Citrus Sinensis ID: 018073

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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-
Protein Sequence
MESEDEFDMQDANASAEEDDFYSGGDDDAAPAYAFDSDDADVADYEFIDNDSDDSDDLVSNRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGVV
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccEEEcHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHccccHHHHHHHHHHcHHHHHHHHHccccccccccccccEEEcccccccccccccccccccccHHHHHHHHHHHHHHcccccEEcccccccccccccHHHHHHcccHHHHHHHHHHHHHHHHHcccccEEcccccccccEEEEccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHcccccccccccccEEccccccccccccccccEEEccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccEEEccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHccccHHHHHHHHHccHHHHHHHcccccccccccccccccEccEEEcccccHHccccccccHHHHHHHHHHHHHHHcccccEEEEEcccccccccccHHHHHHHccHHHHHHHHHHHHHHHHccccccEEccccccccEEEEEccccccEEEEccccEEEEcccccccccccHHHHHHHHHHcccccHcHHHHHHcccccccccccEEcccccccEEEccccccEEEEEEccccccccccccccccccccHHHcccccc
Coil and Loop (DISEMBL)
mesedefdmqdanasaeeddfysggdddaapayafdsddadvadyefidndsddsddlvsnrhqlnytvlTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLlekpavqfpdgeemtcgicfenypsdrllaaacghpfcsscwtgyistaindgpgclmlrcpdpscgaavgQDMIYLLSSDEDKVKYNRYFIRSYVednrktkwcpapgcdyavdfvvgsgnydvtcrcsysfcwncteeahrpvdcdtVAKWVLKNSAESENMNwilanskpcprckrpieknqgcmhmtctppckfefcwlclgqwsdhgertggfyacnryetakqegvv
Flexible Loop (DISEMBL)
MESEDEFDMQDANASAEEDDFYSGGDDDAAPAYAFDSDDADVADYEFIDndsddsddlvsnrhqlnytvlteadirqrqEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLlekpavqfpdgeemTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLssdedkvkyNRYFIRsyvednrktkwcpaPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEeahrpvdcdtVAKWVLKnsaesenmnwilanskpcprcKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGVV
Low Complexity Region (SEG)
MESEDEFDMQDANASAEEDDFYSGGDDDAAPAYAFDSDDADVADYEFIdndsddsddLVSNRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGVV
Disordered region (IsUnstruct)
**************************************************************HQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRY*********
Disordered Region (DISOPRED)
*ESEDEF*****************************SDDADVADYEFIDND***********HQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAV*************EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWV*********MNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYE********
Disordered Region (DISEMBL)
**********************SGGDDDAAPAYAFDSDDADVADYEFIDNDSDDSDDLVSNRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGVV
Disordered Region (DISPRO)
*******************************************************D***SNRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDH*ERTGGFYAC**YETAK*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MESEDEFDMQDANASAEEDDFYSGGDDDAAPAYAFDSDDADVADYEFIDNDSDDSDDLVSNRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGVV
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	361	2.2.26 [Sep-21-2011]
Q8W468	567	Probable E3 ubiquitin-pro	yes	no	0.944	0.601	0.766	1e-155
Q84RR0	562	Probable E3 ubiquitin-pro	no	no	0.972	0.624	0.708	1e-155
Q8L829	552	Probable E3 ubiquitin-pro	no	no	0.922	0.603	0.683	1e-145
P0C8K8	552	Putative E3 ubiquitin-pro	no	no	0.867	0.567	0.678	1e-135
Q9SKC2	542	Probable E3 ubiquitin-pro	no	no	0.939	0.625	0.537	1e-107
Q9SKC3	543	Probable E3 ubiquitin-pro	no	no	0.842	0.559	0.551	1e-105
Q9SKC4	514	Probable E3 ubiquitin-pro	no	no	0.772	0.542	0.576	1e-101
Q6T486	520	Probable E3 ubiquitin-pro	yes	no	0.911	0.632	0.371	6e-65
Q84RQ9	496	Probable E3 ubiquitin-pro	no	no	0.731	0.532	0.411	3e-55
Q9P3U4	504	Uncharacterized RING fing	yes	no	0.855	0.613	0.338	3e-51

