKPVPKKTLVQE----EYTSPIEEPIKDVEDPPELSSEPLCRNTQTKRQILSAA 184
            ++G+R+K   +K +       + T   EE   D       S E L + TQ KRQ  S+ 
Sbjct: 128 GTTGKRTKAATRKDVRGSGSFTKRTVKKEEEFGDDHVESASSPETLKKFTQNKRQ--SSY 185

Query: 185 ESSIQHTPDKGTEDIARPFDGKSDLWKPLNVLVEAAT---RPRKSLGRPKKAAV------ 235
            +  Q   ++  +D+  P+D K  LWKPLN LV+ A     P+  LG      V      
Sbjct: 186 ANPNQSLSNRRNKDVDEPWDSKLHLWKPLNFLVDVANGTKDPKSELGNASHNDVQGSKTK 245

Query: 236 ------------------------SAGLNVSAQAVVDTNQRF-DGRF------------- 257
                                   +A L  + +     +  F D R              
Sbjct: 246 TKDHKRKCKLEEEISNNGDPTTSETATLKRTRRTRRKRSSTFGDSRIPLLPGAASLKQER 305

Query: 258 --GPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEIS 315
             G +WFSLVAS  QEG+  LPQI + YLR++DG +PVSFI++Y+++KL+L SE EVEI+
Sbjct: 306 RNGHVWFSLVASSNQEGEASLPQIPANYLRIRDGNIPVSFIQKYLMRKLDLKSEDEVEIT 365

Query: 316 LRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSYGRK 364
             G+PV+ TL+LH+L++ W++T+S  +R+   +GSSAK+FVMVL Y RK
Sbjct: 366 CMGEPVIPTLQLHSLVDLWLETTSKHQRVAASIGSSAKEFVMVLVYSRK 414

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297822773|ref|XP_002879269.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297325108|gb|EFH55528.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  322 bits (824), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 180/409 (44%), Positives = 241/409 (58%), Gaps = 55/409 (13%)

Query: 9   KVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCA 68
           KV RE +VACMTC LC KL RDATTISECLH+FCRKCIYEKITE+EI+ CPVC+ DLG  
Sbjct: 8   KVKRETVVACMTCSLCEKLLRDATTISECLHTFCRKCIYEKITEDEIECCPVCDIDLGGT 67

Query: 69  PLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAISTPKSPVKS 128
           PLEKLR DH LQDLR K+FP KR+   AP+ VSS+ LPARRKE S+SSL +STP+   ++
Sbjct: 68  PLEKLRPDHILQDLRAKLFPLKRKRERAPEVVSSITLPARRKERSISSLVVSTPRVSAQA 127

Query: 129 SSSGRRSKPVPKKTLVQE----EYTSPIEEPIKDVEDPPELSSEPLCRNTQTKRQILSAA 184
            ++G+R+K   +K +       + T   EE   D       S E + + TQ KRQ  S+ 
Sbjct: 128 GTTGKRTKAATRKDVRGSGSFTKRTVKKEEEFGDDHIESASSPETVKKFTQNKRQ--SSY 185

Query: 185 ESSIQHTPDKGTEDIARPFDGKSDLWKPLNVLVEAATRPR-------------------K 225
               Q   ++  +D+  P+D K  LWKPLN LV+ A   +                   K
Sbjct: 186 AEPNQSLSNRRNKDVDEPWDSKLHLWKPLNFLVDVANGTKDPKSEHGNASHNDVQGSKTK 245

Query: 226 SLGRPKKAAVSAGLNVSAQAVVDTNQRF---------------DGRFGP----------- 259
           +    +K  +   +N +    +                     D R  P           
Sbjct: 246 TKDHKRKCKLEEEINNNGDPTISETATLKGTRRTRRKRSSNFGDSRIPPLPGAASLKQER 305

Query: 260 ----IWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEIS 315
               +WFSLVAS+ QEG+  LPQI + YLR+KDG +PVSFI++Y+++KL+L SEAEVEI 
Sbjct: 306 RNGHVWFSLVASNNQEGEASLPQIPANYLRIKDGNIPVSFIQKYLMRKLDLKSEAEVEIK 365

Query: 316 LRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSYGRK 364
             G+PV+ TL+LH+L+  W++T+S  +R+   +GSSAK+FVMVL Y RK
Sbjct: 366 CMGEPVIPTLQLHSLVELWLETTSKHQRVAASIGSSAKEFVMVLVYSRK 414

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224066301|ref|XP_002302072.1| predicted protein [Populus trichocarpa] gi|222843798|gb|EEE81345.1| predicted protein [Populus trichocarpa]

 Score =  319 bits (818), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 195/426 (45%), Positives = 251/426 (58%), Gaps = 69/426 (16%)

Query: 5   EQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTD 64
            Q +KV RE + ACMTC LC+KL RDATTISECLH+FCRKCIY +I+ E +DSCP+CN +
Sbjct: 10  HQVVKVRRETIAACMTCLLCNKLLRDATTISECLHTFCRKCIYRRISNEGLDSCPICNIN 69

Query: 65  LGCAPLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPLPA-RRKEISLSSLAISTPK 123
           LGC PLEKLR DHNLQD+R KIFP K+R ++AP+   SV LP  RRKE SLSSL + TPK
Sbjct: 70  LGCVPLEKLRPDHNLQDVRSKIFPYKKRKVEAPEVAESVALPVTRRKERSLSSLVVCTPK 129

Query: 124 SPVKSSSSGRRSKPVPKKTLVQEEYTSPIEEPIKDVEDPPE------LSSEPLCRNTQTK 177
               ++++GRR+KP P+K          IE+P      P E       S E L +  Q  
Sbjct: 130 VSTHTTTTGRRTKPFPRKAAALRGTNFSIEKPNNKEHVPVEDSPESSSSPETLKKPNQNI 189

Query: 178 RQILSAAESSIQHTPDKGTEDIARPFDGKSDLWKPLNVLVEAATRPR-----------KS 226
           +Q     E S Q  PD+  E+   P DGKSDLW+PLN LVE A R +           KS
Sbjct: 190 KQNSPCTEPS-QPDPDEA-ENGTEPRDGKSDLWQPLNFLVEVANRTKSFKSSPQLNDAKS 247

Query: 227 LGRP-----------------------------------------------KKAAVSAGL 239
             RP                                               K+A  +   
Sbjct: 248 ESRPVHDNEPRALRTKFKGNKDKSKVKDEKNNIDNVSEGPVEPKRLRRIRQKRAVFNNIS 307

Query: 240 NVSAQAVVDT-NQRFDGRFGPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKR 298
            +S+ AV+DT   + + R G +WFSL+AS EQEG+ PLPQI S YLR+KDG +PVSFI++
Sbjct: 308 GISSPAVLDTAAAKQERRSGTVWFSLLAS-EQEGEAPLPQIPSSYLRLKDGNVPVSFIQK 366

Query: 299 YIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMV 358
           Y++KKL+L SEAEVEI   G+PV+ TL L+NL++ W+QT   +E++    G SAKD+VMV
Sbjct: 367 YLMKKLDLASEAEVEIRCMGRPVIPTLLLYNLVDQWLQTVPKTEQVPVTAGFSAKDYVMV 426

Query: 359 LSYGRK 364
           L+Y RK
Sbjct: 427 LAYARK 432

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224099889|ref|XP_002311661.1| predicted protein [Populus trichocarpa] gi|222851481|gb|EEE89028.1| predicted protein [Populus trichocarpa]

 Score =  314 bits (805), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 198/400 (49%), Positives = 235/400 (58%), Gaps = 88/400 (22%)

Query: 49  KITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVP---- 104
           KIT+EE+DSCPVC+  LGC+PLEKLRADH+LQDLR +IFPSKR+    P +VSSVP    
Sbjct: 2   KITDEELDSCPVCDIKLGCSPLEKLRADHSLQDLRARIFPSKRKKAREPATVSSVPEDVP 61

Query: 105 -----------------------LPARRKEISLSSLAISTPKSPVKSSSSGRRSKPVPKK 141
                                  L  RRKE SLSSL +STPK  VKS  +G+RSK V +K
Sbjct: 62  SVPEAVMAVPEAVPVQESEHSVPLIGRRKERSLSSLVVSTPKISVKSVLTGKRSKSVARK 121

Query: 142 TLVQEEYTSPIEEPIKDVEDPPE-LSS-EPLCRNTQTKRQILSAAESSIQHTPDK----- 194
                E   P+EE IK ++D  E LSS E L +  QTKRQ  S AESS Q  P+K     
Sbjct: 122 ----RESPIPVEEQIKKMDDYYESLSSPETLRKIAQTKRQNSSTAESSKQQKPNKLDVEN 177

Query: 195 ------GTEDIARPFD-----------GKSDLW------KPLNVLVEAATRPRKSLG--- 228
                    D+ +P +            KSDL       K L+   E A   + S+    
Sbjct: 178 DVKPCKEKIDLWKPLNCLVEAATKTKSNKSDLQEIIVQIKKLDAQEEEAQALKTSIKEHG 237

Query: 229 --------------------RPKKAAV----SAGLNVSAQAVVDTNQRFDGRFGPIWFSL 264
                               +P++         G N+ AQA VD N + D RF PIW SL
Sbjct: 238 DKSKVIGEESNSTSSPSGSVKPRRLQAMRQKREGFNIPAQAAVDANSKCDRRFSPIWLSL 297

Query: 265 VASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLST 324
           VASDEQEG  PLPQISSCYLRVKDG LPVS IK+Y+V+KL L+SEAEV+I L GQPV ST
Sbjct: 298 VASDEQEGVAPLPQISSCYLRVKDGSLPVSHIKKYLVQKLGLVSEAEVDILLLGQPVAST 357

Query: 325 LELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSYGRK 364
           L+LHNL++WW QT+SASERIQT VGSSAKDFVMVLSYGRK
Sbjct: 358 LQLHNLVDWWSQTASASERIQTTVGSSAKDFVMVLSYGRK 397

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	368
TAIR|locus:2094608	480	AT3G23060 [Arabidopsis thalian	0.586	0.45	0.367	6.8e-53
TAIR|locus:2064392	420	DRIP2 "DREB2A-interacting prot	0.603	0.528	0.489	1.2e-49
TAIR|locus:2033103	421	DRIP1 "DREB2A-interacting prot	0.619	0.541	0.466	6.2e-46
UNIPROTKB|I3LAF0	203	PCGF3 "Uncharacterized protein	0.217	0.394	0.385	1.4e-13
MGI|MGI:1916837	241	Pcgf3 "polycomb group ring fin	0.217	0.331	0.385	9.4e-12
UNIPROTKB|E1BAF7	242	E1BAF7 "Uncharacterized protei	0.217	0.330	0.385	1e-11
UNIPROTKB|Q2KJ29	242	PCGF3 "Polycomb group RING fin	0.217	0.330	0.385	1e-11
UNIPROTKB|Q3KNV8	242	PCGF3 "Polycomb group RING fin	0.217	0.330	0.385	1e-11
UNIPROTKB|Q07G17	242	pcgf3 "Polycomb group RING fin	0.217	0.330	0.373	2.9e-11
UNIPROTKB|Q5T8Z1	207	BMI1 "Polycomb complex protein	0.233	0.415	0.382	3.2e-11

TAIR|locus:2094608 AT3G23060 [Arabidopsis thaliana (taxid:3702)]

 Score = 296 (109.3 bits), Expect = 6.8e-53, Sum P(2) = 6.8e-53
 Identities = 85/231 (36%), Positives = 125/231 (54%)

Query:   149 TSP-IEEPIKDVEDPPELSSEPL---CR-NTQTKRQILSAAESSIQHTPDKGTEDIARP- 202
             T P I EP    +D  E S EP+   C  N +TK   +   ++S+  + D+  ED +   
Sbjct:   241 TPPDIVEPEISSDDDTEESVEPIQNKCVVNRETKEVPVQVNQNSLLISSDRDREDNSGQK 300

Query:   203 --FDGKS---DLWKPLNVLVEAATRPRKSLGRPKKAAVSAGLNV-SAQAVVDTNQRFD-G 255
                +G +      K     VE +   R  +GR +    +AG     A   V+   + + G
Sbjct:   301 LKTNGAATSRSRKKKGKKPVEKSYSLRPRIGR-RTVNPAAGTTTPEAPVSVEEEMKVEEG 359

Query:   256 RFG-PIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEI 314
             R   P+WFSL  S  Q  +  LP I++C +RVKD  + VS++K+Y++ KL L SE +VEI
Sbjct:   360 RNNNPVWFSLKPSKTQNIEMLLPPITACCIRVKDSNMTVSYLKKYLMVKLGLESEDQVEI 419

Query:   315 SLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKDFVMVLSYGRKA 365
              LR +PV S+L LHNL++WWVQT+   ER   +VGSSA +F+M L Y  K+
Sbjct:   420 WLRDEPVCSSLTLHNLVDWWVQTTPLPERQSAMVGSSAAEFIMDLYYSFKS 470

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

TAIR|locus:2064392 DRIP2 "DREB2A-interacting protein 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 517 (187.1 bits), Expect = 1.2e-49, P = 1.2e-49
 Identities = 113/231 (48%), Positives = 145/231 (62%)

Query:     5 EQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTD 64
             +   KV RE +VACMTCPLC KL RDATTISECLH+FCRKCIYEKITE+EI+SCPVC+ D
Sbjct:     4 DMVAKVKRETVVACMTCPLCDKLLRDATTISECLHTFCRKCIYEKITEDEIESCPVCDID 63

Query:    65 LGCAPLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAISTXXX 124
             LG  PLEKLR DH LQDLR K+FP KR+   AP+ VSS+ LPA+RKE S+SSL +ST   
Sbjct:    64 LGGTPLEKLRPDHILQDLRAKLFPLKRKKERAPEVVSSISLPAKRKERSISSLVVSTPRV 123

Query:   125 XXXXXXXXXXXXXXXXXTLVQE-EYTS-PIEEPIKDVEDPPELSSEP--LCRNTQTKRQI 180
                               +     +T   +++  +  +D  E +S P  L + TQ KRQ 
Sbjct:   124 SAQAGTTGKRTKAATRKDVRGSGSFTKRTVKKEEEFGDDHVESASSPETLKKFTQNKRQ- 182

Query:   181 LSAAESSIQHTPDKGTEDIARPFDGKSDLWKPLNVLVEAA--TR-PRKSLG 228
              S+  +  Q   ++  +D+  P+D K  LWKPLN LV+ A  T+ P+  LG
Sbjct:   183 -SSYANPNQSLSNRRNKDVDEPWDSKLHLWKPLNFLVDVANGTKDPKSELG 232

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

GO:0004842 "ubiquitin-protein ligase activity" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009414 "response to water deprivation" evidence=IGI

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0051865 "protein autoubiquitination" evidence=IDA

TAIR|locus:2033103 DRIP1 "DREB2A-interacting protein 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 482 (174.7 bits), Expect = 6.2e-46, P = 6.2e-46
 Identities = 112/240 (46%), Positives = 138/240 (57%)

Query:     8 LKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGC 67
             +KV +E + AC++C +C  + RDATTISECLH+FCRKCIYEKITE+EI++CPVCN DLG 
Sbjct:     3 IKVKKETMRACLSCSICDNILRDATTISECLHTFCRKCIYEKITEDEIETCPVCNIDLGS 62

Query:    68 APLEKLRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAISTXXXXXX 127
              PLEKLR DHNLQDLR KIF  KRR + AP  VS   LP +RKE S+SSL +ST      
Sbjct:    63 TPLEKLRPDHNLQDLRAKIFALKRRKVKAPGIVS---LPGKRKERSISSLVVSTPMVSAQ 119

Query:   128 XXXXXXXXXXXXXXTLVQ---EEYTSPIEEPIKDVEDPPELSSEPLCRNTQTKRQILSAA 184
                            L      E T   EE   D       S + L + TQ KRQ   + 
Sbjct:   120 AGTTRRRTKAPTRKELRNGSLAERTVKKEESSGDELLESTSSPDTLNKFTQNKRQSKKSC 179

Query:   185 ESSIQHTPDKGTEDIARPFDGKSDLWKPLNVLVEAA--TRPRKSLGRPKKAAVSAGLNVS 242
             + SI +  +K  ++   P+D K D WKPLN LVE A  T+P KS       + S   NVS
Sbjct:   180 KESISNKENKDGDE---PWDSKMD-WKPLNFLVEVANGTKPLKSSASQGSGSKSEHANVS 235

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

GO:0004842 "ubiquitin-protein ligase activity" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009414 "response to water deprivation" evidence=IGI

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0051865 "protein autoubiquitination" evidence=IDA

UNIPROTKB|I3LAF0 PCGF3 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 158 (60.7 bits), Expect = 1.4e-13, Sum P(2) = 1.4e-13
 Identities = 32/83 (38%), Positives = 50/83 (60%)

Query:     7 TLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG 66
             T K+    + A +TC LCS    DATT++ECLH+FCR C+ + +  EE ++CP C   + 
Sbjct:     3 TRKIKLWDINAHITCRLCSGYLIDATTVTECLHTFCRSCLVKYL--EENNTCPTCRIVIH 60

Query:    67 CA-PLEKLRADHNLQDLRIKIFP 88
              + PL+ +  D  +QD+  K+ P
Sbjct:    61 QSHPLQYIGHDRTMQDIVYKLVP 83

GO:0031519 "PcG protein complex" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

MGI|MGI:1916837 Pcgf3 "polycomb group ring finger 3" [Mus musculus (taxid:10090)]

 Score = 158 (60.7 bits), Expect = 9.4e-12, Sum P(2) = 9.4e-12
 Identities = 32/83 (38%), Positives = 50/83 (60%)

Query:     7 TLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG 66
             T K+    + A +TC LCS    DATT++ECLH+FCR C+ + +  EE ++CP C   + 
Sbjct:     3 TRKIKLWDINAHITCRLCSGYLIDATTVTECLHTFCRSCLVKYL--EENNTCPTCRIVIH 60

Query:    67 CA-PLEKLRADHNLQDLRIKIFP 88
              + PL+ +  D  +QD+  K+ P
Sbjct:    61 QSHPLQYIGHDRTMQDIVYKLVP 83

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISO

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0031519 "PcG protein complex" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|E1BAF7 E1BAF7 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 158 (60.7 bits), Expect = 1.0e-11, Sum P(2) = 1.0e-11
 Identities = 32/83 (38%), Positives = 50/83 (60%)

Query:     7 TLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG 66
             T K+    + A +TC LCS    DATT++ECLH+FCR C+ + +  EE ++CP C   + 
Sbjct:     3 TRKIKLWDINAHITCRLCSGYLIDATTVTECLHTFCRSCLVKYL--EENNTCPTCRIVIH 60

Query:    67 CA-PLEKLRADHNLQDLRIKIFP 88
              + PL+ +  D  +QD+  K+ P
Sbjct:    61 QSHPLQYIGHDRTMQDIVYKLVP 83

GO:0031519 "PcG protein complex" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q2KJ29 PCGF3 "Polycomb group RING finger protein 3" [Bos taurus (taxid:9913)]

 Score = 158 (60.7 bits), Expect = 1.0e-11, Sum P(2) = 1.0e-11
 Identities = 32/83 (38%), Positives = 50/83 (60%)

Query:     7 TLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG 66
             T K+    + A +TC LCS    DATT++ECLH+FCR C+ + +  EE ++CP C   + 
Sbjct:     3 TRKIKLWDINAHITCRLCSGYLIDATTVTECLHTFCRSCLVKYL--EENNTCPTCRIVIH 60

Query:    67 CA-PLEKLRADHNLQDLRIKIFP 88
              + PL+ +  D  +QD+  K+ P
Sbjct:    61 QSHPLQYIGHDRTMQDIVYKLVP 83

GO:0031519 "PcG protein complex" evidence=ISS

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q3KNV8 PCGF3 "Polycomb group RING finger protein 3" [Homo sapiens (taxid:9606)]

 Score = 158 (60.7 bits), Expect = 1.0e-11, Sum P(2) = 1.0e-11
 Identities = 32/83 (38%), Positives = 50/83 (60%)

Query:     7 TLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG 66
             T K+    + A +TC LCS    DATT++ECLH+FCR C+ + +  EE ++CP C   + 
Sbjct:     3 TRKIKLWDINAHITCRLCSGYLIDATTVTECLHTFCRSCLVKYL--EENNTCPTCRIVIH 60

Query:    67 CA-PLEKLRADHNLQDLRIKIFP 88
              + PL+ +  D  +QD+  K+ P
Sbjct:    61 QSHPLQYIGHDRTMQDIVYKLVP 83

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0031519 "PcG protein complex" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q07G17 pcgf3 "Polycomb group RING finger protein 3" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 155 (59.6 bits), Expect = 2.9e-11, Sum P(2) = 2.9e-11
 Identities = 31/83 (37%), Positives = 50/83 (60%)

Query:     7 TLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG 66
             T K+    + A +TC LC+    DATT++ECLH+FCR C+ + +  EE ++CP C   + 
Sbjct:     3 TRKIKLWDINAHITCRLCNGYLIDATTVTECLHTFCRSCLVKYL--EENNTCPTCRIVIH 60

Query:    67 CA-PLEKLRADHNLQDLRIKIFP 88
              + PL+ +  D  +QD+  K+ P
Sbjct:    61 QSHPLQYIGHDRTMQDIVYKLVP 83

GO:0031519 "PcG protein complex" evidence=ISS

UNIPROTKB|Q5T8Z1 BMI1 "Polycomb complex protein BMI-1" [Homo sapiens (taxid:9606)]

 Score = 160 (61.4 bits), Expect = 3.2e-11, P = 3.2e-11
 Identities = 34/89 (38%), Positives = 49/89 (55%)

Query:     6 QTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
             +T ++   +L   + C LC   F DATTI ECLHSFC+ CI   +  E    CP+C+  +
Sbjct:     3 RTTRIKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYL--ETSKYCPICDVQV 60

Query:    66 G-CAPLEKLRADHNLQDLRIKIFPSKRRN 93
                 PL  +R+D  LQD+  K+ P   +N
Sbjct:    61 HKTRPLLNIRSDKTLQDIVYKLVPGLFKN 89

GO:0008270 "zinc ion binding" evidence=IEA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0000151 "ubiquitin ligase complex" evidence=IEA

GO:0001701 "in utero embryonic development" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0006959 "humoral immune response" evidence=IEA

GO:0007420 "brain development" evidence=IEA

GO:0016573 "histone acetylation" evidence=IEA

GO:0016574 "histone ubiquitination" evidence=IEA

GO:0016604 "nuclear body" evidence=IEA

GO:0021903 "rostrocaudal neural tube patterning" evidence=IEA

GO:0030890 "positive regulation of B cell proliferation" evidence=IEA

GO:0031519 "PcG protein complex" evidence=IEA

GO:0033092 "positive regulation of immature T cell proliferation in thymus" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0048103 "somatic stem cell division" evidence=IEA

GO:0048704 "embryonic skeletal system morphogenesis" evidence=IEA

---

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)
Q94AY3	DRIP2_ARATH	6, ., 3, ., 2, ., -	0.4498	0.9619	0.8428	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	0.691

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	368
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-09
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	3e-09
smart00184	40	smart00184, RING, Ring finger	1e-08
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-08
COG5222	427	COG5222, COG5222, Uncharacterized conserved protei	1e-05
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	0.001

>gnl|CDD|238093 cd00162, RING, RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

 Score = 52.4 bits (126), Expect = 2e-09
 Identities = 17/46 (36%), Positives = 27/46 (58%), Gaps = 1/46 (2%)

Query: 20 TCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
           CP+C + FR+   +  C H FCR CI +K  +   ++CP+C T +
Sbjct: 1  ECPICLEEFREPVVLLPCGHVFCRSCI-DKWLKSGKNTCPLCRTPI 45

Length = 45

>gnl|CDD|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger)

 Score = 51.7 bits (124), Expect = 3e-09
 Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 1/41 (2%)

Query: 21 CPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVC 61
          CP+C +  +D  TI  C H FC KCI     E    +CP+C
Sbjct: 1  CPICLEEPKDPVTILPCGHLFCSKCI-LSWLESGNVTCPLC 40

The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid. Many proteins containing a RING finger play a key role in the ubiquitination pathway. Length = 40

>gnl|CDD|214546 smart00184, RING, Ring finger

 Score = 50.2 bits (120), Expect = 1e-08
 Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 1/41 (2%)

Query: 21 CPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVC 61
          CP+C + +     I  C H+FCR CI  K  E   ++CP+C
Sbjct: 1  CPICLEEYLKDPVILPCGHTFCRSCI-RKWLESGNNTCPIC 40

E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s). Length = 40

>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 49.4 bits (118), Expect = 2e-08
 Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 2/44 (4%)

Query: 20 TCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNT 63
           CP+C  L RD   ++ C H FCR+CI   +  ++   CP+C T
Sbjct: 4  ECPICLDLLRDPVVLTPCGHVFCRECILRYL--KKKSKCPICRT 45

Length = 45

>gnl|CDD|227547 COG5222, COG5222, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 46.3 bits (109), Expect = 1e-05
 Identities = 37/156 (23%), Positives = 66/156 (42%), Gaps = 10/156 (6%)

Query: 19  MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHN 78
           + CPLC  L R+      C H+FC +CI   + + +   CP C+       L+ L  D +
Sbjct: 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFK-CPNCSRKDVL--LDGLTPDID 331

Query: 79  LQDLRIKIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAISTPKSPVKSSSSGRRSKPV 138
            + L ++    K+R        ++ P+  +RK    +S A+ +  +   +  S   + P+
Sbjct: 332 KK-LEVEKALKKQRKKVGTSDDNNTPMSEKRKREDPNSSAVFSKATAEPAFKSA-MAIPM 389

Query: 139 PKKTLVQ-----EEYTSPIEEPIKDVEDPPELSSEP 169
           P    VQ          P   P+  + +PP  +S P
Sbjct: 390 PSMPHVQGFPPFPMMPLPQMPPMMMIANPPRTNSRP 425

Length = 427

>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain

 Score = 36.2 bits (84), Expect = 0.001
 Identities = 11/47 (23%), Positives = 22/47 (46%), Gaps = 4/47 (8%)

Query: 20 TCPLCSKLF--RDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTD 64
           CP+C   F   +   +  C H F ++C+ + +     ++CP+C   
Sbjct: 2  ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSS--NTCPLCRAP 46

Length = 46

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	368
KOG2660	331	consensus Locus-specific chromosome binding protei	99.94
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.17
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.15
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.09
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	99.06
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.02
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	99.0
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.97
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.94
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.81
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.8
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.75
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.75
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.68
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.57
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.56
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.55
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.5
PHA02929	238	N1R/p28-like protein; Provisional	98.48
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.47
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.45
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.29
PF14634	44	zf-RING_5: zinc-RING finger domain	98.28
COG5222	427	Uncharacterized conserved protein, contains RING Z	98.26
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.24
PHA02926	242	zinc finger-like protein; Provisional	98.21
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.09
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.07
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	98.07
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.03
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	98.03
PF11816	331	DUF3337: Domain of unknown function (DUF3337); Int	97.93
COG5152	259	Uncharacterized conserved protein, contains RING a	97.92
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	97.83
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.6
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.56
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	97.32
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	97.29
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	97.22
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.04
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	97.02
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.99
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	96.83
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	96.69
cd01612	87	APG12_C Ubiquitin-like domain of APG12. APG12_C Th	96.66
KOG2660	331	consensus Locus-specific chromosome binding protei	96.56
KOG4367	699	consensus Predicted Zn-finger protein [Function un	96.52
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	96.49
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	95.96
cd01611	112	GABARAP Ubiquitin domain of GABA-receptor-associat	95.81
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	95.8
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	95.76
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	95.14
PF04641	260	Rtf2: Rtf2 RING-finger	95.09
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	95.05
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	95.01
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	94.99
COG5219	1525	Uncharacterized conserved protein, contains RING Z	94.98
KOG1001	674	consensus Helicase-like transcription factor HLTF/	94.75
KOG0825	1134	consensus PHD Zn-finger protein [General function	94.66
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	94.53
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	94.4
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	94.18
PF04110	87	APG12: Ubiquitin-like autophagy protein Apg12 ; In	94.09
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	94.05
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	94.03
KOG3039	303	consensus Uncharacterized conserved protein [Funct	93.99
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	93.99
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	93.94
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	93.7
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	93.69
KOG4739	233	consensus Uncharacterized protein involved in syna	93.49
KOG3002	299	consensus Zn finger protein [General function pred	93.24
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	93.13
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	93.0
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	92.74
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	92.74
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	91.99
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	91.93
PF02991	104	Atg8: Autophagy protein Atg8 ubiquitin like; Inter	91.86
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	91.47
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	91.28
KOG3039	303	consensus Uncharacterized conserved protein [Funct	91.23
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	91.04
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	90.76
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	90.54
COG5236	493	Uncharacterized conserved protein, contains RING Z	90.43
KOG1941	518	consensus Acetylcholine receptor-associated protei	90.01
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	89.26
COG5175	480	MOT2 Transcriptional repressor [Transcription]	89.19
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	87.97
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	87.83
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	87.71
PTZ00380	121	microtubule-associated protein (MAP); Provisional	87.36
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	87.11
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	87.07
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	86.69
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	86.41
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	85.81
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	85.49
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	85.37
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	85.36
PTZ00044	76	ubiquitin; Provisional	85.16
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	84.59
PHA03096	284	p28-like protein; Provisional	84.31
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	83.82
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	83.73
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	83.13
KOG0298	1394	consensus DEAD box-containing helicase-like transc	83.06
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	82.53
KOG3579	352	consensus Predicted E3 ubiquitin ligase [Posttrans	82.51
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	82.46
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	82.4
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	81.42
PF13764	802	E3_UbLigase_R4: E3 ubiquitin-protein ligase UBR4	80.37

>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]

Probab=99.94  E-value=8.9e-28  Score=232.20  Aligned_cols=213  Identities=26%  Similarity=0.453  Sum_probs=154.4

Q ss_pred             cchhcchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC-CCCCCCCccchHHHHHHH
Q 017653            6 QTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG-CAPLEKLRADHNLQDLRI   84 (368)
Q Consensus         6 ~~v~v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~-~~~~~~lr~n~~L~~Lve   84 (368)
                      +.+.+....+..+++|.+|.++|.+|+++.+|.||||++||..++..  ...||.|...++ ..++..++.|..||+|+.
T Consensus         3 ~~~~vk~~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~--~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVy   80 (331)
T KOG2660|consen    3 RPRRVKLTELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE--SKYCPTCDIVIHKTHPLLNIRSDRTLQDIVY   80 (331)
T ss_pred             cchhhhhhhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHH--hccCCccceeccCccccccCCcchHHHHHHH
Confidence            34578889999999999999999999999999999999999999965  788999999998 456999999999999999


Q ss_pred             HhccccccccCCCCCCCCCCCcccccccccccccccCCCCCCCCCCCCCCCCCCCccccccccCCCCCCCcccCCCCCCC
Q 017653           85 KIFPSKRRNLDAPDSVSSVPLPARRKEISLSSLAISTPKSPVKSSSSGRRSKPVPKKTLVQEEYTSPIEEPIKDVEDPPE  164 (368)
Q Consensus        85 kl~p~~~~ke~~~e~~~s~~~~~krke~sLssL~v~tp~vss~~~~~grrtk~~~r~~~~~~~~~~~~~~~~~~~~d~~~  164 (368)
                      +++|...+.|.                +....+..+.+.++.+.+.+|.+...               .+.-|..+++.+
T Consensus        81 KLVPgl~erE~----------------k~~rdFy~~~~~~d~~~~~~~~~~~~---------------~~~ek~~~t~~~  129 (331)
T KOG2660|consen   81 KLVPGLQEREM----------------KRRRDFYKSRPLVDVPAGDTPERGHV---------------LGEEKVPDTSDE  129 (331)
T ss_pred             HHcchHHHHHH----------------HHHHHHHHhCCCcccCCCCCcccccc---------------cCcccCCCchhh
Confidence            99998664333                33444555666666666666631111               011111112222


Q ss_pred             CCCCc--ccccccchhccccccccccCCCCCCCCCCCCCCCCCCCccCCchhhhHhhhcCCcccCCCCcccccccCCccc
Q 017653          165 LSSEP--LCRNTQTKRQILSAAESSIQHTPDKGTEDIARPFDGKSDLWKPLNVLVEAATRPRKSLGRPKKAAVSAGLNVS  242 (368)
Q Consensus       165 ~~~~~--~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~pl~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  242 (368)
                      ..+.+  .-++.+++.                                                                
T Consensus       130 ~~s~~l~~~~~~~~r~----------------------------------------------------------------  145 (331)
T KOG2660|consen  130 IASLSLEVEDFKQNRL----------------------------------------------------------------  145 (331)
T ss_pred             hhccccchhhcccchh----------------------------------------------------------------
Confidence            22211  111111111                                                                


Q ss_pred             ccccccccccCCCCcCCeEEEEEecCCCCCCCCCCCCccceeeeeCCCccHHHHHHHHHHHhC-CCchhhhhhhhcCCcC
Q 017653          243 AQAVVDTNQRFDGRFGPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLN-LISEAEVEISLRGQPV  321 (368)
Q Consensus       243 ~~~~~~~~~~~~~~~~~iwf~l~~~~~q~~~~~lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~-l~~e~evei~c~g~~~  321 (368)
                                    +.++...|     -.+...++.|-++|||| ++++||.||+|||.+|++ +.+-.||||+|++++|
T Consensus       146 --------------d~~~~~~~-----~e~~~~~k~l~~~fvrc-sa~~Tv~hlkkfl~~k~~~~~~~~~idi~~~d~~l  205 (331)
T KOG2660|consen  146 --------------DEQVSVGL-----DEGKDTLKDLVRRFLRC-SAAATVNHLKKFLRKKMDNLSNKSEIDILCEEELL  205 (331)
T ss_pred             --------------hhhhhcCC-----CcccccccccccceEec-cHHHHHHHHHHHHHHHhccccchhhheeecCCccc
Confidence                          11111111     12223466677999999 999999999999999999 9999999999999999


Q ss_pred             CCCccHHHHHH--HHh
Q 017653          322 LSTLELHNLIN--WWV  335 (368)
Q Consensus       322 ~~~~~l~~i~~--~w~  335 (368)
                      +.++||++||+  +|.
T Consensus       206 ~~~~TLk~i~~~~~~~  221 (331)
T KOG2660|consen  206 GDYYTLKDIAYAYRWR  221 (331)
T ss_pred             cchhhhhhhhhhhccc
Confidence            99999999999  554

>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A

Probab=99.17  E-value=1.6e-11  Score=86.57  Aligned_cols=40  Identities=45%  Similarity=1.051  Sum_probs=31.7

Q ss_pred             CcccccccccceecCCCCCcccHHHHHHHhhccCC--CcccCC
Q 017653           21 CPLCSKLFRDATTISECLHSFCRKCIYEKITEEEI--DSCPVC   61 (368)
Q Consensus        21 CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~--~~CP~C   61 (368)
                      ||||+++|.+||++ +|||+||..||.+++.....  ..||.|
T Consensus         1 CpiC~~~~~~Pv~l-~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSL-PCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE--SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCcccc-CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999999999 89999999999999976543  589987

>smart00504 Ubox Modified RING finger domain

Probab=99.15  E-value=5.2e-11  Score=89.49  Aligned_cols=62  Identities=18%  Similarity=0.306  Sum_probs=54.5

Q ss_pred             cccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHH
Q 017653           18 CMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIK   85 (368)
Q Consensus        18 ~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvek   85 (368)
                      +|.||||.+++.+|+++ +|||+||+.||..|+..  ...||.|+..+   ...++.+|..|.+.++.
T Consensus         1 ~~~Cpi~~~~~~~Pv~~-~~G~v~~~~~i~~~~~~--~~~cP~~~~~~---~~~~l~~~~~l~~~i~~   62 (63)
T smart00504        1 EFLCPISLEVMKDPVIL-PSGQTYERRAIEKWLLS--HGTDPVTGQPL---THEDLIPNLALKSAIQE   62 (63)
T ss_pred             CcCCcCCCCcCCCCEEC-CCCCEEeHHHHHHHHHH--CCCCCCCcCCC---ChhhceeCHHHHHHHHh
Confidence            47899999999999998 89999999999999975  56799999876   56788999999888764

Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.09  E-value=7.9e-11  Score=119.07  Aligned_cols=72  Identities=22%  Similarity=0.538  Sum_probs=62.6

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhcc
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFP   88 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p   88 (368)
                      ..+.++..+.|+||.++|.+|+++ +|||+||..||..++..  ...||+|+..+.   ...++.|..|.+||+.|..
T Consensus        19 ~l~~Le~~l~C~IC~d~~~~Pvit-pCgH~FCs~CI~~~l~~--~~~CP~Cr~~~~---~~~Lr~N~~L~~iVe~~~~   90 (397)
T TIGR00599        19 SLYPLDTSLRCHICKDFFDVPVLT-SCSHTFCSLCIRRCLSN--QPKCPLCRAEDQ---ESKLRSNWLVSEIVESFKN   90 (397)
T ss_pred             cccccccccCCCcCchhhhCccCC-CCCCchhHHHHHHHHhC--CCCCCCCCCccc---cccCccchHHHHHHHHHHH
Confidence            457789999999999999999988 89999999999999964  357999998763   4589999999999998753

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis

Probab=99.06  E-value=1.2e-10  Score=91.23  Aligned_cols=69  Identities=17%  Similarity=0.270  Sum_probs=55.8

Q ss_pred             cccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhccc
Q 017653           16 VACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPS   89 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~   89 (368)
                      -+.|.||||.++|.+||++ +|||+|++.||..|+.. ....||.|+..+   ....+.+|..|.+.++.|...
T Consensus         2 P~~f~CpIt~~lM~dPVi~-~~G~tyer~~I~~~l~~-~~~~~P~t~~~l---~~~~l~pn~~Lk~~I~~~~~~   70 (73)
T PF04564_consen    2 PDEFLCPITGELMRDPVIL-PSGHTYERSAIERWLEQ-NGGTDPFTRQPL---SESDLIPNRALKSAIEEWCAE   70 (73)
T ss_dssp             SGGGB-TTTSSB-SSEEEE-TTSEEEEHHHHHHHHCT-TSSB-TTT-SB----SGGGSEE-HHHHHHHHHHHHH
T ss_pred             CcccCCcCcCcHhhCceeC-CcCCEEcHHHHHHHHHc-CCCCCCCCCCcC---CcccceECHHHHHHHHHHHHH
Confidence            3689999999999999999 89999999999999975 568899999887   456899999999999998654

Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.02  E-value=2.1e-10  Score=105.34  Aligned_cols=64  Identities=27%  Similarity=0.521  Sum_probs=51.9

Q ss_pred             CCCcccchhcchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhcc--------------CCCcccCCCccc
Q 017653            1 MATTEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEE--------------EIDSCPVCNTDL   65 (368)
Q Consensus         1 m~~~~~~v~v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~--------------~~~~CP~Cr~~l   65 (368)
                      |..+.+....+.-...+.+.|+||++.+.+|+++ .|||.||+.||..|+...              ....||+|+..+
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~CpICld~~~dPVvT-~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~I   78 (193)
T PLN03208          1 MEIEKDEDDTTLVDSGGDFDCNICLDQVRDPVVT-LCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDV   78 (193)
T ss_pred             CCcccccccceeccCCCccCCccCCCcCCCcEEc-CCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcC
Confidence            4555555566667777889999999999999998 899999999999997521              236899999876

>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B

Probab=99.00  E-value=1.3e-10  Score=88.67  Aligned_cols=64  Identities=27%  Similarity=0.744  Sum_probs=37.1

Q ss_pred             hcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHH
Q 017653           13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLR   83 (368)
Q Consensus        13 ~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lv   83 (368)
                      +.+++.+.|++|.++|++||.+..|.|.||+.||...+.    ..||+|+.+.   ...+++.|.+|.+|+
T Consensus         2 ~~le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~----~~CPvC~~Pa---w~qD~~~NrqLd~~i   65 (65)
T PF14835_consen    2 ERLEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG----SECPVCHTPA---WIQDIQINRQLDSMI   65 (65)
T ss_dssp             HHHHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT----TB-SSS--B----S-SS----HHHHHHH
T ss_pred             hHHHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC----CCCCCcCChH---HHHHHHhhhhhhccC
Confidence            467888999999999999998889999999999977663    3499999774   567899999999875

>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.97  E-value=7.8e-11  Score=115.77  Aligned_cols=90  Identities=30%  Similarity=0.641  Sum_probs=79.0

Q ss_pred             chhcchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHh
Q 017653            7 TLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKI   86 (368)
Q Consensus         7 ~v~v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl   86 (368)
                      -+.+....+...+.|+||+++++..+++..|+|.||..||...+.. +...||.||+.+  .....|+.|..+..|+.++
T Consensus        32 Ei~~~l~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~-gn~ecptcRk~l--~SkrsLr~Dp~fdaLis~i  108 (381)
T KOG0311|consen   32 EIMVDLAMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRS-GNNECPTCRKKL--VSKRSLRIDPNFDALISKI  108 (381)
T ss_pred             hheecHHHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHh-cCCCCchHHhhc--cccccCCCCccHHHHHHHH
Confidence            3667888999999999999999999999999999999999988875 678899999876  5778999999999999999


Q ss_pred             ccccccccCCCCC
Q 017653           87 FPSKRRNLDAPDS   99 (368)
Q Consensus        87 ~p~~~~ke~~~e~   99 (368)
                      ++....++..+..
T Consensus       109 ~~sie~~e~~q~~  121 (381)
T KOG0311|consen  109 YPSIEEYEAPQPR  121 (381)
T ss_pred             hccHHHHhccchh
Confidence            9996666665544

>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]

Probab=98.94  E-value=3e-10  Score=111.14  Aligned_cols=71  Identities=23%  Similarity=0.530  Sum_probs=62.0

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhc
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIF   87 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~   87 (368)
                      ....|.+.|+|.||.++|+.|+.+ +|+|+||.-||..++..  .-.||.|...+   ....++.|..|.+|+..|-
T Consensus        16 slk~lD~lLRC~IC~eyf~ip~it-pCsHtfCSlCIR~~L~~--~p~CP~C~~~~---~Es~Lr~n~il~Eiv~S~~   86 (442)
T KOG0287|consen   16 SLKTLDDLLRCGICFEYFNIPMIT-PCSHTFCSLCIRKFLSY--KPQCPTCCVTV---TESDLRNNRILDEIVKSLN   86 (442)
T ss_pred             hhhhhHHHHHHhHHHHHhcCceec-cccchHHHHHHHHHhcc--CCCCCceeccc---chhhhhhhhHHHHHHHHHH
Confidence            567788999999999999999999 79999999999999965  45699999876   5567899999999998773

>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A

Probab=98.81  E-value=2.3e-09  Score=74.00  Aligned_cols=39  Identities=41%  Similarity=1.100  Sum_probs=32.8

Q ss_pred             CcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCC
Q 017653           21 CPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVC   61 (368)
Q Consensus        21 CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~C   61 (368)
                      |+||++.+.+|+++.+|||+||..||.+++..  ...||.|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~--~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK--NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC--TSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHC--cCCCcCC
Confidence            89999999999655599999999999999976  4789987

>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.80  E-value=2.4e-09  Score=100.32  Aligned_cols=50  Identities=28%  Similarity=0.778  Sum_probs=44.0

Q ss_pred             cccccCcccccccccceecCCCCCcccHHHHHHHhhccC-CCcccCCCcccC
Q 017653           16 VACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEE-IDSCPVCNTDLG   66 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~-~~~CP~Cr~~l~   66 (368)
                      ...|.|.||++.-++||++ .|||.||+.||++|+.... ...||+|+..+.
T Consensus        45 ~~~FdCNICLd~akdPVvT-lCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs   95 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKDPVVT-LCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS   95 (230)
T ss_pred             CCceeeeeeccccCCCEEe-ecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence            4679999999999999999 8999999999999998654 467899998763

>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.75  E-value=5.3e-09  Score=72.42  Aligned_cols=41  Identities=37%  Similarity=0.993  Sum_probs=36.8

Q ss_pred             CcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCC
Q 017653           21 CPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVC   61 (368)
Q Consensus        21 CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~C   61 (368)
                      |+||.+.+.+|+++.+|||+||..||.+++...+...||.|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999999999945599999999999999986577889987

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....