>sp|Q8W468|ARI8_ARATH Probable E3 ubiquitin-protein ligase ARI8 OS=Arabidopsis thaliana GN=ARI8 PE=2 SV=1

 Score =  548 bits (1411), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 263/343 (76%), Positives = 300/343 (87%), Gaps = 2/343 (0%)

Query: 18  EDDFYSGGDDDAAPAYAFDSDDADVADYEFIDNDSDDSDDLVSNRHQLNYTVLTEADIRQ 77
           +DDFYSG ++ +  A + D DDAD  +YEF+D+ +DDSDDL+  R Q NY+VL+EADI +
Sbjct: 4   DDDFYSGTENYSDYADS-DEDDAD-GEYEFVDDAADDSDDLIFRRRQQNYSVLSEADICK 61

Query: 78  RQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLLEKPAVQFP 137
            QE+DI+RISTVLSIS+ +++ILLR YNW VS+VHDEWFADEE+VR AVGLLEKP V FP
Sbjct: 62  LQEDDISRISTVLSISRNSSAILLRHYNWCVSRVHDEWFADEEKVRDAVGLLEKPVVDFP 121

Query: 138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA 197
              E+ CGICFE + SD+L AAACGHPFC SCW GYI+TAINDGPGCL LRCPDPSC AA
Sbjct: 122 TDGELDCGICFETFLSDKLHAAACGHPFCDSCWEGYITTAINDGPGCLTLRCPDPSCRAA 181

Query: 198 VGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTCRC 257
           VGQDMI LL+ D+DK KY  YF+RSYVEDNRKTKWCPAPGCDYAV+FVVGSGNYDV CRC
Sbjct: 182 VGQDMINLLAPDKDKQKYTSYFVRSYVEDNRKTKWCPAPGCDYAVNFVVGSGNYDVNCRC 241

Query: 258 SYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKNQGCMH 317
            YSFCWNC EEAHRPVDCDTV+KWVLKNSAESENMNWILANSKPCP+CKRPIEKNQGCMH
Sbjct: 242 CYSFCWNCAEEAHRPVDCDTVSKWVLKNSAESENMNWILANSKPCPKCKRPIEKNQGCMH 301

Query: 318 MTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGV 360
           +TCTPPCKFEFCWLCLG W++HGE+TGGFYACNRYE AKQ+G+
Sbjct: 302 ITCTPPCKFEFCWLCLGAWTEHGEKTGGFYACNRYEAAKQDGI 344

Might act as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q84RR0|ARI7_ARATH Probable E3 ubiquitin-protein ligase ARI7 OS=Arabidopsis thaliana GN=ARI7 PE=2 SV=1

 Score =  546 bits (1408), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 255/360 (70%), Positives = 300/360 (83%), Gaps = 9/360 (2%)

Query: 1   MESEDEFDMQDAN-ASAEEDDFYSGGDDDAAPAYAFDSDDADVADYEFIDNDSDDSDDLV 59
           M+SE+  DM DA+   + EDDFYSGG DD       DSDD +  DY F++ D+DDS  + 
Sbjct: 1   MDSEE--DMLDAHDMESGEDDFYSGGTDDCN-----DSDDGE-PDYGFVEEDADDSAMIA 52

Query: 60  SNRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADE 119
           S+R Q N+ VL E DIR+ Q ++I R+S VLSI++V ASILLR ++WSV +VHDEWFADE
Sbjct: 53  SHRSQKNFCVLREEDIRRHQMDNIERVSVVLSITEVEASILLRHFHWSVGRVHDEWFADE 112

Query: 120 ERVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAIN 179
           ERVRK VG+LE   V   D  E+TCGICF++YP +++ + +CGHPFC++CWTGYIST IN
Sbjct: 113 ERVRKTVGILESHVVPPSDDSELTCGICFDSYPPEKIASVSCGHPFCTTCWTGYISTTIN 172

Query: 180 DGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCD 239
           DGPGCLMLRCPDPSC AAVG DM+  L+S+++K KYNRYF+RSY+EDNRK KWCPAPGCD
Sbjct: 173 DGPGCLMLRCPDPSCLAAVGHDMVDKLASEDEKEKYNRYFLRSYIEDNRKMKWCPAPGCD 232

Query: 240 YAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANS 299
           +A+DFV GSGNYDV+C CS+SFCWNCTEEAHRPVDC TV+KW+LKNSAESENMNWILANS
Sbjct: 233 FAIDFVAGSGNYDVSCLCSFSFCWNCTEEAHRPVDCSTVSKWILKNSAESENMNWILANS 292

Query: 300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEG 359
           KPCPRCKRPIEKNQGCMHMTCTPPCK+EFCWLCLG W DHGERTGGFYACNRYE AKQEG
Sbjct: 293 KPCPRCKRPIEKNQGCMHMTCTPPCKYEFCWLCLGAWMDHGERTGGFYACNRYEVAKQEG 352

Might act as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8L829|ARI5_ARATH Probable E3 ubiquitin-protein ligase ARI5 OS=Arabidopsis thaliana GN=ARI5 PE=2 SV=1

 Score =  516 bits (1328), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 233/341 (68%), Positives = 279/341 (81%), Gaps = 8/341 (2%)

Query: 20  DFYSGGDDDAAPAYAFDSDDADVADYEFIDNDSDDSDDLVSNRHQLNYTVLTEADIRQRQ 79
           D+YSGG         +D +D+D  D+ F + D+DD+  + S R + NY VL E DIR+ Q
Sbjct: 16  DYYSGG--------TYDDNDSDETDFGFGEADTDDAAIIASYRSKSNYVVLKEEDIRRHQ 67

Query: 80  EEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLLEKPAVQFPDG 139
            +D+ R+S VLSI+ V AS LL  Y+WSVSKV+DEWFADEERVR+ VG+LE P V  PDG
Sbjct: 68  NDDVGRVSAVLSITDVEASTLLLHYHWSVSKVNDEWFADEERVRRTVGILEGPVVTTPDG 127

Query: 140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG 199
            E TCGICF++Y  + +++ +CGHPFC++CWTGYIST INDGPGCLML+CPDPSC AA+G
Sbjct: 128 REFTCGICFDSYTLEEIVSVSCGHPFCATCWTGYISTTINDGPGCLMLKCPDPSCPAAIG 187

Query: 200 QDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSY 259
           +DMI  L+S EDK KY RYF+RSYVE NR+ KWCPAPGC++A+DF  G+ +YDV+C CS+
Sbjct: 188 RDMIDKLASKEDKEKYYRYFLRSYVEVNREMKWCPAPGCEHAIDFAGGTESYDVSCLCSH 247

Query: 260 SFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKNQGCMHMT 319
           SFCWNCTEEAHRPVDCDTV KW+LKNSAESENMNWILANSKPCP+CKRPIEKN GCMHMT
Sbjct: 248 SFCWNCTEEAHRPVDCDTVGKWILKNSAESENMNWILANSKPCPKCKRPIEKNHGCMHMT 307

Query: 320 CTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGV 360
           CTPPCKFEFCWLCL  W++HGERTGGFYACNRYE AKQEG+
Sbjct: 308 CTPPCKFEFCWLCLNAWTEHGERTGGFYACNRYEAAKQEGL 348

Might act as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P0C8K8|ARI6_ARATH Putative E3 ubiquitin-protein ligase ARI6 OS=Arabidopsis thaliana GN=ARI6 PE=5 SV=1

 Score =  480 bits (1236), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 215/317 (67%), Positives = 263/317 (82%), Gaps = 4/317 (1%)

Query: 45  YEFIDNDSDDSDDLVSNRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFY 104
           Y F + D+DD+  +  +R Q+NY VL E DIR+ Q++D+ R+S VLSI+ V AS+LL  Y
Sbjct: 37  YVFGEADTDDAAIIAYHRSQINYVVLKEEDIRRHQKDDVGRVSVVLSITDVQASLLLLHY 96