>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.75  E-value=5.6e-09  Score=96.67  Aligned_cols=72  Identities=32%  Similarity=0.625  Sum_probs=60.2

Q ss_pred             cchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhccc
Q 017653           10 VNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPS   89 (368)
Q Consensus        10 v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~   89 (368)
                      .....+.+.+.|+||+++|.+|+++ +|||+||..|+..++.  ....||.|+. ...    .+.+|..+.++++.+...
T Consensus         5 ~~~~~~~~~~~C~iC~~~~~~p~~l-~C~H~~c~~C~~~~~~--~~~~Cp~cr~-~~~----~~~~n~~l~~~~~~~~~~   76 (386)
T KOG2177|consen    5 ALLEVLQEELTCPICLEYFREPVLL-PCGHNFCRACLTRSWE--GPLSCPVCRP-PSR----NLRPNVLLANLVERLRQL   76 (386)
T ss_pred             hhhhhccccccChhhHHHhhcCccc-cccchHhHHHHHHhcC--CCcCCcccCC-chh----ccCccHHHHHHHHHHHhc
Confidence            3456677899999999999999776 8999999999999886  5688999995 321    777999999999988544

>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

Probab=98.68  E-value=9.2e-09  Score=99.10  Aligned_cols=71  Identities=23%  Similarity=0.482  Sum_probs=58.3

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhc
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIF   87 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~   87 (368)
                      ....|...+.|-||..+|..|+.+ +|||+||.-||..++..  .--||+|+.+.   ...-++.+..+.++++.|-
T Consensus        18 SL~~LDs~lrC~IC~~~i~ip~~T-tCgHtFCslCIR~hL~~--qp~CP~Cr~~~---~esrlr~~s~~~ei~es~~   88 (391)
T COG5432          18 SLKGLDSMLRCRICDCRISIPCET-TCGHTFCSLCIRRHLGT--QPFCPVCREDP---CESRLRGSSGSREINESHA   88 (391)
T ss_pred             chhcchhHHHhhhhhheeecceec-ccccchhHHHHHHHhcC--CCCCccccccH---HhhhcccchhHHHHHHhhh
Confidence            456778889999999999999999 89999999999999965  45599999875   4455677777777777663

>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

Probab=98.57  E-value=5.5e-08  Score=66.74  Aligned_cols=44  Identities=36%  Similarity=0.974  Sum_probs=38.2

Q ss_pred             cCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcc
Q 017653           20 TCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTD   64 (368)
Q Consensus        20 ~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~   64 (368)
                      .|+||.+.+.+++.+.+|||.||..|+..|+.. +...||.|+..
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~-~~~~Cp~C~~~   44 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKS-GKNTCPLCRTP   44 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHh-CcCCCCCCCCc
Confidence            599999999888888679999999999999875 46779999864

>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A

Probab=98.56  E-value=4.7e-08  Score=70.88  Aligned_cols=46  Identities=28%  Similarity=0.764  Sum_probs=39.0

Q ss_pred             ccccCcccccccccceecCCCCCc-ccHHHHHHHhhccCCCcccCCCccc
Q 017653           17 ACMTCPLCSKLFRDATTISECLHS-FCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        17 e~L~CpIC~~l~~dPv~l~~CgHt-FC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      ++..|.||++...+++.+ +|||. ||..|+.+++.  ....||+||..+
T Consensus         1 ~~~~C~iC~~~~~~~~~~-pCgH~~~C~~C~~~~~~--~~~~CP~Cr~~i   47 (50)
T PF13920_consen    1 EDEECPICFENPRDVVLL-PCGHLCFCEECAERLLK--RKKKCPICRQPI   47 (50)
T ss_dssp             -HSB-TTTSSSBSSEEEE-TTCEEEEEHHHHHHHHH--TTSBBTTTTBB-
T ss_pred             CcCCCccCCccCCceEEe-CCCChHHHHHHhHHhcc--cCCCCCcCChhh
Confidence            357899999999999888 89999 99999999986  567899999876

...

>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A

Probab=98.55  E-value=3.8e-08  Score=69.89  Aligned_cols=37  Identities=30%  Similarity=0.917  Sum_probs=23.2

Q ss_pred             Cccccccccc----ceecCCCCCcccHHHHHHHhhcc--CCCccc
Q 017653           21 CPLCSKLFRD----ATTISECLHSFCRKCIYEKITEE--EIDSCP   59 (368)
Q Consensus        21 CpIC~~l~~d----Pv~l~~CgHtFC~~CI~~~l~~~--~~~~CP   59 (368)
                      ||||.+ |.+    |+++ +|||+||+.||.+++...  +.+.||
T Consensus         1 CpIc~e-~~~~~n~P~~L-~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVL-PCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE--SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEE-eCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 888    9999 799999999999999754  457787

>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]

Probab=98.50  E-value=5.6e-08  Score=93.74  Aligned_cols=48  Identities=31%  Similarity=0.730  Sum_probs=41.8

Q ss_pred             cccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           16 VACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      +....|.||++...+|..+ +|||.||+.||.+|....  ..||.||..++
T Consensus       237 ~a~~kC~LCLe~~~~pSaT-pCGHiFCWsCI~~w~~ek--~eCPlCR~~~~  284 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNPSAT-PCGHIFCWSCILEWCSEK--AECPLCREKFQ  284 (293)
T ss_pred             CCCCceEEEecCCCCCCcC-cCcchHHHHHHHHHHccc--cCCCcccccCC
Confidence            3458999999999999998 899999999999999653  45999998763

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.48  E-value=9.9e-08  Score=90.82  Aligned_cols=49  Identities=33%  Similarity=0.671  Sum_probs=38.9

Q ss_pred             cccccCcccccccccc-------eecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           16 VACMTCPLCSKLFRDA-------TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dP-------v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      .....|+||++.+.++       .++.+|+|.||..||..|+..  ...||+||..+.
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~--~~tCPlCR~~~~  227 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE--KNTCPVCRTPFI  227 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc--CCCCCCCCCEee
Confidence            3468999999987653       134489999999999999854  567999998763

>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.47  E-value=7.1e-08  Score=87.28  Aligned_cols=48  Identities=25%  Similarity=0.826  Sum_probs=39.5

Q ss_pred             cccccCccccccccc--ceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           16 VACMTCPLCSKLFRD--ATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        16 ~e~L~CpIC~~l~~d--Pv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      +..+.||||++-+.+  |+.+ .|||.||+.||...+..  ...||+|+..+.
T Consensus       129 ~~~~~CPiCl~~~sek~~vsT-kCGHvFC~~Cik~alk~--~~~CP~C~kkIt  178 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVPVST-KCGHVFCSQCIKDALKN--TNKCPTCRKKIT  178 (187)
T ss_pred             ccccCCCceecchhhcccccc-ccchhHHHHHHHHHHHh--CCCCCCcccccc
Confidence            346899999999875  5556 89999999999999954  567999997653

>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A

Probab=98.45  E-value=7.2e-08  Score=68.00  Aligned_cols=40  Identities=40%  Similarity=0.960  Sum_probs=32.7

Q ss_pred             cCcccccccc---cceecCCCCCcccHHHHHHHhhccCCCcccCCC
Q 017653           20 TCPLCSKLFR---DATTISECLHSFCRKCIYEKITEEEIDSCPVCN   62 (368)
Q Consensus        20 ~CpIC~~l~~---dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr   62 (368)
                      .|+||++.|.   ..+.+ +|||.||..||..|+..  ...||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l-~C~H~fh~~Ci~~~~~~--~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKL-PCGHVFHRSCIKEWLKR--NNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEE-TTSEEEEHHHHHHHHHH--SSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEc-cCCCeeCHHHHHHHHHh--CCcCCccC
Confidence            5999999884   35555 79999999999999976  45899996

...

>smart00184 RING Ring finger

Probab=98.29  E-value=5.6e-07  Score=59.50  Aligned_cols=39  Identities=36%  Similarity=1.092  Sum_probs=34.2

Q ss_pred             CcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCC
Q 017653           21 CPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVC   61 (368)
Q Consensus        21 CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~C   61 (368)
                      |+||.+....++.+ +|||.||..|+..|+. .....||.|
T Consensus         1 C~iC~~~~~~~~~~-~C~H~~c~~C~~~~~~-~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVL-PCGHTFCRSCIRKWLK-SGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEe-cCCChHHHHHHHHHHH-hCcCCCCCC
Confidence            89999998888888 8999999999999987 355679987

E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.28  E-value=5.6e-07  Score=63.72  Aligned_cols=41  Identities=27%  Similarity=0.788  Sum_probs=33.4

Q ss_pred             cCccccccc--c-cceecCCCCCcccHHHHHHHhhccCCCcccCCCc
Q 017653           20 TCPLCSKLF--R-DATTISECLHSFCRKCIYEKITEEEIDSCPVCNT   63 (368)
Q Consensus        20 ~CpIC~~l~--~-dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~   63 (368)
                      .|++|.+.+  . .|+.+ .|||+||..|+....  .....||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~-~CgH~~C~~C~~~~~--~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLT-SCGHIFCEKCLKKLK--GKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEc-ccCCHHHHHHHHhhc--CCCCCCcCCCC
Confidence            489999988  2 45555 899999999999887  45678999983

>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=98.26  E-value=5.3e-07  Score=87.41  Aligned_cols=67  Identities=28%  Similarity=0.571  Sum_probs=57.7

Q ss_pred             ccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhcc
Q 017653           19 MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFP   88 (368)
Q Consensus        19 L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p   88 (368)
                      |.||+|..++++|+.+.+|+|+||..||...+.+ ..+.||.|...-  .-++.|.+|...+.-|++++.
T Consensus       275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~d-sDf~CpnC~rkd--vlld~l~pD~dk~~EvE~~lk  341 (427)
T COG5222         275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLD-SDFKCPNCSRKD--VLLDGLTPDIDKKLEVEKALK  341 (427)
T ss_pred             ccCcchhhhhhCcccCccccchHHHHHHhhhhhh-ccccCCCccccc--chhhccCccHHHHHHHHHHHH
Confidence            9999999999999999899999999999988875 578999998632  356788899888888888765

>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.24  E-value=5.1e-07  Score=92.90  Aligned_cols=48  Identities=29%  Similarity=0.674  Sum_probs=42.2

Q ss_pred             cccCcccccccccceecCCCCCcccHHHHHHHhhcc---CCCcccCCCcccC
Q 017653           18 CMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEE---EIDSCPVCNTDLG   66 (368)
Q Consensus        18 ~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~---~~~~CP~Cr~~l~   66 (368)
                      ...||||++...-|+.+ .|||.||..||.++|...   +-..||+|+..++
T Consensus       186 ~~~CPICL~~~~~p~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~  236 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTIT  236 (513)
T ss_pred             CCcCCcccCCCCccccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhcc
Confidence            78999999999999999 699999999999999753   2478999998764

>PHA02926 zinc finger-like protein; Provisional

Probab=98.21  E-value=8e-07  Score=83.26  Aligned_cols=53  Identities=25%  Similarity=0.624  Sum_probs=40.0

Q ss_pred             cccccccCcccccccccc--------eecCCCCCcccHHHHHHHhhcc----CCCcccCCCcccC
Q 017653           14 KLVACMTCPLCSKLFRDA--------TTISECLHSFCRKCIYEKITEE----EIDSCPVCNTDLG   66 (368)
Q Consensus        14 ~l~e~L~CpIC~~l~~dP--------v~l~~CgHtFC~~CI~~~l~~~----~~~~CP~Cr~~l~   66 (368)
                      ....+..|+||++...++        =.+.+|+|.||..||..|....    ....||.||..+.
T Consensus       166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            344579999999886442        1344899999999999999742    1356999998764

>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.09  E-value=1.4e-06  Score=83.39  Aligned_cols=49  Identities=27%  Similarity=0.630  Sum_probs=41.6

Q ss_pred             cccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           16 VACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      ..++.|+||.+....|..+ +|||.||..||...+.....-.||.||...
T Consensus       213 ~~d~kC~lC~e~~~~ps~t-~CgHlFC~~Cl~~~~t~~k~~~CplCRak~  261 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCT-PCGHLFCLSCLLISWTKKKYEFCPLCRAKV  261 (271)
T ss_pred             ccccceeeeecccCCcccc-cccchhhHHHHHHHHHhhccccCchhhhhc
Confidence            4578999999999999999 899999999999855444556699999765

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.07  E-value=4.4e-06  Score=82.13  Aligned_cols=48  Identities=29%  Similarity=0.761  Sum_probs=36.9

Q ss_pred             cccCcccccc-cccce---ecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           18 CMTCPLCSKL-FRDAT---TISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        18 ~L~CpIC~~l-~~dPv---~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ...||+|... +..|-   .+.+|||.||..|+...+.. +...||.|+..+.
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~-~~~~CP~C~~~lr   54 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR-GSGSCPECDTPLR   54 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcC-CCCCCCCCCCccc
Confidence            4689999872 33443   33379999999999998864 5678999998774

All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.07  E-value=1.9e-06  Score=87.65  Aligned_cols=75  Identities=27%  Similarity=0.575  Sum_probs=58.4

Q ss_pred             hcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCC-CCCCc-cchHHHHHHHHhcccc
Q 017653           13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAP-LEKLR-ADHNLQDLRIKIFPSK   90 (368)
Q Consensus        13 ~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~-~~~lr-~n~~L~~Lvekl~p~~   90 (368)
                      +.+..+|.|.||...|..||++ +|||+||..||.+.+.  ....||.|+..+.... ..... +++.+..++.+|++..
T Consensus        79 ~~~~sef~c~vc~~~l~~pv~t-pcghs~c~~Cl~r~ld--~~~~cp~Cr~~l~e~~~~~~~~~~~r~~~~li~~F~~~~  155 (398)
T KOG4159|consen   79 EEIRSEFECCVCSRALYPPVVT-PCGHSFCLECLDRSLD--QETECPLCRDELVELPALEQALSLNRLLCKLITKFLEGS  155 (398)
T ss_pred             ccccchhhhhhhHhhcCCCccc-cccccccHHHHHHHhc--cCCCCcccccccccchHHHHHHHHHHHHHHHHHHhhhhh
Confidence            4457899999999999999999 9999999999999774  5678999998875221 22222 3666778888888763

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=98.03  E-value=1.5e-06  Score=93.01  Aligned_cols=55  Identities=25%  Similarity=0.745  Sum_probs=48.1

Q ss_pred             cchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           10 VNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        10 v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      .....+..-++||+|..-+++.|.+ .|||.||..|+...+.. ....||.|+..|+
T Consensus       635 EElk~yK~~LkCs~Cn~R~Kd~vI~-kC~H~FC~~Cvq~r~et-RqRKCP~Cn~aFg  689 (698)
T KOG0978|consen  635 EELKEYKELLKCSVCNTRWKDAVIT-KCGHVFCEECVQTRYET-RQRKCPKCNAAFG  689 (698)
T ss_pred             HHHHHHHhceeCCCccCchhhHHHH-hcchHHHHHHHHHHHHH-hcCCCCCCCCCCC
Confidence            3566777889999999999999888 79999999999998865 5688999999885

>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C

Probab=98.03  E-value=3.2e-06  Score=63.56  Aligned_cols=44  Identities=27%  Similarity=0.643  Sum_probs=33.4

Q ss_pred             ccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccC
Q 017653           17 ACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPV   60 (368)
Q Consensus        17 e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~   60 (368)
                      -.++|||.+..|.+||....|||+|.+..|.+++...+...||+
T Consensus        10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            46999999999999999878999999999999996667789998

>PF11816 DUF3337: Domain of unknown function (DUF3337); InterPro: IPR021772 This family of proteins are functionally uncharacterised

Probab=97.93  E-value=1.6e-05  Score=79.12  Aligned_cols=93  Identities=28%  Similarity=0.332  Sum_probs=68.6

Q ss_pred             CcCCeEEEEEecCCCCCC-----------CCCCCCccceeeee-CCCccHHHHHHHHHHHh--------------CCCch
Q 017653          256 RFGPIWFSLVASDEQEGD-----------EPLPQISSCYLRVK-DGRLPVSFIKRYIVKKL--------------NLISE  309 (368)
Q Consensus       256 ~~~~iwf~l~~~~~q~~~-----------~~lp~i~~~ylr~~-~~~~~v~~l~Kyl~~KL--------------~l~~e  309 (368)
                      ...-|.|.|+...+..-+           -.+|.++....|.- ..-+.|.-|.-|++.||              .+..+
T Consensus       211 e~~Ki~F~L~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rL~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~  290 (331)
T PF11816_consen  211 EPPKISFVLQPWDGSLPPNLKPDGKSQKKIKLPPLSEGNSRLNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKKLKPE  290 (331)
T ss_pred             CCCeeEEEEeecCCCCccccCCCccccccccccccccccceecccchhhhHHHHHHHHHHhccCccccCccccccCCCCC
Confidence            345599999977622211           12444444444441 23356788999999999              45678


Q ss_pred             hhhhhhhcCCcCCCCccHHHHHH-HHhhcCCCccceecccCCCccceEEEEeeecCC
Q 017653          310 AEVEISLRGQPVLSTLELHNLIN-WWVQTSSASERIQTVVGSSAKDFVMVLSYGRKA  365 (368)
Q Consensus       310 ~evei~c~g~~~~~~~~l~~i~~-~w~~~~~~~~~~~~~~~~~~~~~~m~l~y~r~~  365 (368)
                      .-+||+|+||.|.+.|||.-|+- +|.+.+                 =|||+|+|+.
T Consensus       291 e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~-----------------di~L~YR~k~  330 (331)
T PF11816_consen  291 EWLELLCNGQVLPPDMTLATVRTFIWKSSG-----------------DIVLHYRRKG  330 (331)
T ss_pred             ceEEEEeCCeEcCCcCCHHHHHHhhccCCC-----------------eEEEEEEecC
Confidence            89999999999999999999999 897766                 5899999975

This family is only found in eukaryotes. This presumed domain is typically between 285 to 342 amino acids in length.

>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

Probab=97.92  E-value=5.2e-06  Score=76.55  Aligned_cols=68  Identities=29%  Similarity=0.559  Sum_probs=51.7

Q ss_pred             hcchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHH
Q 017653            9 KVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIK   85 (368)
Q Consensus         9 ~v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvek   85 (368)
                      ..+.+.|  .|.|-||...|..||++ .|||.||..|....+..  ...|-+|....    ...+.+...|+.|+.+
T Consensus       189 ~~~~e~I--PF~C~iCKkdy~spvvt-~CGH~FC~~Cai~~y~k--g~~C~~Cgk~t----~G~f~V~~d~~kmL~~  256 (259)
T COG5152         189 SGPGEKI--PFLCGICKKDYESPVVT-ECGHSFCSLCAIRKYQK--GDECGVCGKAT----YGRFWVVSDLQKMLNK  256 (259)
T ss_pred             cCCCCCC--ceeehhchhhccchhhh-hcchhHHHHHHHHHhcc--CCcceecchhh----ccceeHHhhHHHHHhh
Confidence            3344444  48999999999999999 89999999999887754  45699998753    3455666677776654

>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=97.83  E-value=1e-05  Score=63.54  Aligned_cols=41  Identities=24%  Similarity=0.705  Sum_probs=32.0

Q ss_pred             cCcccccccc------------cceecCCCCCcccHHHHHHHhhccCCCcccCCC
Q 017653           20 TCPLCSKLFR------------DATTISECLHSFCRKCIYEKITEEEIDSCPVCN   62 (368)
Q Consensus        20 ~CpIC~~l~~------------dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr   62 (368)
                      .|+||++.|.            -++.+..|||.|...||.+|+..  ...||+||
T Consensus        21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~--~~~CP~CR   73 (73)
T PF12678_consen   21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ--NNTCPLCR   73 (73)
T ss_dssp             BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT--SSB-TTSS
T ss_pred             cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc--CCcCCCCC
Confidence            4999999883            34455579999999999999964  45899997

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....

>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.60  E-value=3.9e-05  Score=73.87  Aligned_cols=56  Identities=21%  Similarity=0.520  Sum_probs=47.4

Q ss_pred             cchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           10 VNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        10 v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      .....-....+||+|.+.-..|.+..+|||.||.-||........++.||.|+...
T Consensus       231 ~sss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~  286 (298)
T KOG2879|consen  231 FSSSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENV  286 (298)
T ss_pred             cccccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCC
Confidence            33445556789999999999999997799999999999888765679999999765

>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]

Probab=97.56  E-value=5.6e-05  Score=77.03  Aligned_cols=73  Identities=29%  Similarity=0.669  Sum_probs=55.6

Q ss_pred             hhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhcc
Q 017653           12 REKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFP   88 (368)
Q Consensus        12 ~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p   88 (368)
                      ...+++.+.|++|...+.+|+.+..|||.||..|+..++..  ...||.|+..+.  ....+.....+...+.++..
T Consensus        15 ~~~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~--~~~cp~~~~~~~--~~~~~~~~~~~~~~~~~l~i   87 (391)
T KOG0297|consen   15 GRPLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN--HQKCPVCRQELT--QAEELPVPRALRRELLKLPI   87 (391)
T ss_pred             CCCCcccccCccccccccCCCCCCCCCCcccccccchhhcc--CcCCcccccccc--hhhccCchHHHHHHHHhccc
Confidence            33478889999999999999985589999999999999965  678999987763  33344445555666665543

>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.32  E-value=8.7e-05  Score=78.54  Aligned_cols=48  Identities=21%  Similarity=0.532  Sum_probs=41.1

Q ss_pred             cccccccCccccccccc-----ceecCCCCCcccHHHHHHHhhccCCCcccCCCcc
Q 017653           14 KLVACMTCPLCSKLFRD-----ATTISECLHSFCRKCIYEKITEEEIDSCPVCNTD   64 (368)
Q Consensus        14 ~l~e~L~CpIC~~l~~d-----Pv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~   64 (368)
                      .......|+||.+.+..     |..+ +|+|.||..|+..|+..  ...||.||..
T Consensus       287 ~~~~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er--~qtCP~CR~~  339 (543)
T KOG0802|consen  287 LALSDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFER--QQTCPTCRTV  339 (543)
T ss_pred             hhhcCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHH--hCcCCcchhh
Confidence            44457899999999988     7777 89999999999999965  5679999973

>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.29  E-value=0.00013  Score=71.02  Aligned_cols=45  Identities=27%  Similarity=0.679  Sum_probs=39.0

Q ss_pred             cccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           18 CMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        18 ~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      .|.|-||...|.+||++ .|+|+||..|....+.  ....|.+|....
T Consensus       241 Pf~c~icr~~f~~pVvt-~c~h~fc~~ca~~~~q--k~~~c~vC~~~t  285 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVT-KCGHYFCEVCALKPYQ--KGEKCYVCSQQT  285 (313)
T ss_pred             Cccccccccccccchhh-cCCceeehhhhccccc--cCCcceeccccc
Confidence            47799999999999999 8999999999887774  346799999765

>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.22  E-value=0.00021  Score=71.44  Aligned_cols=46  Identities=33%  Similarity=0.715  Sum_probs=38.0

Q ss_pred             ccCccccccccc--ceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           19 MTCPLCSKLFRD--ATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        19 L~CpIC~~l~~d--Pv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      .+|.||++.|.+  -+.+.+|.|.|-..||..|+... ...||+|+.++
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~-r~~CPvCK~di  277 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT-RTFCPVCKRDI  277 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc-CccCCCCCCcC
Confidence            499999999963  45555999999999999999763 45699999765

>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.04  E-value=0.00026  Score=69.09  Aligned_cols=45  Identities=24%  Similarity=0.660  Sum_probs=39.4

Q ss_pred             ccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           19 MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        19 L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      -.|+||+.-..-|+.+ .|+|-||.-||...+.. +...|++||.++
T Consensus         8 ~eC~IC~nt~n~Pv~l-~C~HkFCyiCiKGsy~n-dk~~CavCR~pi   52 (324)
T KOG0824|consen    8 KECLICYNTGNCPVNL-YCFHKFCYICIKGSYKN-DKKTCAVCRFPI   52 (324)
T ss_pred             CcceeeeccCCcCccc-cccchhhhhhhcchhhc-CCCCCceecCCC
Confidence            4699999999999888 89999999999987754 556799999886

>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.02  E-value=0.00042  Score=67.79  Aligned_cols=46  Identities=28%  Similarity=0.683  Sum_probs=37.6

Q ss_pred             ccCcccccccc--cceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           19 MTCPLCSKLFR--DATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        19 L~CpIC~~l~~--dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      ..|.||+.-|.  +-++..+|.|.|...|+..|+.. -...||+||..+
T Consensus       324 veCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~-y~~~CPvCrt~i  371 (374)
T COG5540         324 VECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLG-YSNKCPVCRTAI  371 (374)
T ss_pred             ceEEEEhhhhcccceEEEeccCceechhHHHHHHhh-hcccCCccCCCC
Confidence            57999998774  33444599999999999999975 457899999875

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]

Probab=96.99  E-value=0.00032  Score=72.84  Aligned_cols=50  Identities=34%  Similarity=0.737  Sum_probs=42.5

Q ss_pred             cccccCcccccccccceecCCCCCcccHHHHHHHhhc---cCCCcccCCCcccC
Q 017653           16 VACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITE---EEIDSCPVCNTDLG   66 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~---~~~~~CP~Cr~~l~   66 (368)
                      .....|.+|.+.-.+++.. .|.|+||+.||.+|+..   ..+..||+|.+.+.
T Consensus       534 k~~~~C~lc~d~aed~i~s-~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  534 KGEVECGLCHDPAEDYIES-SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             cCceeecccCChhhhhHhh-hhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            3468999999999999998 89999999999887753   23578999998875

>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

Probab=96.83  E-value=0.00059  Score=68.41  Aligned_cols=56  Identities=21%  Similarity=0.552  Sum_probs=42.4

Q ss_pred             chhcchhcc-cccccCcccccc-ccc------------ceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653            7 TLKVNREKL-VACMTCPLCSKL-FRD------------ATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus         7 ~v~v~~~~l-~e~L~CpIC~~l-~~d------------Pv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      .+++..+.+ .++-+|.||.+- +..            |..+ +|||.|-..|+..|+..  .-.||+||.++
T Consensus       275 ~~t~t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL-pCGHilHl~CLknW~ER--qQTCPICr~p~  344 (491)
T COG5243         275 YPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL-PCGHILHLHCLKNWLER--QQTCPICRRPV  344 (491)
T ss_pred             cchhhhhhhcCCCCeEEEecccccCCCCccCcccccCCcccc-cccceeeHHHHHHHHHh--ccCCCcccCcc
Confidence            344444444 356799999976 443            4788 89999999999999964  45699999875

>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger

Probab=96.69  E-value=0.0014  Score=53.08  Aligned_cols=50  Identities=24%  Similarity=0.624  Sum_probs=38.4

Q ss_pred             cccccCcccccccc-----------c-ceecCCCCCcccHHHHHHHhhcc-CCCcccCCCccc
Q 017653           16 VACMTCPLCSKLFR-----------D-ATTISECLHSFCRKCIYEKITEE-EIDSCPVCNTDL   65 (368)
Q Consensus        16 ~e~L~CpIC~~l~~-----------d-Pv~l~~CgHtFC~~CI~~~l~~~-~~~~CP~Cr~~l   65 (368)
                      .++-.|.||...|.           + |+++-.|+|.|...||.+|+... ....||.||+..
T Consensus        19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w   81 (85)
T PF12861_consen   19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW   81 (85)
T ss_pred             CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence            34566777776664           2 66666899999999999999864 347899999765

>cd01612 APG12_C Ubiquitin-like domain of APG12

Probab=96.66  E-value=0.0099  Score=48.41  Aligned_cols=72  Identities=11%  Similarity=0.235  Sum_probs=58.3

Q ss_pred             CCCCCccceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCC-cCCCCccHHHHHHHHhhcCCCccceecccCCCcc
Q 017653          275 PLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQ-PVLSTLELHNLINWWVQTSSASERIQTVVGSSAK  353 (368)
Q Consensus       275 ~lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~-~~~~~~~l~~i~~~w~~~~~~~~~~~~~~~~~~~  353 (368)
                      .+|+|.+.=.-| ++.++|+.+.+||+++|+|.++.-|=+.+++. +..++.+|.+|++.. +                .
T Consensus        11 ~~p~l~k~kflv-~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~~-~----------------~   72 (87)
T cd01612          11 SAPILKQKVFKI-SATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRCF-G----------------T   72 (87)
T ss_pred             CCccccccEEEe-CCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHhc-C----------------C
Confidence            378998854448 99999999999999999999988899988875 444567888888876 2                2


Q ss_pred             ceEEEEeeecC
Q 017653          354 DFVMVLSYGRK  364 (368)
Q Consensus       354 ~~~m~l~y~r~  364 (368)
                      |..+.++|+..
T Consensus        73 dGfLyi~Ys~~   83 (87)
T cd01612          73 NGELIVSYCKT   83 (87)
T ss_pred             CCEEEEEEeCc
Confidence            66889999864

APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.

>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]

Probab=96.56  E-value=0.0011  Score=65.59  Aligned_cols=90  Identities=11%  Similarity=-0.014  Sum_probs=79.6

Q ss_pred             EEEEEecCCCCCCCCCCCCccceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHHHHHHhhcCCC
Q 017653          261 WFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSA  340 (368)
Q Consensus       261 wf~l~~~~~q~~~~~lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i~~~w~~~~~~  340 (368)
                      ||.|.   +|.++..++++.++|.++.+|+.++. |++|++.++++..+.+ ++       .|..+|+-+.++|..+.+ 
T Consensus       239 ~~~L~---~~~~~~s~~~~~~s~~~~~~~~~~~~-~~~~~~~~~~~~t~~~-~~-------~pt~~~~~~~~~~~~~~~-  305 (331)
T KOG2660|consen  239 RLKLT---REAEEESLAGEFASLSVSDKANSPAA-IPATSSPEPSPSTPPR-SE-------HPTVPLPSSTLRGSYTDA-  305 (331)
T ss_pred             cceee---ccccccccccchhhhhccccCCCccc-cccccccccCcCCCcc-CC-------CCcccCchhhhccccccc-
Confidence            99999   88888889999999999999999999 9999999999888777 55       888999999999988873 


Q ss_pred             ccceecccCCCccceEEEEeeecCCCC
Q 017653          341 SERIQTVVGSSAKDFVMVLSYGRKAQP  367 (368)
Q Consensus       341 ~~~~~~~~~~~~~~~~m~l~y~r~~~~  367 (368)
                      ...    .++|++.|+|++.|.++..+
T Consensus       306 ~~~----~~~s~~~~~~~~~~~~~~~~  328 (331)
T KOG2660|consen  306 EGF----NRKSSGHRPRKKIVSGSSKP  328 (331)
T ss_pred             ccc----cCcccccCCceeeecCCCCC
Confidence            222    88999999999999998765

>KOG4367 consensus Predicted Zn-finger protein [Function unknown]

Probab=96.52  E-value=0.0012  Score=67.30  Aligned_cols=37  Identities=22%  Similarity=0.835  Sum_probs=33.3

Q ss_pred             ccccccCcccccccccceecCCCCCcccHHHHHHHhhc
Q 017653           15 LVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITE   52 (368)
Q Consensus        15 l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~   52 (368)
                      +++++.||||..+|++|+.+ +|+|..|+.|....+..
T Consensus         1 meeelkc~vc~~f~~epiil-~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    1 MEEELKCPVCGSFYREPIIL-PCSHNLCQACARNILVQ   37 (699)
T ss_pred             CcccccCceehhhccCceEe-ecccHHHHHHHHhhccc
Confidence            46889999999999999999 89999999998876654

>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.49  E-value=0.0013  Score=66.04  Aligned_cols=49  Identities=27%  Similarity=0.673  Sum_probs=39.8

Q ss_pred             ccccCcccccccccce-----e--cCCCCCcccHHHHHHHhhccC-----CCcccCCCccc
Q 017653           17 ACMTCPLCSKLFRDAT-----T--ISECLHSFCRKCIYEKITEEE-----IDSCPVCNTDL   65 (368)
Q Consensus        17 e~L~CpIC~~l~~dPv-----~--l~~CgHtFC~~CI~~~l~~~~-----~~~CP~Cr~~l   65 (368)
                      .+..|-||++...+..     .  ++.|-|.||..||..|.....     ...||.||...
T Consensus       160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            3789999999888766     2  347999999999999985544     58899999764

>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]

Probab=95.96  E-value=0.0027  Score=64.23  Aligned_cols=47  Identities=23%  Similarity=0.666  Sum_probs=38.9

Q ss_pred             ccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           19 MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        19 L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      -.|.||-+-=++-.. -+|||..|..|+..|....+...||.||..+.
T Consensus       370 eLCKICaendKdvkI-EPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK  416 (563)
T KOG1785|consen  370 ELCKICAENDKDVKI-EPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK  416 (563)
T ss_pred             HHHHHhhccCCCccc-ccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence            368899888777544 48999999999999997666788999998764

>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein

Probab=95.81  E-value=0.022  Score=48.52  Aligned_cols=72  Identities=19%  Similarity=0.276  Sum_probs=60.4

Q ss_pred             CCCCCcc-ceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHHHHHHhhcCCCccceecccCCCcc
Q 017653          275 PLPQISS-CYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAK  353 (368)
Q Consensus       275 ~lp~i~~-~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i~~~w~~~~~~~~~~~~~~~~~~~  353 (368)
                      .+|.|.+ +|| | ++.++|..+..+|.++|+|.++.-+=+.|++....++.+|.+|.+....                .
T Consensus        36 ~~p~l~k~Kfl-V-p~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd----------------~   97 (112)
T cd01611          36 DLPDLDKKKYL-V-PSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSLPPTSATMSQLYEEHKD----------------E   97 (112)
T ss_pred             CcccccCceEE-e-cCCCCHHHHHHHHHHHhCCCccceEEEEECCccCCchhHHHHHHHHhCC----------------C
Confidence            4677776 687 8 9999999999999999999998889999999766778888888887643                2


Q ss_pred             ceEEEEeeecC
Q 017653          354 DFVMVLSYGRK  364 (368)
Q Consensus       354 ~~~m~l~y~r~  364 (368)
                      |..+.|+|+..
T Consensus        98 DGfLyl~Ys~~  108 (112)
T cd01611          98 DGFLYMTYSSE  108 (112)
T ss_pred             CCEEEEEEecc
Confidence            66899999864

GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=95.80  E-value=0.004  Score=63.88  Aligned_cols=50  Identities=32%  Similarity=0.600  Sum_probs=39.1

Q ss_pred             chhcccccccCcccccccccce---ecCCCCCcccHHHHHHHhhccCCCcccCCCcc
Q 017653           11 NREKLVACMTCPLCSKLFRDAT---TISECLHSFCRKCIYEKITEEEIDSCPVCNTD   64 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv---~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~   64 (368)
                      +...+-+--+||+|++-+-.-+   .+..|.|+|-..|+..|..    ..||+||--
T Consensus       168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~----~scpvcR~~  220 (493)
T KOG0804|consen  168 PPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD----SSCPVCRYC  220 (493)
T ss_pred             CCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc----CcChhhhhh
Confidence            3444556779999999997654   4458999999999998873    469999953

>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.76  E-value=0.0078  Score=58.54  Aligned_cols=67  Identities=16%  Similarity=0.478  Sum_probs=52.4

Q ss_pred             cccCcccccccc------cceecCCCCCcccHHHHHHHhhccCCCcccCCCcc--cCCCCCCCCccchHHHHHHHHh
Q 017653           18 CMTCPLCSKLFR------DATTISECLHSFCRKCIYEKITEEEIDSCPVCNTD--LGCAPLEKLRADHNLQDLRIKI   86 (368)
Q Consensus        18 ~L~CpIC~~l~~------dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~--l~~~~~~~lr~n~~L~~Lvekl   86 (368)
                      .+.|-||.+.|.      .|..+ .|||+||..|+...+.. ....||.||..  +.......+..|..+..+++.+
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~-~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~~   77 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGN-SRILCPFCRETTEIPDGDVKSLQKNFALLQAIEHM   77 (296)
T ss_pred             CCceeecCccccccCcccCCccc-ccCceehHhHHHHHhcC-ceeeccCCCCcccCCchhHhhhhhhHHHHHHHHHH
Confidence            467999988774      48888 69999999999887764 56678999988  3344567778888888877766

>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.14  E-value=0.014  Score=58.38  Aligned_cols=47  Identities=23%  Similarity=0.631  Sum_probs=38.6

Q ss_pred             cccccCcccccccccceecCCCCCcc-cHHHHHHHhhccCCCcccCCCccc
Q 017653           16 VACMTCPLCSKLFRDATTISECLHSF-CRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dPv~l~~CgHtF-C~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      +.--.|-||+.-.++-+++ +|.|.- |..|.....  -....||+||.++
T Consensus       288 ~~gkeCVIClse~rdt~vL-PCRHLCLCs~Ca~~Lr--~q~n~CPICRqpi  335 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVL-PCRHLCLCSGCAKSLR--YQTNNCPICRQPI  335 (349)
T ss_pred             cCCCeeEEEecCCcceEEe-cchhhehhHhHHHHHH--HhhcCCCccccch
Confidence            4467899999999999999 899964 999987655  2356699999876

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.09  E-value=0.026  Score=54.43  Aligned_cols=49  Identities=24%  Similarity=0.497  Sum_probs=39.8

Q ss_pred             ccccccCcccccccc---cceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           15 LVACMTCPLCSKLFR---DATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        15 l~e~L~CpIC~~l~~---dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      -...|.|||....|.   .-|.+.+|||.|+..+|...-   ....||+|..++.
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k---~~~~Cp~c~~~f~  161 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK---KSKKCPVCGKPFT  161 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc---ccccccccCCccc
Confidence            467899999998884   356677999999999998763   3456999999985

>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.05  E-value=0.014  Score=59.35  Aligned_cols=61  Identities=26%  Similarity=0.602  Sum_probs=45.3

Q ss_pred             ccccCcccccccccc----eecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHH
Q 017653           17 ACMTCPLCSKLFRDA----TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQ   80 (368)
Q Consensus        17 e~L~CpIC~~l~~dP----v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~   80 (368)
                      ...+||||++-+.-|    +....|||.|=..||++|+.......||.|...   ...+.+++-+.+.
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k---atkr~i~~e~alR   67 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK---ATKRQIRPEYALR   67 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh---hHHHHHHHHHHHH
Confidence            457999999988655    233479999999999999975456899999854   3445555555543

>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.01  E-value=0.012  Score=59.41  Aligned_cols=48  Identities=23%  Similarity=0.589  Sum_probs=35.7

Q ss_pred             ccCcccccccccc---eecCCCCCcccHHHHHHHhhccCC-CcccCCCcccC
Q 017653           19 MTCPLCSKLFRDA---TTISECLHSFCRKCIYEKITEEEI-DSCPVCNTDLG   66 (368)
Q Consensus        19 L~CpIC~~l~~dP---v~l~~CgHtFC~~CI~~~l~~~~~-~~CP~Cr~~l~   66 (368)
                      -.|.||.+++-.-   -.+..|||+|-..|+..|+....+ ..||+|+..++
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~   56 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ   56 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence            4699997766421   122249999999999999986555 58999996654

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=94.99  E-value=0.02  Score=55.92  Aligned_cols=46  Identities=28%  Similarity=0.710  Sum_probs=35.3

Q ss_pred             cCccccc-ccccc---eecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           20 TCPLCSK-LFRDA---TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        20 ~CpIC~~-l~~dP---v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      .||+|.. .+.+|   ..+.+|+|+.|.+|+...+.. +...||.|...+-
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~-g~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSL-GPAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhc-CCCCCCcccchhh
Confidence            4999964 44444   223489999999999999875 7789999998763

>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=94.98  E-value=0.011  Score=65.36  Aligned_cols=53  Identities=21%  Similarity=0.690  Sum_probs=41.3

Q ss_pred             hcccccccCcccccccc-----cce-ecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           13 EKLVACMTCPLCSKLFR-----DAT-TISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        13 ~~l~e~L~CpIC~~l~~-----dPv-~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      ..+...-.|+||..++.     -|- +...|.|-|...|++.|+...+...||.||..+
T Consensus      1464 ~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219        1464 EKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred             hhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence            34455668999998875     121 223599999999999999988889999999765

>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]

Probab=94.75  E-value=0.013  Score=63.77  Aligned_cols=45  Identities=29%  Similarity=0.765  Sum_probs=38.6

Q ss_pred             ccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           19 MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        19 L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      +.|++|.+ ...++.+ .|+|.||..|+...+.......||.|+..+
T Consensus       455 ~~c~ic~~-~~~~~it-~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l  499 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFIT-RCGHDFCVECLKKSIQQSENAPCPLCRNVL  499 (674)
T ss_pred             cccccccc-cccceee-cccchHHHHHHHhccccccCCCCcHHHHHH
Confidence            89999999 6667666 899999999999988766666899999765

>KOG0825 consensus PHD Zn-finger protein [General function prediction only]

Probab=94.66  E-value=0.0089  Score=64.91  Aligned_cols=47  Identities=28%  Similarity=0.554  Sum_probs=36.0

Q ss_pred             cccCcccccccccceec--CCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           18 CMTCPLCSKLFRDATTI--SECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        18 ~L~CpIC~~l~~dPv~l--~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      .-.||+|+.-+.+-...  ..|+|.||..||..|-..  ...||+|+..|.
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~--aqTCPiDR~EF~  171 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC--AQTCPVDRGEFG  171 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh--cccCchhhhhhh
Confidence            34788998766653322  369999999999998854  567999999876

>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.53  E-value=0.021  Score=57.27  Aligned_cols=46  Identities=26%  Similarity=0.569  Sum_probs=39.5

Q ss_pred             ccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           17 ACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        17 e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      ++-.||||.---..+|.. +|+|.-|..||.+++-  +.+.|-.|+..+
T Consensus       421 Ed~lCpICyA~pi~Avf~-PC~H~SC~~CI~qHlm--N~k~CFfCktTv  466 (489)
T KOG4692|consen  421 EDNLCPICYAGPINAVFA-PCSHRSCYGCITQHLM--NCKRCFFCKTTV  466 (489)
T ss_pred             ccccCcceecccchhhcc-CCCCchHHHHHHHHHh--cCCeeeEeccee
Confidence            467899999888889888 8999999999999884  567899998654

>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B

Probab=94.40  E-value=0.038  Score=40.26  Aligned_cols=44  Identities=32%  Similarity=0.729  Sum_probs=21.6

Q ss_pred             Ccccccccc--c-ceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           21 CPLCSKLFR--D-ATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        21 CpIC~~l~~--d-Pv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      ||+|.+.+.  + -+.-=+||+.+|+.|....+.+ ....||.||.++
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~-~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILEN-EGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTS-S-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhc-cCCCCCCCCCCC
Confidence            788887762  1 1112268999999999988863 567899999764

>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.18  E-value=0.0083  Score=58.65  Aligned_cols=41  Identities=32%  Similarity=0.759  Sum_probs=33.9

Q ss_pred             cccCcccccccccceecCCCCCc-ccHHHHHHHhhccCCCcccCCCccc
Q 017653           18 CMTCPLCSKLFRDATTISECLHS-FCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        18 ~L~CpIC~~l~~dPv~l~~CgHt-FC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      ...|.||.+..++.+.+ +|||. -|..|-.++      ..||+||+.+
T Consensus       300 ~~LC~ICmDaP~DCvfL-eCGHmVtCt~CGkrm------~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFL-ECGHMVTCTKCGKRM------NECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCCcceEEe-ecCcEEeehhhcccc------ccCchHHHHH
Confidence            67899999999999999 89994 498886433      3599999765

>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=94.09  E-value=0.077  Score=43.33  Aligned_cols=59  Identities=10%  Similarity=0.175  Sum_probs=39.3

Q ss_pred             CCCCccceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCC-cCCCCccHHHHHHHHh
Q 017653          276 LPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQ-PVLSTLELHNLINWWV  335 (368)
Q Consensus       276 lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~-~~~~~~~l~~i~~~w~  335 (368)
                      -|+|..+-..| +++-++.+|-+||+++|++.+...|-+.++.- .=.|..++.+|++++.
T Consensus        12 aPilk~~k~kI-~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg~L~~~f~   71 (87)
T PF04110_consen   12 APILKQKKFKI-SASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVGDLYRCFG   71 (87)
T ss_dssp             ----S--EEEE-ETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TTSBHHHHHHHH-
T ss_pred             CccccCcEEEE-CCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHHHHHHHhC
Confidence            67888899999 99999999999999999998877888877663 3367889999999885

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.

>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.05  E-value=0.016  Score=43.38  Aligned_cols=45  Identities=22%  Similarity=0.563  Sum_probs=37.0

Q ss_pred             ccCcccccccccceecCCCCCc-ccHHHHHHHhhccCCCcccCCCccc
Q 017653           19 MTCPLCSKLFRDATTISECLHS-FCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        19 L~CpIC~~l~~dPv~l~~CgHt-FC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      -.|-||.+--.+.|.- .|||. .|..|-.+.+.. ....||+||.++
T Consensus         8 dECTICye~pvdsVlY-tCGHMCmCy~Cg~rl~~~-~~g~CPiCRapi   53 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLY-TCGHMCMCYACGLRLKKA-LHGCCPICRAPI   53 (62)
T ss_pred             cceeeeccCcchHHHH-HcchHHhHHHHHHHHHHc-cCCcCcchhhHH
Confidence            5699999999998877 79995 599998887764 567899999765

>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins

Probab=94.03  E-value=0.049  Score=39.60  Aligned_cols=42  Identities=21%  Similarity=0.542  Sum_probs=33.3

Q ss_pred             cCccccc--ccccceecCCCC-----CcccHHHHHHHhhccCCCcccCCC
Q 017653           20 TCPLCSK--LFRDATTISECL-----HSFCRKCIYEKITEEEIDSCPVCN   62 (368)
Q Consensus        20 ~CpIC~~--l~~dPv~l~~Cg-----HtFC~~CI~~~l~~~~~~~CP~Cr   62 (368)
                      .|-||++  .-.++... +|.     |.|-..|+.+|+...+...||+|+
T Consensus         1 ~CrIC~~~~~~~~~l~~-PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVS-PCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEe-ccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4889986  33467666 785     778999999999887778999995

Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.99  E-value=0.047  Score=52.41  Aligned_cols=48  Identities=17%  Similarity=0.331  Sum_probs=39.9

Q ss_pred             ccccCcccccccccc---eecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           17 ACMTCPLCSKLFRDA---TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        17 e~L~CpIC~~l~~dP---v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ..+.||+|.+.+.+.   ..+.+|||.||..|.+..+.  ....||+|..++.
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir--~D~v~pv~d~plk  270 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIR--KDMVDPVTDKPLK  270 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhcc--ccccccCCCCcCc
Confidence            678999999999874   34558999999999999885  4567999998764

>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A

Probab=93.99  E-value=0.017  Score=44.96  Aligned_cols=49  Identities=20%  Similarity=0.490  Sum_probs=23.3

Q ss_pred             cccCcccccccc----cceec---CCCCCcccHHHHHHHhhccCC---------CcccCCCcccC
Q 017653           18 CMTCPLCSKLFR----DATTI---SECLHSFCRKCIYEKITEEEI---------DSCPVCNTDLG   66 (368)
Q Consensus        18 ~L~CpIC~~l~~----dPv~l---~~CgHtFC~~CI~~~l~~~~~---------~~CP~Cr~~l~   66 (368)
                      ++.|+||...+.    .|...   ..|++.|-..||.+|+.....         -.||.|+..+.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            578999998754    23332   158889999999999975311         35999998763

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=93.94  E-value=0.022  Score=42.51  Aligned_cols=45  Identities=24%  Similarity=0.655  Sum_probs=35.3

Q ss_pred             cccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           16 VACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      .....|-.|...-...+++ +|||..|..|+...    ....||.|..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~~-pCgH~I~~~~f~~~----rYngCPfC~~~~   49 (55)
T PF14447_consen    5 QPEQPCVFCGFVGTKGTVL-PCGHLICDNCFPGE----RYNGCPFCGTPF   49 (55)
T ss_pred             ccceeEEEccccccccccc-cccceeeccccChh----hccCCCCCCCcc
Confidence            4566788888887778888 89999999997542    345699999876

>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.70  E-value=0.033  Score=57.93  Aligned_cols=50  Identities=24%  Similarity=0.570  Sum_probs=36.9

Q ss_pred             ccccccCcccccccc----------------cceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           15 LVACMTCPLCSKLFR----------------DATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        15 l~e~L~CpIC~~l~~----------------dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      .+..--|+||...+.                .-.++++|.|.|-+.|+.+|+.. -...||+||.++
T Consensus       568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~-ykl~CPvCR~pL  633 (636)
T KOG0828|consen  568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT-YKLICPVCRCPL  633 (636)
T ss_pred             hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhh-hcccCCccCCCC
Confidence            445567999986442                11344599999999999999963 345799999876

>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.69  E-value=0.033  Score=59.52  Aligned_cols=61  Identities=26%  Similarity=0.573  Sum_probs=40.9

Q ss_pred             hcccccccCcccccccc----cceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC--CCCCCCCccchHH
Q 017653           13 EKLVACMTCPLCSKLFR----DATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG--CAPLEKLRADHNL   79 (368)
Q Consensus        13 ~~l~e~L~CpIC~~l~~----dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~--~~~~~~lr~n~~L   79 (368)
                      -.+.+.+.|+||..+|.    .||.+ -|||+.|+.|+...++    ..|| |..+-.  ...+..+..|+.|
T Consensus         6 ~~w~~~l~c~ic~n~f~~~~~~Pvsl-~cghtic~~c~~~lyn----~scp-~~~De~~~~~~~~e~p~n~al   72 (861)
T KOG3161|consen    6 LKWVLLLLCDICLNLFVVQRLEPVSL-QCGHTICGHCVQLLYN----ASCP-TKRDEDSSLMQLKEEPRNYAL   72 (861)
T ss_pred             hhhHHHhhchHHHHHHHHHhcCcccc-cccchHHHHHHHhHhh----ccCC-CCccccchhcChhhcchhHHH
Confidence            45667889999977764    69999 7999999999987664    3477 433211  2234444455544

>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=93.49  E-value=0.028  Score=53.57  Aligned_cols=44  Identities=27%  Similarity=0.820  Sum_probs=31.8

Q ss_pred             ccCccccccc-ccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           19 MTCPLCSKLF-RDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        19 L~CpIC~~l~-~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ..|-.|...- .+|..++.|+|.||..|......    ..||.|+..+.
T Consensus         4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~----~~C~lCkk~ir   48 (233)
T KOG4739|consen    4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSP----DVCPLCKKSIR   48 (233)
T ss_pred             EEeccccccCCCCceeeeechhhhhhhhcccCCc----cccccccceee
Confidence            4566665432 67778889999999999754332    27999998754

>KOG3002 consensus Zn finger protein [General function prediction only]

Probab=93.24  E-value=0.073  Score=52.66  Aligned_cols=66  Identities=15%  Similarity=0.382  Sum_probs=48.9

Q ss_pred             cccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhcccc
Q 017653           14 KLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPSK   90 (368)
Q Consensus        14 ~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~~   90 (368)
                      .+-+.+.||+|.+.+..|+.--.=||.-|..|-...     ...||.|+..++     + .....++.+++..+...
T Consensus        44 ~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~-----~~~CP~Cr~~~g-----~-~R~~amEkV~e~~~vpC  109 (299)
T KOG3002|consen   44 LDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKV-----SNKCPTCRLPIG-----N-IRCRAMEKVAEAVLVPC  109 (299)
T ss_pred             cchhhccCchhhccCcccceecCCCcEehhhhhhhh-----cccCCccccccc-----c-HHHHHHHHHHHhceecc
Confidence            355689999999999999876233799999997543     356999998764     2 36677777777665443

>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=93.13  E-value=0.096  Score=38.23  Aligned_cols=46  Identities=26%  Similarity=0.515  Sum_probs=24.9

Q ss_pred             cccCcccccccccceecCCCCCcccHHH--HHHHhhccCCCcccCCCc
Q 017653           18 CMTCPLCSKLFRDATTISECLHSFCRKC--IYEKITEEEIDSCPVCNT   63 (368)
Q Consensus        18 ~L~CpIC~~l~~dPv~l~~CgHtFC~~C--I~~~l~~~~~~~CP~Cr~   63 (368)
                      .|.|||....+..|+....|.|.-|.+-  +.......+...||+|++
T Consensus         2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~   49 (50)
T PF02891_consen    2 SLRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNK   49 (50)
T ss_dssp             ESB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT--
T ss_pred             eeeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcC
Confidence            4789999999999999989999987643  122222235688999985

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.

>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.00  E-value=0.038  Score=55.43  Aligned_cols=45  Identities=27%  Similarity=0.620  Sum_probs=34.4

Q ss_pred             ccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           15 LVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        15 l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      +.....|-||.+-..+.+.+ +|||+-|  |..-..   ....||+||..+
T Consensus       302 ~~~p~lcVVcl~e~~~~~fv-pcGh~cc--ct~cs~---~l~~CPvCR~rI  346 (355)
T KOG1571|consen  302 LPQPDLCVVCLDEPKSAVFV-PCGHVCC--CTLCSK---HLPQCPVCRQRI  346 (355)
T ss_pred             cCCCCceEEecCCccceeee-cCCcEEE--chHHHh---hCCCCchhHHHH
Confidence            34456899999999999998 8999987  765443   234499999754

>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]

Probab=92.74  E-value=0.064  Score=53.32  Aligned_cols=47  Identities=26%  Similarity=0.571  Sum_probs=39.1

Q ss_pred             ccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           17 ACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        17 e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      +.-.||+|..--.+|.++.--|-.||..||..++..  ..+||+-..+.
T Consensus       299 ~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~--~~~CPVT~~p~  345 (357)
T KOG0826|consen  299 DREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVN--YGHCPVTGYPA  345 (357)
T ss_pred             ccccChhHHhccCCCceEEecceEEeHHHHHHHHHh--cCCCCccCCcc
Confidence            345799999999999988666999999999999974  46799877554

>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein

Probab=92.74  E-value=0.12  Score=39.49  Aligned_cols=45  Identities=13%  Similarity=0.276  Sum_probs=40.0

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      .+.+ +.+.+|..||+.|..+.|++. .+..++|.|.+|.+..+|.+
T Consensus        12 ~~~v-~~~~tV~~lK~~i~~~~gi~~-~~q~Li~~G~~L~d~~~l~~   56 (70)
T cd01798          12 PVEV-DPDTDIKQLKEVVAKRQGVPP-DQLRVIFAGKELRNTTTIQE   56 (70)
T ss_pred             EEEE-CCCChHHHHHHHHHHHHCCCH-HHeEEEECCeECCCCCcHHH
Confidence            3567 889999999999999999977 57788999999999999876

parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.

>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

Probab=91.99  E-value=0.12  Score=41.54  Aligned_cols=45  Identities=27%  Similarity=0.569  Sum_probs=32.5

Q ss_pred             cCcccccccc----cceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           20 TCPLCSKLFR----DATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        20 ~CpIC~~l~~----dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      +|+-|+.-..    -|+..--|-|.|-..||.+|+...  ..||+|++...
T Consensus        33 ~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk--~~CPld~q~w~   81 (88)
T COG5194          33 TCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTK--GVCPLDRQTWV   81 (88)
T ss_pred             cCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhC--CCCCCCCceeE
Confidence            4556654221    255555699999999999999764  46999998753

>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]

Probab=91.93  E-value=0.057  Score=58.45  Aligned_cols=56  Identities=18%  Similarity=0.606  Sum_probs=45.9

Q ss_pred             cchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccC-CCcccCCCcccC
Q 017653           10 VNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEE-IDSCPVCNTDLG   66 (368)
Q Consensus        10 v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~-~~~CP~Cr~~l~   66 (368)
                      -....+...+.|+||...+.+|+.+ .|.|.||..|+...+.... ...||+|+..+.
T Consensus        13 ~vi~~~~k~lEc~ic~~~~~~p~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e   69 (684)
T KOG4362|consen   13 QVINAMQKILECPICLEHVKEPSLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIE   69 (684)
T ss_pred             hHHHHHhhhccCCceeEEeeccchh-hhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence            3455666789999999999999888 8999999999988776543 578999996653

>PF02991 Atg8: Autophagy protein Atg8 ubiquitin like; InterPro: IPR004241 Autophagy is generally known as a process involved in the degradation of bulk cytoplasmic components that are non-specifically sequestered into an autophagosome, where they are sequestered into double-membrane vesicles and delivered to the degradative organelle, the lysosome/vacuole, for breakdown and eventual recycling of the resulting macromolecules

Probab=91.86  E-value=0.36  Score=40.60  Aligned_cols=60  Identities=20%  Similarity=0.251  Sum_probs=47.9

Q ss_pred             CCCCCcc-ceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHHHHHHhh
Q 017653          275 PLPQISS-CYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQ  336 (368)
Q Consensus       275 ~lp~i~~-~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i~~~w~~  336 (368)
                      .||.|-+ +|| + +..+||+.+...|.++|.|..+.-+=+.++|..+..+.||.+|.+.+.+
T Consensus        28 ~lp~ldk~KfL-v-p~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~lp~~s~tm~elY~~~kd   88 (104)
T PF02991_consen   28 KLPDLDKKKFL-V-PKDLTVGQFVYIIRKRLQLSPEQALFLFVNNTLPSTSSTMGELYEKYKD   88 (104)
T ss_dssp             SS---SSSEEE-E-ETTSBHHHHHHHHHHHTT--TTS-EEEEBTTBESSTTSBHHHHHHHHB-
T ss_pred             ChhhcCccEEE-E-cCCCchhhHHHHhhhhhcCCCCceEEEEEcCcccchhhHHHHHHHHhCC
Confidence            3888876 688 6 8999999999999999999999889999999888889999999998865

The yeast proteins are involved in the autophagosome, and Atg8 binds Atg19, via its N terminus and the C terminus of Atg19. Light chain 3 is proposed to function primarily as a subunit of microtubule associated proteins 1A and 1B and that its expression may regulate microtubule binding activity [] Related proteins that belong to this group include the human ganglioside expression factor and a symbiosis-related fungal protein.; PDB: 3ECI_A 3D32_B 1GNU_A 1KM7_A 1KLV_A 1KOT_A 3DOW_A 1KJT_A 1V49_A 2ZJD_C ....

>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins

Probab=91.47  E-value=0.16  Score=38.71  Aligned_cols=48  Identities=15%  Similarity=0.158  Sum_probs=42.2

Q ss_pred             ceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          282 CYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       282 ~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      -+++| ...-|++.|...++++.+++.+..+.+.+.|+.|.+..|+.++
T Consensus        13 ~~~~v-~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~   60 (72)
T PF11976_consen   13 IKFKV-KPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDL   60 (72)
T ss_dssp             EEEEE-ETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHH
T ss_pred             EEEEE-CCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHC
Confidence            46777 6789999999999999999998899999999999999999886

SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....

>smart00213 UBQ Ubiquitin homologues

Probab=91.28  E-value=0.23  Score=36.29  Aligned_cols=46  Identities=17%  Similarity=0.157  Sum_probs=39.8

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      -+++ +...||..||..|.++++++. .+.-++|.|.+|.+..||.+.
T Consensus        13 ~~~v-~~~~tv~~lk~~i~~~~~~~~-~~~~L~~~g~~L~d~~tL~~~   58 (64)
T smart00213       13 TLEV-KPSDTVSELKEKIAELTGIPV-EQQRLIYKGKVLEDDRTLADY   58 (64)
T ss_pred             EEEE-CCCCcHHHHHHHHHHHHCCCH-HHEEEEECCEECCCCCCHHHc
Confidence            4778 788899999999999999976 578899999999998888653

Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.23  E-value=0.14  Score=49.31  Aligned_cols=46  Identities=24%  Similarity=0.258  Sum_probs=39.4

Q ss_pred             cchhcchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhc
Q 017653            6 QTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITE   52 (368)
Q Consensus         6 ~~v~v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~   52 (368)
                      ....+-.+.+.+.--|.+|+..+++||.+ +=||.||+.||.+++..
T Consensus        31 q~~RLgrDsiK~FdcCsLtLqPc~dPvit-~~GylfdrEaILe~ila   76 (303)
T KOG3039|consen   31 QRERLGRDSIKPFDCCSLTLQPCRDPVIT-PDGYLFDREAILEYILA   76 (303)
T ss_pred             hhhhhcccccCCcceeeeecccccCCccC-CCCeeeeHHHHHHHHHH
Confidence            34456777888888899999999999998 89999999999988854

>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=91.04  E-value=0.077  Score=51.57  Aligned_cols=54  Identities=20%  Similarity=0.502  Sum_probs=41.0

Q ss_pred             cchhcccccccCccccccccc----------ceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           10 VNREKLVACMTCPLCSKLFRD----------ATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        10 v~~~~l~e~L~CpIC~~l~~d----------Pv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      ++...++ +-.|.+|..-+..          -..+ .|.|.|-..||..|-.-...-.||-|+..+
T Consensus       217 lPtkhl~-d~vCaVCg~~~~~s~~eegvienty~L-sCnHvFHEfCIrGWcivGKkqtCPYCKekV  280 (328)
T KOG1734|consen  217 LPTKHLS-DSVCAVCGQQIDVSVDEEGVIENTYKL-SCNHVFHEFCIRGWCIVGKKQTCPYCKEKV  280 (328)
T ss_pred             CCCCCCC-cchhHhhcchheeecchhhhhhhheee-ecccchHHHhhhhheeecCCCCCchHHHHh
Confidence            3444444 4679999876543          3466 799999999999998776667899999765

>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=90.76  E-value=0.17  Score=51.47  Aligned_cols=48  Identities=15%  Similarity=0.400  Sum_probs=38.6

Q ss_pred             ccccccCcccccccc---cceecCCCCCcccHHHHHHHhhccCC--CcccCCCcc
Q 017653           15 LVACMTCPLCSKLFR---DATTISECLHSFCRKCIYEKITEEEI--DSCPVCNTD   64 (368)
Q Consensus        15 l~e~L~CpIC~~l~~---dPv~l~~CgHtFC~~CI~~~l~~~~~--~~CP~Cr~~   64 (368)
                      ++..|.|||=.+.-.   -|+.+ .|||..|+.-|.+.... +.  +.||.|-..
T Consensus       331 fHSvF~CPVlKeqtsdeNPPm~L-~CGHVISkdAlnrLS~n-g~~sfKCPYCP~e  383 (394)
T KOG2817|consen  331 FHSVFICPVLKEQTSDENPPMML-ICGHVISKDALNRLSKN-GSQSFKCPYCPVE  383 (394)
T ss_pred             ccceeecccchhhccCCCCCeee-eccceecHHHHHHHhhC-CCeeeeCCCCCcc
Confidence            667899999776554   38888 89999999999887764 55  999999643

>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=90.54  E-value=0.24  Score=50.70  Aligned_cols=49  Identities=20%  Similarity=0.481  Sum_probs=35.7

Q ss_pred             ccccccCcccccccc--cceecCCCCCcccHHHHHHHhhcc---C---CCcccCCCc
Q 017653           15 LVACMTCPLCSKLFR--DATTISECLHSFCRKCIYEKITEE---E---IDSCPVCNT   63 (368)
Q Consensus        15 l~e~L~CpIC~~l~~--dPv~l~~CgHtFC~~CI~~~l~~~---~---~~~CP~Cr~   63 (368)
                      ....+.|.||.+...  .-+...+|+|.||+.|+..|+...   +   ...||-|..
T Consensus       181 ~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  181 VNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             HhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            445688999987664  445555999999999999888632   2   357877664

>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=90.43  E-value=0.19  Score=50.53  Aligned_cols=53  Identities=21%  Similarity=0.500  Sum_probs=42.2

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcc
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTD   64 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~   64 (368)
                      ..+.-++...|-||-+-+.---.+ +|+|..|--|-.+...-...+.||+|+..
T Consensus        54 addtDEen~~C~ICA~~~TYs~~~-PC~H~~CH~Ca~RlRALY~~K~C~~CrTE  106 (493)
T COG5236          54 ADDTDEENMNCQICAGSTTYSARY-PCGHQICHACAVRLRALYMQKGCPLCRTE  106 (493)
T ss_pred             ccccccccceeEEecCCceEEEec-cCCchHHHHHHHHHHHHHhccCCCccccc
Confidence            455667889999999887766666 89999999998765544456789999965

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=90.01  E-value=0.11  Score=52.72  Aligned_cols=47  Identities=26%  Similarity=0.628  Sum_probs=38.2

Q ss_pred             ccccCcccccccc---cceecCCCCCcccHHHHHHHhhccCCCcccCCCc
Q 017653           17 ACMTCPLCSKLFR---DATTISECLHSFCRKCIYEKITEEEIDSCPVCNT   63 (368)
Q Consensus        17 e~L~CpIC~~l~~---dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~   63 (368)
                      -.+.|-.|.+.+-   +-..-.+|.|.|-..|++.++.+.+...||.||.
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            4689999998773   2233348999999999999998877899999994

>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=89.26  E-value=0.09  Score=41.91  Aligned_cols=35  Identities=26%  Similarity=0.659  Sum_probs=28.5

Q ss_pred             ceecCCCCCcccHHHHHHHhhccC-CCcccCCCccc
Q 017653           31 ATTISECLHSFCRKCIYEKITEEE-IDSCPVCNTDL   65 (368)
Q Consensus        31 Pv~l~~CgHtFC~~CI~~~l~~~~-~~~CP~Cr~~l   65 (368)
                      |.++--|.|.|-..||.+|+.... ...||.||+..
T Consensus        45 PLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~   80 (84)
T KOG1493|consen   45 PLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW   80 (84)
T ss_pred             ccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence            666656999999999999997643 36899999765

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=89.19  E-value=0.21  Score=50.10  Aligned_cols=51  Identities=22%  Similarity=0.458  Sum_probs=34.6

Q ss_pred             cccccccCcccccccc--cc-eecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           14 KLVACMTCPLCSKLFR--DA-TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        14 ~l~e~L~CpIC~~l~~--dP-v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      .-++++ ||+|.+.+.  +- ...-+||-..|+-|+.....+ -+-.||.||..+.
T Consensus        11 edeed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~-lngrcpacrr~y~   64 (480)
T COG5175          11 EDEEDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQN-LNGRCPACRRKYD   64 (480)
T ss_pred             cccccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhh-ccCCChHhhhhcc
Confidence            334445 999998663  21 122268888899998766543 4568999998764

>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]

Probab=87.97  E-value=0.1  Score=49.91  Aligned_cols=48  Identities=25%  Similarity=0.681  Sum_probs=35.2

Q ss_pred             cccCccccc-ccccc---e-ecCCCCCcccHHHHHHHhhccCCCccc--CCCcccC
Q 017653           18 CMTCPLCSK-LFRDA---T-TISECLHSFCRKCIYEKITEEEIDSCP--VCNTDLG   66 (368)
Q Consensus        18 ~L~CpIC~~-l~~dP---v-~l~~CgHtFC~~CI~~~l~~~~~~~CP--~Cr~~l~   66 (368)
                      +-.||+|.. .+-+|   + +-++|-|..|.+|+.+.+.. +...||  -|...+.
T Consensus        10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~-GpAqCP~~gC~kILR   64 (314)
T COG5220          10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSR-GPAQCPYKGCGKILR   64 (314)
T ss_pred             cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcC-CCCCCCCccHHHHHH
Confidence            458999974 33333   1 12259999999999999975 678899  7877654

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=87.83  E-value=0.58  Score=36.11  Aligned_cols=45  Identities=20%  Similarity=0.386  Sum_probs=39.7

Q ss_pred             eeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          284 LRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       284 lr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      |.+ +...||..||.-|..+.|++. .+.-+.|.|.+|.+..+|.+.
T Consensus        15 l~v-~~~~tV~~lK~~i~~~~gi~~-~~q~L~~~G~~L~d~~~L~~~   59 (74)
T cd01807          15 LQV-SEKESVSTLKKLVSEHLNVPE-EQQRLLFKGKALADDKRLSDY   59 (74)
T ss_pred             EEE-CCCCcHHHHHHHHHHHHCCCH-HHeEEEECCEECCCCCCHHHC
Confidence            577 889999999999999999977 577788999999999998753

GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=87.71  E-value=0.61  Score=36.09  Aligned_cols=44  Identities=14%  Similarity=0.107  Sum_probs=38.7

Q ss_pred             eeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          284 LRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       284 lr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      +.+ +...||..||..|..+.|++.+ +.-++|.|++|.+..+|.+
T Consensus        13 l~v-~~~~TV~~lK~~I~~~~gi~~~-~q~Li~~G~~L~D~~~l~~   56 (70)
T cd01794          13 LSV-SSKDTVGQLKKQLQAAEGVDPC-CQRWFFSGKLLTDKTRLQE   56 (70)
T ss_pred             EEE-CCcChHHHHHHHHHHHhCCCHH-HeEEEECCeECCCCCCHHH
Confidence            566 7889999999999999999875 5677899999999999876

DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.

>PTZ00380 microtubule-associated protein (MAP); Provisional

Probab=87.36  E-value=1.4  Score=38.09  Aligned_cols=56  Identities=11%  Similarity=0.162  Sum_probs=48.6

Q ss_pred             CccceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHHHHHHhh
Q 017653          279 ISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQ  336 (368)
Q Consensus       279 i~~~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i~~~w~~  336 (368)
                      ..++||=+ +..+||..+.-.|.++|+|.++. +-+.|+|..+..+.+|.+|.+...+
T Consensus        40 dK~KfllV-P~d~tV~qF~~iIRkrl~l~~~k-~flfVnn~lp~~s~~mg~lYe~~KD   95 (121)
T PTZ00380         40 SKVHFLAL-PRDATVAELEAAVRQALGTSAKK-VTLAIEGSTPAVTATVGDIADACKR   95 (121)
T ss_pred             CceEEEEc-CCCCcHHHHHHHHHHHcCCChhH-EEEEECCccCCccchHHHHHHHhcC
Confidence            45678778 99999999999999999999997 9999999777778899999887644

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.11  E-value=0.29  Score=54.09  Aligned_cols=41  Identities=24%  Similarity=0.582  Sum_probs=36.0

Q ss_pred             cccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCc
Q 017653           18 CMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNT   63 (368)
Q Consensus        18 ~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~   63 (368)
                      .-.|..|...+.-|++-..|||.|...|+.     .+...||.|+.
T Consensus       840 ~skCs~C~~~LdlP~VhF~CgHsyHqhC~e-----~~~~~CP~C~~  880 (933)
T KOG2114|consen  840 VSKCSACEGTLDLPFVHFLCGHSYHQHCLE-----DKEDKCPKCLP  880 (933)
T ss_pred             eeeecccCCccccceeeeecccHHHHHhhc-----cCcccCCccch
Confidence            358999999999999888999999999987     35678999984

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=87.07  E-value=0.78  Score=35.31  Aligned_cols=45  Identities=16%  Similarity=0.137  Sum_probs=39.1

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCC--CchhhhhhhhcCCcCCCCccHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNL--ISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l--~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      .+.+ +...||..||..|..+.|+  +. .+.-|++.|.+|.+..+|.+
T Consensus        14 ~l~v-~~~~TV~~lK~~i~~~~~i~~~~-~~q~L~~~G~~L~d~~~L~~   60 (77)
T cd01805          14 PIEV-DPDDTVAELKEKIEEEKGCDYPP-EQQKLIYSGKILKDDTTLEE   60 (77)
T ss_pred             EEEE-CCCCcHHHHHHHHHHhhCCCCCh-hHeEEEECCEEccCCCCHHH
Confidence            4677 8889999999999999998  54 57788999999999988866

RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).

>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade

Probab=86.69  E-value=0.42  Score=35.97  Aligned_cols=46  Identities=17%  Similarity=0.205  Sum_probs=40.2

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .|.+ +..-||..||+.|..+.+++. .+..++++|..|.+..||.++
T Consensus         9 ~~~v-~~~~tV~~lK~~i~~~~~~~~-~~~~L~~~G~~L~d~~tL~~~   54 (69)
T PF00240_consen    9 TLEV-DPDDTVADLKQKIAEETGIPP-EQQRLIYNGKELDDDKTLSDY   54 (69)
T ss_dssp             EEEE-ETTSBHHHHHHHHHHHHTSTG-GGEEEEETTEEESTTSBTGGG
T ss_pred             EEEE-CCCCCHHHhhhhccccccccc-ccceeeeeeecccCcCcHHHc
Confidence            4567 788999999999999999887 578899999999999998764

There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....

>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain

Probab=86.41  E-value=0.77  Score=35.37  Aligned_cols=44  Identities=16%  Similarity=0.185  Sum_probs=37.4

Q ss_pred             eeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCC-ccHHH
Q 017653          284 LRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLST-LELHN  329 (368)
Q Consensus       284 lr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~-~~l~~  329 (368)
                      |.+ +..+||..||.+|..+-|++.+ +.-|+++|.+|.+. .+|.+
T Consensus        14 l~v-~~~~TV~~lK~~I~~~~gip~~-~q~Li~~Gk~L~D~~~~L~~   58 (71)
T cd01796          14 LDV-DPDLELENFKALCEAESGIPAS-QQQLIYNGRELVDNKRLLAL   58 (71)
T ss_pred             EEE-CCcCCHHHHHHHHHHHhCCCHH-HeEEEECCeEccCCcccHHH
Confidence            677 8899999999999999999875 56788999999886 46654

DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=85.81  E-value=1.1  Score=33.09  Aligned_cols=44  Identities=20%  Similarity=0.188  Sum_probs=37.5

Q ss_pred             eeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          284 LRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       284 lr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      +++ +.++||..||+.|.+..+++.+ .+-+++.|.++.+..+|.+
T Consensus        12 ~~~-~~~~ti~~lK~~i~~~~~~~~~-~~~l~~~g~~l~d~~~l~~   55 (69)
T cd01769          12 LEV-SPDDTVAELKAKIAAKEGVPPE-QQRLIYAGKILKDDKTLSD   55 (69)
T ss_pred             EEE-CCCChHHHHHHHHHHHHCcChH-HEEEEECCcCCCCcCCHHH
Confidence            566 7789999999999999998774 6788999999988888754

UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.

>cd01803 Ubiquitin Ubiquitin

Probab=85.49  E-value=0.88  Score=34.64  Aligned_cols=44  Identities=16%  Similarity=0.197  Sum_probs=38.3

Q ss_pred             eeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          284 LRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       284 lr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      +.+ +...||..||+.|.++.+++. ++..+.|.|.++.+..+|.+
T Consensus        15 ~~v-~~~~tV~~lK~~i~~~~g~~~-~~q~L~~~g~~L~d~~~L~~   58 (76)
T cd01803          15 LEV-EPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSD   58 (76)
T ss_pred             EEE-CCcCcHHHHHHHHHHHhCCCH-HHeEEEECCEECCCCCcHHH
Confidence            677 788999999999999999977 46778899999999888765

Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=85.37  E-value=0.9  Score=35.09  Aligned_cols=46  Identities=26%  Similarity=0.236  Sum_probs=40.6

Q ss_pred             ceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          282 CYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       282 ~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      .-|.+ +...||..||..|..+.|++.+ +.-++|.|.+|.+..||.+
T Consensus        11 ~~l~v-~~~~tV~~lK~~i~~~~gip~~-~q~Li~~Gk~L~D~~tL~~   56 (74)
T cd01793          11 HTLEV-TGQETVSDIKAHVAGLEGIDVE-DQVLLLAGVPLEDDATLGQ   56 (74)
T ss_pred             EEEEE-CCcCcHHHHHHHHHhhhCCCHH-HEEEEECCeECCCCCCHHH
Confidence            34778 8899999999999999999874 6688999999999999976

Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.

>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]

Probab=85.36  E-value=0.44  Score=47.28  Aligned_cols=41  Identities=27%  Similarity=0.711  Sum_probs=27.7

Q ss_pred             cCccccccccc-ceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           20 TCPLCSKLFRD-ATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        20 ~CpIC~~l~~d-Pv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      .|--|..-+.. -.++ +|.|.||..|...    ...+.||.|...+
T Consensus        92 fCd~Cd~PI~IYGRmI-PCkHvFCl~CAr~----~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   92 FCDRCDFPIAIYGRMI-PCKHVFCLECARS----DSDKICPLCDDRV  133 (389)
T ss_pred             eecccCCcceeeeccc-ccchhhhhhhhhc----CccccCcCcccHH
Confidence            56667554332 3355 8999999999642    2357899997654

>PTZ00044 ubiquitin; Provisional

Probab=85.16  E-value=0.98  Score=34.71  Aligned_cols=44  Identities=14%  Similarity=0.239  Sum_probs=38.1

Q ss_pred             eeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          284 LRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       284 lr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      +++ +...||..||..|..+.|++.+ +..+.+.|.++.+..+|.+
T Consensus        15 l~v-~~~~tv~~lK~~i~~~~gi~~~-~q~L~~~g~~L~d~~~l~~   58 (76)
T PTZ00044         15 FNF-EPDNTVQQVKMALQEKEGIDVK-QIRLIYSGKQMSDDLKLSD   58 (76)
T ss_pred             EEE-CCCCcHHHHHHHHHHHHCCCHH-HeEEEECCEEccCCCcHHH
Confidence            677 8889999999999999999775 5667799999999988754

>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=84.59  E-value=0.32  Score=39.56  Aligned_cols=33  Identities=21%  Similarity=0.513  Sum_probs=26.2

Q ss_pred             ccccccCcccccccc-cceecCCCCCcccHHHHH
Q 017653           15 LVACMTCPLCSKLFR-DATTISECLHSFCRKCIY   47 (368)
Q Consensus        15 l~e~L~CpIC~~l~~-dPv~l~~CgHtFC~~CI~   47 (368)
                      +.+.-.|++|...+. .++...+|||.|...|+.
T Consensus        75 i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   75 ITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             ECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            456678999998776 455667999999999974

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].

>PHA03096 p28-like protein; Provisional

Probab=84.31  E-value=0.56  Score=46.19  Aligned_cols=45  Identities=24%  Similarity=0.336  Sum_probs=31.7

Q ss_pred             ccCccccccccc-c------eecCCCCCcccHHHHHHHhhccC-CCcccCCCc
Q 017653           19 MTCPLCSKLFRD-A------TTISECLHSFCRKCIYEKITEEE-IDSCPVCNT   63 (368)
Q Consensus        19 L~CpIC~~l~~d-P------v~l~~CgHtFC~~CI~~~l~~~~-~~~CP~Cr~   63 (368)
                      -.|.||++.... +      -.++.|.|.||..||..|..... ...||.|+.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            679999975532 1      13458999999999999887532 345666663

>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2

Probab=83.82  E-value=1.2  Score=34.33  Aligned_cols=44  Identities=16%  Similarity=0.268  Sum_probs=38.6

Q ss_pred             eeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          284 LRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       284 lr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      |.| +...||..||+.|..+.|++.+ +.-++|.|.+|.+..||.+
T Consensus        13 l~v-~~~~tV~~lK~~I~~~~gi~~~-~q~L~~~G~~L~D~~tL~~   56 (74)
T cd01810          13 YEV-QLTQTVATLKQQVSQRERVQAD-QFWLSFEGRPMEDEHPLGE   56 (74)
T ss_pred             EEE-CCcChHHHHHHHHHHHhCCCHH-HeEEEECCEECCCCCCHHH
Confidence            677 8889999999999999999875 5577899999999998865

ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=83.73  E-value=1.2  Score=33.44  Aligned_cols=44  Identities=14%  Similarity=0.222  Sum_probs=38.5

Q ss_pred             eeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          284 LRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       284 lr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      +++ +...||..||+-|..+.|++. .+.-+++.|+++.+..+|.+
T Consensus        15 ~~v-~~~~tv~~lK~~i~~~~gi~~-~~q~L~~~g~~L~d~~~L~~   58 (72)
T cd01809          15 FTV-EEEITVLDLKEKIAEEVGIPV-EQQRLIYSGRVLKDDETLSE   58 (72)
T ss_pred             EEE-CCCCcHHHHHHHHHHHHCcCH-HHeEEEECCEECCCcCcHHH
Confidence            677 788999999999999999976 46788899999999888876

Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.

>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0

Probab=83.13  E-value=1.1  Score=39.38  Aligned_cols=50  Identities=22%  Similarity=0.501  Sum_probs=40.6

Q ss_pred             ccccCcccccccccceecC---CCCCcccHHHHHHHhhccC-CCcccCCCcccC
Q 017653           17 ACMTCPLCSKLFRDATTIS---ECLHSFCRKCIYEKITEEE-IDSCPVCNTDLG   66 (368)
Q Consensus        17 e~L~CpIC~~l~~dPv~l~---~CgHtFC~~CI~~~l~~~~-~~~CP~Cr~~l~   66 (368)
                      .-..|-||.+...+...+.   .||-..|-.|....|..-. ...||+|+..+.
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFK  132 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFK  132 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccc
Confidence            5678999999988877765   4999999999998886533 367999998764

>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]

Probab=83.06  E-value=0.33  Score=55.74  Aligned_cols=52  Identities=23%  Similarity=0.561  Sum_probs=40.5

Q ss_pred             hhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           12 REKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        12 ~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      ...+-..+.|++|.+.+++--.+.-|||-+|..|+..|+.  ....||.|....
T Consensus      1147 ~~~~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~--~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1147 LMNLSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLY--ASSRCPICKSIK 1198 (1394)
T ss_pred             HHHhhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHH--HhccCcchhhhh
Confidence            3445567799999999985444446999999999999985  467899998554

>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO)

Probab=82.53  E-value=1.4  Score=31.11  Aligned_cols=41  Identities=20%  Similarity=0.600  Sum_probs=24.3

Q ss_pred             CcccccccccceecC--CCCCcccHHHHHHHhhccCCCcccCC
Q 017653           21 CPLCSKLFRDATTIS--ECLHSFCRKCIYEKITEEEIDSCPVC   61 (368)
Q Consensus        21 CpIC~~l~~dPv~l~--~CgHtFC~~CI~~~l~~~~~~~CP~C   61 (368)
                      |.+|.++...-+.-.  .|+-.+-..|+..++.......||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            678888888776653  48878889999999987555579987

; PDB: 3NW0_A 2CT0_A.