Query: 105 NWSVSKVHDEWFADEERVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHP 164
           +WSVSKV+DEWFADE+RVR+ VG+LE PA   PDG E TCGICFE+YP +  ++ +CGHP
Sbjct: 97  HWSVSKVNDEWFADEDRVRRTVGILEGPA---PDGREFTCGICFESYPLEETISVSCGHP 153

Query: 165 FCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYV 224
           FC++CWTGYIST+INDGPGCLML+CP P C AA+G+DMI  L S EDK +Y RYF+RSYV
Sbjct: 154 FCATCWTGYISTSINDGPGCLMLKCPYPCCPAAIGRDMIDNLCSKEDKERYYRYFLRSYV 213

Query: 225 EDNRKTKWCPAPGCDYAVDFVVGS-GNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVL 283
           E NR+ K CPAPGC++A+ F  G+  NYDV+C CS+SFCWNC+EEAHRPVDCDTV KW+L
Sbjct: 214 EVNREMKCCPAPGCEHAISFAAGTESNYDVSCLCSHSFCWNCSEEAHRPVDCDTVGKWIL 273

Query: 284 KNSAESENMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERT 343
           KNS ESENMNWILANSKPCP+CKRPIEKN GCMHMTCTPPCKFEFCWLCL  W++HGE +
Sbjct: 274 KNSTESENMNWILANSKPCPKCKRPIEKNHGCMHMTCTPPCKFEFCWLCLNAWTEHGESS 333

Query: 344 GGFYACNRYETAKQEGV 360
           GG+YACNRYE AK++G+
Sbjct: 334 GGYYACNRYEAAKKQGL 350

Might act as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9SKC2|ARI11_ARATH Probable E3 ubiquitin-protein ligase ARI11 OS=Arabidopsis thaliana GN=ARI11 PE=2 SV=1

 Score =  389 bits (998), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 187/348 (53%), Positives = 247/348 (70%), Gaps = 9/348 (2%)

Query: 15  SAEEDDFYSGGDDDAAPAYAFDSDDADV-ADYEFIDNDSDDSDDLVSNRHQLNYTVLTEA 73
           S EED +  GG+D        +S + D+ +D   + +D +  DD +S R + +Y V+ E 
Sbjct: 13  SGEEDLYSDGGND----IIDIESGEEDLYSDGGNVSDDYNPVDDTIS-RSEKSYVVVKEE 67

Query: 74  DIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLLEKPA 133
           DI + Q +DI ++STVLS+S+V + +LL  Y+W VSK+ DEWF DEER+RK VG+L++P 
Sbjct: 68  DILKLQRDDIEQVSTVLSVSQVESIVLLLHYHWCVSKLEDEWFTDEERIRKTVGILKEPV 127

Query: 134 VQFPDGE-EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDP 192
           V     E ++ CGICFE+Y    +   +CGHP+C +CWTGYI+T I DGPGCL ++CP+P
Sbjct: 128 VDVNGTEVDIQCGICFESYTRKEIARVSCGHPYCKTCWTGYITTKIEDGPGCLRVKCPEP 187

Query: 193 SCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDF-VVGSGNY 251
           SC A VGQDMI  ++  +DK KY RYF+RSYVED +K KWCP+PGC+YAV+F V GS +Y
Sbjct: 188 SCYAVVGQDMIDEVTEKKDKDKYYRYFLRSYVEDGKKMKWCPSPGCEYAVEFGVNGSSSY 247

Query: 252 DVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEK 311
           DV+C CSY FCWNC E+AH PVDC+TV+KW+LKN  ESENMNWILA +KPCP+CKRPIEK
Sbjct: 248 DVSCLCSYKFCWNCCEDAHSPVDCETVSKWLLKNKDESENMNWILAKTKPCPKCKRPIEK 307