>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=82.51  E-value=1.2  Score=43.85  Aligned_cols=68  Identities=26%  Similarity=0.489  Sum_probs=44.4

Q ss_pred             ccccCcccccccccceecCCC----CCcccHHHHHHHhhccC---CCcccCCCcccCCCCCCCC-ccchHHHHHHHHhcc
Q 017653           17 ACMTCPLCSKLFRDATTISEC----LHSFCRKCIYEKITEEE---IDSCPVCNTDLGCAPLEKL-RADHNLQDLRIKIFP   88 (368)
Q Consensus        17 e~L~CpIC~~l~~dPv~l~~C----gHtFC~~CI~~~l~~~~---~~~CP~Cr~~l~~~~~~~l-r~n~~L~~Lvekl~p   88 (368)
                      .-|.|-||++-|.|-.+. .|    .|-||..|-.+.+..++   ...||.-.+    +++..- .+=.-||.-|..++.
T Consensus       267 apLcCTLC~ERLEDTHFV-QCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdk----CPLvgS~vPWAFMQGEIatILa  341 (352)
T KOG3579|consen  267 APLCCTLCHERLEDTHFV-QCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDK----CPLVGSNVPWAFMQGEIATILA  341 (352)
T ss_pred             CceeehhhhhhhccCcee-ecCCCcccceecccCHHHHHhhcCCCceeCCCCCc----CcccCCcccHHHhhhhHHHHhc
Confidence            348999999999998877 57    59999999988887653   345664321    222222 233344556666654


Q ss_pred             c
Q 017653           89 S   89 (368)
Q Consensus        89 ~   89 (368)
                      .
T Consensus       342 g  342 (352)
T KOG3579|consen  342 G  342 (352)
T ss_pred             c
Confidence            3

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=82.46  E-value=1.5  Score=33.37  Aligned_cols=45  Identities=11%  Similarity=0.150  Sum_probs=39.1

Q ss_pred             eeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          284 LRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       284 lr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      +++ +...||..||..|..+.+++.+ +.-+++.|..+.+..||.+.
T Consensus        15 ~~v-~~~~tv~~lK~~i~~~~g~~~~-~qrL~~~g~~L~d~~tl~~~   59 (76)
T cd01806          15 IDI-EPTDKVERIKERVEEKEGIPPQ-QQRLIYSGKQMNDDKTAADY   59 (76)
T ss_pred             EEE-CCCCCHHHHHHHHhHhhCCChh-hEEEEECCeEccCCCCHHHc
Confidence            678 7899999999999999999885 56677999999999888764

Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=82.40  E-value=1.6  Score=32.85  Aligned_cols=44  Identities=9%  Similarity=0.172  Sum_probs=37.1

Q ss_pred             eeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          284 LRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       284 lr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      +++ +...||..||..|..+.|++.+ +..++++|.++.+..+|.+
T Consensus        14 i~v-~~~~tv~~lK~~i~~~~gi~~~-~q~L~~~g~~l~d~~~L~~   57 (71)
T cd01812          14 LSI-SSQATFGDLKKMLAPVTGVEPR-DQKLIFKGKERDDAETLDM   57 (71)
T ss_pred             EEE-CCCCcHHHHHHHHHHhhCCChH-HeEEeeCCcccCccCcHHH
Confidence            677 8899999999999999999875 5678899999887776654

BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).

>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2

Probab=81.42  E-value=1.8  Score=33.01  Aligned_cols=45  Identities=16%  Similarity=0.177  Sum_probs=39.2

Q ss_pred             eeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          284 LRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       284 lr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      |.+ +...||..||+-|.++.+++. .+..+.+.|..|.+..||.+.
T Consensus        14 l~v-~~~~TV~~lK~~I~~~~~i~~-~~~~Li~~Gk~L~d~~tL~~~   58 (71)
T cd01808          14 IEI-AEDASVKDFKEAVSKKFKANQ-EQLVLIFAGKILKDTDTLTQH   58 (71)
T ss_pred             EEE-CCCChHHHHHHHHHHHhCCCH-HHEEEEECCeEcCCCCcHHHc
Confidence            678 888999999999999999754 678899999999999888653

hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.

>PF13764 E3_UbLigase_R4: E3 ubiquitin-protein ligase UBR4

Probab=80.37  E-value=1.9  Score=48.17  Aligned_cols=46  Identities=15%  Similarity=0.339  Sum_probs=41.7

Q ss_pred             cHHHHHHHHHHHhCCC----chhhhhhhhcCCcCCCCccHHHHHH-HHhhc
Q 017653          292 PVSFIKRYIVKKLNLI----SEAEVEISLRGQPVLSTLELHNLIN-WWVQT  337 (368)
Q Consensus       292 ~v~~l~Kyl~~KL~l~----~e~evei~c~g~~~~~~~~l~~i~~-~w~~~  337 (368)
                      .++.||.+|++-|+|.    +.+-+|++++|++|...|++++|.+ .|...
T Consensus        16 lmrdvknkIc~d~~m~~lleDd~gmELlV~~~IisldL~v~~Vy~~vW~~~   66 (802)
T PF13764_consen   16 LMRDVKNKICRDLEMIALLEDDNGMELLVNNKIISLDLPVRDVYEKVWKPN   66 (802)
T ss_pred             hHHHHHHHHhhhcccchhccCCcccceeecCeeecCCCcHHHHHHHHhccc
Confidence            5889999999999984    5678999999999999999999999 99654

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	368
3rpg_B	117	Bmi1RING1B-Ubch5c Complex Structure Length = 117		5e-11
2ckl_A	108	Ring1b-Bmi1 E3 Catalytic Domain Structure Length =		6e-11
2h0d_A	97	Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquiti		1e-10
2ckl_B	165	Ring1b-Bmi1 E3 Catalytic Domain Structure Length =		7e-06
2djb_A	72	Solution Structure Of The Ring Domain Of The Human		1e-05
3rpg_C	121	Bmi1RING1B-Ubch5c Complex Structure Length = 121		2e-05

>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure Length = 117

Iteration: 1
 Score = 65.5 bits (158), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 34/89 (38%), Positives = 49/89 (55%), Gaps = 3/89 (3%)
Query: 6  QTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
          +T ++   +L   + C LC   F DATTI ECLHSFC+ CI   +  E    CP+C+  +
Sbjct: 3  RTTRIKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYL--ETSKYCPICDVQV 60
Query: 66 -GCAPLEKLRADHNLQDLRIKIFPSKRRN 93
              PL  +R+D  LQD+  K+ P   +N
Sbjct: 61 HKTRPLLNIRSDKTLQDIVYKLVPGLFKN 89

>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure Length = 108

Iteration: 1
 Score = 65.1 bits (157), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 34/89 (38%), Positives = 49/89 (55%), Gaps = 3/89 (3%)
Query: 6  QTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
          +T ++   +L   + C LC   F DATTI ECLHSFC+ CI   +  E    CP+C+  +
Sbjct: 3  RTTRIKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYL--ETSKYCPICDVQV 60
Query: 66 -GCAPLEKLRADHNLQDLRIKIFPSKRRN 93
              PL  +R+D  LQD+  K+ P   +N
Sbjct: 61 HKTRPLLNIRSDKTLQDIVYKLVPGLFKN 89

>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin Ligase Complex Length = 97

Iteration: 1
 Score = 64.3 bits (155), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 32/76 (42%), Positives = 43/76 (56%), Gaps = 3/76 (3%)
Query: 19 MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL-GCAPLEKLRADH 77
          + C LC   F DATTI ECLHSFC+ CI   +  E    CP+C+  +    PL  +R+D 
Sbjct: 12 LMCVLCGGYFIDATTIIECLHSFCKTCIVRYL--ETSKYCPICDVQVHKTRPLLNIRSDK 69
Query: 78 NLQDLRIKIFPSKRRN 93
           LQD+  K+ P   +N
Sbjct: 70 TLQDIVYKLVPGLFKN 85

>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure Length = 165

Iteration: 1
 Score = 48.1 bits (113), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 19  MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHN 78
           + CP+C  + ++  T  ECLH FC  CI   +     + CP C   L       LR D N
Sbjct: 55  LMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKE-CPTCRKKL--VSKRSLRPDPN 111
Query: 79  LQDLRIKIFPSK 90
              L  KI+PS+
Sbjct: 112 FDALISKIYPSR 123

>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human Polycomb Group Ring Finger Protein 6 Length = 72

Iteration: 1
 Score = 47.4 bits (111), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/52 (40%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCN 62
          N  +L   + C +C     DATTI+ECLH+FC+ CI         + CP CN
Sbjct: 8  NLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYS--NRCPKCN 57

>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure Length = 121

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/71 (35%), Positives = 33/71 (46%), Gaps = 3/71 (4%)
Query: 19  MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHN 78
           + CP+C  + ++  T  ECLH FC  CI   +     + CP C   L       LR D N
Sbjct: 54  LMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKE-CPTCRKKL--VSKRSLRPDPN 110
Query: 79  LQDLRIKIFPS 89
              L  KI+PS
Sbjct: 111 FDALISKIYPS 121

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	368
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	3e-26
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	2e-23
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	2e-15
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-15
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	4e-14
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	2e-13
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	2e-11
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	7e-11
1z6u_A	150	NP95-like ring finger protein isoform B; structura	1e-10
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	4e-10
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	6e-10
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	6e-10
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	2e-09
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-09
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	2e-09
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	3e-09
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	3e-09
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	4e-09
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	1e-08
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	1e-08
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	1e-08
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	4e-08
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	6e-08
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	1e-07
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	4e-07
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-06
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-06
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-06
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	3e-06
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	3e-06
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	5e-06
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	6e-06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	7e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	1e-05
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-05
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	1e-04
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	1e-04
3nw0_A	238	Non-structural maintenance of chromosomes element	3e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	5e-04
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	7e-04

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A Length = 108

 Score =  100 bits (250), Expect = 3e-26
 Identities = 34/90 (37%), Positives = 49/90 (54%), Gaps = 3/90 (3%)

Query: 5  EQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTD 64
           +T ++   +L   + C LC   F DATTI ECLHSFC+ CI   +  E    CP+C+  
Sbjct: 2  HRTTRIKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYL--ETSKYCPICDVQ 59

Query: 65 LG-CAPLEKLRADHNLQDLRIKIFPSKRRN 93
          +    PL  +R+D  LQD+  K+ P   +N
Sbjct: 60 VHKTRPLLNIRSDKTLQDIVYKLVPGLFKN 89

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B Length = 165

 Score = 94.3 bits (234), Expect = 2e-23
 Identities = 27/90 (30%), Positives = 38/90 (42%), Gaps = 3/90 (3%)

Query: 3   TTEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCN 62
           T    + V+   L + + CP+C  + ++  T  ECLH FC  CI   +       CP C 
Sbjct: 39  TDGLEIVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITAL-RSGNKECPTCR 97

Query: 63  TDLGCAPLEKLRADHNLQDLRIKIFPSKRR 92
                     LR D N   L  KI+PS+  
Sbjct: 98  KK--LVSKRSLRPDPNFDALISKIYPSRDE 125

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens} Length = 74

 Score = 69.4 bits (170), Expect = 2e-15
 Identities = 15/60 (25%), Positives = 28/60 (46%), Gaps = 2/60 (3%)

Query: 19 MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHN 78
          + C +C  +  DA  I  C +S+C +CI   + E +  +CP C+ +      + L    +
Sbjct: 16 LLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQND--VSPDALSGPSS 73

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 72

 Score = 69.0 bits (169), Expect = 2e-15
 Identities = 20/53 (37%), Positives = 28/53 (52%), Gaps = 2/53 (3%)

Query: 13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
           +L   + C +C     DATTI+ECLH+FC+ CI         + CP CN  +
Sbjct: 10 SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYS--NRCPKCNIVV 60

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens} Length = 92

 Score = 66.3 bits (162), Expect = 4e-14
 Identities = 17/64 (26%), Positives = 31/64 (48%), Gaps = 2/64 (3%)

Query: 19 MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHN 78
          + C +C  +  DA  I  C +S+C +CI   + E +  +CP C+ +      + L A+  
Sbjct: 14 LLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQND--VSPDALIANKF 71

Query: 79 LQDL 82
          L+  
Sbjct: 72 LRQA 75

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens} Length = 99

 Score = 64.8 bits (158), Expect = 2e-13
 Identities = 19/82 (23%), Positives = 37/82 (45%), Gaps = 6/82 (7%)

Query: 13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEK 72
          + +   + C +C + F  A  I +C H++C  CI + ++ +    CP C   +       
Sbjct: 17 KTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKT--QCPTCCVTV---TEPD 71

Query: 73 LRADHNLQDLRIKIFPSKRRNL 94
          L+ +  L +L +K     R +L
Sbjct: 72 LKNNRILDEL-VKSLNFARNHL 92

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens} Length = 100

 Score = 59.1 bits (143), Expect = 2e-11
 Identities = 18/69 (26%), Positives = 24/69 (34%), Gaps = 1/69 (1%)

Query: 13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEK 72
          E +     C +C +  RDA     C    C  CI   +TE+    CP C   L    L  
Sbjct: 17 ESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQR-AQCPHCRAPLQLRELVN 75

Query: 73 LRADHNLQD 81
           R    +  
Sbjct: 76 CRWAEEVTQ 84

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens} Length = 150

 Score = 58.1 bits (140), Expect = 1e-10
 Identities = 23/77 (29%), Positives = 35/77 (45%), Gaps = 4/77 (5%)

Query: 13  EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEK 72
           +KL     C  C +L     T  EC H+ C+ C+ ++  + ++ SCP C  DLG      
Sbjct: 73  KKLEQSFMCVCCQELVYQPVTT-ECFHNVCKDCL-QRSFKAQVFSCPACRHDLGQNY--I 128

Query: 73  LRADHNLQDLRIKIFPS 89
           +  +  LQ L    FP 
Sbjct: 129 MIPNEILQTLLDLFFPG 145

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus} Length = 85

 Score = 55.1 bits (133), Expect = 4e-10
 Identities = 23/86 (26%), Positives = 41/86 (47%), Gaps = 14/86 (16%)

Query: 1  MATTEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIY----EKITEEEID 56
          MA     L++ +E++    TCP+C +L ++  +   C HSFCR CI          +   
Sbjct: 8  MA--SSVLEMIKEEV----TCPICLELLKEPVSAD-CNHSFCRACITLNYESNRNTDGKG 60

Query: 57 SCPVCNTDLGCAPLEKLRADHNLQDL 82
          +CPVC       P   L+ + ++ ++
Sbjct: 61 NCPVCRV---PYPFGNLKPNLHVANI 83

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens} Length = 124

 Score = 55.7 bits (134), Expect = 6e-10
 Identities = 20/76 (26%), Positives = 36/76 (47%), Gaps = 4/76 (5%)

Query: 13  EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEK 72
            K+     C  C +L     T   C H+ C+ C+ ++    ++ SCP C  DLG +    
Sbjct: 47  SKVEETFQCICCQELVFRPITT-VCQHNVCKDCL-DRSFRAQVFSCPACRYDLGRSY--A 102

Query: 73  LRADHNLQDLRIKIFP 88
           ++ +  LQ +  ++FP
Sbjct: 103 MQVNQPLQTVLNQLFP 118

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 85

 Score = 54.2 bits (131), Expect = 6e-10
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 11/65 (16%)

Query: 1  MATTEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIY----EKITEEEID 56
          MA     L   +E++    TCP+C +L     ++  C HSFC+ C+     + + ++   
Sbjct: 8  MA--SGILVNVKEEV----TCPICLELLTQPLSLD-CGHSFCQACLTANHKKSMLDKGES 60

Query: 57 SCPVC 61
          SCPVC
Sbjct: 61 SCPVC 65

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 63

 Score = 52.4 bits (126), Expect = 2e-09
 Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 2/50 (4%)

Query: 13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEK-ITEEEIDSCPVC 61
           KL   + CP+C  + +   TI  C H+FC KCI +   T      CP+C
Sbjct: 15 NKLQEEVICPICLDILQKPVTID-CGHNFCLKCITQIGETSCGFFKCPLC 63

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 66

 Score = 52.5 bits (126), Expect = 2e-09
 Identities = 10/53 (18%), Positives = 16/53 (30%), Gaps = 2/53 (3%)

Query: 13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
          + +     C  C  +        EC H FC  C+   +       C  C   +
Sbjct: 10 KTVEDKYKCEKCHLVLCSPKQT-ECGHRFCESCM-AALLSSSSPKCTACQESI 60

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens} Length = 79

 Score = 52.7 bits (127), Expect = 2e-09
 Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 9/68 (13%)

Query: 20 TCPLCSKLFRDATTISECLHSFCRKCIYE-----KITEEEIDSCPVCNTDLGCAPLEKLR 74
          TCP+C +L  +  ++  C HS CR CI         +     SCPVC         E L+
Sbjct: 14 TCPICLELLTEPLSLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGI---SYSFEHLQ 69

Query: 75 ADHNLQDL 82
          A+ +L ++
Sbjct: 70 ANQHLANI 77

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 58

 Score = 51.6 bits (124), Expect = 3e-09
 Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 2/44 (4%)

Query: 19 MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEID-SCPVC 61
           +C +C +  ++   I  C H+FC+ CI     + E D  CPVC
Sbjct: 16 ASCSVCLEYLKEPVIIE-CGHNFCKACITRWWEDLERDFPCPVC 58

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 73

 Score = 52.0 bits (125), Expect = 3e-09
 Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 7/62 (11%)

Query: 1  MATTEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEE-IDSCP 59
          MA+ +   K+  E     + CP+C  + +   TI  C H+FC KCI +          CP
Sbjct: 8  MASGQFVNKLQEE-----VICPICLDILQKPVTID-CGHNFCLKCITQIGETSCGFFKCP 61

Query: 60 VC 61
          +C
Sbjct: 62 LC 63

>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 112

 Score = 52.8 bits (127), Expect = 4e-09
 Identities = 14/71 (19%), Positives = 30/71 (42%), Gaps = 5/71 (7%)

Query: 13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEE-IDSCPVCNTDLGCAPLE 71
            +   + CP+C +L ++  +   C H FC+ C+ + + +++    CP+C          
Sbjct: 16 NAMQKILECPICLELIKEPVSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKN---DITKR 71

Query: 72 KLRADHNLQDL 82
           L+       L
Sbjct: 72 SLQESTRFSQL 82

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, chromosomal protein, DNA repair, metal-binding; 2.12A {Homo sapiens} Length = 115

 Score = 51.8 bits (124), Expect = 1e-08
 Identities = 14/73 (19%), Positives = 27/73 (36%), Gaps = 6/73 (8%)

Query: 20 TCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG----CAPLEKLRA 75
           C +C ++  +  T+  C H+ C+ C  +   E+    CP C   +              
Sbjct: 17 QCGICMEILVEPVTLP-CNHTLCKPCF-QSTVEKASLCCPFCRRRVSSWTRYHTRRNSLV 74

Query: 76 DHNLQDLRIKIFP 88
          +  L  +  K +P
Sbjct: 75 NVELWTIIQKHYP 87

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A Length = 118

 Score = 51.7 bits (124), Expect = 1e-08
 Identities = 20/67 (29%), Positives = 26/67 (38%), Gaps = 3/67 (4%)

Query: 20 TCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHN- 78
           CP+C    R+A     C H FC+ CI  K   +    CPV N  L    L         
Sbjct: 20 ECPICLMALREAVQTP-CGHRFCKACI-IKSIRDAGHKCPVDNEILLENQLFPDNFAKRE 77

Query: 79 LQDLRIK 85
          +  L +K
Sbjct: 78 ILSLMVK 84

>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase, protein binding complex; 4.80A {Homo sapiens} Length = 149

 Score = 52.4 bits (125), Expect = 1e-08
 Identities = 24/92 (26%), Positives = 40/92 (43%), Gaps = 5/92 (5%)

Query: 2   ATTEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVC 61
           A  E+ L    + L   + C +CS+ F +A T++ C HSFC  CI E +  +    CP+C
Sbjct: 48  AQKEEVLSHMNDVLENELQCIICSEYFIEAVTLN-CAHSFCSYCINEWM--KRKIECPIC 104

Query: 62  NTDLGCAPLEKLRADHNLQDLRIKIFPSKRRN 93
             D+            N  +  +    S+ + 
Sbjct: 105 RKDIKSKTYS--LVLDNCINKMVNNLSSEVKE 134

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae} Length = 267

 Score = 53.0 bits (126), Expect = 4e-08
 Identities = 19/87 (21%), Positives = 31/87 (35%), Gaps = 6/87 (6%)

Query: 19  MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPV--CNTDLGCAPLEKLRAD 76
           +TCP+  K +       +C H F R  I   +       CP   C+  +    +     D
Sbjct: 182 LTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVV---SMRDFVRD 238

Query: 77  HNLQDLRIKIFPSKRRNLDAPDSVSSV 103
             ++ LR KI   K        S  ++
Sbjct: 239 PIME-LRCKIAKMKESQEQDKRSSQAI 264

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81

 Score = 48.7 bits (116), Expect = 6e-08
 Identities = 12/47 (25%), Positives = 21/47 (44%), Gaps = 3/47 (6%)

Query: 20 TCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG 66
           C +C + F++   +++C H FC  C  E         C +C+   G
Sbjct: 17 RCFICRQAFQNPV-VTKCRHYFCESCALEHFRAT--PRCYICDQPTG 60

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 56

 Score = 47.4 bits (113), Expect = 1e-07
 Identities = 11/43 (25%), Positives = 17/43 (39%), Gaps = 6/43 (13%)

Query: 19 MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVC 61
          + C  C    +    +  CLH+ C  C+     E     CP+C
Sbjct: 7  LRCQQCQAEAKCPKLLP-CLHTLCSGCL-----EASGMQCPIC 43

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 71

 Score = 46.0 bits (109), Expect = 4e-07
 Identities = 10/54 (18%), Positives = 20/54 (37%), Gaps = 3/54 (5%)

Query: 19 MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEK 72
            C +C +      ++  C H FC  C+       +   C +C  ++    L+ 
Sbjct: 16 PECAICLQTCVHPVSLP-CKHVFCYLCVKGASWLGK--RCALCRQEIPEDFLDS 66

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1 Length = 116

 Score = 46.1 bits (109), Expect = 1e-06
 Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 2/43 (4%)

Query: 20 TCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCN 62
          +C +C  +  D      C H FCR CI  +  +     CP C 
Sbjct: 25 SCQICEHILADPVET-SCKHLFCRICI-LRCLKVMGSYCPSCR 65

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus} Length = 71

 Score = 44.4 bits (105), Expect = 2e-06
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 8/53 (15%)

Query: 19 MTCPLCSKLFRDAT------TISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
          ++CP+C   + +          +EC H FC +C+ + +      +CP C   +
Sbjct: 11 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN--TCPTCRKKI 61

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens} Length = 141

 Score = 46.3 bits (109), Expect = 2e-06
 Identities = 10/54 (18%), Positives = 18/54 (33%), Gaps = 2/54 (3%)

Query: 20 TCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKL 73
           C  C  + R     ++C H +C  C+   I      +C  C  +        +
Sbjct: 33 LCSACRNVLRRPFQ-AQCGHRYCSFCL-ASILSSGPQNCAACVHEGIYEEGISI 84

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 48.7 bits (115), Expect = 2e-06
 Identities = 51/401 (12%), Positives = 110/401 (27%), Gaps = 126/401 (31%)

Query: 8   LKVNREKLVACMTCPLCSKLFRDATTISECLH----------------SFCRK--CIYEK 49
           L V  +  V    C     + +   +  E  H                +   K   + +K
Sbjct: 22  LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK 81

Query: 50  ITEEEIDSCPVCNTD-LGCAPLEKLRADHNLQDLRIKIFPSKRRNLD------APDSVSS 102
             EE +      N   L    +  ++ +     +  +++  +R  L       A  +VS 
Sbjct: 82  FVEEVLRI----NYKFL----MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSR 133

Query: 103 VPLPARRKE----------ISL--------SSLAISTPKS-PVKSS--------SSGRRS 135
           +    + ++          + +        + +A+    S  V+          +    +
Sbjct: 134 LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCN 193

Query: 136 KP-------------VPKKTLVQEEYTSPIEEPIKDVEDPPELSSEPLCRNTQTKRQ--I 180
            P             +      + +++S I+  I  ++   EL    L ++   +    +
Sbjct: 194 SPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA--ELRR--LLKSKPYENCLLV 249

Query: 181 LSAAESSIQHTPDKGTEDIARPFDGKSDLWKPLNVLVEAATRPRKSLGRPKKAAVSAGLN 240
           L           +         F+          +L+   TR +          V+  L+
Sbjct: 250 LL----------NVQNAKAWNAFNLSC------KILL--TTRFK---------QVTDFLS 282

Query: 241 VSAQAVVDTNQRFDGRFGP--------IWFSLVASD---EQEGDEPLPQISSCYLRVKDG 289
            +    +  +        P         +      D   E     P  ++S     ++DG
Sbjct: 283 AATTTHISLDHHSMT-LTPDEVKSLLLKYLDCRPQDLPREVLTTNPR-RLSIIAESIRDG 340

Query: 290 RLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL 330
                  K     KL  I    +E SL    VL   E   +
Sbjct: 341 LATWDNWKHVNCDKLTTI----IESSLN---VLEPAEYRKM 374

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens} Length = 64

 Score = 43.6 bits (103), Expect = 3e-06
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 8/53 (15%)

Query: 19 MTCPLCSKLFRDAT------TISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
          ++CP+C   + +          +EC H FC +C+ + +      +CP C   +
Sbjct: 4  VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN--TCPTCRKKI 54

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens} Length = 170

 Score = 45.8 bits (108), Expect = 3e-06
 Identities = 20/67 (29%), Positives = 26/67 (38%), Gaps = 3/67 (4%)

Query: 20 TCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRA-DHN 78
           CP+C    R+A     C H FC+ CI  K   +    CPV N  L    L         
Sbjct: 20 ECPICLMALREAVQTP-CGHRFCKACI-IKSIRDAGHKCPVDNEILLENQLFPDNFAKRE 77

Query: 79 LQDLRIK 85
          +  L +K
Sbjct: 78 ILSLMVK 84

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1 Length = 68

 Score = 43.2 bits (102), Expect = 3e-06
 Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 2/46 (4%)

Query: 20 TCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
           CP+C +   + +    CLH+FC  CI   I +    +CP+C   +
Sbjct: 7  RCPICLEDPSNYSMALPCLHAFCYVCITRWIRQN--PTCPLCKVPV 50

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 69

 Score = 43.0 bits (101), Expect = 5e-06
 Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 8/53 (15%)

Query: 19 MTCPLCSKLFRDAT------TISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
          ++CP+C   + +          +EC H FC +C+ + +  +  ++CP C   +
Sbjct: 16 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL--KNANTCPTCRKKI 66

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 94

 Score = 43.4 bits (102), Expect = 6e-06
 Identities = 16/87 (18%), Positives = 24/87 (27%), Gaps = 5/87 (5%)

Query: 19  MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDS----CPVCNTDLGCAPLEKLR 74
            TCP+  +  +       C H++    I   I   +       CP             L 
Sbjct: 8   FTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLI 67

Query: 75  ADHNLQDLRIKIFPSKRRNLDAPDSVS 101
            D  L+   I+    KR         S
Sbjct: 68  QDEALRR-AIENHNKKRHRHSESGPSS 93

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A* Length = 389

 Score = 46.7 bits (110), Expect = 7e-06
 Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 2/62 (3%)

Query: 4   TEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNT 63
           T++  ++  E       C +C++  +D   I  C H  C  C+     E E   CP C  
Sbjct: 318 TQEQYELYCEMGSTFQLCKICAENDKDVK-IEPCGHLMCTSCLTS-WQESEGQGCPFCRC 375

Query: 64  DL 65
           ++
Sbjct: 376 EI 377

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 88

 Score = 42.4 bits (100), Expect = 1e-05
 Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 6/56 (10%)

Query: 11 NREKLVACMTCPLCSKLFRDATT---ISECLHSFCRKCIYEKITEEEID--SCPVC 61
          N + L   + CP+C + F +      +  C H+ CR+C+ EK+    I+   CP C
Sbjct: 8  NLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCL-EKLLASSINGVRCPFC 62

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus} Length = 133

 Score = 42.5 bits (99), Expect = 3e-05
 Identities = 15/93 (16%), Positives = 33/93 (35%), Gaps = 8/93 (8%)

Query: 19  MTCPLCSKLFRDAT------TISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEK 72
           ++CP+C   + +          +EC H FC +C+ + +  +  ++CP C   +       
Sbjct: 8   VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL--KNANTCPTCRKKINHKRYHP 65

Query: 73  LRADHNLQDLRIKIFPSKRRNLDAPDSVSSVPL 105
           +          I +        +    VS+   
Sbjct: 66  IYIGSGTVSCPICMDGYSEIVQNGRLIVSTECG 98

>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4, UIP4, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 94

 Score = 39.8 bits (93), Expect = 1e-04
 Identities = 15/52 (28%), Positives = 19/52 (36%), Gaps = 8/52 (15%)

Query: 19 MTCPLC--SKLFRDATTISECLHSFCRKCIYE----KITEEEID--SCPVCN 62
            C LC         TTI++C   FC  C+ +     I E      SCP   
Sbjct: 6  SGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 74

 Score = 39.1 bits (91), Expect = 1e-04
 Identities = 9/46 (19%), Positives = 13/46 (28%)

Query: 20 TCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
           C +C  L     +   C       C+ +         CP CN   
Sbjct: 17 ICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 62

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens} Length = 238

 Score = 40.9 bits (95), Expect = 3e-04
 Identities = 10/49 (20%), Positives = 14/49 (28%)

Query: 17  ACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
           A   C +C  L     +   C       C+ +         CP CN   
Sbjct: 179 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 227

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 65

 Score = 37.2 bits (86), Expect = 5e-04
 Identities = 13/50 (26%), Positives = 24/50 (48%), Gaps = 5/50 (10%)

Query: 20 TCPLC-SKLFRDATT---ISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
           CP C +  +R+ +    ++ C H+ C  C+ + +      +CP C T L
Sbjct: 5  GCPRCKTTKYRNPSLKLMVNVCGHTLCESCV-DLLFVRGAGNCPECGTPL 53

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B Length = 78

 Score = 37.0 bits (85), Expect = 7e-04
 Identities = 14/62 (22%), Positives = 20/62 (32%), Gaps = 4/62 (6%)

Query: 19 MTCPLCSKLFRDATTI---SECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRA 75
          + CPLC +             C +  CR C + +I  +E   CP C       P      
Sbjct: 12 VECPLCMEPLEIDDINFFPCTCGYQICRFC-WHRIRTDENGLCPACRKPYPEDPAVYKPL 70

Query: 76 DH 77
            
Sbjct: 71 SQ 72

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	368
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.52
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.52
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.5
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.49
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.48
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.47
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.45
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.45
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.43
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.43
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.4
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.36
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.35
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.33
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.33
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.33
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.32
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.3
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.29
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.29
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.28
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.27
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.25
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.23
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.23
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.23
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.23
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.2
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.17
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.17
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.16
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.14
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.12
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.08
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.05
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.03
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.01
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.99
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.97
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.93
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.92
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.89
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.88
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.86
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.84
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.83
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.82
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.81
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.77
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.77
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.75
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.74
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.73
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.71
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.62
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.61
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.59
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.52
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.5
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.44
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.35
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.31
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.28
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.23
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.13
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.01
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	97.99
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	97.62
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.4
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	96.72
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	96.46
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	96.32
4gdk_A	91	Ubiquitin-like protein ATG12; protein-protein conj	96.13
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.9
3nw0_A	238	Non-structural maintenance of chromosomes element	95.55
3w1s_C	91	Ubiquitin-like protein ATG12; ubiquitin fold, E3-l	94.72
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	94.63
3rui_B	118	Autophagy-related protein 8; autophagosome formati	94.41
3h9d_A	119	ATG8, microtubule-associated protein 1A/1B, light	94.37
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	94.18
2r2q_A	110	Gamma-aminobutyric acid receptor-associated protei	94.11
1eo6_A	117	GATE-16, golgi-associated ATPase enhancer of 16 KD	93.84
3m95_A	125	Autophagy related protein ATG8; alpha slash beta,	93.66
1wz3_A	96	Autophagy 12B, ATG12B, APG12B; ubiquitin-fold, pla	93.5
2zjd_A	130	Microtubule-associated proteins 1A/1B light chain	92.9
3gs2_A	111	E3 ubiquitin-protein ligase RING2; RING1B, CBOX, C	92.48
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	88.26
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	87.98
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	87.67
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	87.28
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	86.91
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	86.85
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	86.46
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	86.35
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	86.27
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	86.22
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	85.91
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	85.77
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	85.63
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	85.55
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	85.14
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	85.12
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	84.49
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	84.34
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	84.28
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	84.26
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	84.25
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	84.11
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	83.76
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	82.95
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	82.73
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	82.39
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	82.06
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	81.1
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	80.66
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	80.39
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	80.2

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens}

Probab=99.52  E-value=9.3e-15  Score=116.55  Aligned_cols=76  Identities=22%  Similarity=0.534  Sum_probs=65.7

Q ss_pred             chhcccccccCcccccccccceecCC-CCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhccc
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISE-CLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPS   89 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~-CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~   89 (368)
                      ..+.+.+.++|+||+++|.+|+++ + |||+||..||..|+...+...||.|+..+  .....+.+|..|.++++.+...
T Consensus         6 ~~~~~~~~~~C~IC~~~~~~p~~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~--~~~~~~~~n~~l~~~i~~~~~~   82 (92)
T 3ztg_A            6 EDDPIPDELLCLICKDIMTDAVVI-PCCGNSYCDECIRTALLESDEHTCPTCHQND--VSPDALIANKFLRQAVNNFKNE   82 (92)
T ss_dssp             SCCCCCTTTEETTTTEECSSCEEC-TTTCCEECHHHHHHHHHHCTTCCCTTTCCSS--CCTTSCEECHHHHHHHHHHHHH
T ss_pred             ccccCCcCCCCCCCChhhcCceEC-CCCCCHHHHHHHHHHHHhcCCCcCcCCCCcC--CCccccCcCHHHHHHHHHHHHH
Confidence            446778899999999999999999 7 99999999999999765567899999876  2456889999999999998653

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens}

Probab=99.52  E-value=1.1e-14  Score=122.60  Aligned_cols=76  Identities=26%  Similarity=0.591  Sum_probs=66.3

Q ss_pred             hhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhccccc
Q 017653           12 REKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPSKR   91 (368)
Q Consensus        12 ~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~~~   91 (368)
                      ...+++.++|+||+++|.+|+++ +|||+||..||..|+.. ....||.||..+.  ....+.+|..|.++++.++|...
T Consensus        46 ~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~--~~~~~~~n~~l~~~i~~~~p~~~  121 (124)
T 3fl2_A           46 LSKVEETFQCICCQELVFRPITT-VCQHNVCKDCLDRSFRA-QVFSCPACRYDLG--RSYAMQVNQPLQTVLNQLFPGYG  121 (124)
T ss_dssp             HHHHHHHTBCTTTSSBCSSEEEC-TTSCEEEHHHHHHHHHT-TCCBCTTTCCBCC--TTCCCCCCHHHHHHHHHHSTTTT
T ss_pred             HHhCccCCCCCcCChHHcCcEEe-eCCCcccHHHHHHHHhH-CcCCCCCCCccCC--CCCCCCCCHHHHHHHHHHccccc
Confidence            45677889999999999999999 89999999999999973 4568999999873  33578999999999999999754

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A

Probab=99.50  E-value=9.2e-15  Score=120.32  Aligned_cols=85  Identities=39%  Similarity=0.777  Sum_probs=71.3

Q ss_pred             chhcchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCC-CCCCCCccchHHHHHHHH
Q 017653            7 TLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGC-APLEKLRADHNLQDLRIK   85 (368)
Q Consensus         7 ~v~v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~-~~~~~lr~n~~L~~Lvek   85 (368)
                      .+++..+.+++.+.|+||.++|.+|+++.+|||+||..||..|+..  ...||.|+..+.. .+...+.+|..+.++++.
T Consensus         4 ~~~~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~~~~~~~~~~l~~n~~l~~~i~~   81 (108)
T 2ckl_A            4 TTRIKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET--SKYCPICDVQVHKTRPLLNIRSDKTLQDIVYK   81 (108)
T ss_dssp             --CEEHHHHGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTS--CSBCTTTCCBSCSSCGGGGEEECHHHHHHHHH
T ss_pred             ccccchhccCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHh--CCcCcCCCccccccCcccccCcCHHHHHHHHH
Confidence            4577888999999999999999999997689999999999999964  4789999998752 234478999999999999


Q ss_pred             hccccccc
Q 017653           86 IFPSKRRN   93 (368)
Q Consensus        86 l~p~~~~k   93 (368)
                      +++...+.
T Consensus        82 ~~~~~~~~   89 (108)
T 2ckl_A           82 LVPGLFKN   89 (108)
T ss_dssp             HSTTHHHH
T ss_pred             HhhhHHHH
Confidence            99865443

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=99.49  E-value=1.6e-14  Score=111.82  Aligned_cols=72  Identities=18%  Similarity=0.316  Sum_probs=62.5

Q ss_pred             hcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhccc
Q 017653           13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPS   89 (368)
Q Consensus        13 ~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~   89 (368)
                      ..+.+.+.||||+++|.+|+++ +|||+||+.||..|+.. +...||.|+..+   ....+.+|..|.++++.+...
T Consensus         3 ~~~~~~~~C~IC~~~~~~Pv~~-~CgH~fc~~Ci~~~~~~-~~~~CP~C~~~~---~~~~l~~n~~l~~~i~~~~~~   74 (78)
T 1t1h_A            3 PEFPEYFRCPISLELMKDPVIV-STGQTYERSSIQKWLDA-GHKTCPKSQETL---LHAGLTPNYVLKSLIALWCES   74 (78)
T ss_dssp             CCCSSSSSCTTTSCCCSSEEEE-TTTEEEEHHHHHHHHTT-TCCBCTTTCCBC---SSCCCEECTTTHHHHHHHHHH
T ss_pred             cCCcccCCCCCccccccCCEEc-CCCCeecHHHHHHHHHH-CcCCCCCCcCCC---ChhhCccCHHHHHHHHHHHHH
Confidence            3567899999999999999999 89999999999999964 467899999887   456789999999999988643

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B

Probab=99.48  E-value=2e-14  Score=126.78  Aligned_cols=92  Identities=30%  Similarity=0.657  Sum_probs=64.9

Q ss_pred             chhcchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHh
Q 017653            7 TLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKI   86 (368)
Q Consensus         7 ~v~v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl   86 (368)
                      .+.+..+.+.+.+.|+||++.|.+|+++.+|||+||..||..|+.. +...||+|+..+.  ....+.+|..|.++++.+
T Consensus        43 ~~~~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~--~~~~l~~~~~l~~~i~~~  119 (165)
T 2ckl_B           43 EIVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRS-GNKECPTCRKKLV--SKRSLRPDPNFDALISKI  119 (165)
T ss_dssp             EEC----CCHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHT-TCCBCTTTCCBCC--SGGGEEECHHHHHHHHHH
T ss_pred             ccccchhhCCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHh-CcCCCCCCCCcCC--CcccCCcCHHHHHHHHHH
Confidence            3445667788899999999999999988789999999999999974 4678999998873  456789999999999999


Q ss_pred             ccccccccCCCCCCC
Q 017653           87 FPSKRRNLDAPDSVS  101 (368)
Q Consensus        87 ~p~~~~ke~~~e~~~  101 (368)
                      ++.....+.+.+..+
T Consensus       120 ~~~~~~~~~~~e~~~  134 (165)
T 2ckl_B          120 YPSRDEYEAHQERVL  134 (165)
T ss_dssp             C--------------
T ss_pred             HcchhHHHHHHHHHH
Confidence            997665555544433

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=99.47  E-value=3.7e-14  Score=116.43  Aligned_cols=74  Identities=15%  Similarity=0.127  Sum_probs=64.4

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhcccc
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPSK   90 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~~   90 (368)
                      ....+.+.|.||||+++|.+||++ +|||+||+.||..|+.  ....||.|+..+   ....+.+|..|.++++.+...+
T Consensus        22 ~~~~~p~~~~CpI~~~~m~dPV~~-~cGhtf~r~~I~~~l~--~~~~cP~~~~~l---~~~~L~pn~~Lk~~I~~~~~~~   95 (100)
T 2kre_A           22 DYSDAPDEFRDPLMDTLMTDPVRL-PSGTIMDRSIILRHLL--NSPTDPFNRQTL---TESMLEPVPELKEQIQAWMREK   95 (100)
T ss_dssp             SCSSCSTTTBCTTTCSBCSSEEEE-TTTEEEEHHHHHHHTT--SCSBCSSSCCBC---CTTSSEECHHHHHHHHHHHHTT
T ss_pred             hhccCcHhhCCcCccCcccCCeEC-CCCCEEchHHHHHHHH--cCCCCCCCCCCC---ChhhceECHHHHHHHHHHHHHh
Confidence            344567899999999999999999 7999999999999996  357899999987   4578999999999999986543

>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.2

Probab=99.45  E-value=7.4e-14  Score=114.20  Aligned_cols=73  Identities=14%  Similarity=0.215  Sum_probs=64.0

Q ss_pred             chhcccccccCcccccccccceecCCCC-CcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhccc
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECL-HSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPS   89 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~Cg-HtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~   89 (368)
                      ....+.++|.||||+++|.+||++ +|| |+||+.||..|+..  ...||+|+..+   ....+.+|..|.++++.+...
T Consensus        15 ~~~~~p~~~~CpI~~~~m~dPV~~-~cG~htf~r~cI~~~l~~--~~~cP~~~~~l---~~~~L~pn~~Lk~~I~~~~~~   88 (98)
T 1wgm_A           15 TYADACDEFLDPIMSTLMCDPVVL-PSSRVTVDRSTIARHLLS--DQTDPFNRSPL---TMDQIRPNTELKEKIQRWLAE   88 (98)
T ss_dssp             CCCSCCTTTBCTTTCSBCSSEEEC-TTTCCEEEHHHHHHHTTT--SCBCTTTCSBC---CTTTSEECHHHHHHHHHHHHH
T ss_pred             hhhcCcHhcCCcCccccccCCeEC-CCCCeEECHHHHHHHHHh--CCCCCCCCCCC---ChhhceEcHHHHHHHHHHHHH
Confidence            345667899999999999999999 899 99999999999964  56899999987   456899999999999998654

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=99.45  E-value=3.6e-14  Score=112.90  Aligned_cols=73  Identities=14%  Similarity=0.104  Sum_probs=63.8

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhccc
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPS   89 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~   89 (368)
                      ....+.+.|.||||+++|.+||++ +|||+||+.||..|+..  ...||+|+..+   ....+.+|..|.++++.+...
T Consensus         7 ~~~~~p~~~~CpI~~~~m~dPV~~-~cGhtf~r~~I~~~l~~--~~~cP~~~~~l---~~~~l~pn~~L~~~i~~~~~~   79 (85)
T 2kr4_A            7 DYSDAPDEFRDPLMDTLMTDPVRL-PSGTVMDRSIILRHLLN--SPTDPFNRQML---TESMLEPVPELKEQIQAWMRE   79 (85)
T ss_dssp             CCTTCCTTTBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHH--CSBCTTTCCBC---CGGGCEECHHHHHHHHHHHHH
T ss_pred             hhhcCchheECcccCchhcCCeEC-CCCCEECHHHHHHHHhc--CCCCCCCcCCC---ChHhcchHHHHHHHHHHHHHH
Confidence            345567899999999999999999 79999999999999974  56899999887   456899999999999998654

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens}

Probab=99.43  E-value=1.1e-13  Score=121.15  Aligned_cols=76  Identities=30%  Similarity=0.601  Sum_probs=65.3

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhcccc
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPSK   90 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~~   90 (368)
                      ....+.+.+.|+||+++|.+|+++ +|||+||..||..|+.. ....||+||..+..  ...+.+|..|+++++.+++..
T Consensus        71 ~~~~l~~~~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~--~~~l~~n~~l~~lv~~~~p~~  146 (150)
T 1z6u_A           71 FLKKLEQSFMCVCCQELVYQPVTT-ECFHNVCKDCLQRSFKA-QVFSCPACRHDLGQ--NYIMIPNEILQTLLDLFFPGY  146 (150)
T ss_dssp             HHHHHHHHTBCTTTSSBCSSEEEC-TTSCEEEHHHHHHHHHT-TCCBCTTTCCBCCT--TCCCCBCHHHHHHHHHHSTTT
T ss_pred             HHHhCccCCEeecCChhhcCCEEc-CCCCchhHHHHHHHHHh-CCCcCCCCCccCCC--CCCCCCCHHHHHHHHHHhhHh
Confidence            345577889999999999999998 89999999999999974 45689999998742  237899999999999999864

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.43  E-value=1.2e-13  Score=111.68  Aligned_cols=74  Identities=18%  Similarity=0.332  Sum_probs=62.3

Q ss_pred             ccccccCcccccccccceecCCCCCcccHHHHHHHhhcc----CCCcccC--CCcc-cCCCCCCCCccchHHHHHHHHhc
Q 017653           15 LVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEE----EIDSCPV--CNTD-LGCAPLEKLRADHNLQDLRIKIF   87 (368)
Q Consensus        15 l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~----~~~~CP~--Cr~~-l~~~~~~~lr~n~~L~~Lvekl~   87 (368)
                      ..+.|.||||+++|.+||++..|||+||+.||..|+...    +...||+  |+.. +   ....+.+|..|.++++.+.
T Consensus         4 ~~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l---~~~~L~pn~~L~~~I~~~~   80 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDI---RKSDLIQDEALRRAIENHN   80 (94)
T ss_dssp             CSSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCB---CGGGEEECHHHHHHHHHHH
T ss_pred             CCcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccccc---CHhhCcCCHHHHHHHHHHH
Confidence            456899999999999999994499999999999999763    2468999  8865 4   4678999999999999996


Q ss_pred             cccc
Q 017653           88 PSKR   91 (368)
Q Consensus        88 p~~~   91 (368)
                      ....
T Consensus        81 ~~~~   84 (94)
T 2yu4_A           81 KKRH   84 (94)
T ss_dssp             TTCC
T ss_pred             HHhc
Confidence            6544

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens}

Probab=99.40  E-value=2.5e-13  Score=109.94  Aligned_cols=75  Identities=21%  Similarity=0.500  Sum_probs=64.2

Q ss_pred             cchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhccc
Q 017653           10 VNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPS   89 (368)
Q Consensus        10 v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~   89 (368)
                      ...+.+++.+.|+||.+.|.+|+++.+|||+||..||..|+..  ...||.|+..+   ....+.+|..+.++++.+...
T Consensus        14 ~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~~---~~~~l~~n~~l~~~i~~~~~~   88 (99)
T 2y43_A           14 AVMKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSY--KTQCPTCCVTV---TEPDLKNNRILDELVKSLNFA   88 (99)
T ss_dssp             GGGHHHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTT--CCBCTTTCCBC---CGGGCEECHHHHHHHHHHHHH
T ss_pred             hHHHhCCCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHC--CCCCCCCCCcC---ChhhCCcCHHHHHHHHHHHHH
Confidence            3456778899999999999999988689999999999999963  47899999886   346789999999999988544

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens}

Probab=99.36  E-value=2.8e-13  Score=110.35  Aligned_cols=75  Identities=24%  Similarity=0.487  Sum_probs=62.3

Q ss_pred             hhcchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHh
Q 017653            8 LKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKI   86 (368)
Q Consensus         8 v~v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl   86 (368)
                      .......+++.+.|+||+++|.+|+++.+|||+||..||..|+... ...||.||..+   ....+..+..+.++++.+
T Consensus        12 ~~~~~~~l~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~-~~~CP~Cr~~~---~~~~l~~~~~~~~i~~~~   86 (100)
T 3lrq_A           12 DEQSVESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQ-RAQCPHCRAPL---QLRELVNCRWAEEVTQQL   86 (100)
T ss_dssp             HHHHHHHHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHT-CSBCTTTCCBC---CGGGCEECTTHHHHHHHH
T ss_pred             cccccccCCCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHC-cCCCCCCCCcC---CHHHhHhhHHHHHHHHHH
Confidence            3456778889999999999999999933899999999999999753 36899999887   456777888887777665

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, CHR protein, DNA repair, metal-binding, nucleus; 2.12A {Homo sapiens}

Probab=99.35  E-value=6.1e-14  Score=116.47  Aligned_cols=78  Identities=17%  Similarity=0.467  Sum_probs=65.1

Q ss_pred             hhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCC----CCCCCCccchHHHHHHHHhc
Q 017653           12 REKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGC----APLEKLRADHNLQDLRIKIF   87 (368)
Q Consensus        12 ~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~----~~~~~lr~n~~L~~Lvekl~   87 (368)
                      ...+.+.+.|+||+++|.+|+++ +|||+||..||..|+.. +...||.|+..+..    .....+.+|..|.+++.+++
T Consensus         9 ~~~~~~~~~C~iC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~~~~~~~~~~~~~n~~l~~~i~~~~   86 (115)
T 3l11_A            9 AIPSLSECQCGICMEILVEPVTL-PCNHTLCKPCFQSTVEK-ASLCCPFCRRRVSSWTRYHTRRNSLVNVELWTIIQKHY   86 (115)
T ss_dssp             CCCCHHHHBCTTTCSBCSSCEEC-TTSCEECHHHHCCCCCT-TTSBCTTTCCBCHHHHHHHHHTTCCBCHHHHHHHHHHS
T ss_pred             ccCCCCCCCCccCCcccCceeEc-CCCCHHhHHHHHHHHhH-CcCCCCCCCcccCccccccccccchhhHHHHHHHHHHC
Confidence            45667789999999999999999 89999999999999854 46789999988642    12367789999999999999


Q ss_pred             cccc
Q 017653           88 PSKR   91 (368)
Q Consensus        88 p~~~   91 (368)
                      +...
T Consensus        87 p~~~   90 (115)
T 3l11_A           87 PREC   90 (115)
T ss_dssp             HHHH
T ss_pred             CHHH
Confidence            8643

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.33  E-value=4.2e-13  Score=112.09  Aligned_cols=72  Identities=24%  Similarity=0.609  Sum_probs=62.8

Q ss_pred             cchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhcc
Q 017653           10 VNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFP   88 (368)
Q Consensus        10 v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p   88 (368)
                      ...+.+++.+.|+||+++|.+|+++.+|||+||..||..|+.    ..||+|+..+   ....+.+|..|.++++.+..
T Consensus        14 ~~~~~l~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~----~~CP~Cr~~~---~~~~~~~n~~l~~l~~~~~~   85 (117)
T 1jm7_B           14 AALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG----TGCPVCYTPA---WIQDLKINRQLDSMIQLCSK   85 (117)
T ss_dssp             HHHHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT----TBCSSSCCBC---SCSSCCCCHHHHHHHHHHHH
T ss_pred             HHHHhchhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc----CCCcCCCCcC---ccccccccHHHHHHHHHHHH
Confidence            456778899999999999999999867999999999999985    6799999886   45688999999999987744

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens}

Probab=99.33  E-value=5.7e-14  Score=108.44  Aligned_cols=67  Identities=33%  Similarity=0.776  Sum_probs=54.4

Q ss_pred             hhcccccccCcccccccccceecCCCCCcccHHHHHHHhhcc-----CCCcccCCCcccCCCCCCCCccchHHHHH
Q 017653           12 REKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEE-----EIDSCPVCNTDLGCAPLEKLRADHNLQDL   82 (368)
Q Consensus        12 ~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~-----~~~~CP~Cr~~l~~~~~~~lr~n~~L~~L   82 (368)
                      .+.+++.+.|+||++.|.+|+++ +|||+||..||..|+...     ....||.|+..+   ....+++|..|+++
T Consensus         6 ~~~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~---~~~~l~~n~~l~~l   77 (79)
T 2egp_A            6 SGNVQEEVTCPICLELLTEPLSL-DCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISY---SFEHLQANQHLANI   77 (79)
T ss_dssp             SCCCCCCCEETTTTEECSSCCCC-SSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCC---CSSGGGTCSSSCCC
T ss_pred             HhhcccCCCCcCCCcccCCeeEC-CCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcC---CHhhCCcCHHHHHh
Confidence            45678899999999999999998 899999999999998652     267899999886   34566677665443

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=99.33  E-value=6.9e-13  Score=124.18  Aligned_cols=71  Identities=15%  Similarity=0.182  Sum_probs=61.6

Q ss_pred             cccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhccc
Q 017653           14 KLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPS   89 (368)
Q Consensus        14 ~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~   89 (368)
                      .+.+.|.||||+++|.+||++ +|||+||+.||..|+... ...||+|+..+   ....+.+|..|.++++.+...
T Consensus       204 ~~~~~~~c~i~~~~~~dPv~~-~~gh~f~~~~i~~~~~~~-~~~cP~~~~~~---~~~~l~~n~~l~~~i~~~~~~  274 (281)
T 2c2l_A          204 DIPDYLCGKISFELMREPCIT-PSGITYDRKDIEEHLQRV-GHFNPVTRSPL---TQEQLIPNLAMKEVIDAFISE  274 (281)
T ss_dssp             CCCSTTBCTTTCSBCSSEEEC-SSCCEEETTHHHHHHHHT-CSSCTTTCCCC---CGGGCEECHHHHHHHHHHHTT
T ss_pred             CCCcccCCcCcCCHhcCCeEC-CCCCEECHHHHHHHHHHC-CCCCcCCCCCC---chhcCcccHHHHHHHHHHHHH
Confidence            455789999999999999999 799999999999999753 34499999887   456899999999999998654

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.32  E-value=2.7e-13  Score=105.40  Aligned_cols=68  Identities=29%  Similarity=0.762  Sum_probs=55.6

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhcc----CCCcccCCCcccCCCCCCCCccchHHHHH
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEE----EIDSCPVCNTDLGCAPLEKLRADHNLQDL   82 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~----~~~~CP~Cr~~l~~~~~~~lr~n~~L~~L   82 (368)
                      ..+.+.+.+.|+||++.+.+|+++ +|||+||..||..|+...    ....||.|+..+   ....+.+|..|+++
T Consensus        12 ~~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~---~~~~~~~n~~l~~~   83 (85)
T 2ecw_A           12 VLEMIKEEVTCPICLELLKEPVSA-DCNHSFCRACITLNYESNRNTDGKGNCPVCRVPY---PFGNLKPNLHVANI   83 (85)
T ss_dssp             CCCCCCTTTSCTTTCSCCSSCEEC-TTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCC---CTTCCEECSCCCSS
T ss_pred             HHHhCccCCCCcCCChhhCcceeC-CCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcC---CHHhCCcCHHHHHh
Confidence            456678899999999999999988 899999999999999763    267899999886   34566777665544

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.30  E-value=3.5e-13  Score=104.75  Aligned_cols=68  Identities=26%  Similarity=0.698  Sum_probs=55.3

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhc----cCCCcccCCCcccCCCCCCCCccchHHHHH
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITE----EEIDSCPVCNTDLGCAPLEKLRADHNLQDL   82 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~----~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~L   82 (368)
                      ..+.+.+.+.|+||++.+.+|+++ +|||+||..||..|+..    .+...||.|+..+   ....+.+|..|+++
T Consensus        12 ~~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~---~~~~~~~n~~l~~~   83 (85)
T 2ecv_A           12 ILVNVKEEVTCPICLELLTQPLSL-DCGHSFCQACLTANHKKSMLDKGESSCPVCRISY---QPENIRPNRHVANI   83 (85)
T ss_dssp             CCCCCCCCCCCTTTCSCCSSCBCC-SSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSS---CSSSCCCSCCCCCC
T ss_pred             HHHHccCCCCCCCCCcccCCceeC-CCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCcc---CHHhcCccHHHHHh
Confidence            346678899999999999999998 89999999999999875    2367899999886   34566677665443

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=99.29  E-value=1.8e-12  Score=116.99  Aligned_cols=72  Identities=14%  Similarity=0.200  Sum_probs=62.8

Q ss_pred             hhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhcc
Q 017653           12 REKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFP   88 (368)
Q Consensus        12 ~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p   88 (368)
                      ...+.+.|.||||+++|.+||++ +|||+||+.||..|+...+ ..||+|+..+   ....+.+|..|.++++.+..
T Consensus       100 ~~~ip~~f~CPI~~elm~DPV~~-~~Ghtfer~~I~~~l~~~~-~tcP~t~~~l---~~~~L~pN~~Lk~~Ie~~~~  171 (179)
T 2f42_A          100 KREIPDYLCGKISFELMREPCIT-PSGITYDRKDIEEHLQRVG-HFDPVTRSPL---TQDQLIPNLAMKEVIDAFIQ  171 (179)
T ss_dssp             CCCCCGGGBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHHTC-SBCTTTCCBC---CGGGCEECHHHHHHHHHHHH
T ss_pred             ccCCcHhhcccCccccCCCCeEC-CCCCEECHHHHHHHHHhCC-CCCCCCcCCC---ChhhCcchHHHHHHHHHHHH
Confidence            45567899999999999999999 8999999999999997633 3699999887   45689999999999998854

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens}

Probab=99.29  E-value=2.1e-12  Score=99.39  Aligned_cols=55  Identities=25%  Similarity=0.703  Sum_probs=48.3

Q ss_pred             cchhcccccccCcccccccccceecCC-CCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           10 VNREKLVACMTCPLCSKLFRDATTISE-CLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        10 v~~~~l~e~L~CpIC~~l~~dPv~l~~-CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      ...+.+.+.+.|+||+++|.+|+++ + |||+||..||..|+...+...||+||..+
T Consensus         7 ~~~~~~~~~~~C~IC~~~~~~p~~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~   62 (74)
T 2yur_A            7 GEDDPIPDELLCLICKDIMTDAVVI-PCCGNSYCDECIRTALLESDEHTCPTCHQND   62 (74)
T ss_dssp             SCCCCSCGGGSCSSSCCCCTTCEEC-SSSCCEECTTHHHHHHHHSSSSCCSSSCCSS
T ss_pred             cccccCCCCCCCcCCChHHhCCeEc-CCCCCHHHHHHHHHHHHhcCCCcCCCCCCcC
Confidence            3456788899999999999999998 6 99999999999999865557899999864

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=99.28  E-value=7.1e-13  Score=113.89  Aligned_cols=67  Identities=31%  Similarity=0.647  Sum_probs=51.7

Q ss_pred             hcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhc
Q 017653           13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIF   87 (368)
Q Consensus        13 ~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~   87 (368)
                      +.++++++|+||++.|.+|+++ +|||+||..||..|+..  ...||+||..+..     ...+..+..+++.+.
T Consensus        48 ~~~~~~~~C~iC~~~~~~~~~~-~CgH~fc~~Ci~~~~~~--~~~CP~Cr~~~~~-----~~~~~~~~~~i~~~~  114 (138)
T 4ayc_A           48 DVLENELQCIICSEYFIEAVTL-NCAHSFCSYCINEWMKR--KIECPICRKDIKS-----KTYSLVLDNCINKMV  114 (138)
T ss_dssp             HHHHHHSBCTTTCSBCSSEEEE-TTSCEEEHHHHHHHTTT--CSBCTTTCCBCCC-----EEECHHHHHHHHHHH
T ss_pred             HhccccCCCcccCcccCCceEC-CCCCCccHHHHHHHHHc--CCcCCCCCCcCCC-----CCCccchhHHHHHHH
Confidence            4466789999999999999999 89999999999999953  5679999987642     123444455555443

>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.27  E-value=1.2e-12  Score=107.35  Aligned_cols=75  Identities=20%  Similarity=0.623  Sum_probs=59.9

Q ss_pred             cchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhcc-CCCcccCCCcccCCCCCCCCccchHHHHHHHHhcc
Q 017653           10 VNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEE-EIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFP   88 (368)
Q Consensus        10 v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~-~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p   88 (368)
                      ...+.+.+.+.|+||++.+.+|+++ +|||+||..||..|+... +...||.|+..+.   ...+..|..+.++++.+..
T Consensus        13 ~~~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~---~~~~~~~~~l~~~~~~~~~   88 (112)
T 1jm7_A           13 NVINAMQKILECPICLELIKEPVST-KCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT---KRSLQESTRFSQLVEELLK   88 (112)
T ss_dssp             HHHHHHHHHTSCSSSCCCCSSCCBC-TTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC---TTTCBCCCSSSHHHHHHHH
T ss_pred             HHHHhccCCCCCcccChhhcCeEEC-CCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCC---HhhcCccHHHHHHHHHHHH
Confidence            3455677889999999999999998 899999999999999753 2368999998874   4566677776677766654

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.25  E-value=3.6e-12  Score=99.35  Aligned_cols=64  Identities=22%  Similarity=0.568  Sum_probs=52.1

Q ss_pred             hhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHH
Q 017653           12 REKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDL   82 (368)
Q Consensus        12 ~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~L   82 (368)
                      .+..++.+.|+||++.|.+|+++ +|||+||..||..|+..  ...||+|+..+.    ..+.++..+.+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~~~----~~~~~~~~l~~~   72 (81)
T 2csy_A            9 SEEEEIPFRCFICRQAFQNPVVT-KCRHYFCESCALEHFRA--TPRCYICDQPTG----GIFNPAKELMAK   72 (81)
T ss_dssp             SSCCCCCSBCSSSCSBCCSEEEC-TTSCEEEHHHHHHHHHH--CSBCSSSCCBCC----SCCEECHHHHHH
T ss_pred             cccCCCCCCCcCCCchhcCeeEc-cCCCHhHHHHHHHHHHC--CCcCCCcCcccc----ccCCcHHHHHHH
Confidence            45667789999999999999998 89999999999999964  568999998863    456677544333

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=99.23  E-value=3.6e-12  Score=121.02  Aligned_cols=76  Identities=18%  Similarity=0.274  Sum_probs=65.2

Q ss_pred             cchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccC--CCcccCCCCCCCCccchHHHHHHHHhc
Q 017653           10 VNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPV--CNTDLGCAPLEKLRADHNLQDLRIKIF   87 (368)
Q Consensus        10 v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~--Cr~~l~~~~~~~lr~n~~L~~Lvekl~   87 (368)
                      +........++||||+++|.+||+...|||+||+.||..|+...+...||+  |+..+   ....+.+|..|.++++.+.
T Consensus       173 I~v~~~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l---~~~dL~pN~~L~~lve~~k  249 (267)
T 3htk_C          173 LQIEGGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVV---SMRDFVRDPIMELRCKIAK  249 (267)
T ss_dssp             CCCCSSBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEE---CGGGEEECHHHHHHHHHHH
T ss_pred             ceecCCceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcC---chhhCCcCHHHHHHHHHHH
Confidence            344557788999999999999998658999999999999997655678999  99876   6778999999999998764


Q ss_pred             c
Q 017653           88 P   88 (368)
Q Consensus        88 p   88 (368)
                      .
T Consensus       250 ~  250 (267)
T 3htk_C          250 M  250 (267)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.23  E-value=8e-12  Score=95.39  Aligned_cols=55  Identities=38%  Similarity=0.828  Sum_probs=48.6

Q ss_pred             cchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           10 VNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        10 v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ...+.+++.+.|+||++.+.+|+++.+|||+||..||..|+..  ...||+|+..+.
T Consensus         7 ~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~~~   61 (72)
T 2djb_A            7 GNLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYY--SNRCPKCNIVVH   61 (72)
T ss_dssp             CCCCCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHH--CSSCTTTCCCCC
T ss_pred             hhHhhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHc--CCcCCCcCcccC
Confidence            4567788899999999999999997789999999999999964  568999998874

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.23  E-value=3.3e-12  Score=100.26  Aligned_cols=67  Identities=24%  Similarity=0.627  Sum_probs=53.3

Q ss_pred             hcchhcccccccCccccccccc----ceecCCCCCcccHHHHHHHhhcc-CCCcccCCCcccCCCCCCCCccc
Q 017653            9 KVNREKLVACMTCPLCSKLFRD----ATTISECLHSFCRKCIYEKITEE-EIDSCPVCNTDLGCAPLEKLRAD   76 (368)
Q Consensus         9 ~v~~~~l~e~L~CpIC~~l~~d----Pv~l~~CgHtFC~~CI~~~l~~~-~~~~CP~Cr~~l~~~~~~~lr~n   76 (368)
                      ....+.+++.+.|+||++.|.+    |+.+ +|||+||..||..|+... ....||.||..+.......+..|
T Consensus         6 ~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~i~~l~~n   77 (88)
T 2ct2_A            6 SGNLDALREVLECPICMESFTEEQLRPKLL-HCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLTQLTDN   77 (88)
T ss_dssp             CCSCCCCCSCCBCTTTCCBCCTTSSCEEEC-SSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSSTTTSEEC
T ss_pred             ccChhhccCCCCCccCCccccccCCCeEEC-CCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchhHHHHHHH
Confidence            3456778889999999999999    9998 899999999999999753 24789999988754333444444

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A

Probab=99.23  E-value=5.5e-12  Score=105.41  Aligned_cols=76  Identities=26%  Similarity=0.476  Sum_probs=63.4

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhcccc
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPSK   90 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~~   90 (368)
                      -.+.+.+.+.|+||++++.+|+++ +|||+||..||..|+... ...||+|+..+   ....+.++..+.+++..+....
T Consensus        11 ~~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~---~~~~~~~~~~l~~~i~~l~v~C   85 (118)
T 3hct_A           11 FDPPLESKYECPICLMALREAVQT-PCGHRFCKACIIKSIRDA-GHKCPVDNEIL---LENQLFPDNFAKREILSLMVKC   85 (118)
T ss_dssp             BSSCCCGGGBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHHH-CSBCTTTCCBC---CGGGCEECHHHHHHHHTSEEEC
T ss_pred             hccCCCCCCCCCcCChhhcCeEEC-CcCChhhHHHHHHHHhhC-CCCCCCCCCCc---CHHhcccCHHHHHHHccceeEC
Confidence            356788899999999999999998 899999999999999753 34899999887   3456778989999888876544


Q ss_pred             c
Q 017653           91 R   91 (368)
Q Consensus        91 ~   91 (368)
                      .
T Consensus        86 ~   86 (118)
T 3hct_A           86 P   86 (118)
T ss_dssp             S
T ss_pred             C
Confidence            3

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.20  E-value=1.2e-11  Score=94.04  Aligned_cols=55  Identities=33%  Similarity=0.724  Sum_probs=47.4

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhc-cCCCcccCCCcccC
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITE-EEIDSCPVCNTDLG   66 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~-~~~~~CP~Cr~~l~   66 (368)
                      ..+.+.+.+.|+||++.+.+|+++ +|||+||..||..|+.. .....||+|+..+.
T Consensus        13 ~~~~~~~~~~C~IC~~~~~~~~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   68 (73)
T 2ysl_A           13 FVNKLQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLCKTSVR   68 (73)
T ss_dssp             CCCCCCCCCBCTTTCSBCSSEEEC-TTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCC
T ss_pred             HHHhCccCCEeccCCcccCCeEEc-CCCChhhHHHHHHHHHcCCCCCCCCCCCCcCC
Confidence            446678899999999999999999 89999999999999963 24568999998763

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens}

Probab=99.17  E-value=9.1e-12  Score=107.99  Aligned_cols=81  Identities=16%  Similarity=0.293  Sum_probs=63.0

Q ss_pred             hcchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCC------CCCCCccchHHHHH
Q 017653            9 KVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCA------PLEKLRADHNLQDL   82 (368)
Q Consensus         9 ~v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~------~~~~lr~n~~L~~L   82 (368)
                      .+-.+.+++.+.|+||+++|.+|+++ +|||+||..||..|+.. +...||+||..+...      ....+.++..+...
T Consensus        22 ~~~~~~l~~~~~C~IC~~~~~~pv~~-~CgH~FC~~Ci~~~~~~-~~~~CP~Cr~~~~~~~~~~~l~~~~~~~d~~~~~~   99 (141)
T 3knv_A           22 TLLGTKLEAKYLCSACRNVLRRPFQA-QCGHRYCSFCLASILSS-GPQNCAACVHEGIYEEGISILESSSAFPDNAARRE   99 (141)
T ss_dssp             GGTGGGCCGGGBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHGGG-SCEECHHHHHTTCCCTTTTEECGGGCEECHHHHHH
T ss_pred             hhhhccCCcCcCCCCCChhhcCcEEC-CCCCccCHHHHHHHHhc-CCCCCCCCCCcccccccccccchhhhcccHHHHHH
Confidence            44557889999999999999999998 89999999999999964 456899999865211      12345578888888


Q ss_pred             HHHhccccc
Q 017653           83 RIKIFPSKR   91 (368)
Q Consensus        83 vekl~p~~~   91 (368)
                      +..+.....
T Consensus       100 i~~L~v~Cp  108 (141)
T 3knv_A          100 VESLPAVCP  108 (141)
T ss_dssp             HHTSEEECC
T ss_pred             HcccccccC
Confidence            877755443

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.17  E-value=1.7e-11  Score=91.89  Aligned_cols=53  Identities=19%  Similarity=0.550  Sum_probs=46.2

Q ss_pred             hhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           12 REKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        12 ~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      .+.+.+.+.|+||++.+.+|+++ +|||+||..||..|+.. ....||+|+..+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~   61 (66)
T 2ecy_A            9 VKTVEDKYKCEKCHLVLCSPKQT-ECGHRFCESCMAALLSS-SSPKCTACQESIV   61 (66)
T ss_dssp             CCSCCCCEECTTTCCEESSCCCC-SSSCCCCHHHHHHHHTT-SSCCCTTTCCCCC
T ss_pred             hhcCCcCCCCCCCChHhcCeeEC-CCCCHHHHHHHHHHHHh-CcCCCCCCCcCCC
Confidence            45667889999999999999998 89999999999999963 4578999998763

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.16  E-value=2e-11  Score=90.52  Aligned_cols=50  Identities=34%  Similarity=0.786  Sum_probs=43.9

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhcc-CCCcccCC
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEE-EIDSCPVC   61 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~-~~~~CP~C   61 (368)
                      ..+.+++.+.|+||++.+.+|+++ +|||+||..||..|+... ....||+|
T Consensus        13 ~~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           13 FVNKLQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCCCBCTTTCSBCSSCEEC-TTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HHHhCccCCCCCcCCchhCCeEEe-CCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            456788899999999999999999 899999999999999742 35689998

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1

Probab=99.14  E-value=2.7e-11  Score=100.60  Aligned_cols=74  Identities=19%  Similarity=0.462  Sum_probs=58.7

Q ss_pred             hhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhccc
Q 017653           12 REKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPS   89 (368)
Q Consensus        12 ~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~   89 (368)
                      .+.+.+.+.|+||.+.+.+|+++ +|||+||..||..|+.. ....||.|+..+...  .-...+..+.+++..+...
T Consensus        17 ~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~~--~~~~~~~~l~~~i~~l~v~   90 (116)
T 1rmd_A           17 PAHFVKSISCQICEHILADPVET-SCKHLFCRICILRCLKV-MGSYCPSCRYPCFPT--DLESPVKSFLNILNSLMVK   90 (116)
T ss_dssp             CHHHHHHTBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHH-TCSBCTTTCCBCCGG--GCBCCCHHHHHHHHHCEEE
T ss_pred             HHhccCCCCCCCCCcHhcCcEEc-CCCCcccHHHHHHHHhH-CcCcCCCCCCCCCHh--hccccHHHHHHHHHHhcCC
Confidence            35677889999999999999998 89999999999999975 356799999987422  2234577777777776554

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens}

Probab=99.12  E-value=3.1e-11  Score=106.61  Aligned_cols=75  Identities=27%  Similarity=0.487  Sum_probs=62.4

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhcccc
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPSK   90 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~~   90 (368)
                      -.+.+.+.+.|+||+++|.+|+++ +|||+||..||..|+.. ....||.|+..+   ....+.++..+.+++..+....
T Consensus        11 ~~~~~~~~~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~---~~~~~~~~~~~~~~i~~l~v~C   85 (170)
T 3hcs_A           11 FDPPLESKYECPICLMALREAVQT-PCGHRFCKACIIKSIRD-AGHKCPVDNEIL---LENQLFPDNFAKREILSLMVKC   85 (170)
T ss_dssp             ESSCCCGGGBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHH-HCSBCTTTCCBC---CGGGCEECHHHHHHHHTSEEEC
T ss_pred             hccCCCCCCCCCCCChhhcCcEEC-CCCCHHHHHHHHHHHHh-CCCCCCCCccCc---chhhhhhhHHHHHHHhhcccCC
Confidence            345788999999999999999998 89999999999999975 334899999887   3456778888888888776544

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.08  E-value=6.8e-11  Score=85.73  Aligned_cols=50  Identities=34%  Similarity=0.783  Sum_probs=43.2

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhc-cCCCcccCC
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITE-EEIDSCPVC   61 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~-~~~~~CP~C   61 (368)
                      ..+.+.+.+.|+||++.+.+|+++ +|||+||..||..|+.. .....||+|
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A            8 ALENLQVEASCSVCLEYLKEPVII-ECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CSSCSCCCCBCSSSCCBCSSCCCC-SSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             HhhccccCCCCccCCcccCccEeC-CCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            456677899999999999999998 89999999999999753 346789988

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.05  E-value=1e-10  Score=87.33  Aligned_cols=48  Identities=27%  Similarity=0.696  Sum_probs=40.9

Q ss_pred             ccccCccccc-ccccce----ecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           17 ACMTCPLCSK-LFRDAT----TISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        17 e~L~CpIC~~-l~~dPv----~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      +++.|+||++ ++.+|+    .+ +|||+||..||..|+.. +...||.|+..+.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~-~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~   54 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFVR-GAGNCPECGTPLR   54 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEEC-TTCCCEEHHHHHHHHHT-TSSSCTTTCCCCS
T ss_pred             CCCcCCcCCCCccCCCccCeecC-CCCCHhHHHHHHHHHHc-CCCcCCCCCCccc
Confidence            3689999999 999994    45 89999999999999764 4578999998874

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.03  E-value=8.4e-11  Score=89.41  Aligned_cols=50  Identities=18%  Similarity=0.537  Sum_probs=43.6

Q ss_pred             cccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           14 KLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        14 ~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ...+.+.|+||++.+.+|+++ +|||.||..||..|+..  ...||+||..+.
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~-~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~~~   60 (71)
T 2d8t_A           11 PSLTVPECAICLQTCVHPVSL-PCKHVFCYLCVKGASWL--GKRCALCRQEIP   60 (71)
T ss_dssp             SSSSCCBCSSSSSBCSSEEEE-TTTEEEEHHHHHHCTTC--SSBCSSSCCBCC
T ss_pred             cCCCCCCCccCCcccCCCEEc-cCCCHHHHHHHHHHHHC--CCcCcCcCchhC
Confidence            345678999999999999999 89999999999999864  478999998763

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus}

Probab=99.01  E-value=1.3e-10  Score=87.60  Aligned_cols=49  Identities=24%  Similarity=0.869  Sum_probs=42.5

Q ss_pred             ccccccCcccccccccc-------eecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           15 LVACMTCPLCSKLFRDA-------TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        15 l~e~L~CpIC~~l~~dP-------v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ..+.+.|+||++.+.+|       +.+ +|||+||..||..|+..  ...||+||..+.
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~-~CgH~fc~~Ci~~~~~~--~~~CP~Cr~~~~   62 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVST-ECGHVFCSQCLRDSLKN--ANTCPTCRKKIN   62 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEEC-TTSCEEEHHHHHHHHHH--CSBCTTTCCBCC
T ss_pred             CCCCCCCcccChhhhccccccCCeEeC-CCCChHhHHHHHHHHHc--CCCCCCCCCccC
Confidence            45679999999999998       666 89999999999999965  468999998874

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.99  E-value=1.7e-10  Score=86.22  Aligned_cols=52  Identities=23%  Similarity=0.813  Sum_probs=44.8

Q ss_pred             chhcccccccCcccccccccc-------eecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           11 NREKLVACMTCPLCSKLFRDA-------TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dP-------v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      ..+.+.+.+.|+||++.+.+|       +.+ +|||.||..||..|+..  ...||+||..+
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~~~~-~CgH~fc~~Ci~~~~~~--~~~CP~Cr~~~   66 (69)
T 2ea6_A            8 TGLRPSGTVSCPICMDGYSEIVQNGRLIVST-ECGHVFCSQCLRDSLKN--ANTCPTCRKKI   66 (69)
T ss_dssp             CCCCTTCCCCCTTTCCCHHHHTTTTCCEEEC-SSSCEEEHHHHHHHHHH--CSSCTTTCCCC
T ss_pred             cccCCCCCCCCcccCccccccccccCCeEeC-CCCChhcHHHHHHHHHc--CCCCCCCCCcc
Confidence            345677889999999999988       666 89999999999999965  56799999876

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B

Probab=98.97  E-value=4.8e-10  Score=87.91  Aligned_cols=52  Identities=27%  Similarity=0.570  Sum_probs=42.2

Q ss_pred             hcccccccCcccccccc--cceecCC--CCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           13 EKLVACMTCPLCSKLFR--DATTISE--CLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        13 ~~l~e~L~CpIC~~l~~--dPv~l~~--CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ..+++.++||||++.+.  +++++ +  |||+||+.|+..++.. ....||.||..+.
T Consensus         6 ~~~~~~~~CpICle~~~~~d~~~~-p~~CGH~fC~~Cl~~~~~~-~~~~CP~CR~~~~   61 (78)
T 1e4u_A            6 DAKEDPVECPLCMEPLEIDDINFF-PCTCGYQICRFCWHRIRTD-ENGLCPACRKPYP   61 (78)
T ss_dssp             CCCCCCCBCTTTCCBCCTTTTTCC-SSTTSCCCCHHHHHHHTTS-SCSBCTTTCCBCS
T ss_pred             cccccCCcCCccCccCcccccccc-ccCCCCCcCHHHHHHHHhc-CCCCCCCCCCccC
Confidence            45678999999999884  44444 4  9999999999998854 5688999998874

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.93  E-value=2.2e-10  Score=83.71  Aligned_cols=45  Identities=22%  Similarity=0.668  Sum_probs=39.3

Q ss_pred             cccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           16 VACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      .+.++|+||++.|.+|+++ +|||+||..||..     ....||+||..+.
T Consensus         4 ~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~-----~~~~CP~Cr~~~~   48 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCPKLL-PCLHTLCSGCLEA-----SGMQCPICQAPWP   48 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSCS-TTSCCSBTTTCSS-----SSSSCSSCCSSSS
T ss_pred             ccCCCceEeCCccCCeEEc-CCCCcccHHHHcc-----CCCCCCcCCcEee
Confidence            5679999999999999998 8999999999876     3467999998764

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens}

Probab=98.92  E-value=4.4e-10  Score=82.74  Aligned_cols=47  Identities=28%  Similarity=0.940  Sum_probs=41.0

Q ss_pred             ccccCcccccccccc-------eecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           17 ACMTCPLCSKLFRDA-------TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        17 e~L~CpIC~~l~~dP-------v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      +.+.|+||++.+.+|       +.+ +|||.||..||..|+..  ...||.||..+.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~-~CgH~fc~~Ci~~~~~~--~~~CP~Cr~~~~   55 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVST-ECGHVFCSQCLRDSLKN--ANTCPTCRKKIN   55 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEE-TTSCEEEHHHHHHHHHH--CSBCTTTCCBCT
T ss_pred             CCCCCCccChhhhCccccCCCEEeC-CCCCchhHHHHHHHHHc--CCCCCCCCccCC
Confidence            468999999999988       666 89999999999999965  568999998763

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.89  E-value=4.5e-10  Score=84.77  Aligned_cols=52  Identities=29%  Similarity=0.659  Sum_probs=44.9

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ..+.+.+.+.|+||++.+.+ +.+ +|||.||..||..|+.  ....||+||..+.
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~-~~~-~CgH~fc~~Ci~~~~~--~~~~CP~Cr~~~~   59 (70)
T 2ecn_A            8 RVKQLTDEEECCICMDGRAD-LIL-PCAHSFCQKCIDKWSD--RHRNCPICRLQMT   59 (70)
T ss_dssp             CCCCCCCCCCCSSSCCSCCS-EEE-TTTEEECHHHHHHSSC--CCSSCHHHHHCTT
T ss_pred             hhhcCCCCCCCeeCCcCccC-ccc-CCCCcccHHHHHHHHH--CcCcCCCcCCccc
Confidence            44567788999999999999 777 8999999999999985  4678999998774

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=98.88  E-value=8.8e-10  Score=84.87  Aligned_cols=53  Identities=30%  Similarity=0.713  Sum_probs=43.5

Q ss_pred             chhcccccccCcccccccccc---eecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           11 NREKLVACMTCPLCSKLFRDA---TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dP---v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ..+.+.+.+.|+||++.|.++   +.+ +|+|.||..||..|+..  ...||+||..+.
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~~~~~~~~-~C~H~fc~~Ci~~~~~~--~~~CP~Cr~~~~   63 (78)
T 2ect_A            8 TEEHVGSGLECPVCKEDYALGESVRQL-PCNHLFHDSCIVPWLEQ--HDSCPVCRKSLT   63 (78)
T ss_dssp             CCTTSSSSCCCTTTTSCCCTTSCEEEC-TTSCEEETTTTHHHHTT--TCSCTTTCCCCC
T ss_pred             CcccCCCCCCCeeCCccccCCCCEEEe-CCCCeecHHHHHHHHHc--CCcCcCcCCccC
Confidence            345667789999999999865   334 89999999999999954  468999998874

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=98.86  E-value=1.1e-09  Score=78.60  Aligned_cols=49  Identities=22%  Similarity=0.617  Sum_probs=41.4

Q ss_pred             ccccccCccccccccc---ceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           15 LVACMTCPLCSKLFRD---ATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        15 l~e~L~CpIC~~l~~d---Pv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      +++...|+||++.|.+   ++.+..|||.||..||..|+..  ...||+||..+
T Consensus         2 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~--~~~CP~Cr~~~   53 (55)
T 1iym_A            2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS--HSTCPLCRLTV   53 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT--CCSCSSSCCCS
T ss_pred             CCCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHc--CCcCcCCCCEe
Confidence            5677899999999987   6777349999999999999954  56799999765

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1

Probab=98.84  E-value=8.8e-10  Score=82.56  Aligned_cols=49  Identities=29%  Similarity=0.718  Sum_probs=41.0

Q ss_pred             cccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           16 VACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ++...|+||++.+.+|+.+.+|||.||..||..|+..  ...||.||..+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~--~~~CP~Cr~~~~   51 (68)
T 1chc_A            3 TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQ--NPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHH--SCSTTTTCCCCC
T ss_pred             CCCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhC--cCcCcCCChhhH
Confidence            3467899999999998544489999999999999964  468999998763

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.83  E-value=1.4e-09  Score=90.73  Aligned_cols=48  Identities=25%  Similarity=0.903  Sum_probs=42.4

Q ss_pred             cccccCcccccccccc-------eecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           16 VACMTCPLCSKLFRDA-------TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dP-------v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      .+.+.|+||++.|.+|       +.+ +|||+||..||.+|+..  ...||+|+..+.
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~-~CgH~fc~~Ci~~~~~~--~~~CP~Cr~~~~   59 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVST-ECGHVFCSQCLRDSLKN--ANTCPTCRKKIN   59 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEE-TTCCEEEHHHHHHHHTT--CSBCTTTCCBCT
T ss_pred             CCCCCCcccChhhhCccccccCeEec-CCCChhhHHHHHHHHHh--CCCCCCCCCcCc
Confidence            4679999999999999       777 89999999999999964  468999998874

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A

Probab=98.82  E-value=1.8e-09  Score=77.38  Aligned_cols=46  Identities=28%  Similarity=0.663  Sum_probs=39.1

Q ss_pred             ccccCccccccccc----ceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           17 ACMTCPLCSKLFRD----ATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        17 e~L~CpIC~~l~~d----Pv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      +...|+||++.|.+    ++.+ +|||.||..||..|+...  ..||+||..+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~-~CgH~fc~~Ci~~~~~~~--~~CP~Cr~~~   53 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVL-PCGHLLHRTCYEEMLKEG--YRCPLCSGPS   53 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEEC-TTSCEEETTHHHHHHHHT--CCCTTSCCSS
T ss_pred             CCCcCcccChhhcCCCcCeEec-CCCCcccHHHHHHHHHcC--CcCCCCCCcC
Confidence            46789999999866    5555 899999999999999763  7899999765

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=98.81  E-value=1.1e-09  Score=84.44  Aligned_cols=49  Identities=24%  Similarity=0.558  Sum_probs=43.0