Query: 312 NQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEG 359
           N GC HM+C+ PC+  FCW CL   SDH +    F A N  ET ++  
Sbjct: 308 NTGCNHMSCSAPCRHYFCWACLQPLSDH-KACNAFKADNEDETKRKRA 354

Might act as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9SKC3|ARI9_ARATH Probable E3 ubiquitin-protein ligase ARI9 OS=Arabidopsis thaliana GN=ARI9 PE=2 SV=1

 Score =  381 bits (978), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 177/321 (55%), Positives = 227/321 (70%), Gaps = 17/321 (5%)

Query: 50  NDSDDSDDLVSN--RHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWS 107
           N+SDD +D+V      + +Y +L E DI + Q +DI R+S++LS+S+V   +LL  YNW 
Sbjct: 24  NESDDYNDVVDTIIPSEKSYVILKEEDILKLQRDDIERVSSILSLSQVEVIVLLLHYNWC 83

Query: 108 VSKVHDEWFADEERVRKAVGLLEKPAVQFPDGEE--------MTCGICFENYPSDRLLAA 159
           VSKV DEWF DEER+RKAVGLL++P V F  GE+        + CGICFE+Y  + +   
Sbjct: 84  VSKVEDEWFTDEERIRKAVGLLKEPVVDFNGGEKDKKCRKVNIQCGICFESYTREEIARV 143

Query: 160 ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYF 219
           +CGHP+C +CW GYI+T I DGPGCL ++CP+PSC AAVG+DMI  ++  +   KY+RY 
Sbjct: 144 SCGHPYCKTCWAGYITTKIEDGPGCLRVKCPEPSCSAAVGKDMIEDVTETKVNEKYSRYI 203

Query: 220 IRSYVEDNRKTKWCPAPGCDYAVDFVVG-SGNYDVTCRCSYSFCWNCTEEAHRPVDCDTV 278
           +RSYVED +K KWCP+PGC YAV+F    S +YDV+C CSY FCWNC+E+AH PVDCDTV
Sbjct: 204 LRSYVEDGKKIKWCPSPGCGYAVEFGGSESSSYDVSCLCSYRFCWNCSEDAHSPVDCDTV 263

Query: 279 AKWVLKNSAESENMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSD 338
           +KW+ KN  ESEN NW+LANSKPCP CKRPIEKN GC HMTC+ PC  EFCW+CL  +  
Sbjct: 264 SKWIFKNQDESENKNWMLANSKPCPECKRPIEKNDGCNHMTCSAPCGHEFCWICLKAYRR 323

Query: 339 HGERTGGFYACNRYETAKQEG 359
           H        ACNR+   + E 
Sbjct: 324 HSG------ACNRFVVEQAES 338

Might act as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9SKC4|ARI10_ARATH Probable E3 ubiquitin-protein ligase ARI10 OS=Arabidopsis thaliana GN=ARI10 PE=2 SV=1

 Score =  369 bits (948), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 166/288 (57%), Positives = 213/288 (73%), Gaps = 9/288 (3%)

Query: 66  NYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKA 125
           +Y ++ E +I + Q +DI R+ST+L +S+V A +LL  Y+W VSK+ DEWF DEER+RK 
Sbjct: 42  SYVIIKEEEILKLQRDDIERVSTILFLSQVEAIVLLLHYHWCVSKLEDEWFTDEERIRKT 101

Query: 126 VGLLEKPAVQFPDGE-EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGC 184
           VG+L++P V     E ++ CGICFE+Y    + + +CGHP+C +CWTGYI+T I DGPGC
Sbjct: 102 VGILKEPVVDVNGTEVDIQCGICFESYTRKEIASVSCGHPYCKTCWTGYITTKIEDGPGC 161

Query: 185 LMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDF 244
           L ++CP+PSC A VGQDMI  ++  +DK KY RYF+RSYVED +K KWCP+PGC+ AV+F
Sbjct: 162 LRVKCPEPSCYAVVGQDMIDEVTEKKDKDKYYRYFLRSYVEDGKKMKWCPSPGCECAVEF 221