Q ss_pred             chhcccccccCcccccccccceecCCCCCc-ccHHHHHHHhhccCCCcccCCCcccC
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHS-FCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHt-FC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ..+.+++.+.|+||++.+.+|+++ +|||. ||..|+..|      ..||+||..+.
T Consensus        17 ~~~~~~~~~~C~iC~~~~~~~~~~-pCgH~~~C~~C~~~~------~~CP~Cr~~i~   66 (74)
T 4ic3_A           17 QLRRLQEEKLCKICMDRNIAIVFV-PCGHLVTCKQCAEAV------DKCPMCYTVIT   66 (74)
T ss_dssp             HHHHHHHHTBCTTTSSSBCCEEEE-TTCCBCCCHHHHTTC------SBCTTTCCBCS
T ss_pred             HHhcCccCCCCCCCCCCCCCEEEc-CCCChhHHHHhhhcC------ccCCCcCcCcc
Confidence            456677889999999999999999 89999 999999876      56999998763

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens}

Probab=98.77  E-value=2.8e-09  Score=85.06  Aligned_cols=49  Identities=29%  Similarity=0.713  Sum_probs=41.5

Q ss_pred             cccccccCccccccccc---ceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           14 KLVACMTCPLCSKLFRD---ATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        14 ~l~e~L~CpIC~~l~~d---Pv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      ...+...|+||++.|..   ++.+ +|||.||..||..|+..  ...||+||..+
T Consensus        36 ~~~~~~~C~IC~~~~~~~~~~~~l-~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~   87 (91)
T 2l0b_A           36 AVGQEMCCPICCSEYVKGDVATEL-PCHHYFHKPCVSIWLQK--SGTCPVCRCMF   87 (91)
T ss_dssp             SSSSCSEETTTTEECCTTCEEEEE-TTTEEEEHHHHHHHHTT--TCBCTTTCCBS
T ss_pred             ccCCCCCCcccChhhcCCCcEEec-CCCChHHHHHHHHHHHc--CCcCcCcCccC
Confidence            34567899999999877   7777 79999999999999964  46899999876

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens}

Probab=98.77  E-value=3e-09  Score=79.96  Aligned_cols=51  Identities=22%  Similarity=0.662  Sum_probs=41.3

Q ss_pred             hcccccccCcccccccc---cceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           13 EKLVACMTCPLCSKLFR---DATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        13 ~~l~e~L~CpIC~~l~~---dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      +...+...|+||++.|.   .++.+ +|||.||..||..|+..  ...||+||..+.
T Consensus         9 ~~~~~~~~C~IC~~~~~~~~~~~~~-~C~H~fc~~Ci~~~~~~--~~~CP~Cr~~~~   62 (69)
T 2kiz_A            9 TEEDTEEKCTICLSILEEGEDVRRL-PCMHLFHQVCVDQWLIT--NKKCPICRVDIE   62 (69)
T ss_dssp             CSTTCCCSBTTTTBCCCSSSCEEEC-TTSCEEEHHHHHHHHHH--CSBCTTTCSBSC
T ss_pred             CcCCCCCCCeeCCccccCCCcEEEe-CCCCHHHHHHHHHHHHc--CCCCcCcCcccc
Confidence            44566789999999885   34556 89999999999999975  356999998764

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.75  E-value=3.3e-09  Score=80.80  Aligned_cols=54  Identities=26%  Similarity=0.616  Sum_probs=43.4

Q ss_pred             chhcccccccCcccccccccceec--CCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           11 NREKLVACMTCPLCSKLFRDATTI--SECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l--~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ....+.+...|+||++.|.++..+  .+|+|.||..||..|+..  ...||+||..+.
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~--~~~CP~Cr~~~~   63 (74)
T 2ep4_A            8 KVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEV--RKVCPLCNMPVL   63 (74)
T ss_dssp             CCCCCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHH--CSBCTTTCCBCS
T ss_pred             ccccCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHc--CCcCCCcCcccc
Confidence            345667789999999999765332  279999999999999975  347999998874

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1

Probab=98.74  E-value=4.5e-09  Score=86.58  Aligned_cols=49  Identities=24%  Similarity=0.548  Sum_probs=40.0

Q ss_pred             ccccCcccccccccce------------------ecCCCCCcccHHHHHHHhhc---cCCCcccCCCcccC
Q 017653           17 ACMTCPLCSKLFRDAT------------------TISECLHSFCRKCIYEKITE---EEIDSCPVCNTDLG   66 (368)
Q Consensus        17 e~L~CpIC~~l~~dPv------------------~l~~CgHtFC~~CI~~~l~~---~~~~~CP~Cr~~l~   66 (368)
                      ....|+||++.|.+|.                  .+ +|+|.||..||..|+..   .....||+||..+.
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~-~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~   93 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLT-KCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG   93 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEES-SSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecC-CCCCcccHHHHHHHHHcccCCCCCcCCCCCCccC
Confidence            3469999999997764                  44 89999999999999954   23578999998774

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.73  E-value=2.6e-09  Score=81.77  Aligned_cols=50  Identities=26%  Similarity=0.637  Sum_probs=41.9

Q ss_pred             cccccccCcccccccccc---eecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           14 KLVACMTCPLCSKLFRDA---TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        14 ~l~e~L~CpIC~~l~~dP---v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ...+...|+||++.|.++   +.+ +|+|.||..||..|+..  ...||+||..+.
T Consensus        19 ~~~~~~~C~IC~~~~~~~~~~~~l-~C~H~fh~~Ci~~w~~~--~~~CP~Cr~~~~   71 (75)
T 1x4j_A           19 HQSEQTLCVVCMCDFESRQLLRVL-PCNHEFHAKCVDKWLKA--NRTCPICRADSG   71 (75)
T ss_dssp             CSSSCCEETTTTEECCBTCEEEEE-TTTEEEETTHHHHHHHH--CSSCTTTCCCCC
T ss_pred             ccCCCCCCeECCcccCCCCeEEEE-CCCCHhHHHHHHHHHHc--CCcCcCcCCcCC
Confidence            345678999999999887   566 89999999999999965  467999998763

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.71  E-value=4.1e-09  Score=81.21  Aligned_cols=49  Identities=24%  Similarity=0.591  Sum_probs=41.7

Q ss_pred             chhcccccccCcccccccccceecCCCCCc-ccHHHHHHHhhccCCCcccCCCcccC
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHS-FCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHt-FC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ..+.+++.+.|+||++.+.+|+++ +|||. ||..|+..      ...||+||..+.
T Consensus        18 ~~~~~~~~~~C~IC~~~~~~~~~~-pCgH~~~C~~C~~~------~~~CP~Cr~~i~   67 (75)
T 2ecg_A           18 QLRRLQEEKLCKICMDRNIAIVFV-PCGHLVTCKQCAEA------VDKCPMCYTVIT   67 (75)
T ss_dssp             HHHHHHHHHSCSSSCSSCCCBCCS-SSCCCCBCHHHHHH------CSBCTTTCCBCC
T ss_pred             HHHcCCCCCCCCcCCCCCCCEEEe-cCCCHHHHHHHhhC------CCCCccCCceec
Confidence            445667889999999999999998 89999 99999953      256999998764

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A

Probab=98.62  E-value=1.3e-08  Score=76.05  Aligned_cols=47  Identities=17%  Similarity=0.308  Sum_probs=41.0

Q ss_pred             cccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           18 CMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        18 ~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      .|.||||++++.+||++..|||+||+.||.+|+...  ..||+++..+.
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~--~~cP~t~~~L~   49 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDT--GNDPITNEPLS   49 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHH--SBCTTTCCBCC
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhC--CCCcCCcCCCC
Confidence            589999999999999885799999999999999764  35999998873

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A

Probab=98.61  E-value=5e-09  Score=82.00  Aligned_cols=50  Identities=30%  Similarity=0.642  Sum_probs=42.9

Q ss_pred             cchhcccccccCcccccccccceecCCCCCc-ccHHHHHHHhhccCCCcccCCCcccC
Q 017653           10 VNREKLVACMTCPLCSKLFRDATTISECLHS-FCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        10 v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHt-FC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      -..+.+++...|+||++.+.+++.+ +|||. ||..|+..+      ..||+||..+.
T Consensus        10 ~~~~~l~~~~~C~IC~~~~~~~v~~-pCgH~~~C~~C~~~~------~~CP~Cr~~i~   60 (79)
T 2yho_A           10 EKLRKLKEAMLCMVCCEEEINSTFC-PCGHTVCCESCAAQL------QSCPVCRSRVE   60 (79)
T ss_dssp             HHHHHHHHHTBCTTTSSSBCCEEEE-TTCBCCBCHHHHTTC------SBCTTTCCBCC
T ss_pred             HHHHcCCCCCEeEEeCcccCcEEEE-CCCCHHHHHHHHHhc------CcCCCCCchhh
Confidence            3456677889999999999999999 89999 999998754      37999998875

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A*

Probab=98.59  E-value=1.9e-08  Score=100.43  Aligned_cols=50  Identities=22%  Similarity=0.551  Sum_probs=43.2

Q ss_pred             ccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           15 LVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        15 l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      .+....|+||.+.+.+|+.+ +|||.||..|+..|+.. ....||.||..+.
T Consensus       329 ~~~~~~C~ICle~~~~pv~l-pCGH~FC~~Ci~~wl~~-~~~~CP~CR~~i~  378 (389)
T 2y1n_A          329 GSTFQLCKICAENDKDVKIE-PCGHLMCTSCLTSWQES-EGQGCPFCRCEIK  378 (389)
T ss_dssp             TTSSSBCTTTSSSBCCEEEE-TTCCEECHHHHHHHHHH-TCSBCTTTCCBCC
T ss_pred             cCCCCCCCccCcCCCCeEEe-CCCChhhHHHHHHHHhc-CCCCCCCCCCccC
Confidence            34458999999999999999 89999999999999863 4578999998764

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.52  E-value=4.9e-08  Score=76.34  Aligned_cols=47  Identities=32%  Similarity=0.751  Sum_probs=38.9

Q ss_pred             ccccCccccccccc--------------ceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           17 ACMTCPLCSKLFRD--------------ATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        17 e~L~CpIC~~l~~d--------------Pv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      +...|+||++.|.+              ++.+..|+|.||..||..|+..  ...||+||..+
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~~   74 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQ--NNRCPLCQQDW   74 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTT--CCBCTTTCCBC
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHh--CCCCCCcCCCc
Confidence            46779999999976              4555469999999999999965  45899999876

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.50  E-value=2.5e-08  Score=83.11  Aligned_cols=48  Identities=25%  Similarity=0.870  Sum_probs=41.8

Q ss_pred             ccccccCcccccccccc-------eecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           15 LVACMTCPLCSKLFRDA-------TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        15 l~e~L~CpIC~~l~~dP-------v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      ..+.+.|+||++.|.++       +.+ +|||.||..||..|+..  ...||+||..+
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~-~CgH~fc~~Ci~~~~~~--~~~CP~Cr~~~  123 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVST-ECGHVFCSQCLRDSLKN--ANTCPTCRKKI  123 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEE-TTSBEEEHHHHHHHHHH--CSBCTTTCCBC
T ss_pred             CCCCCCCCCCCCccccccccCcceEeC-CCCChhhHHHHHHHHHc--CCCCCCCCCcC
Confidence            35678999999999987       777 89999999999999964  56899999876

>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4, UIP4, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.44  E-value=3e-08  Score=79.38  Aligned_cols=48  Identities=23%  Similarity=0.544  Sum_probs=39.6

Q ss_pred             ccccCcccccccccceec--CCCCCcccHHHHHHHhhcc---C---CCcccC--CCcc
Q 017653           17 ACMTCPLCSKLFRDATTI--SECLHSFCRKCIYEKITEE---E---IDSCPV--CNTD   64 (368)
Q Consensus        17 e~L~CpIC~~l~~dPv~l--~~CgHtFC~~CI~~~l~~~---~---~~~CP~--Cr~~   64 (368)
                      +.++|+||++.+..|.++  .+|||.||..||..++...   +   ...||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            468999999999988765  3699999999999998642   2   368999  9976

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.35  E-value=7.1e-08  Score=95.06  Aligned_cols=49  Identities=24%  Similarity=0.550  Sum_probs=42.6

Q ss_pred             chhcccccccCcccccccccceecCCCCCc-ccHHHHHHHhhccCCCcccCCCcccC
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHS-FCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHt-FC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ....+++.+.|+||++.+.+|+.+ +|||. ||..|+..+      ..||+||..+.
T Consensus       288 ~~~~l~~~~~C~IC~~~~~~~v~l-pCgH~~fC~~C~~~~------~~CP~CR~~i~  337 (345)
T 3t6p_A          288 QLRRLQEERTCKVCMDKEVSVVFI-PCGHLVVCQECAPSL------RKCPICRGIIK  337 (345)
T ss_dssp             HHHHHHTTCBCTTTSSSBCCEEEE-TTCCEEECTTTGGGC------SBCTTTCCBCC
T ss_pred             HHHhCcCCCCCCccCCcCCceEEc-CCCChhHhHHHHhcC------CcCCCCCCCcc
Confidence            355677889999999999999999 89999 999999765      56999998763

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 4f52_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A

Probab=98.31  E-value=3.6e-07  Score=75.56  Aligned_cols=47  Identities=23%  Similarity=0.535  Sum_probs=38.9

Q ss_pred             ccccCcccccccccc-----------------eecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           17 ACMTCPLCSKLFRDA-----------------TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        17 e~L~CpIC~~l~~dP-----------------v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      +.-.|+||++.|.++                 +.+.+|+|.|+..||..|+..  ...||+||..+
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~--~~~CP~Cr~~~   99 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT--RQVCPLDNREW   99 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT--CSBCSSSCSBC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHc--CCcCcCCCCcc
Confidence            456899999998865                 444489999999999999964  57899999875

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=98.28  E-value=2.7e-07  Score=69.14  Aligned_cols=48  Identities=21%  Similarity=0.480  Sum_probs=40.1

Q ss_pred             cccccCcccccccccceec-CCCCCc-ccHHHHHHHhhccCCCcccCCCccc
Q 017653           16 VACMTCPLCSKLFRDATTI-SECLHS-FCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dPv~l-~~CgHt-FC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      .+...|+||++.+.+++.+ .+|||. ||..|+..+...  ...||+||..+
T Consensus         6 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~--~~~CPiCR~~i   55 (64)
T 2vje_A            6 NAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKR--NKPCPVCRQPI   55 (64)
T ss_dssp             GGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHT--TCCCTTTCCCC
T ss_pred             CCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHc--CCcCCCcCcch
Confidence            3567899999999999864 279999 899999998853  46799999876

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.23  E-value=4.5e-07  Score=68.89  Aligned_cols=45  Identities=20%  Similarity=0.580  Sum_probs=38.5

Q ss_pred             ccccccCcccccccccceecCCCCCc-ccHHHHHHHhhccCCCcccCCCcccC
Q 017653           15 LVACMTCPLCSKLFRDATTISECLHS-FCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        15 l~e~L~CpIC~~l~~dPv~l~~CgHt-FC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ..+...|+||++.+.+++.+ +|||. ||..|+..      ...||+||..+.
T Consensus        12 ~~~~~~C~IC~~~~~~~v~~-pCgH~~~C~~C~~~------~~~CP~CR~~i~   57 (68)
T 2ea5_A           12 EENSKDCVVCQNGTVNWVLL-PCRHTCLCDGCVKY------FQQCPMCRQFVQ   57 (68)
T ss_dssp             CCCSSCCSSSSSSCCCCEET-TTTBCCSCTTHHHH------CSSCTTTCCCCC
T ss_pred             CCCCCCCCCcCcCCCCEEEE-CCCChhhhHHHHhc------CCCCCCCCcchh
Confidence            34578999999999999998 89999 99999973      256999998764

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B*

Probab=98.13  E-value=9.9e-07  Score=65.80  Aligned_cols=48  Identities=29%  Similarity=0.567  Sum_probs=39.5

Q ss_pred             cccccCcccccccccceec-CCCCCc-ccHHHHHHHhhccCCCcccCCCccc
Q 017653           16 VACMTCPLCSKLFRDATTI-SECLHS-FCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dPv~l-~~CgHt-FC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      +....|+||++.+.+++.+ .+|||. ||..|+..+...  ...||+||..+
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~--~~~CPiCR~~i   54 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKA--GASCPICKKEI   54 (63)
T ss_dssp             GGGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHT--TCBCTTTCCBC
T ss_pred             CcCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHh--CCcCCCcCchh
Confidence            3456899999999998653 479998 999999988753  46899999876

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus}

Probab=98.01  E-value=7.5e-07  Score=75.00  Aligned_cols=46  Identities=24%  Similarity=0.546  Sum_probs=0.4

Q ss_pred             cccCcccccccccc-----------------eecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           18 CMTCPLCSKLFRDA-----------------TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        18 ~L~CpIC~~l~~dP-----------------v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      .-.|+||++.|.++                 +++.+|+|.|+..||..|+..  ...||+||..+
T Consensus        48 ~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~--~~~CP~Cr~~~  110 (117)
T 4a0k_B           48 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT--RQVCPLDNREW  110 (117)
T ss_dssp             C----------------------------------------------------------------
T ss_pred             CCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHc--CCcCCCCCCee
Confidence            35899999999763                 333479999999999999965  56799999765

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.99  E-value=5.3e-06  Score=65.12  Aligned_cols=49  Identities=16%  Similarity=0.413  Sum_probs=40.8

Q ss_pred             ccccCccccccc--ccceecCCCC-----CcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           17 ACMTCPLCSKLF--RDATTISECL-----HSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        17 e~L~CpIC~~l~--~dPv~l~~Cg-----HtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      +...|.||++.+  .+++++ +|.     |.|...||.+|+...+...||+|+..+.
T Consensus        14 ~~~~C~IC~~~~~~~~~l~~-pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~   69 (80)
T 2d8s_A           14 SQDICRICHCEGDDESPLIT-PCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFI   69 (80)
T ss_dssp             TSCCCSSSCCCCCSSSCEEC-SSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCC
T ss_pred             CCCCCeEcCccccCCCeeEe-ccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeee
Confidence            457899999877  467766 896     9999999999998765678999998874

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.62  E-value=7.9e-05  Score=57.74  Aligned_cols=51  Identities=20%  Similarity=0.441  Sum_probs=41.7

Q ss_pred             cccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           16 VACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      +..-.|.||..++..-..-..|+|.|-..||.+|+.......||.|+....
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             CCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            345689999999976555557999999999999997655578999998764

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=97.40  E-value=0.0001  Score=60.28  Aligned_cols=46  Identities=22%  Similarity=0.525  Sum_probs=37.4

Q ss_pred             cCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           20 TCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        20 ~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      .|++|.-.+..-..+.+|.|.||..|+..|... +...||.|+..+.
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~-~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKK-GDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHT-TCCBCTTTCCBCS
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhc-cCCCCcCcCCeee
Confidence            689998888765555599999999999988754 5678999998764

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=96.72  E-value=0.001  Score=49.11  Aligned_cols=48  Identities=17%  Similarity=0.416  Sum_probs=39.2

Q ss_pred             ccccCcccccccccceecCCCCC-----cccHHHHHHHhhccCCCcccCCCccc
Q 017653           17 ACMTCPLCSKLFRDATTISECLH-----SFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        17 e~L~CpIC~~l~~dPv~l~~CgH-----tFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      +.-.|.||+.-..++... +|.+     .|-..|+.+|+...+...||+|+..+
T Consensus         5 ~~~~CrIC~~~~~~~l~~-PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~   57 (60)
T 1vyx_A            5 DVPVCWICNEELGNERFR-ACGCTGELENVHRSCLSTWLTISRNTACQICGVVY   57 (60)
T ss_dssp             SCCEETTTTEECSCCCCC-SCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCEeEEeecCCCCceec-CcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCee
Confidence            456899999877777755 7653     79999999999876678999999876

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=96.46  E-value=0.0021  Score=70.54  Aligned_cols=74  Identities=15%  Similarity=0.195  Sum_probs=63.3

Q ss_pred             hcccccccCcccccccccceecCCCC-CcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhccccc
Q 017653           13 EKLVACMTCPLCSKLFRDATTISECL-HSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPSKR   91 (368)
Q Consensus        13 ~~l~e~L~CpIC~~l~~dPv~l~~Cg-HtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~~~   91 (368)
                      ..+.++|.|||-.+++.|||++ +.| +||=+.+|.+|+..  ...||.-+.++   ....+.||+.|...|+.+...++
T Consensus       886 ~~iP~~F~cPIs~~lM~DPVil-psG~~TydR~~I~~wl~~--~~tdP~Tr~~L---~~~~liPN~~Lk~~I~~w~~~~~  959 (968)
T 3m62_A          886 GDVPDEFLDPLMYTIMKDPVIL-PASKMNIDRSTIKAHLLS--DSTDPFNRMPL---KLEDVTPNEELRQKILCFKKQKK  959 (968)
T ss_dssp             CCSCGGGBCTTTCSBCSSEEEC-TTTCCEEEHHHHHHHHTT--CCBCTTTCCBC---CGGGCEECHHHHHHHHHHHHHHH
T ss_pred             cCCcHHhCCcchhhHHhCCeEc-CCCCEEECHHHHHHHHhc--CCCCCCCCCCC---CcccccccHHHHHHHHHHHHHHH
Confidence            4566899999999999999999 787 69999999999965  45799999887   45678999999999999977654


Q ss_pred             c
Q 017653           92 R   92 (368)
Q Consensus        92 ~   92 (368)
                      +
T Consensus       960 ~  960 (968)
T 3m62_A          960 E  960 (968)
T ss_dssp             T
T ss_pred             h
Confidence            3

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster}

Probab=96.32  E-value=0.00091  Score=65.86  Aligned_cols=51  Identities=20%  Similarity=0.429  Sum_probs=38.9

Q ss_pred             cccccCccccccccc----cee---cCCCCCcccHHHHHHHhhccCC---------CcccCCCcccC
Q 017653           16 VACMTCPLCSKLFRD----ATT---ISECLHSFCRKCIYEKITEEEI---------DSCPVCNTDLG   66 (368)
Q Consensus        16 ~e~L~CpIC~~l~~d----Pv~---l~~CgHtFC~~CI~~~l~~~~~---------~~CP~Cr~~l~   66 (368)
                      +....|+||...+.+    |-.   ...|+|.|...||.+|+.....         ..||.|+.++.
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            456789999998876    322   1269999999999999975321         46999998874

>4gdk_A Ubiquitin-like protein ATG12; protein-protein conjugate, protein-protein complex, ubiquiti protein, E3 ligase, ubiquitin-like fold; 2.70A {Homo sapiens} PDB: 4gdl_A

Probab=96.13  E-value=0.013  Score=46.90  Aligned_cols=72  Identities=18%  Similarity=0.203  Sum_probs=60.5

Q ss_pred             CCCCCccceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCc-CCCCccHHHHHHHHhhcCCCccceecccCCCcc
Q 017653          275 PLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQP-VLSTLELHNLINWWVQTSSASERIQTVVGSSAK  353 (368)
Q Consensus       275 ~lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~-~~~~~~l~~i~~~w~~~~~~~~~~~~~~~~~~~  353 (368)
                      .+|.|.++=.-| ++.+||..+.+||+++|+|.++.-+=+.+++.- ..++.+|.+|++.+. .                
T Consensus        15 ~~P~l~k~KflV-p~~~tv~~~~~~lRkrL~l~~~~alFlyVnn~~~P~~d~~~~~Ly~~~k-~----------------   76 (91)
T 4gdk_A           15 DTPIMKTKKWAV-ERTRTIQGLIDFIKKFLKLVASEQLFIYVNQSFAPSPDQEVGTLYECFG-S----------------   76 (91)
T ss_dssp             SSCCCSCCEEEE-ETTCBHHHHHHHHHHHTTCCSSSCCEEEETTTBCCCTTCBHHHHHHHHC-B----------------
T ss_pred             CCCcccccEEEc-CCCCCHHHHHHHHHHHhCCCCCCeEEEEECCccCCChhhHHHHHHHHhC-C----------------
Confidence            488999987778 999999999999999999999888999998864 455899999999885 2                


Q ss_pred             ceEEEEeeecC
Q 017653          354 DFVMVLSYGRK  364 (368)
Q Consensus       354 ~~~m~l~y~r~  364 (368)
                      |..++++|+-.
T Consensus        77 DGfLyv~Ys~~   87 (91)
T 4gdk_A           77 DGKLVLHYCKS   87 (91)
T ss_dssp             TTEEEEEEESS
T ss_pred             CCEEEEEEeCc
Confidence            44788888753

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=95.90  E-value=0.003  Score=50.38  Aligned_cols=33  Identities=24%  Similarity=0.686  Sum_probs=27.9

Q ss_pred             ccccCccccc-cccccee--cCCCCCcccHHHHHHHh
Q 017653           17 ACMTCPLCSK-LFRDATT--ISECLHSFCRKCIYEKI   50 (368)
Q Consensus        17 e~L~CpIC~~-l~~dPv~--l~~CgHtFC~~CI~~~l   50 (368)
                      +++.|++|.+ ++.+|+.  + .|+|+||..|+..+.
T Consensus         2 ee~~C~~C~~~~~~~av~~C~-~C~~~~C~~Cl~~~h   37 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCV-TCEVSYCDECLKATH   37 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEET-TTTEEECHHHHHHHS
T ss_pred             CCCCCcCCCCCCCCCceEECC-cCChHHhHHHCHHHh
Confidence            4689999996 4788988  6 899999999998743

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}

Probab=95.55  E-value=0.014  Score=54.36  Aligned_cols=49  Identities=18%  Similarity=0.462  Sum_probs=41.3

Q ss_pred             cccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           18 CMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        18 ~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ...|.+|.+++..-+.-..|+|.|-..|+..|+...+...||.|+....
T Consensus       180 i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~  228 (238)
T 3nw0_A          180 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP  228 (238)
T ss_dssp             CCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCC
T ss_pred             CCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCC
Confidence            5679999999987766656999999999999997666678999997653

>3w1s_C Ubiquitin-like protein ATG12; ubiquitin fold, E3-like, ATG3 binding, isopeptide bond betwe Gly186 and ATG5 Lys149, ligase; 2.60A {Saccharomyces cerevisiae S288C}

Probab=94.72  E-value=0.055  Score=43.32  Aligned_cols=68  Identities=9%  Similarity=0.185  Sum_probs=48.9

Q ss_pred             CCCCCccceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCC-cCCCCccHHHHHHHHhhcCCCccceecccCCCcc
Q 017653          275 PLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQ-PVLSTLELHNLINWWVQTSSASERIQTVVGSSAK  353 (368)
Q Consensus       275 ~lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~-~~~~~~~l~~i~~~w~~~~~~~~~~~~~~~~~~~  353 (368)
                      .+|+|.++=.-| ++.+|+..+.+||+++|+|   .-|=+.+++. ...++.+|.+|++.+..                 
T Consensus        18 ~~P~l~k~KflV-~~~~t~~~~v~~lRkrL~l---~alFlyVNn~f~Ps~d~~~~~Ly~~fk~-----------------   76 (91)
T 3w1s_C           18 SIGQLKPSVCKI-SMSQSFAMVILFLKRRLKM---DHVYCYINNSFAPSPQQNIGELWMQFKT-----------------   76 (91)
T ss_dssp             C-------EEEE-ETTSBHHHHHHHHHHHHTC---SCCEEEETTTBCCCTTSBHHHHHHHHCB-----------------
T ss_pred             CCCcccccEEEc-CCCCCHHHHHHHHHHhhCC---ceEEEEECCccCCCcccHHHHHHHHhCC-----------------
Confidence            488998876678 9999999999999999999   3688888876 34557899999998852                 


Q ss_pred             ceEEEEeeec
Q 017653          354 DFVMVLSYGR  363 (368)
Q Consensus       354 ~~~m~l~y~r  363 (368)
                      |..++++|+-
T Consensus        77 dg~Lyv~Ys~   86 (91)
T 3w1s_C           77 NDELIVSYCA   86 (91)
T ss_dssp             TTEEEEEEEC
T ss_pred             CCEEEEEEeC
Confidence            3377888874

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=94.63  E-value=0.026  Score=55.89  Aligned_cols=71  Identities=20%  Similarity=0.426  Sum_probs=56.0

Q ss_pred             hcccccccCcccccccccceecCCCCCcccHHH--HHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHh
Q 017653           13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKC--IYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKI   86 (368)
Q Consensus        13 ~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~C--I~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl   86 (368)
                      ..+.-.|.|||-...+..|+.-..|.|.-|..-  +..+........||+|...+   ..++|..|..+.+++...
T Consensus       244 ~s~~vSL~CPlS~~ri~~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~---~~~dL~ID~~~~~IL~~~  316 (371)
T 3i2d_A          244 TSTIMSLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDI---ALENLAISEFVDDILQNC  316 (371)
T ss_dssp             CEEEEESBCTTTSSBCSSEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBC---CGGGEEEBHHHHHHHTTS
T ss_pred             eeeEEeecCCCccccccccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCccc---CHHHeeEcHHHHHHHHhc
Confidence            344556999999999999999989999977654  33444444679999999775   788999999998887654

>3rui_B Autophagy-related protein 8; autophagosome formation, non-canonical E1, ATP BI UBL, ATG8, ATG12, ATG10, ATG3, UBL activation, thiolation; 1.91A {Saccharomyces cerevisiae} SCOP: d.15.1.3 PDB: 2kq7_A 2zpn_A 3vxw_A 2kwc_A 2li5_A 3vh3_B 3vh4_B*

Probab=94.41  E-value=0.1  Score=43.61  Aligned_cols=72  Identities=21%  Similarity=0.246  Sum_probs=59.9

Q ss_pred             CCCCCcc-ceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHHHHHHhhcCCCccceecccCCCcc
Q 017653          275 PLPQISS-CYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAK  353 (368)
Q Consensus       275 ~lp~i~~-~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i~~~w~~~~~~~~~~~~~~~~~~~  353 (368)
                      .+|.|.+ +|| | +..+||..+..+|+++|+|..+.-+=+.+++.....+.+|.+|.+..-+                .
T Consensus        42 ~~P~ldk~Kfl-V-p~~~tv~qf~~~iRkrl~l~~~~alFl~Vn~~~p~~~~~m~~lY~~~kd----------------e  103 (118)
T 3rui_B           42 DIPEIDKRKYL-V-PADLTVGQFVYVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKD----------------K  103 (118)
T ss_dssp             CSCCCSCCEEE-E-ETTSBHHHHHHHHHHHTTCCTTCCEEEEBTTBCCCTTSBHHHHHHHHCC----------------T
T ss_pred             CCCccccceEE-c-CCCCCHHHHHHHHHHHhCcCCCccEEEEECCccCCccchHHHHHHHcCC----------------C
Confidence            5888887 566 8 9999999999999999999998889999998777778899999887743                2


Q ss_pred             ceEEEEeeecC
Q 017653          354 DFVMVLSYGRK  364 (368)
Q Consensus       354 ~~~m~l~y~r~  364 (368)
                      |..+.++|+..
T Consensus       104 DGfLyv~Ys~~  114 (118)
T 3rui_B          104 DGFLYVTYSGE  114 (118)
T ss_dssp             TSCEEEEEEEC
T ss_pred             CCeEEEEEecc
Confidence            55778888754

>3h9d_A ATG8, microtubule-associated protein 1A/1B, light chain putative; autophagy, lipidation, ubiquitin-like, S protein; 2.30A {Trypanosoma brucei} SCOP: d.15.1.0

Probab=94.37  E-value=0.073  Score=44.64  Aligned_cols=73  Identities=14%  Similarity=0.260  Sum_probs=60.5

Q ss_pred             CCCCCccceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHHHHHHhhcCCCccceecccCCCccc
Q 017653          275 PLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKD  354 (368)
Q Consensus       275 ~lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i~~~w~~~~~~~~~~~~~~~~~~~~  354 (368)
                      .+|.|.+.-.-| +..+||..+..+|+++|+|..+.-+=+.+++.....+.+|.+|.+...+.                |
T Consensus        43 ~~P~Ldk~KflV-p~~~tv~qf~~~iRkrl~l~~~~alFl~Vn~~~p~~~~~m~~lY~~~kd~----------------D  105 (119)
T 3h9d_A           43 DIGELDRCKFLV-PSDLTVGQFVSVLRKRVQLEAESALFVYTNDTVLPSSAQMADIYSKYKDE----------------D  105 (119)
T ss_dssp             SCCCCSSCEEEE-ETTCBHHHHHHHHHHHHTCCTTSCCEEEETTEECCTTSBHHHHHHHHCCT----------------T
T ss_pred             CCCccCcceEEc-CCCCCHHHHHHHHHHHhCCCccceEEEEECCcCCCccchHHHHHHHcCCC----------------C
Confidence            488888755557 99999999999999999999988899999998777788999988877432                5


Q ss_pred             eEEEEeeecC
Q 017653          355 FVMVLSYGRK  364 (368)
Q Consensus       355 ~~m~l~y~r~  364 (368)
                      ..+.++|+..
T Consensus       106 GfLyv~Ys~e  115 (119)
T 3h9d_A          106 GFLYMKYSGE  115 (119)
T ss_dssp             SCEEEEEECC
T ss_pred             CeEEEEEecc
Confidence            5788888754

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=94.18  E-value=0.043  Score=54.14  Aligned_cols=71  Identities=20%  Similarity=0.333  Sum_probs=55.9

Q ss_pred             hcccccccCcccccccccceecCCCCCcccHHH--HHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHh
Q 017653           13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKC--IYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKI   86 (368)
Q Consensus        13 ~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~C--I~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl   86 (368)
                      ..+.-.|.||+-...+..|+.-..|.|.-|..-  +..+........||+|...+   ..+.|+.|.-+.+++...
T Consensus       210 ~~~~vSL~CPlS~~ri~~P~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~---~~~dL~ID~~~~~IL~~~  282 (360)
T 4fo9_A          210 TSLRVSLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKA---AYESLILDGLFMEILNDC  282 (360)
T ss_dssp             CCEEEESBCTTTCSBCSSEEEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBC---CGGGEEEBHHHHHHHTTC
T ss_pred             eeeEEeeeCCCccceeccCCcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCccc---CHHHeEEcHHHHHHHHhC
Confidence            344557899999999999999989999966643  33344444679999999875   778999999999988753

>2r2q_A Gamma-aminobutyric acid receptor-associated protein-like 1; autophagy, ubiquitin homolog, structural genomics consortium, SGC, microtubule; 1.65A {Homo sapiens} PDB: 2l8j_A 1kjt_A 1kot_A 3d32_A 3dow_A 1gnu_A 1klv_A 1km7_A

Probab=94.11  E-value=0.14  Score=42.16  Aligned_cols=71  Identities=15%  Similarity=0.199  Sum_probs=57.8

Q ss_pred             CCCCCccceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHHHHHHhhcCCCccceecccCCCccc
Q 017653          275 PLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKD  354 (368)
Q Consensus       275 ~lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i~~~w~~~~~~~~~~~~~~~~~~~~  354 (368)
                      .+|.|.+.=.-| ++.+||..+..+|+++|+|..+.-+=+.++|....++.+|.+|.+...+                .|
T Consensus        39 ~~p~l~k~KflV-p~~~tv~~~~~~iRk~l~l~~~~alfl~vn~~~p~~~~~m~~LY~~~kd----------------~D  101 (110)
T 2r2q_A           39 RVPDLDKRKYLV-PSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTIPPTSATMGQLYEDNHE----------------ED  101 (110)
T ss_dssp             CSCCCSCCEEEE-ETTCBHHHHHHHHHHHTTCCTTSCCEEEBTTBCCCTTSBHHHHHHHHCC----------------TT
T ss_pred             CCCccceeEEEe-CCCCcHHHHHHHHHHHhcCCCCCcEEEEECCEecCccChHHHHHHHcCC----------------CC
Confidence            377787755556 7899999999999999999999889999999877788889888886633                25


Q ss_pred             eEEEEeee
Q 017653          355 FVMVLSYG  362 (368)
Q Consensus       355 ~~m~l~y~  362 (368)
                      ..+.++|+
T Consensus       102 GfLyi~Ys  109 (110)
T 2r2q_A          102 YFLYVAYS  109 (110)
T ss_dssp             SCEEEEEE
T ss_pred             CEEEEEEe
Confidence            57778875

>1eo6_A GATE-16, golgi-associated ATPase enhancer of 16 KD; ubiquitin fold, protein binding; 1.80A {Bos taurus} SCOP: d.15.1.3

Probab=93.84  E-value=0.13  Score=42.83  Aligned_cols=71  Identities=21%  Similarity=0.246  Sum_probs=58.4

Q ss_pred             CCCCcc-ceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHHHHHHhhcCCCccceecccCCCccc
Q 017653          276 LPQISS-CYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKD  354 (368)
Q Consensus       276 lp~i~~-~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i~~~w~~~~~~~~~~~~~~~~~~~~  354 (368)
                      +|.|.+ +|+ | ++.+||..+..+|+++|+|.++.-+=+.++|....++.+|.+|.+...+                .|
T Consensus        41 ~p~l~k~Kfl-V-p~~~tv~~f~~~iRk~l~l~~~~alfl~vn~~~p~~~~~m~~LY~~~kd----------------~D  102 (117)
T 1eo6_A           41 IVDIDKRKYL-V-PSDITVAQFMWIIRKRIQLPSEKAIFLFVDKTVPQSSLTMGQLYEKEKD----------------ED  102 (117)
T ss_dssp             SCCCSCCEEE-E-ETTSBHHHHHHHHHHHHTCCTTSCCEEEBTTBCCCTTSBHHHHHHHHCC----------------TT
T ss_pred             CCcccceEEE-c-CCCCCHHHHHHhhHHhhcCCCCCcEEEEECCEecCccchHHHHHHHhCC----------------CC
Confidence            778876 565 7 8899999999999999999999889999999877778889888887632                25


Q ss_pred             eEEEEeeecC
Q 017653          355 FVMVLSYGRK  364 (368)
Q Consensus       355 ~~m~l~y~r~  364 (368)
                      ..+.++|...
T Consensus       103 GfLyi~Ys~~  112 (117)
T 1eo6_A          103 GFLYVAYSGE  112 (117)
T ss_dssp             SCEEEEEECC
T ss_pred             CEEEEEEeCC
Confidence            5788888754

>3m95_A Autophagy related protein ATG8; alpha slash beta, receptor, transport protein; 2.40A {Bombyx mori} SCOP: d.15.1.3

Probab=93.66  E-value=0.14  Score=43.35  Aligned_cols=73  Identities=15%  Similarity=0.165  Sum_probs=59.9

Q ss_pred             CCCCCccceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHHHHHHhhcCCCccceecccCCCccc
Q 017653          275 PLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKD  354 (368)
Q Consensus       275 ~lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i~~~w~~~~~~~~~~~~~~~~~~~~  354 (368)
                      .+|.|.+.=.-| +..+||..+..+|+++|+|.++.-+=+.+++.....+.+|.+|.+...+.                |
T Consensus        48 ~lP~LdK~KflV-p~~~tv~qf~~~IRkrl~L~~~~alFl~Vnn~lPs~s~~m~~lY~~~kde----------------D  110 (125)
T 3m95_A           48 RLGDLDKKKYLV-PSDLTVGQFYFLIRKRIHLRPEDALFFFVNNVIPPTSATMGSLYQEHHDE----------------D  110 (125)
T ss_dssp             SSCCCSCCEEEE-ETTSBHHHHHHHHHHHTTCCTTSCCEEEBTTBCCCTTSBHHHHHHHHCCT----------------T
T ss_pred             CCccccCCEEEc-CCCCEeeeehhhhHhhcCCCccccEEEEECCccCCccchHHHHHHHcCCC----------------C
Confidence            488887754447 89999999999999999999988899999987777788999998877442                5


Q ss_pred             eEEEEeeecC
Q 017653          355 FVMVLSYGRK  364 (368)
Q Consensus       355 ~~m~l~y~r~  364 (368)
                      ..+.++|+..
T Consensus       111 GfLY~~Ys~e  120 (125)
T 3m95_A          111 FFLYIAFSDE  120 (125)
T ss_dssp             SCEEEEEESS
T ss_pred             CeEEEEecCc
Confidence            5788888754

>1wz3_A Autophagy 12B, ATG12B, APG12B; ubiquitin-fold, plant protein; 1.80A {Arabidopsis thaliana} SCOP: d.15.1.7

Probab=93.50  E-value=0.21  Score=40.28  Aligned_cols=67  Identities=13%  Similarity=0.129  Sum_probs=53.6

Q ss_pred             eEEEEEecCCCCCCCCCCCCccceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcC-CcCCCCccHHHHHHHHhh
Q 017653          260 IWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRG-QPVLSTLELHNLINWWVQ  336 (368)
Q Consensus       260 iwf~l~~~~~q~~~~~lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g-~~~~~~~~l~~i~~~w~~  336 (368)
                      |-+.+.+-.      .+|.|.++=.-| ++.++|..+.+||+++|+|.   -+=+.+++ -...++.+|.+|++....
T Consensus        14 V~V~~~~~~------~~P~l~k~KflV-~~~~t~~~~~~~lRkrL~l~---alFlyvn~~~~Ps~d~~m~~LY~~~kd   81 (96)
T 1wz3_A           14 IVVHLRATG------GAPILKQSKFKV-SGSDKFANVIDFLRRQLHSD---SLFVYVNSAFSPNPDESVIDLYNNFGF   81 (96)
T ss_dssp             EEEEEEECT------TCCCCSCCEEEE-ETTSBTHHHHHHHHHHHTCS---SCEEEEEEEECCCTTSBHHHHHHHHCB
T ss_pred             EEEEEEECC------CCCcccccEEEe-CCCCcHHHHHHHHHHhcCCc---eEEEEECCcccCChhhHHHHHHHHhCC
Confidence            555555332      388888887788 99999999999999999998   77777777 555678899999988754

>2zjd_A Microtubule-associated proteins 1A/1B light chain 3B precursor; autophagy, LC3, microtubule-associated protein 1 light chain 3, cytoplasm, cytoplasmic vesicle, lipoprotein; 1.56A {Homo sapiens} SCOP: d.15.1.3 PDB: 2z0e_B 2zzp_B 2z0d_B 1ugm_A 1v49_A 2k6q_A 3eci_A

Probab=92.90  E-value=0.17  Score=42.99  Aligned_cols=71  Identities=15%  Similarity=0.197  Sum_probs=57.3

Q ss_pred             CCCCCcc-ceeeeeCCCccHHHHHHHHHHHhCCCchhhhhh-hhcCCcCCCCccHHHHHHHHhhcCCCccceecccCCCc
Q 017653          275 PLPQISS-CYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEI-SLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSA  352 (368)
Q Consensus       275 ~lp~i~~-~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei-~c~g~~~~~~~~l~~i~~~w~~~~~~~~~~~~~~~~~~  352 (368)
                      .+|.|.+ +|| | ++.+||..+..+|+++|+|..+.-+=+ .+++....++.+|.+|.+...+                
T Consensus        48 ~~P~Ldk~Kfl-V-p~~~tv~qf~~~iRkrL~l~~~~alFl~~vn~~~p~~~~~m~~lY~~~kd----------------  109 (130)
T 2zjd_A           48 QLPVLDKTKFL-V-PDHVNMSELIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESEKD----------------  109 (130)
T ss_dssp             SSCCCSCCEEE-E-ETTCBHHHHHHHHHHHHTCCTTCCEEEEETTTEECCTTSBHHHHHHHHCC----------------
T ss_pred             cCccccccEEE-c-CCCCcHHHHHHHHHHHhCCCCCceEEEEEECCccCCccchHHHHHHHhCC----------------
Confidence            3788877 565 7 999999999999999999999888888 7777766778888888887633                


Q ss_pred             cceEEEEeeec
Q 017653          353 KDFVMVLSYGR  363 (368)
Q Consensus       353 ~~~~m~l~y~r  363 (368)
                      .|..+.++|..
T Consensus       110 eDGfLyv~Ys~  120 (130)
T 2zjd_A          110 EDGFLYMVYAS  120 (130)
T ss_dssp             TTSCEEEEEEE
T ss_pred             CCCEEEEEEeC
Confidence            25578888864

>3gs2_A E3 ubiquitin-protein ligase RING2; RING1B, CBOX, CBX7, polycomb, E3-ligase, chromosomal protein transcription regulation, chromatin regulator; 1.70A {Homo sapiens} PDB: 3ixs_A* 3h8h_A*

Probab=92.48  E-value=0.25  Score=40.58  Aligned_cols=75  Identities=19%  Similarity=0.354  Sum_probs=49.4

Q ss_pred             eEEEEEecCCC-CCCCCCCCCccceeeeeCCCccHHHHHHHHHHHhCCCc-hh-------------hhhh---hh--cCC
Q 017653          260 IWFSLVASDEQ-EGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLIS-EA-------------EVEI---SL--RGQ  319 (368)
Q Consensus       260 iwf~l~~~~~q-~~~~~lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~l~~-e~-------------evei---~c--~g~  319 (368)
                      |-+.+.+++.- .++. .  ...+||.. .+++||.||-|||+.+|.|+. ..             +++.   +.  .||
T Consensus         4 iELVFrPHPt~~~~d~-~--~~~RYIKT-t~nATVDHLsKYLA~Rl~Le~~~~~~e~~~~~~~~~~~~~~~IYia~~~gq   79 (111)
T 3gs2_A            4 IELVFRPHPTLMEKDD-S--AQTRYIKT-SGNATVDHLSKYLAVRLALEELRSKGESNQMNLDTASEKQYTIYIATASGQ   79 (111)
T ss_dssp             EEEEEEECTTTSCCCT-T--CCCEEEEE-ETTCBHHHHHHHHHHHHHHHHHHHHHHSSCCSCCC--CCCEEEEEECTTSC
T ss_pred             eEEEecCCcccccccc-h--hceEEEEc-CCCccHHHHHHHHHHHHhHHHhhccccccccCccccceeeeEEEEccCCCe
Confidence            44455554433 2222 2  24489999 999999999999999988872 11             1111   11  122


Q ss_pred             --cCCCCccHHHHHH-HHhhcC
Q 017653          320 --PVLSTLELHNLIN-WWVQTS  338 (368)
Q Consensus       320 --~~~~~~~l~~i~~-~w~~~~  338 (368)
                        .|.-++||+.|-+ .|--..
T Consensus        80 ~~~L~gs~tLe~VneKywkvnk  101 (111)
T 3gs2_A           80 FTVLDGSFSLELVSEKYWKVNK  101 (111)
T ss_dssp             EEECCTTSBHHHHHHHHTCSSS
T ss_pred             EEEccCcccHHHHhhhhccCCC
Confidence              5788999999999 886554

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=88.26  E-value=0.24  Score=38.82  Aligned_cols=44  Identities=27%  Similarity=0.688  Sum_probs=33.5

Q ss_pred             cccccCcccccccccceecCCC----CCcccHHHHHHHhhccC---CCcccC
Q 017653           16 VACMTCPLCSKLFRDATTISEC----LHSFCRKCIYEKITEEE---IDSCPV   60 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dPv~l~~C----gHtFC~~CI~~~l~~~~---~~~CP~   60 (368)
                      ...+.|.+|.+-+.+-... .|    +|.||..|-..++...+   ...||.
T Consensus        13 ~a~l~CtlC~erLEdtHFV-QCPsv~~HkFCFpCsr~sIk~q~~~~EvyCPS   63 (93)
T 2cs3_A           13 SGPLCCTICHERLEDTHFV-QCPSVPSHKFCFPCSRESIKAQGATGEVYCPS   63 (93)
T ss_dssp             CCSCCCSSSCSCCSSTTSE-ECSSCSSCEECHHHHHHHHHHHHSSSCCCCTT
T ss_pred             CCeeEeecchhhhccCcee-eCCCccCCeeeccccHHHHHhcCCCCcEECCC
Confidence            4578999999999987666 45    69999999988886542   244554

>3dbh_I NEDD8; cell cycle, activating enzyme, apoptosis, membrane, UBL conjugation pathway, ATP-binding, ligase, nucleotide- binding, polymorphism; 2.85A {Homo sapiens} SCOP: d.15.1.1 PDB: 3dbr_I 3dbl_I

Probab=87.67  E-value=0.34  Score=36.76  Aligned_cols=46  Identities=11%  Similarity=0.127  Sum_probs=40.6

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .|.| +...||..||..|..+.+++.+ +.-+++.|..|.+..||.+.
T Consensus        26 ~~~v-~~~~tV~~lK~~i~~~~gip~~-~qrL~~~G~~L~d~~tL~~~   71 (88)
T 3dbh_I           26 EIDI-EPTDKVERIKERVEEKEGIPPQ-QQRLIYSGKQMNDEKTAADY   71 (88)
T ss_dssp             EEEE-CTTCBHHHHHHHHHHHHCCCGG-GCCEEETTEECCTTSBGGGG
T ss_pred             EEEE-CCCCCHHHHHHHHHHHHCcCHH-HEEEEECCeECCCCCcHHHc
Confidence            5788 8899999999999999999975 56889999999999888764

>2uyz_B Small ubiquitin-related modifier 1; sumoylation, cell division, nuclear protein, ubiquitin-like modifier, UBL conjugation pathway; 1.4A {Homo sapiens} SCOP: d.15.1.1 PDB: 2vrr_B 2iy0_B 2iy1_B 2g4d_B 2las_A 2io2_B 1z5s_B 3uip_B* 1tgz_B* 2bf8_B

Probab=87.28  E-value=0.44  Score=35.56  Aligned_cols=46  Identities=11%  Similarity=0.151  Sum_probs=41.2

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .+.| +...||..|++.+..+.|++.+ +.-+++.|.+|.+..||.+.
T Consensus        17 ~~~v-~~~~tv~~lk~~i~~~~gi~~~-~qrL~~~G~~L~d~~tl~~~   62 (79)
T 2uyz_B           17 HFKV-KMTTHLKKLKESYCQRQGVPMN-SLRFLFEGQRIADNHTPKEL   62 (79)
T ss_dssp             EEEE-ETTSCTHHHHHHHHHHHTCCGG-GEEEEETTEECCTTCCHHHH
T ss_pred             EEEE-CCCChHHHHHHHHHHHHCCCcc-cEEEEECCEEeCCCCCHHHc
Confidence            5788 7889999999999999999875 77889999999999998875

>3a9j_A Ubiquitin; protein complex, cytoplasm, isopeptide bond, metal-binding, zinc; 1.18A {Mus musculus} PDB: 3a1q_B 2znv_B 3a9k_A 3h7p_A 3jsv_A 3dvg_Y 3dvn_Y 3nob_A 2o6v_D* 3jw0_X 3jvz_X 3nhe_B* 1aar_A 1d3z_A 1f9j_A 1fxt_B 1g6j_A 1nbf_C 1cmx_B 1q5w_B ...

Probab=86.91  E-value=0.31  Score=35.61  Aligned_cols=46  Identities=15%  Similarity=0.196  Sum_probs=38.9

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .+.+ +.+.||..||+.|..+.+++.+ +.-+++.|..+.+..+|.+.
T Consensus        14 ~i~v-~~~~tv~~lK~~i~~~~~i~~~-~q~L~~~g~~L~d~~tL~~~   59 (76)
T 3a9j_A           14 TLEV-EPSDTIENVKAKIQDKEGIPPD-QQRLIFAGKQLEDGRTLSDY   59 (76)
T ss_dssp             EEEC-CTTCBHHHHHHHHHHHHCCCGG-GEEEEETTEECCTTCBTGGG
T ss_pred             EEEE-CCCCcHHHHHHHHHHHHCcCHH-HeEEEECCeECCCCCcHHHc
Confidence            4677 7889999999999999999874 77889999999888777643

>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon, inhibitor, ubiqu acetylation, cytoplasm, isopeptide bond, nucleus; 2.60A {Homo sapiens} SCOP: d.15.1.1

Probab=86.85  E-value=0.29  Score=36.88  Aligned_cols=46  Identities=15%  Similarity=0.205  Sum_probs=39.7

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .+.+ +...||..||..|..+.+++.+ +.-+++.|.++.++.||.+.
T Consensus        17 ~~~v-~~~~tV~~lK~~i~~~~~ip~~-~qrL~~~g~~L~d~~tL~~~   62 (85)
T 3n3k_B           17 ILEV-EPSDTIENVKAKIQDKEGIPPD-QQRLIFAGKQLEDGRTLSDY   62 (85)
T ss_dssp             EEEC-CTTCBHHHHHHHHHHHHCCCGG-GEEEEETBEECCTTCBTTTT
T ss_pred             EEEE-CCCCcHHHHHHHHHHHHCCCHH-HEEEEECCeECCCCCCHHHC
Confidence            4677 7899999999999999999985 56889999999998887663

>4eew_A Large proline-rich protein BAG6; ubiquitin-like fold, GP78-binding, chaperone; 1.30A {Homo sapiens}

Probab=86.46  E-value=0.39  Score=36.71  Aligned_cols=45  Identities=18%  Similarity=0.245  Sum_probs=39.6

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      .+.+ +.+.||..||..|..+.|++.+. .-+++.|..+.+..+|.+
T Consensus        31 ~~~v-~~~~tV~~lK~~i~~~~gip~~~-qrLi~~Gk~L~D~~tL~~   75 (88)
T 4eew_A           31 TFIV-GAQMNVKEFKEHIAASVSIPSEK-QRLIYQGRVLQDDKKLQE   75 (88)
T ss_dssp             EEEE-ETTCBHHHHHHHHHHHHTCCGGG-EEEEETTEECCTTSBGGG
T ss_pred             EEEE-CCCCCHHHHHHHHHHHhCCCHHH-EEEEECCEECCCCCcHHH
Confidence            4688 88999999999999999998865 488899999999888865

>1wh3_A 59 kDa 2'-5'-oligoadenylate synthetase like protein; P59 OASL, ubiquitin family, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=86.35  E-value=0.69  Score=35.07  Aligned_cols=46  Identities=15%  Similarity=0.137  Sum_probs=40.3

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .+.+ +...||..||+.|..+.+++.+ +.-+++.|.+|.+..||.+.
T Consensus        21 ~~~v-~~~~tV~~lK~~i~~~~gi~~~-~qrL~~~Gk~L~d~~tL~~~   66 (87)
T 1wh3_A           21 AYAI-NPNSFILGLKQQIEDQQGLPKK-QQQLEFQGQVLQDWLGLGIY   66 (87)
T ss_dssp             EEEE-CSSSBHHHHHHHHHHHTCCCTT-TEEEEETTEECCSSSBHHHH
T ss_pred             EEEe-CCCChHHHHHHHHHHHhCCChH-HEEEEECCEEccCCCCHHHC
Confidence            4778 7899999999999999999874 66788999999999998765

>4dwf_A HLA-B-associated transcript 3; ubiquitin-like domain, BAT3 protein, PF00240, structural GEN joint center for structural genomics, JCSG; 1.80A {Homo sapiens} PDB: 1wx9_A

Probab=86.27  E-value=0.37  Score=37.03  Aligned_cols=46  Identities=17%  Similarity=0.251  Sum_probs=40.2

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .|.| +...||..||+.|..+.+++.+ +.-+++.|..|.+..+|.+.
T Consensus        19 ~~~v-~~~~tV~~lK~~i~~~~gip~~-~qrLi~~Gk~L~d~~tL~~~   64 (90)
T 4dwf_A           19 TFIV-GAQMNVKEFKEHIAASVSIPSE-KQRLIYQGRVLQDDKKLQEY   64 (90)
T ss_dssp             EEEE-ETTCBHHHHHHHHHHHHTCCGG-GEEEEETTEECCTTSBGGGG
T ss_pred             EEEE-CCCCCHHHHHHHHHHHhCCCHH-HEEEEECCeECCCCCCHHHc
Confidence            4788 7899999999999999999885 55788999999999888764

>3mtn_B UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquitin-specific protease activity, hydrolase, ubiquitin B structural genomics consortium, SGC; 2.70A {Homo sapiens} SCOP: d.15.1.1

Probab=86.22  E-value=0.39  Score=36.03  Aligned_cols=46  Identities=15%  Similarity=0.196  Sum_probs=39.8

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .+.+ +.+.||..||..|..+.+++.+ +.-+++.|..|.+..+|.+.
T Consensus        17 ~~~v-~~~~tV~~lK~~i~~~~~i~~~-~qrL~~~g~~L~d~~tL~~~   62 (85)
T 3mtn_B           17 TLEV-EPSDTIENVKAKIQDKEGIPPD-QQRLIFAGKQLEDGRTLSDY   62 (85)
T ss_dssp             EEEE-CTTCBHHHHHHHHHHHHCCCGG-GCEEEETTEECCTTSBTGGG
T ss_pred             EEEE-CCCCCHHHHHHHHHHHHCcChH-HEEEEECCEECCCCCCHHHc
Confidence            4778 8899999999999999999885 56788999999998887663

>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Homo sapiens}

Probab=85.91  E-value=0.52  Score=35.18  Aligned_cols=45  Identities=16%  Similarity=0.203  Sum_probs=39.5

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      .+.+ +...||..||..|..+.|++.+ +.-+++.|..+.+..||.+
T Consensus        18 ~~~v-~~~~tV~~lK~~i~~~~gip~~-~qrL~~~G~~L~d~~tL~~   62 (79)
T 3phx_B           18 TYEV-RLTQTVAHLKQQVSGLEGVQDD-LFWLTFEGKPLEDQLPLGE   62 (79)
T ss_dssp             EEEE-CTTSBHHHHHHHHHHHHTCCGG-GEEEEETTEECCTTSBGGG
T ss_pred             EEEE-CCcChHHHHHHHHHhhcCCCHH-HEEEEECCEECCCCCcHHH
Confidence            4788 8899999999999999999975 5688899999999888865

>1ndd_A NEDD8, protein (ubiquitin-like protein NEDD8); proteolysis, signaling protei; 1.60A {Homo sapiens} SCOP: d.15.1.1 PDB: 1r4m_I 1r4n_I* 1xt9_B 2ko3_A 3gzn_I* 2bkr_B 2nvu_I* 3dqv_A 1bt0_A

Probab=85.77  E-value=0.46  Score=34.69  Aligned_cols=46  Identities=11%  Similarity=0.113  Sum_probs=39.1

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .+.+ +.+.||..||..|..+.+++. ++.-+++.|.++.+..+|.+.
T Consensus        14 ~~~v-~~~~tv~~lK~~i~~~~~i~~-~~q~L~~~g~~L~d~~tL~~~   59 (76)
T 1ndd_A           14 EIDI-EPTDKVERIKERVEEKEGIPP-QQQRLIYSGKQMNDEKTAADY   59 (76)
T ss_dssp             EEEC-CTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTSBGGGG
T ss_pred             EEEE-CCCChHHHHHHHHHHHHCcCh-HHEEEEECCEECCCCCcHHHc
Confidence            4677 778999999999999999987 467788999999888887653

>2dzi_A Ubiquitin-like protein 4A; GDX, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=85.63  E-value=0.46  Score=35.39  Aligned_cols=46  Identities=22%  Similarity=0.310  Sum_probs=39.4

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .+.+ +...||..||+.|..+.+++.+ +.-+++.|..+.+..+|.+.
T Consensus        21 ~~~v-~~~~tV~~LK~~i~~~~~i~~~-~qrL~~~gk~L~d~~tL~~~   66 (81)
T 2dzi_A           21 SLQV-PEDELVSTLKQLVSEKLNVPVR-QQRLLFKGKALADGKRLSDY   66 (81)
T ss_dssp             EEEE-CSSCBHHHHHHHHHHHTCCCTT-TCEEEETTEECCTTSBGGGG
T ss_pred             EEEE-CCCCcHHHHHHHHHHHHCcCHH-HEEEEECCeECCCCCcHHHc
Confidence            4678 8899999999999999999874 67788999999888887653

>2bwf_A Ubiquitin-like protein DSK2; signaling protein, UBA, signaling proteins; 1.15A {Saccharomyces cerevisiae} SCOP: d.15.1.1 PDB: 2bwe_S

Probab=85.55  E-value=0.44  Score=35.12  Aligned_cols=46  Identities=15%  Similarity=0.087  Sum_probs=39.3

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .+.+ +.+.||..||..|..+.|++. ++.-+++.|..+.+..+|.+.
T Consensus        17 ~~~v-~~~~tV~~LK~~i~~~~~i~~-~~qrL~~~gk~L~d~~tL~~~   62 (77)
T 2bwf_A           17 EVNV-APESTVLQFKEAINKANGIPV-ANQRLIYSGKILKDDQTVESY   62 (77)
T ss_dssp             EEEE-CTTCBHHHHHHHHHHHHCCCG-GGEEEEETTEECCTTSBTGGG
T ss_pred             EEEE-CCCCcHHHHHHHHHHHhCCCH-HHEEEEECCeEcCCCCCHHHc
Confidence            4678 889999999999999999986 477788999999888777653

>4hcn_B Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidase, NEDD8, protein binding; 2.60A {Saccharomyces cerevisiae}

Probab=85.14  E-value=0.43  Score=37.59  Aligned_cols=46  Identities=15%  Similarity=0.216  Sum_probs=39.6

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .|.| +...||..||+.|..+.+++.+ +.-+++.|..|.+..+|.+.
T Consensus        36 ~l~v-~~~~TV~~LK~~I~~~~gip~~-~qrLi~~Gk~L~D~~tL~~~   81 (98)
T 4hcn_B           36 TLEV-ESSDTIDNVKSKIQDKEGIPPD-QQRLIFAGKQLEDGRTLSDY   81 (98)
T ss_dssp             EEEC-CTTCBHHHHHHHHHHHHCCCGG-GCEEEETTEECCTTCBSGGG
T ss_pred             EEEE-CCCCcHHHHHHHHHHHhCCChh-HEEEEECCEECCCCCcHHHC
Confidence            4778 8899999999999999999885 55888999999998887653

>1wx8_A Riken cDNA 4931431F19; ubiquitin-like domain, ubiquilin 1-like, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1

Probab=85.12  E-value=0.73  Score=35.87  Aligned_cols=46  Identities=15%  Similarity=0.092  Sum_probs=40.7

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .+++ +...||..||+.|..+.+++.+ +.-+++.|..|.+..||.+.
T Consensus        30 ~~~v-~~~~TV~~LK~~I~~~~gip~~-~qrL~~~Gk~L~D~~tL~~~   75 (96)
T 1wx8_A           30 EFFL-AENSNVRRFKKQISKYLHCNAD-RLVLIFTGKILRDQDILSQR   75 (96)
T ss_dssp             EEEE-ETTCCHHHHHHHHHHHTCSCTT-TBCCEETTEECCTTSCHHHH
T ss_pred             EEEE-CCCCCHHHHHHHHHHHhCCCHH-HEEEEECCEECCCcCCHHHC
Confidence            5788 7899999999999999999875 67788999999999998874

>3v6c_B Ubiquitin; structural genomics, structural genomics consortium, SGC, UB protease, hydrolase-signaling protein complex; 1.70A {Homo sapiens} PDB: 3v6e_B

Probab=84.49  E-value=0.61  Score=36.03  Aligned_cols=45  Identities=16%  Similarity=0.200  Sum_probs=39.7

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      .+++ +...||..||..|..+.|++.+ +.-+++.|..+.+..||.+
T Consensus        31 ~l~v-~~~~TV~~LK~~I~~~~gip~~-~qrL~~~Gk~L~D~~tL~~   75 (91)
T 3v6c_B           31 TLEV-EPSDTIENVKAKIQDKEGIPPD-QQRLIFAGKQLEDGRTLSD   75 (91)
T ss_dssp             EEEE-CTTCBHHHHHHHHHHHHCCCGG-GCEEEETTEECCTTCBTGG
T ss_pred             EEEE-CCCCCHHHHHHHHHhhhCCChh-hEEEEECCeECCCcCcHHH
Confidence            5788 8899999999999999999885 5688899999999888765

>1wyw_B Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Homo sapiens} SCOP: d.15.1.1 PDB: 1y8r_C* 2asq_A 2pe6_B 1a5r_A 2kqs_A 3kyc_D* 3rzw_C

Probab=84.34  E-value=0.72  Score=36.32  Aligned_cols=61  Identities=11%  Similarity=0.159  Sum_probs=49.0

Q ss_pred             CCeEEEEEecCCCCCCCCCCCCccceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          258 GPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       258 ~~iwf~l~~~~~q~~~~~lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      ..+.+.+.   .+.|.       .-.|.| +...||..|++.|..+.|++.+ +.-+++.|..|.+..||.+.
T Consensus        20 ~~m~I~Vk---~~~g~-------~~~l~v-~~~~tv~~lK~~i~~~~gip~~-~qrLif~Gk~L~d~~tl~dy   80 (97)
T 1wyw_B           20 EYIKLKVI---GQDSS-------EIHFKV-KMTTHLKKLKESYCQRQGVPMN-SLRFLFEGQRIADNHTPKEL   80 (97)
T ss_dssp             CEEEEEEE---CTTCC-------EEEEEE-ETTSCTHHHHHHHHHHHTCCGG-GEEEEETTEECCTTCCHHHH
T ss_pred             CcEEEEEE---eCCCC-------EEEEEE-CCCCcHHHHHHHHHHHHCCChh-hEEEEECCeEcCCCCCHHHC
Confidence            44777777   33332       135888 7899999999999999999875 77899999999999998875

>2hj8_A Interferon-induced 17 kDa protein; HR2873B, human ISG15, structure, northeast structural genomics consortium, protein structure initiative, NESG; NMR {Homo sapiens}

Probab=84.28  E-value=1  Score=34.53  Aligned_cols=46  Identities=15%  Similarity=0.199  Sum_probs=40.1

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .+.+ +...||..||..|..+.|++.+ +.-+++.|.+|.+..||.+.
T Consensus        18 ~~~v-~~~~TV~~LK~~I~~~~gip~~-~qrL~~~Gk~L~D~~tL~~~   63 (88)
T 2hj8_A           18 TYEV-RLTQTVAHLKQQVSGLEGVQDD-LFWLTFEGKPLEDQLPLGEY   63 (88)
T ss_dssp             EEEE-ESSSBHHHHHHHHHHHTCSCTT-TEEEESSSSCCCTTSBHHHH
T ss_pred             EEEE-CCCCcHHHHHHHHHHHhCCChh-HEEEEECCEECCCCCcHHHc
Confidence            4778 7889999999999999999875 66788999999999888765

>1wx7_A Ubiquilin 3; ubiquitin-like domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=84.26  E-value=0.71  Score=36.87  Aligned_cols=46  Identities=11%  Similarity=0.150  Sum_probs=40.7

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .|.| +...||..||+.|..+.+++. .+.-|++.|..|.+..+|.+.
T Consensus        30 ~l~v-~~~~TV~~LK~~I~~~~gip~-~~qrLi~~Gk~L~D~~tL~~~   75 (106)
T 1wx7_A           30 DFSV-TDTCTIQQLKEEISQRFKAHP-DQLVLIFAGKILKDPDSLAQC   75 (106)
T ss_dssp             EEEE-ETTCCHHHHHHHHHHHHTCCT-TTEEEEETTEECCTTSCHHHH
T ss_pred             EEEE-CCCCcHHHHHHHHHHHHCcCh-hhEEEEECCEECCCcCcHHHc
Confidence            5788 889999999999999999986 467788999999999998765

>3k9o_B Ubiquitin, UBB+1; E2-25K, complex structure, ATP-binding, isopeptide BO ligase, nucleotide-binding, UBL conjugation pathway; 1.80A {Homo sapiens} PDB: 2k25_A 2kx0_A

Probab=84.25  E-value=0.48  Score=36.73  Aligned_cols=46  Identities=15%  Similarity=0.196  Sum_probs=40.2

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .|.| +...||..||..|..+.+++.+ +.-+++.|..|.++.||.+.
T Consensus        15 ~~~v-~~~~TV~~LK~~i~~~~gip~~-~qrL~~~G~~L~d~~tL~~~   60 (96)
T 3k9o_B           15 TLEV-EPSDTIENVKAKIQDKEGIPPD-QQRLIFAGKQLEDGRTLSDY   60 (96)
T ss_dssp             EEEC-CTTCBHHHHHHHHHHHHCCCGG-GEEEEETTEECCTTSBTGGG
T ss_pred             EEEE-CCCCCHHHHHHHHHhhhCCChh-HEEEEECCEECCCCCcHHHc
Confidence            4678 8899999999999999999875 56888999999999888764

>4fbj_B NEDD8; effector-HOST target complex, glutamine deamidase, deamidati bacterial effector, cell cycle-protein binding complex; 1.60A {Homo sapiens} PDB: 4f8c_B

Probab=84.11  E-value=0.56  Score=36.16  Aligned_cols=46  Identities=11%  Similarity=0.127  Sum_probs=40.1

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .|.| +.+.||..||..|..+.+++.+ +.-+++.|..|.+..||.+.
T Consensus        14 ~l~v-~~~~TV~~LK~~I~~~~gip~~-~qrLi~~Gk~L~D~~tL~~~   59 (88)
T 4fbj_B           14 EIDI-EPTDKVERIKERVEEKEGIPPQ-QQRLIYSGKQMNDEKTAADY   59 (88)
T ss_dssp             EEEC-CTTCBHHHHHHHHHHHHCCCGG-GCEEEETTEECCTTSBTTTT
T ss_pred             EEEE-CCCCCHHHHHHHHHHHHCcChh-HEEEEECCeECCCCCcHHHc
Confidence            4677 8899999999999999999885 55889999999999888764

>2l7r_A Ubiquitin-like protein FUBI; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; NMR {Homo sapiens}

Probab=83.76  E-value=0.93  Score=35.37  Aligned_cols=46  Identities=22%  Similarity=0.277  Sum_probs=40.3

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .+.+ +...||..||+.|..+.+++.+ +.-+++.|.+|.+..||.+.
T Consensus        31 ~l~v-~~~~TV~~LK~~I~~~~gip~~-~qrLi~~Gk~L~D~~tL~~y   76 (93)
T 2l7r_A           31 TFEV-TGQETVAQIKAHVASLEGIAPE-DQVVLLAGAPLEDEATLGQC   76 (93)
T ss_dssp             EEEC-CSSCBHHHHHHHHHHHHTCCGG-GCEEEETTEECCTTSBHHHH
T ss_pred             EEEe-CCCCcHHHHHHHHHHHhCcChh-HEEEEECCEECCCCCcHHHC
Confidence            4788 8899999999999999999874 66788999999999888765

>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana, uncharacterized putative protein, NESG, structural genomics; NMR {Arabidopsis thaliana}

Probab=82.95  E-value=1.1  Score=34.31  Aligned_cols=46  Identities=17%  Similarity=0.191  Sum_probs=39.8

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCc-CCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQP-VLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~-~~~~~~l~~i  330 (368)
                      .+.+ +...||..||.-|..+.|++.+ +.-+++.|.+ +.+..||.+.
T Consensus        24 ~l~v-~~~~TV~~LK~~I~~~~gip~~-~QrLi~~Gk~lL~D~~tL~~y   70 (84)
T 2kk8_A           24 ELEV-DYRDTLLVVKQKIERSQHIPVS-KQTLIVDGIVILREDLTVEQC   70 (84)
T ss_dssp             EEEE-CTTSBHHHHHHHHHHHHTCCGG-GEEEEETTEECCCSSSBHHHH
T ss_pred             EEEE-CCCChHHHHHHHHHHHHCcChH-HEEEEECCEEecCCcCCHHHc
Confidence            3678 8899999999999999999874 6678899999 9999888764

>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta, structural genomics, protein structure initiative; NMR {Arabidopsis thaliana}

Probab=82.73  E-value=2.9  Score=32.66  Aligned_cols=64  Identities=16%  Similarity=0.123  Sum_probs=49.4

Q ss_pred             CCCcCCeEEEEEecCCCCCCCCCCCCccceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCC-ccHHHH
Q 017653          254 DGRFGPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLST-LELHNL  330 (368)
Q Consensus       254 ~~~~~~iwf~l~~~~~q~~~~~lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~-~~l~~i  330 (368)
                      +.....+.+.+....         .  .--|.+ +...||..||+.|..+.|++.+ +.-+++.|.+|.+. .||.+.
T Consensus        10 ~~~~~~~~I~Vk~~~---------~--~~~l~v-~~~~TV~~LK~~I~~~~gip~~-~QrLi~~Gk~L~D~~~tL~~y   74 (94)
T 2kan_A           10 HAAVRKIHVTVKFPS---------K--QFTVEV-DRTETVSSLKDKIHIVENTPIK-RMQLYYSGIELADDYRNLNEY   74 (94)
T ss_dssp             CSSSCCEEEEEECSS---------C--EEEEEE-CTTCBHHHHHHHHHHHSSSCTT-TEEEEETTEEECCTTSBHHHH
T ss_pred             ccCCCCEEEEEEcCC---------c--EEEEEE-CCCCcHHHHHHHHHHHHCcCHH-HEEEEECCEECCCCcccHHHC
Confidence            445566777777211         1  234788 8999999999999999999875 66778999999988 888765

>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP: d.15.1.1 PDB: 1yx6_B

Probab=82.39  E-value=0.64  Score=36.40  Aligned_cols=46  Identities=15%  Similarity=0.196  Sum_probs=39.3

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .+.+ +.+.||..||+.|..+.+++.+ +.-+++.|.+|.+..||.+.
T Consensus        14 ~~~v-~~~~TV~~LK~~I~~~~gi~~~-~qrL~~~Gk~L~D~~tL~~~   59 (98)
T 1yx5_B           14 TLEV-EPSDTIENVKAKIQDKEGIPPD-QQRLIFAGKQLEDGRTLSDY   59 (98)
T ss_dssp             EEEC-CTTCBHHHHHHHHHHHTCCCGG-GEEEEETTEECCTTSBTGGG
T ss_pred             EEEE-CCCCcHHHHHHHHHHHHCcChh-hEEEEECCEECCCCCCHHHc
Confidence            4667 7789999999999999999875 67788999999988887654

>1wy8_A NP95-like ring finger protein, isoform A; ubiquitin-like domain, NP95/ICBP90-like ring finger (NIRF), ubiquitin ligase, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.15.1.1

Probab=82.06  E-value=1.2  Score=33.80  Aligned_cols=46  Identities=11%  Similarity=0.201  Sum_probs=39.8

Q ss_pred             ee-eeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YL-RVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 yl-r~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .| .+ +...||..||..|..+.+++.+ +.-+++.|.+|.+..||.+.
T Consensus        22 ~l~~v-~~~~tV~~lK~~i~~~~gip~~-~qrL~~~gk~L~d~~tL~~~   68 (89)
T 1wy8_A           22 TIEDV-SRKATIEELRERVWALFDVRPE-CQRLFYRGKQLENGYTLFDY   68 (89)
T ss_dssp             EEEEE-CTTCBHHHHHHHHHHHSCCCTT-TEEEEETTEECCSSSBHHHH
T ss_pred             EEEec-CCCCCHHHHHHHHHHHHCcChh-hEEEEECCeECCCCCCHHHC
Confidence            46 47 8899999999999999999875 66788999999999998765

>1yqb_A Ubiquilin 3; structural genomics consortium, ubiquitin, ubiquitin-like domain, structural genomics, signaling protein SGC; 2.00A {Homo sapiens} SCOP: d.15.1.1

Probab=81.10  E-value=1.2  Score=35.32  Aligned_cols=46  Identities=11%  Similarity=0.150  Sum_probs=40.7

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .+.+ +...||..||+.|..+.+++. ++.-+++.|..|.+..||.+.
T Consensus        35 ~l~v-~~~~TV~~LK~~I~~~~gip~-~~QrLi~~Gk~L~D~~tL~~y   80 (100)
T 1yqb_A           35 DFSV-TDTCTIQQLKEEISQRFKAHP-DQLVLIFAGKILKDPDSLAQC   80 (100)
T ss_dssp             EEEE-ETTCBHHHHHHHHHHHHTCCG-GGEEEEETTEECCTTSBHHHH
T ss_pred             EEEE-CCCCcHHHHHHHHHHHHCcCh-hhEEEEECCEECCCcCcHHHC
Confidence            5788 789999999999999999986 577788999999999998775

>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1

Probab=80.66  E-value=1.7  Score=34.61  Aligned_cols=48  Identities=27%  Similarity=0.582  Sum_probs=33.8

Q ss_pred             cccCcccccccc-----ccee-cCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           18 CMTCPLCSKLFR-----DATT-ISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        18 ~L~CpIC~~l~~-----dPv~-l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      .-.|.||.+-+-     ++.+ -..|+-..|+.|+.--.. ++...||.|+..+.
T Consensus        16 ~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErk-eG~q~CpqCktrYk   69 (93)
T 1weo_A           16 GQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERR-EGTQNCPQCKTRYK   69 (93)
T ss_dssp             SCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHH-TSCSSCTTTCCCCC
T ss_pred             CCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHh-ccCccccccCCccc
Confidence            468999998632     1111 136888999999864444 47889999998763

>2kd0_A LRR repeats and ubiquitin-like domain-containing protein AT2G30105; ubiquitin-like protein, NESG, leucine-rich repeat, structural genomics; NMR {Arabidopsis thaliana}

Probab=80.39  E-value=0.91  Score=34.89  Aligned_cols=45  Identities=18%  Similarity=0.225  Sum_probs=38.3

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      .+.+ +...||..||..|..+.|++. .+.-+++.|.+|.+..+|.+
T Consensus        25 ~l~v-~~~~TV~~LK~~I~~~~gip~-~~qrL~~~Gk~L~D~~tL~~   69 (85)
T 2kd0_A           25 PLSV-SPDCTVKDLKSQLQPITNVLP-RGQKLIFKGKVLVETSTLKQ   69 (85)
T ss_dssp             EEEE-CTTSBHHHHHHHHHHHHCCCT-TTCEEEETTEECCTTCBTTT
T ss_pred             EEEE-CCCCcHHHHHHHHHHHHCcCh-HHEEEEECCeECCCcCCHHH
Confidence            3677 889999999999999999987 46678899999988877754

>2fnj_B Transcription elongation factor B polypeptide 2; beta-sandwich, lectin-like, SPRY, protein transport/signaling protein complex; 1.80A {Mus musculus} SCOP: d.15.1.1 PDB: 1lm8_B 1lqb_A 1vcb_A 2c9w_B 2izv_B 2jz3_B 2xai_C 3dcg_A 3zrc_A* 3zrf_A

Probab=80.20  E-value=1.4  Score=36.77  Aligned_cols=46  Identities=15%  Similarity=0.062  Sum_probs=40.3

Q ss_pred             ceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          282 CYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       282 ~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      -+|.| +.+.||..||.-|..|.|++.+.+ -+++.|.+|.+..||.+
T Consensus        14 i~lev-~~sdTV~~lK~kI~~~egIP~~qQ-rLi~~Gk~LeD~~TLsd   59 (118)
T 2fnj_B           14 IFTDA-KESSTVFELKRIVEGILKRPPEEQ-RLYKDDQLLDDGKTLGE   59 (118)
T ss_dssp             EEEEE-ETTSBHHHHHHHHHHHHCCCGGGE-EEEETTEECCTTSBHHH
T ss_pred             EEEEe-CCcChHHHHHHHHHHHhCCCHHHe-EEEECCeECCCCCCHHH
Confidence            47888 789999999999999999998655 45599999999999986

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	368
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-07
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	2e-07
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	4e-07
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	4e-07
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	3e-06
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	3e-06
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	5e-06
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	7e-05
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	3e-04
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	0.002

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 46.8 bits (111), Expect = 1e-07
 Identities = 16/60 (26%), Positives = 21/60 (35%), Gaps = 2/60 (3%)

Query: 13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEK 72
             V  ++C +C  +  D      C H FCR CI   +       CP C        LE 
Sbjct: 18 AHFVKSISCQICEHILADPVET-SCKHLFCRICILRCLKVMG-SYCPSCRYPCFPTDLES 75

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.8 bits (108), Expect = 2e-07
 Identities = 14/65 (21%), Positives = 26/65 (40%), Gaps = 2/65 (3%)

Query: 1  MATTEQTLKVNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPV 60
          +  T++  ++  E       C +C++  +D      C H  C  C+     E E   CP 
Sbjct: 6  IKVTQEQYELYCEMGSTFQLCKICAENDKDVKIEP-CGHLMCTSCL-TSWQESEGQGCPF 63

Query: 61 CNTDL 65
          C  ++
Sbjct: 64 CRCEI 68

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 44.9 bits (106), Expect = 4e-07
 Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 2/45 (4%)

Query: 21 CPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
          CP+C +   + +    CLH+FC  CI   I +    +CP+C   +
Sbjct: 8  CPICLEDPSNYSMALPCLHAFCYVCITRWIRQN--PTCPLCKVPV 50

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.8 bits (108), Expect = 4e-07
 Identities = 15/65 (23%), Positives = 31/65 (47%), Gaps = 5/65 (7%)

Query: 19 MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEE-IDSCPVCNTDLGCAPLEKLRADH 77
          + CP+C +L ++  +   C H FC+ C+ + + +++    CP+C  D+       L+   
Sbjct: 22 LECPICLELIKEPVSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDI---TKRSLQEST 77

Query: 78 NLQDL 82
              L
Sbjct: 78 RFSQL 82

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.2 bits (99), Expect = 3e-06
 Identities = 11/47 (23%), Positives = 17/47 (36%), Gaps = 6/47 (12%)

Query: 19 MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
          + C  C    +    +  CLH+ C  C+     E     CP+C    
Sbjct: 7  LRCQQCQAEAKCPKLLP-CLHTLCSGCL-----EASGMQCPICQAPW 47

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 41.7 bits (97), Expect = 3e-06
 Identities = 8/56 (14%), Positives = 20/56 (35%), Gaps = 2/56 (3%)

Query: 19 MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLR 74
          M C +  K+ R      +    F +  +      ++  + P+ N  L    + ++ 
Sbjct: 1  MLCAISGKVPRRPVLSPKSRTIFEKSLLE--QYVKDTGNDPITNEPLSIEEIVEIV 54

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.5 bits (99), Expect = 5e-06
 Identities = 20/82 (24%), Positives = 36/82 (43%), Gaps = 8/82 (9%)

Query: 13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEK 72
          ++L   + C  C+ + R+   +  C H FC  C+ + I       CPVC T      ++ 
Sbjct: 17 DRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG----TGCPVCYTPA---WIQD 69

Query: 73 LRADHNLQDLRIKIFPSKRRNL 94
          L+ +  L  + I++    R  L
Sbjct: 70 LKINRQLDSM-IQLCSKLRNLL 90

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 38.3 bits (88), Expect = 7e-05
 Identities = 9/50 (18%), Positives = 16/50 (32%), Gaps = 4/50 (8%)

Query: 18 CMTCPLC----SKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNT 63
             C +C          A   +  L +  R C+   +T     +C +C  
Sbjct: 6  VPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 55

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 36.4 bits (84), Expect = 3e-04
 Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 5/49 (10%)

Query: 20 TCPLCSKLFRD---ATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
           C +C     D   A  +  C H F  +C+   +      +CP+C   +
Sbjct: 7  ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH--STCPLCRLTV 53

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.4 bits (78), Expect = 0.002
 Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 5/50 (10%)

Query: 20 TCPLCSKLFRDATT----ISECLHSFCRKCIYEKITEEEIDSCPVCNTDL 65
           CP C        +    ++ C H+ C  C+ + +      +CP C T L
Sbjct: 5  GCPRCKTTKYRNPSLKLMVNVCGHTLCESCV-DLLFVRGAGNCPECGTPL 53

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	368
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.51
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.49
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.46
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.43
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.38
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.37
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.19
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.17
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.95
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.93
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.93
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.85
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.78
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.49
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.29
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.22
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.7
d2zjda1	119	Microtubule-associated proteins 1A/1B light chain	93.89
d3d32a1	118	GABA(A) receptor associated protein GABARAP {Human	92.87
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	89.02
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	88.6
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	88.38
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	88.35
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	87.3
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	87.26
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	86.81
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	86.71
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	86.6
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	86.35
d1eo6a_	116	Golgi-associated ATPase enhancer of 16 kD, Gate-16	85.16
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	84.95
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	84.66
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	84.41
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	83.35
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	83.18
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	82.71
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	82.09
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	81.97
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	81.63
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	80.72
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	80.53

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.51  E-value=4.4e-15  Score=114.90  Aligned_cols=70  Identities=16%  Similarity=0.184  Sum_probs=61.6