Query: 245 VVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPR 304
              SG YDV C CSY FCWNC+E+AH PVDC+TV+KW+ KN  ESEN NWILANSKPCP+
Sbjct: 222 GESSG-YDVACLCSYRFCWNCSEDAHSPVDCETVSKWIFKNQDESENKNWILANSKPCPK 280

Query: 305 CKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRY 352
           CKRPIEK+ GC HMTC+  C   FCW+C   +SDH       YACN Y
Sbjct: 281 CKRPIEKSHGCNHMTCSASCGHRFCWICGKSYSDH-------YACNNY 321

Might act as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q6T486|RBRA_DICDI Probable E3 ubiquitin-protein ligase rbrA OS=Dictyostelium discoideum GN=rbrA PE=3 SV=1

 Score =  248 bits (632), Expect = 6e-65,   Method: Compositional matrix adjust.
 Identities = 129/347 (37%), Positives = 189/347 (54%), Gaps = 18/347 (5%)

Query: 26  DDDAAPAYAFDS------DDADVADYEFIDNDSDDSDDLVSNRHQLNYTVLTEADIRQRQ 79
           DDD+A     +S      DDA   +++F +N    S  L     Q ++ VL + D+    
Sbjct: 13  DDDSAEESGNESLDDTEYDDAATQEFDFDENQPQRS--LGKLTRQKSFEVLNKDDLFSES 70

Query: 80  EEDITRISTVLSI-SKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGL---LEKPAVQ 135
            + I  +  VLSI S+ A S LLR   W+  K+ + +  + E++    G+   ++  A  
Sbjct: 71  HKIIKEVKDVLSIPSEAAVSTLLRHMKWNKEKLIERYMENPEKLCIDAGVPNVMKLNATI 130

Query: 136 FPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCG 195
                 ++C IC E+YP  +  A  C H +C  C+  Y+   +++GP C+   CP P C 
Sbjct: 131 VEKSGNVSCLICLEDYPPTQTFALICNHRYCLPCYKNYLEIKVSEGPECIYTPCPAPKCK 190

Query: 196 AAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC 255
             V QD    + S E   ++N + ++SYV+DN + KWCPAPGC Y++          V C
Sbjct: 191 VIVHQDAFKQIVSPEVFERFNNFILKSYVDDNPQVKWCPAPGCIYSIRCDRKERKEAVNC 250

Query: 256 RCSYSFCWNCTEEA---HRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKN 312
           +C + +C+NC +     H P  C  V KW+ K S ESEN+ W+LAN+K CP C+ PIEKN
Sbjct: 251 KCGFQYCFNCNDYEIGDHMPCPCSQVDKWLQKASDESENVTWMLANTKKCPECRSPIEKN 310

Query: 313 QGCMHMTCTPP---CKFEFCWLCLGQWSDHGERTGGFYACNRYETAK 356
            GCMHMTC      C FEFCWLC G W++HG  TGG+Y CN+Y+ +K
Sbjct: 311 GGCMHMTCRKNAGGCGFEFCWLCRGPWTEHGSTTGGYYNCNKYDKSK 357

Might act as an E3 ubiquitin-protein ligase. Appears to be required for normal cell-type proportioning and cell sorting during multicellular development. In addition to being necessary for a normal percentage of prestalk cells and the organization of the slug, rbrA is also necessary for spore cell viability.

Dictyostelium discoideum (taxid: 44689)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q84RQ9|ARI12_ARATH Probable E3 ubiquitin-protein ligase ARI12 OS=Arabidopsis thaliana GN=ARI12 PE=2 SV=2

 Score =  216 bits (549), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 121/294 (41%), Positives = 160/294 (54%), Gaps = 30/294 (10%)

Query: 64  QLNY-TVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERV 122
           Q NY TVLTE DIR   E D+  +S   S+SK  A++LL    W+V  +  +W A  + V
Sbjct: 35  QRNYATVLTEEDIRALMEIDVQSVSDFTSLSKAEATLLLSHLRWNVDCICKQWSAGAQSV 94