Q ss_pred             cccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhcc
Q 017653           14 KLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFP   88 (368)
Q Consensus        14 ~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p   88 (368)
                      .+.++|.||||+++|.+||++ +|||+||+.||.+|+.. +...||.|+..+   ....+.+|..|+++|+.|..
T Consensus         3 eiP~~l~CpIc~~l~~dPv~~-~cGhtfc~~ci~~~l~~-~~~~cP~c~~~l---~~~~l~pN~~L~~~I~~~l~   72 (80)
T d2c2la2           3 DIPDYLCGKISFELMREPCIT-PSGITYDRKDIEEHLQR-VGHFNPVTRSPL---TQEQLIPNLAMKEVIDAFIS   72 (80)
T ss_dssp             CCCSTTBCTTTCSBCSSEEEC-SSCCEEETTHHHHHHHH-TCSSCTTTCCCC---CGGGCEECHHHHHHHHHHHT
T ss_pred             CCCccccCcCcCchhhhhccc-CCcCeecHHHHHHHHhc-CCccCCCccccc---cccccccHHHHHHHHHHHHH
Confidence            456899999999999999998 89999999999999965 456799999876   45678999999999999854

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.49  E-value=6e-15  Score=113.54  Aligned_cols=70  Identities=17%  Similarity=0.317  Sum_probs=61.7

Q ss_pred             cccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhcc
Q 017653           14 KLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFP   88 (368)
Q Consensus        14 ~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p   88 (368)
                      .+.++|.||||+++|.+||++ +|||+||+.||..|+.. +...||.|+..+   ....+.+|..|+++|+.|..
T Consensus         4 eiP~~l~CpIc~~~m~dPV~~-~cgh~fc~~ci~~~~~~-~~~~cP~~~~~l---~~~~l~pN~~L~~~I~~~~~   73 (78)
T d1t1ha_           4 EFPEYFRCPISLELMKDPVIV-STGQTYERSSIQKWLDA-GHKTCPKSQETL---LHAGLTPNYVLKSLIALWCE   73 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSEEEE-TTTEEEEHHHHHHHHTT-TCCBCTTTCCBC---SSCCCEECTTTHHHHHHHHH
T ss_pred             CCCccCCCcCcCchhhCceEc-cCCCcchHHHHHHHHHH-CCCCCCcccccC---CcccccchHHHHHHHHHHHH
Confidence            467899999999999999999 89999999999999964 456799999886   45678999999999998854

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=8.3e-15  Score=118.43  Aligned_cols=73  Identities=21%  Similarity=0.667  Sum_probs=61.5

Q ss_pred             chhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccC-CCcccCCCcccCCCCCCCCccchHHHHHHHHhc
Q 017653           11 NREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEE-IDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIF   87 (368)
Q Consensus        11 ~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~-~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~   87 (368)
                      ....+++.|.||||+++|.+|+++ +|||+||..||..|+.... ...||.||..+   ....+++|..+.++++.+.
T Consensus        14 ~~~~l~~~l~CpIC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~---~~~~l~~n~~l~~~ve~l~   87 (103)
T d1jm7a_          14 VINAMQKILECPICLELIKEPVST-KCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI---TKRSLQESTRFSQLVEELL   87 (103)
T ss_dssp             HHHHHHHHTSCSSSCCCCSSCCBC-TTSCCCCSHHHHHHHHSSSSSCCCTTTSCCC---CTTTCBCCCSSSHHHHHHH
T ss_pred             HHHhcccCcCCCccCchhCCeEEc-CCCCchhhHHHHHHHHHCCCCCcCcCCCCcC---ChhhCCcCHHHHHHHHHHH
Confidence            456778889999999999999998 8999999999999996533 46899999887   4567888888888887764

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=2.2e-14  Score=114.73  Aligned_cols=72  Identities=24%  Similarity=0.609  Sum_probs=61.6

Q ss_pred             cchhcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhcc
Q 017653           10 VNREKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFP   88 (368)
Q Consensus        10 v~~~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p   88 (368)
                      -..+.+++.|+|+||.++|.+|+++.+|||+||..||.+|+..    .||.|+..+   ...++.+|..|.++++.+..
T Consensus        14 ~~l~~l~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~----~CP~Cr~~~---~~~~l~~n~~l~~lv~~~~~   85 (97)
T d1jm7b_          14 AALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGT----GCPVCYTPA---WIQDLKINRQLDSMIQLCSK   85 (97)
T ss_dssp             HHHHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTT----BCSSSCCBC---SCSSCCCCHHHHHHHHHHHH
T ss_pred             HHHHhhhhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHhc----cccccCCcC---chhhCcccHHHHHHHHHHHH
Confidence            3567888999999999999999987689999999999999842    499999876   45678999999999987643

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.38  E-value=2.2e-13  Score=109.49  Aligned_cols=74  Identities=14%  Similarity=0.247  Sum_probs=62.0

Q ss_pred             hcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHHHhccccc
Q 017653           13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRIKIFPSKR   91 (368)
Q Consensus        13 ~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lvekl~p~~~   91 (368)
                      ..+-++|.||||+++|.+||++..|+|+||+.||.+|+..  ...||.|+..+   ....+.+|..|.++|+.|.....
T Consensus        17 ~~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~--~~~~P~~~~~l---~~~~L~pN~~Lr~~I~~~~~~~~   90 (98)
T d1wgma_          17 ADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLS--DQTDPFNRSPL---TMDQIRPNTELKEKIQRWLAERK   90 (98)
T ss_dssp             CSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTT--SCBCTTTCSBC---CTTTSEECHHHHHHHHHHHHHST
T ss_pred             cCCcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHh--cCCcccccccc---cchhhcchHHHHHHHHHHHHHHH
Confidence            3456789999999999999999444569999999999964  45799999987   56789999999999999865533

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.37  E-value=1.4e-13  Score=108.39  Aligned_cols=68  Identities=22%  Similarity=0.536  Sum_probs=53.0

Q ss_pred             hcccccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccCCCCCCCCccchHHHHHHH
Q 017653           13 EKLVACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLGCAPLEKLRADHNLQDLRI   84 (368)
Q Consensus        13 ~~l~e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~~~~~~~lr~n~~L~~Lve   84 (368)
                      +.+.+.++|+||.+.+.+|+++ +|||+||+.||.+|+.. ....||.||.++.  ..+-..+...+.+++.
T Consensus        18 ~d~~~~l~C~IC~~~~~~pv~~-~CgH~FC~~Ci~~~~~~-~~~~CP~Cr~p~~--~~~l~~P~~~~l~~l~   85 (86)
T d1rmda2          18 AHFVKSISCQICEHILADPVET-SCKHLFCRICILRCLKV-MGSYCPSCRYPCF--PTDLESPVKSFLNILN   85 (86)
T ss_dssp             HHHHHHTBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHH-TCSBCTTTCCBCC--GGGCBCCCHHHHHHHH
T ss_pred             hhhccCcCCccCCcchhcceec-CCCChhhHHHHHHHHhh-CCCcCcccCCCCC--hhhccCHHHHHHHHhc
Confidence            4555779999999999999999 89999999999999964 4567999999874  2222335666666553

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.19  E-value=1.7e-12  Score=93.86  Aligned_cols=46  Identities=17%  Similarity=0.324  Sum_probs=41.2

Q ss_pred             ccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           19 MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        19 L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      |.|+||++++.+||.+..|||+||+.||.+|+...  ..||+|+..+.
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~--~~CP~c~~~l~   46 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDT--GNDPITNEPLS   46 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHH--SBCTTTCCBCC
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhc--cCCCccCCcCC
Confidence            68999999999999886799999999999999763  56999998874

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.17  E-value=8.6e-12  Score=96.19  Aligned_cols=48  Identities=23%  Similarity=0.611  Sum_probs=42.0

Q ss_pred             ccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           17 ACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        17 e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      +...|+||++.+.+|+++ +|||+||..||..|+.. +...||+||..+.
T Consensus        22 ~~~~C~IC~~~~~~~~~~-~CgH~fC~~Ci~~wl~~-~~~~CP~Cr~~i~   69 (79)
T d1fbva4          22 TFQLCKICAENDKDVKIE-PCGHLMCTSCLTSWQES-EGQGCPFCRCEIK   69 (79)
T ss_dssp             CTTBCTTTSSSBCCEECS-SSCCEECHHHHHHHHHT-TCCSCTTTCCCCC
T ss_pred             CCCCCccCCCcCCCeEEe-CCCCeeeHHHHHHHHHH-CcCcCCCCCcCcc
Confidence            445799999999999998 89999999999999964 4567999999874

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.95  E-value=5.7e-11  Score=85.96  Aligned_cols=44  Identities=23%  Similarity=0.683  Sum_probs=38.2

Q ss_pred             ccccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           17 ACMTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        17 e~L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      +.+.|+||++.+.+|+++ +|||+||..||.+     ....||+||..+.
T Consensus         5 ~~l~C~IC~~~~~~p~~l-pCgH~fC~~Ci~~-----~~~~CP~Cr~~~~   48 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKLL-PCLHTLCSGCLEA-----SGMQCPICQAPWP   48 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCS-TTSCCSBTTTCSS-----SSSSCSSCCSSSS
T ss_pred             CCCCCcccCcccCCCEEe-cCCCHHhHHHHHc-----CCCcCcCCCCccc
Confidence            468999999999999999 8999999999864     3467999998874

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=98.93  E-value=1.1e-10  Score=87.15  Aligned_cols=45  Identities=31%  Similarity=0.783  Sum_probs=39.3

Q ss_pred             ccCcccccccccceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           19 MTCPLCSKLFRDATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        19 L~CpIC~~l~~dPv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      -.|+||++.|.+++++.+|||+||..||.+|+..  ...||+||..+
T Consensus         6 d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~--~~~CP~CR~~i   50 (68)
T d1chca_           6 ERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQ--NPTCPLCKVPV   50 (68)
T ss_dssp             CCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHH--SCSTTTTCCCC
T ss_pred             CCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHh--CCcCCCCCcch
Confidence            4699999999988776699999999999999975  46799999865

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.93  E-value=2.4e-10  Score=84.66  Aligned_cols=49  Identities=24%  Similarity=0.588  Sum_probs=38.2

Q ss_pred             ccccCcccccccccc----eecCCCCCcccHHHHHHHhhccCCCcccCCCcccC
Q 017653           17 ACMTCPLCSKLFRDA----TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDLG   66 (368)
Q Consensus        17 e~L~CpIC~~l~~dP----v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l~   66 (368)
                      ++..||||++.+..+    +.+.+|||+||..||..|+.. +...||+||..+.
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~-~~~~CP~CR~~i~   54 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR-GAGNCPECGTPLR   54 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHT-TSSSCTTTCCCCS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCc-CcCCCCCCCcCcc
Confidence            468999999865332    334489999999999999964 4567999998773

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=98.85  E-value=6e-10  Score=80.03  Aligned_cols=49  Identities=22%  Similarity=0.617  Sum_probs=40.6

Q ss_pred             ccccccCccccccccc---ceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           15 LVACMTCPLCSKLFRD---ATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        15 l~e~L~CpIC~~l~~d---Pv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      +++...|+||++.|.+   .+.+..|+|.||..||.+|+..  ...||+||..+
T Consensus         2 ~ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~--~~~CP~CR~~i   53 (55)
T d1iyma_           2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS--HSTCPLCRLTV   53 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT--CCSCSSSCCCS
T ss_pred             CCCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHh--CCcCCCCCCEe
Confidence            5678899999999864   3455579999999999999964  56799999765

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.78  E-value=1.5e-09  Score=76.93  Aligned_cols=46  Identities=28%  Similarity=0.592  Sum_probs=36.4

Q ss_pred             ccCcccccccccc---eecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           19 MTCPLCSKLFRDA---TTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        19 L~CpIC~~l~~dP---v~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      +.||||++.|...   +.+.+|||.||..||.+|+.. ....||+||.++
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~-~~~~CP~CR~~~   49 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTD-ENGLCPACRKPY   49 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTT-SCCBCTTTCCBC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhh-cCCCCCccCCcC
Confidence            5799999988532   223379999999999999964 456799999876

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.49  E-value=3.1e-08  Score=80.13  Aligned_cols=49  Identities=24%  Similarity=0.545  Sum_probs=38.4

Q ss_pred             cccCcccccccccc-----------------eecCCCCCcccHHHHHHHhhcc---CCCcccCCCcccC
Q 017653           18 CMTCPLCSKLFRDA-----------------TTISECLHSFCRKCIYEKITEE---EIDSCPVCNTDLG   66 (368)
Q Consensus        18 ~L~CpIC~~l~~dP-----------------v~l~~CgHtFC~~CI~~~l~~~---~~~~CP~Cr~~l~   66 (368)
                      ...|+||++.|..+                 +.+.+|+|.||..||..|+...   +...||+||..++
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~   93 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG   93 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhc
Confidence            45799999987543                 3445899999999999999753   2458999998764

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.29  E-value=1.6e-07  Score=67.72  Aligned_cols=49  Identities=18%  Similarity=0.464  Sum_probs=40.9

Q ss_pred             cccccCcccccccccceecCCC-----CCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           16 VACMTCPLCSKLFRDATTISEC-----LHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        16 ~e~L~CpIC~~l~~dPv~l~~C-----gHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      ++...|+||++.+.++... +|     +|.||..||..|+...+...||+||..+
T Consensus         4 ed~~~C~IC~~~~~~~~~~-~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~   57 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFR-ACGCTGELENVHRSCLSTWLTISRNTACQICGVVY   57 (60)
T ss_dssp             CSCCEETTTTEECSCCCCC-SCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCCccCCccCCCceeE-ecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCee
Confidence            4567899999988877655 45     5999999999999876778999999876

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.22  E-value=3.2e-07  Score=71.13  Aligned_cols=45  Identities=24%  Similarity=0.571  Sum_probs=35.2

Q ss_pred             ccCccccccccc-----------------ceecCCCCCcccHHHHHHHhhccCCCcccCCCccc
Q 017653           19 MTCPLCSKLFRD-----------------ATTISECLHSFCRKCIYEKITEEEIDSCPVCNTDL   65 (368)
Q Consensus        19 L~CpIC~~l~~d-----------------Pv~l~~CgHtFC~~CI~~~l~~~~~~~CP~Cr~~l   65 (368)
                      -.|+||...+.+                 ++.+.+|||.||..||.+|+..  ...||+||..+
T Consensus        22 d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~~   83 (88)
T d3dplr1          22 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT--RQVCPLDNREW   83 (88)
T ss_dssp             CCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT--CSBCSSSCSBC
T ss_pred             CcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHH--CCcCCCCCCcc
Confidence            358999876654                 2344489999999999999965  46799999876

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.70  E-value=6e-06  Score=63.95  Aligned_cols=46  Identities=28%  Similarity=0.574  Sum_probs=34.1

Q ss_pred             cccCcccccccc--cceecCCCCCcccHHHHHHHhhcc---C---CCcccCCCc
Q 017653           18 CMTCPLCSKLFR--DATTISECLHSFCRKCIYEKITEE---E---IDSCPVCNT   63 (368)
Q Consensus        18 ~L~CpIC~~l~~--dPv~l~~CgHtFC~~CI~~~l~~~---~---~~~CP~Cr~   63 (368)
                      ...|+||.+.+.  +.+.+..|+|.||..||..|+...   +   ...||.|+.
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            467999998774  333444899999999999988642   1   247998764

>d2zjda1 d.15.1.3 (A:2-120) Microtubule-associated proteins 1A/1B light chain 3B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: GABARAP-like
domain: Microtubule-associated proteins 1A/1B light chain 3B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.89  E-value=0.043  Score=43.98  Aligned_cols=71  Identities=17%  Similarity=0.275  Sum_probs=58.0

Q ss_pred             CCCCCcc-ceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCc-CCCCccHHHHHHHHhhcCCCccceecccCCCc
Q 017653          275 PLPQISS-CYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQP-VLSTLELHNLINWWVQTSSASERIQTVVGSSA  352 (368)
Q Consensus       275 ~lp~i~~-~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~-~~~~~~l~~i~~~w~~~~~~~~~~~~~~~~~~  352 (368)
                      .+|.|-+ +|| | +..+||..+.-+|+++|+|.++.-+=+.++|.. ..++.+|.+|.+..-.                
T Consensus        42 ~lp~Ldk~KfL-V-p~d~tv~qf~~~iRkrl~l~~~~alFlfvn~~~~p~~~~~i~~lY~~~kd----------------  103 (119)
T d2zjda1          42 QLPVLDKTKFL-V-PDHVNMSELIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESEKD----------------  103 (119)
T ss_dssp             SSCCCSCCEEE-E-ETTCBHHHHHHHHHHHHTCCTTCCEEEEETTTEECCTTSBHHHHHHHHCC----------------
T ss_pred             cCccccceEEE-E-ecCccHHHHHHHHHHHhCCCCcceEEEEEcCCccCCchhHHHHHHHHcCC----------------
Confidence            4788866 788 7 999999999999999999999999999998875 4668889999887633                


Q ss_pred             cceEEEEeeec
Q 017653          353 KDFVMVLSYGR  363 (368)
Q Consensus       353 ~~~~m~l~y~r  363 (368)
                      .|..+.++|+.
T Consensus       104 eDGfLYi~Ys~  114 (119)
T d2zjda1         104 EDGFLYMVYAS  114 (119)
T ss_dssp             TTSCEEEEEEE
T ss_pred             CCCeEEEEEec
Confidence            25567777764

>d3d32a1 d.15.1.3 (A:1-118) GABA(A) receptor associated protein GABARAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: GABARAP-like
domain: GABA(A) receptor associated protein GABARAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.87  E-value=0.13  Score=40.92  Aligned_cols=73  Identities=15%  Similarity=0.183  Sum_probs=61.4

Q ss_pred             CCCCCccceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHHHHHHhhcCCCccceecccCCCccc
Q 017653          275 PLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWVQTSSASERIQTVVGSSAKD  354 (368)
Q Consensus       275 ~lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i~~~w~~~~~~~~~~~~~~~~~~~~  354 (368)
                      .+|.|-+.-.=| +..+||..+.-+|.++|+|.++.-+=+.++|..+.++.||.+|.+..-+                .|
T Consensus        42 ~lp~ldk~KflV-p~d~tv~qf~~~iRkrl~l~~~~alflfvn~~~~~~~~ti~~lY~~~kd----------------eD  104 (118)
T d3d32a1          42 RIGDLDKKKYLV-PSDLTVGQFYFLIRKRIHLRAEDALFFFVNNVIPPTSATMGQLYQEHHE----------------ED  104 (118)
T ss_dssp             CSCCCSCSEEEE-ETTCBHHHHHHHHHHHHTCCTTSCCEEEBTTBCCCTTCBHHHHHHHHCC----------------TT
T ss_pred             CCcccccceEEe-cCCccHHHHHHHHHHHhCCCccceEEEEECCcccCccccHHHHHHHhCC----------------CC
Confidence            488888855556 8999999999999999999999999999999999999999988887643                25


Q ss_pred             eEEEEeeecC
Q 017653          355 FVMVLSYGRK  364 (368)
Q Consensus       355 ~~m~l~y~r~  364 (368)
                      ..+-++|+..
T Consensus       105 GfLYi~Ys~e  114 (118)
T d3d32a1         105 FFLYIAYSDE  114 (118)
T ss_dssp             SCEEEEEESC
T ss_pred             cEEEEEEecc
Confidence            5777888754

>d1euvb_ d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: SUMO-1 (smt3 homologue)
species: Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932]

Probab=89.02  E-value=0.069  Score=39.09  Aligned_cols=47  Identities=9%  Similarity=0.176  Sum_probs=41.8

Q ss_pred             ceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          282 CYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       282 ~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      -+++| .-+.+++.|+++++.|.+++. +++-++++|..|.+..|+.++
T Consensus        16 ~~f~v-~~~~~~~~l~~~~~~~~~i~~-~~~~l~f~G~~l~~~~T~~~~   62 (79)
T d1euvb_          16 IFFKI-KKTTPLRRLMEAFAKRQGKEM-DSLRFLYDGIRIQADQTPEDL   62 (79)
T ss_dssp             EEEEE-ETTSCTHHHHHHHHHHTTCCG-GGEEEEETTEECCTTCCTTTT
T ss_pred             EEEEE-CCCCcHHHHHHHHHHHhCCCh-HhEEEEECCEEeCCCCCHHHC
Confidence            36788 788999999999999999976 689999999999999998765

>d1m94a_ d.15.1.1 (A:) Ubiquitin-like modifier protein hub1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like modifier protein hub1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.60  E-value=0.18  Score=36.28  Aligned_cols=44  Identities=9%  Similarity=0.170  Sum_probs=40.0

Q ss_pred             eeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          284 LRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       284 lr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      +.| +..-||..||+.|+.+.|++.+ +.-+.|.|+.|.+..||.+
T Consensus        16 v~V-~~~~tV~~lK~~I~~~~~i~~~-~q~Li~~Gk~L~d~~tL~~   59 (73)
T d1m94a_          16 VKC-LAEDSVGDFKKVLSLQIGTQPN-KIVLQKGGSVLKDHISLED   59 (73)
T ss_dssp             EEE-CTTSBHHHHHHHHHHHHCCTTT-SEEEESSSCEECTTSBHHH
T ss_pred             EEE-CCcCcHHHHHHHHHHhhccccc-EEEEEEEeEEecccCcHHH
Confidence            677 7889999999999999999985 7789999999999999876

>d1x1ma1 d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 7
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.38  E-value=0.18  Score=38.62  Aligned_cols=42  Identities=21%  Similarity=0.358  Sum_probs=36.6

Q ss_pred             CCccHHHHHHHHHHHhC--CCchhhhhhhhcCCcCCCCccHHHH
Q 017653          289 GRLPVSFIKRYIVKKLN--LISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       289 ~~~~v~~l~Kyl~~KL~--l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      +.-+|..||..|..++.  .++..+..+++.|+.|.+..||.+-
T Consensus        36 ~~~tV~~lK~~i~~~~~~~~P~p~~~rLIy~Gk~L~D~~tL~~y   79 (94)
T d1x1ma1          36 GGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFY   79 (94)
T ss_dssp             CCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTCBHHHH
T ss_pred             CccCHHHHHHHHHHHcccCCCChhheEEEECCeEECCCccHHHc
Confidence            45689999999999995  5666899999999999999999863

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.35  E-value=0.11  Score=37.96  Aligned_cols=43  Identities=28%  Similarity=0.712  Sum_probs=32.5

Q ss_pred             ccccCcccccccccceecCCC----CCcccHHHHHHHhhccC---CCcccC
Q 017653           17 ACMTCPLCSKLFRDATTISEC----LHSFCRKCIYEKITEEE---IDSCPV   60 (368)
Q Consensus        17 e~L~CpIC~~l~~dPv~l~~C----gHtFC~~CI~~~l~~~~---~~~CP~   60 (368)
                      ..+.|.||.+.+.+-... .|    +|.||..|-..++...+   ...||.
T Consensus         7 ~~l~CtlC~erLEdtHFV-QCPsv~~HkFCFpCsr~sik~q~~~~evyCPS   56 (80)
T d2cs3a1           7 GPLCCTICHERLEDTHFV-QCPSVPSHKFCFPCSRESIKAQGATGEVYCPS   56 (80)
T ss_dssp             CSCCCSSSCSCCSSTTSE-ECSSCSSCEECHHHHHHHHHHHHSSSCCCCTT
T ss_pred             CceeeeeehhhhcCCceE-eCCCCcCCceeccccHHHHHhcCCCCcEECCC
Confidence            358999999999987666 45    69999999988876542   344554

>d1v5oa_ d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 1700011n24rik protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=87.30  E-value=0.24  Score=38.10  Aligned_cols=45  Identities=18%  Similarity=0.156  Sum_probs=38.7

Q ss_pred             eeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCC-CCccHHHH
Q 017653          284 LRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVL-STLELHNL  330 (368)
Q Consensus       284 lr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~-~~~~l~~i  330 (368)
                      |.| +..++|..||++|..+.+++.+ +.-|+++|..|. +..||.++
T Consensus        26 l~V-~~~~tV~~LK~~Ie~~~gip~~-~Q~Li~~Gk~L~dd~~tL~~~   71 (102)
T d1v5oa_          26 LQV-NPDFELSNFRVLCELESGVPAE-EAQIVYMEQLLTDDHCSLGSY   71 (102)
T ss_dssp             EEE-CTTCBHHHHHHHHHHHTCCCGG-GBCEEETTEEECCSSSBHHHH
T ss_pred             EEE-CCcccHHHHHHHHHHHhCCCcc-eEEEEeCCeEeecccCCHHHc
Confidence            567 8889999999999999999976 558889999994 67889875

>d1wx9a1 d.15.1.1 (A:8-80) Large proline-rich protein BAT3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Large proline-rich protein BAT3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.26  E-value=0.27  Score=35.19  Aligned_cols=45  Identities=18%  Similarity=0.256  Sum_probs=40.3

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      -|.| +.+.||..||..|..+.|++.+ +.-++|.|+.|.+..+|.+
T Consensus        14 ~l~V-~~~~tV~~lK~~I~~~~gip~~-~qrLi~~Gk~L~d~~tL~d   58 (73)
T d1wx9a1          14 TFIV-GAQMNVKEFKEHIAASVSIPSE-KQRLIYQGRVLQDDKKLQE   58 (73)
T ss_dssp             EEEE-CTTSBHHHHHHHHHHHHCCCTT-TCCCEETTEECCSSSBHHH
T ss_pred             EEEE-CCCChHHHHHHHHHHHhCCChH-HEEEEECCeEccCCCCHHH
Confidence            4677 8899999999999999999875 5589999999999999987

>d1wh3a_ d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like protein, OASL {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 2'-5'-oligoadenylate synthetase-like protein, OASL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.81  E-value=0.26  Score=36.49  Aligned_cols=45  Identities=16%  Similarity=0.140  Sum_probs=40.3

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      .|.| +.+.||..||..|..+.|++.+ +.-++|.|+.|.+..||.+
T Consensus        21 ~l~v-~~~~tV~~lK~~I~~~~gip~~-~qrLi~~Gk~L~d~~tL~~   65 (87)
T d1wh3a_          21 AYAI-NPNSFILGLKQQIEDQQGLPKK-QQQLEFQGQVLQDWLGLGI   65 (87)
T ss_dssp             EEEE-CSSSBHHHHHHHHHHHTCCCTT-TEEEEETTEECCSSSBHHH
T ss_pred             EEEE-CCcCcHHHHHHHHHHHHCcChH-HeEEEeeceEcCCCCcHHH
Confidence            4677 7889999999999999999974 6788899999999999987

>d1z2ma2 d.15.1.1 (A:79-154) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.71  E-value=0.19  Score=36.11  Aligned_cols=45  Identities=16%  Similarity=0.203  Sum_probs=39.8

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      -|.+ +.+.||..||..|..+.|++.+ +.-++|.|+.|.+..||.+
T Consensus        17 ~l~v-~~~~tV~~lK~~I~~~~gi~~~-~qrL~~~gk~L~d~~tL~~   61 (76)
T d1z2ma2          17 TYEV-RLTQTVAHLKQQVSGLEGVQDD-LFWLTFEGKPLEDQLPLGE   61 (76)
T ss_dssp             EEEE-CTTSBHHHHHHHHHHHHTCCGG-GEEEEETTEECCTTSBGGG
T ss_pred             EEEE-CCCCcHHHHHHHHHHHhcCChh-HeEEEECCeECCCCCcHHH
Confidence            4778 8889999999999999999974 7779999999999988864

>d1wjua_ d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: NEDD8 ultimate buster-1, NUB1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.60  E-value=0.23  Score=38.10  Aligned_cols=46  Identities=11%  Similarity=0.112  Sum_probs=42.0

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      -|.| +.+.||..||+-|..+++++. .++-|+|.|+.|.+..||.+.
T Consensus        33 ~lev-~~~~TV~~LK~~I~~~~gi~~-~~qkLi~~Gk~L~d~~tL~~~   78 (100)
T d1wjua_          33 LLET-RLHITGRELRSKIAETFGLQE-NYIKIVINKKQLQLGKTLEEQ   78 (100)
T ss_dssp             EEEE-ESSSBHHHHHHHHHHHTTCCS-TTCEEEETTEECCTTSBHHHH
T ss_pred             EEEE-CCCcHHHHHHHHHHHHHCCCC-eeEEEEEcccCcCCCcCHHHc
Confidence            4778 889999999999999999986 699999999999999999874

>d2c9wb1 d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Elongin B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.35  E-value=0.29  Score=37.90  Aligned_cols=45  Identities=16%  Similarity=0.068  Sum_probs=41.1

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      +|.| +.+.||..||..|..+.|++.+ +.-+++.|+.|.+..||.+
T Consensus        14 ~l~v-~~~~TV~~lK~~I~~~~gip~~-~QrLi~~Gk~L~D~~TL~d   58 (103)
T d2c9wb1          14 FTDA-KESSTVFELKRIVEGILKRPPD-EQRLYKDDQLLDDGKTLGE   58 (103)
T ss_dssp             EEEE-CTTSBHHHHHHHHHHHHCCCGG-GEEEEETTEECCTTSBHHH
T ss_pred             EEEe-CCCCcHHHHHHHHHHHhCCCcc-cEEEEECCEEcCCCCCHHH
Confidence            5788 7899999999999999999874 6779999999999999987

>d1eo6a_ d.15.1.3 (A:) Golgi-associated ATPase enhancer of 16 kD, Gate-16 {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: GABARAP-like
domain: Golgi-associated ATPase enhancer of 16 kD, Gate-16
species: Cow (Bos taurus) [TaxId: 9913]

Probab=85.16  E-value=0.56  Score=37.04  Aligned_cols=60  Identities=18%  Similarity=0.123  Sum_probs=53.4

Q ss_pred             CCCCCccceeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHHHHHHh
Q 017653          275 PLPQISSCYLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNLINWWV  335 (368)
Q Consensus       275 ~lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i~~~w~  335 (368)
                      .+|.|-+.-.=+ +..+||..+.-.|+++|+|.++.-+=+.|+|..+..+.+|.+|.+..-
T Consensus        40 ~l~~ldk~KfLV-P~dltv~qf~~vIRkrl~l~~~~alflfv~~~l~~~s~~i~~lY~~~K   99 (116)
T d1eo6a_          40 QIVDIDKRKYLV-PSDITVAQFMWIIRKRIQLPSEKAIFLFVDKTVPQSSLTMGQLYEKEK   99 (116)
T ss_dssp             SSCCCSCCEEEE-ETTSBHHHHHHHHHHHHTCCTTSCCEEEBTTBCCCTTSBHHHHHHHHC
T ss_pred             cCCcccCcEEee-cCCCcHHHHHHHHHHHcCCCccceEEEEECCcccchhhhHHHHHHHcC
Confidence            478888765556 899999999999999999999999999999999999999999988763

>d1yqba1 d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquilin-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.95  E-value=0.34  Score=35.58  Aligned_cols=46  Identities=11%  Similarity=0.172  Sum_probs=40.7

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      -|.| +.+.+|..||..|..+.|++.+ +..+++.|..|.+..||.+.
T Consensus        20 ~~~V-~~~~tV~~lK~~i~~~~gi~~~-~qrL~~~Gk~L~D~~tL~~y   65 (84)
T d1yqba1          20 DFSV-TDTCTIQQLKEEISQRFKAHPD-QLVLIFAGKILKDPDSLAQC   65 (84)
T ss_dssp             EEEE-ETTCBHHHHHHHHHHHHTCCGG-GEEEEETTEECCTTSBHHHH
T ss_pred             EEEE-CCCCcHHHHHHHHHHHHCcCch-hEEEEEeeeeccccCcHHHc
Confidence            3778 8899999999999999999985 56888999999999998773

>d1wgda_ d.15.1.1 (A:) Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.66  E-value=0.35  Score=36.38  Aligned_cols=64  Identities=13%  Similarity=0.146  Sum_probs=48.4

Q ss_pred             CCeEEEEEecCCCCCCCCCCCCccceeeeeCCCccHHHHHHHHHHHhC-CCchhhhhhhhcCCcCCCCccHHHH
Q 017653          258 GPIWFSLVASDEQEGDEPLPQISSCYLRVKDGRLPVSFIKRYIVKKLN-LISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       258 ~~iwf~l~~~~~q~~~~~lp~i~~~ylr~~~~~~~v~~l~Kyl~~KL~-l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .+|++.+.....+..        .--+.+ +.+.||..||+.|..+++ ..+..+.-++|.|..|.+..+|.++
T Consensus         6 ~~i~l~Ik~~~~~~~--------~~~~~v-~~~~TV~~LK~~I~~~~~~~~~~~~qrLIy~Gk~L~D~~~L~d~   70 (93)
T d1wgda_           6 SGVTLLVKSPNQRHR--------DLELSG-DRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDL   70 (93)
T ss_dssp             CCCEEEEECSSSSCC--------CEEEEC-CTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHH
T ss_pred             CcEEEEEECCCCCce--------eEEEEc-CCCCcHHHHHHHHHHHcCCCCChHHEEEEECCeEccCCCCHHHh
Confidence            347888773222211        123566 789999999999999996 3455789999999999999999886

>d2zeqa1 d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of parkin
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.41  E-value=0.25  Score=35.88  Aligned_cols=44  Identities=16%  Similarity=0.373  Sum_probs=39.2

Q ss_pred             eeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          284 LRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       284 lr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      |.| +.+.||..||..|..+.|++.+ +.-+.|.|+.|.++.||.+
T Consensus        17 l~v-~~~~tV~~lK~~i~~~~gip~~-~qrLi~~Gk~L~d~~tL~~   60 (78)
T d2zeqa1          17 VEV-DSDTSILQLKEVVAKRQGVPAD-QLRVIFAGKELPNHLTVQN   60 (78)
T ss_dssp             EEE-CTTCBHHHHHHHHHHHHTCCGG-GEEEEETTEEECTTCBGGG
T ss_pred             EEE-cccccHHHHHHHHHHHHCcChh-HeEEEEeeeEcCCCCCHHH
Confidence            677 8899999999999999999985 5689999999999988764

>d1wx8a1 d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 4931431F19Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.35  E-value=0.44  Score=34.85  Aligned_cols=46  Identities=15%  Similarity=0.092  Sum_probs=41.1

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .+.| +.+.||..||.-|..+.+++.+ +.-++|.|..|.+..+|.+.
T Consensus        23 ~i~v-~~~~tV~~lK~~I~~~~~v~~~-~qrL~f~Gk~L~d~~tL~~~   68 (83)
T d1wx8a1          23 EFFL-AENSNVRRFKKQISKYLHCNAD-RLVLIFTGKILRDQDILSQR   68 (83)
T ss_dssp             EEEE-ETTCCHHHHHHHHHHHTCSCTT-TBCCEETTEECCTTSCHHHH
T ss_pred             EEEE-CCCChHHHHHHHHHHHhCCChh-HEEEEEEhhccccCCcHHHc
Confidence            4788 8899999999999999999985 66899999999999998874

>d2bwfa1 d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: DSK2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.18  E-value=0.33  Score=34.62  Aligned_cols=44  Identities=14%  Similarity=0.093  Sum_probs=39.0

Q ss_pred             eeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          284 LRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       284 lr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      |.| +.+.||..||..|..+.|++.+ +.-+++.|..|.+..||.+
T Consensus        15 i~v-~~~~tV~~lK~~I~~~~gip~~-~qrLi~~Gk~L~D~~tL~~   58 (73)
T d2bwfa1          15 VNV-APESTVLQFKEAINKANGIPVA-NQRLIYSGKILKDDQTVES   58 (73)
T ss_dssp             EEE-CTTCBHHHHHHHHHHHHCCCGG-GEEEEETTEECCTTSBTGG
T ss_pred             EEE-CCCChHHHHHHHHHHHHCcChH-HeEEEECCeEccCCCcHHH
Confidence            677 8899999999999999999885 5678899999999988875

>d1ttna1 d.15.1.1 (A:21-100) Dendritic cell-derived ubiquitin-like protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Dendritic cell-derived ubiquitin-like protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.71  E-value=0.39  Score=34.86  Aligned_cols=45  Identities=16%  Similarity=0.188  Sum_probs=39.8

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      -|.| +..-||..||.-|..+.|++.+ +.-+++.|+.|.+..||.+
T Consensus        17 ~l~V-~~~~tV~~lK~~I~~~~~ip~~-~qrLi~~Gk~L~d~~tL~~   61 (80)
T d1ttna1          17 KLVV-RSTDTVFHMKRRLHAAEGVEPG-SQRWFFSGRPLTDKMKFEE   61 (80)
T ss_dssp             EEEE-CTTSHHHHHHHHHHHTTCCCST-TCEEEETTEECCTTSHHHH
T ss_pred             EEEE-CCcCcHHHHHHHHHHHhCCCcc-cEEEEECceEcCCCCcHHH
Confidence            4567 8888999999999999999885 6689999999999999876

>d1bt0a_ d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Rub1
species: Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=82.09  E-value=0.36  Score=34.35  Aligned_cols=45  Identities=9%  Similarity=0.131  Sum_probs=39.3

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      -|.| +.+-||..||.-|..+.|++.+ +.-+.|.|+.|.+..||.+
T Consensus        14 ~l~V-~~~~tV~~lK~~i~~~~gi~~~-~qrLi~~Gk~L~d~~tL~~   58 (73)
T d1bt0a_          14 EIDI-EPTDTIDRIKERVEEKEGIPPV-QQRLIYAGKQLADDKTAKD   58 (73)
T ss_dssp             EEEC-CTTCBHHHHHHHHHHHHCCCGG-GEEEEETTEECCTTSBTGG
T ss_pred             EEEE-CCCCcHHHHHHHHHHHhCCChH-HEEEEECCeEcCCCCcHHH
Confidence            3567 7888999999999999999885 6679999999999999865

>d1j8ca_ d.15.1.1 (A:) Ubiquitin-like N-terminal domain of PLIC-2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like N-terminal domain of PLIC-2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.97  E-value=0.3  Score=37.28  Aligned_cols=45  Identities=16%  Similarity=0.169  Sum_probs=40.8

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHN  329 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~  329 (368)
                      .+.| +...||..||.-|..++|++.+ +..++|.|..|.+..+|.+
T Consensus        45 ~i~V-~~~~tV~~LK~~I~~~~gi~~~-~qrLi~~Gk~L~D~~tL~~   89 (103)
T d1j8ca_          45 EFAV-PENSSVQQFKEAISKRFKSQTD-QLVLIFAGKILKDQDTLIQ   89 (103)
T ss_dssp             EEEE-CTTCCHHHHHHHHHHHHCSCSS-SEEEEETTEEESTTSCGGG
T ss_pred             EEEE-CCCChHHHHHHHHHHHHCcCHH-HeeeeeeeecccCCCcHHH
Confidence            4788 9999999999999999999985 6789999999999999875

>d1ogwa_ d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.63  E-value=0.41  Score=34.27  Aligned_cols=46  Identities=15%  Similarity=0.196  Sum_probs=40.0

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      .|.| +...||..||.-|..+.|++.+ +.-++|.|.++.++.||.+.
T Consensus        14 ~l~v-~~~~tV~~lK~~I~~~~gi~~~-~qrL~~~Gk~L~d~~tL~~y   59 (76)
T d1ogwa_          14 TLEV-EPSDTIENVKAKIQDKEGIPPD-QQRLIFAGKQLEDGRTLSDY   59 (76)
T ss_dssp             EEEC-CTTSBHHHHHHHHHHHHCCCGG-GEEEEETTEECCTTSBGGGG
T ss_pred             EEEE-CCCCcHHHHHHhhhhhcCCChH-HEEeEECCeEcCCCCCHHHc
Confidence            4677 8899999999999999999875 55889999999999998753

>d1v86a_ d.15.1.1 (A:) hypothetical D7wsu128e protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: hypothetical D7wsu128e protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.72  E-value=0.89  Score=34.08  Aligned_cols=45  Identities=20%  Similarity=0.120  Sum_probs=38.8

Q ss_pred             eeeeeCCCccHHHHHHHHHHHhCCCchhhhhhhhcCCcCCCCccHHHH
Q 017653          283 YLRVKDGRLPVSFIKRYIVKKLNLISEAEVEISLRGQPVLSTLELHNL  330 (368)
Q Consensus       283 ylr~~~~~~~v~~l~Kyl~~KL~l~~e~evei~c~g~~~~~~~~l~~i  330 (368)
                      -|+| +.+.||..||+-|..+.+++. .+..+++.|. +.+..||.+.
T Consensus        30 ~i~v-~~~~TV~~LK~~I~~~tgvp~-~~q~Li~~g~-l~D~~tL~~~   74 (95)
T d1v86a_          30 DVKV-PLDSTGSELKQKIHSITGLPP-AMQKVMYKGL-VPEDKTLREI   74 (95)
T ss_dssp             EEEE-CTTSBHHHHHHHHHHHHCSCS-TTCCCBSSSB-CCSSSBHHHH
T ss_pred             EEEE-CCCCcHHHHHHHHHHHhCCCh-hHEEEEeccc-ccCCCcHHHC
Confidence            3788 899999999999999999998 5667889997 8889998764

>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Cysteine-rich domain
superfamily: Cysteine-rich domain
family: TFIIH p44 subunit cysteine-rich domain
domain: TFIIH p44 subunit cysteine-rich domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.53  E-value=0.59  Score=32.68  Aligned_cols=51  Identities=24%  Similarity=0.607  Sum_probs=36.0

Q ss_pred             hcchhcccccccCcccccccccce--ecCCCCCcccHHHHHHHhhccCCCcccCC
Q 017653            9 KVNREKLVACMTCPLCSKLFRDAT--TISECLHSFCRKCIYEKITEEEIDSCPVC   61 (368)
Q Consensus         9 ~v~~~~l~e~L~CpIC~~l~~dPv--~l~~CgHtFC~~CI~~~l~~~~~~~CP~C   61 (368)
                      .|+.+.......|--|+..+.+..  .-..|++.||..|  ..+..+....||-|
T Consensus         6 EVp~~~~~~~~~C~gC~~~l~~~~~y~C~~C~~~FC~dC--D~fiHe~lh~CpgC   58 (59)
T d1z60a1           6 EIPLEEYNGERFCYGCQGELKDQHVYVCAVCQNVFCVDC--DVFVHDSLHSCPGC   58 (59)
T ss_dssp             EEEHHHHCSCCEETTTTEECTTSEEECCTTTTCCBCHHH--HHTTTTTSCSSSTT
T ss_pred             eeehhhcCCCCCccCCCCcCCCCceEECcCCCCcccccc--chhhhhhhcCCCCC
Confidence            455566666778999998877653  2346999999999  33443456779988