Query: 123 RKAVGLLE--KPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAIND 180
           R +VGLLE   P+    D  E  CG C E++P   L + +CGH  C+ CWT +I+  I++
Sbjct: 95  RDSVGLLELDPPS----DDNEYFCGACGESHPHKNLASVSCGHRICTRCWTSHINKIISE 150

Query: 181 GPGC---LMLRCP-----DPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKW 232
            P     L L+CP       SC A+VG D I   +S  +K  YN+Y +RSYV++    KW
Sbjct: 151 KPAAEWNLWLKCPVRVGLHASCPASVGLDTIERFASKREKFNYNQYLLRSYVDNRETMKW 210

Query: 233 CPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENM 292
            P  G   A+D   GSGN  V+C     FCWNC E+AH PVDC T AKW+L+N+      
Sbjct: 211 HPIQGSRCAIDLSPGSGNASVSCHRLVRFCWNCREDAHSPVDCKTAAKWLLENAV----- 265

Query: 293 NWILANSKPCPRCKRPIEKNQ-GCMHMTCTPPCKFEFCWLCLGQWSDHGERTGG 345
                   PCP+CK  I +NQ   + M C  PC + FCW C   W +  E TGG
Sbjct: 266 --------PCPKCKLRIPRNQDNSLKMKCL-PCNYVFCWFCHVDWIEDMEGTGG 310

Might act as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9P3U4|YKX2_SCHPO Uncharacterized RING finger protein C328.02 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC328.02 PE=3 SV=1

 Score =  202 bits (515), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 112/331 (33%), Positives = 177/331 (53%), Gaps = 22/331 (6%)

Query: 36  DSDDADVADYEFIDNDSDDSDDLVSNR-----HQLNYTVLTEADIRQRQEEDITRISTVL 90
           D  DA   + EF ++   D D     R     H ++Y V++  D+R    E I ++++++
Sbjct: 17  DLLDASEFEDEFDEDAEIDDDGFTVERKRRRAHSVSYRVVSVRDLRASLNEKINQLTSII 76

Query: 91  SISKVAASILLRFYNWSVSKVHDEWF-ADEERVRKAVGLLEKPAVQFPDGEEMTCGICFE 149
            +++     L R++ W+  ++ + +  A EE ++KA   L     +     E TC IC++
Sbjct: 77  DLTREQVLGLYRYFKWNRERLLERYIDAPEESLQKAGVGLSGSKQREVVHHEGTCEICYD 136

Query: 150 N--YPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLS 207
               P     +A C H FC +C+  Y+ + I++G    +++CP+ SC   V    I  + 
Sbjct: 137 EGCLP---FFSAECDHEFCLACYRQYLDSRISEGES--VIQCPEESCTQIVSIQSITKVL 191

Query: 208 SDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYD-----VTCRCSYSFC 262
            ++   +Y+R   RS+V+DN   +WCPAP C++A++  V   +       VTC C   FC
Sbjct: 192 DEKSLDRYHRLLDRSFVDDNDHLRWCPAPDCEFAIECHVTQASLSSVVPTVTCNCGKQFC 251

Query: 263 WNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKNQGCMHMTCTP 322
           + C  + H+P  C  V  W+ K   +SE  NWI AN+K CP+C   IEKN GC HMTC  
Sbjct: 252 FGCGHDNHQPTICPLVKIWLQKCQDDSETANWIHANTKECPKCSTTIEKNGGCNHMTC-K 310

Query: 323 PCKFEFCWLCLGQWSDHGERTGGFYACNRYE 353
            CK+EFCW+CLG W++HG     +Y CNRYE
Sbjct: 311 KCKYEFCWVCLGPWTEHG---NNWYTCNRYE 338

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

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	361
224109192	591	predicted protein [Populus trichocarpa]	0.983	0.600	0.861	0.0
224101249	591	predicted protein [Populus trichocarpa]	0.983	0.600	0.838	1e-179
359495753	652	PREDICTED: probable E3 ubiquitin-protein	0.972	0.538	0.816	1e-169
449442245	597	PREDICTED: probable E3 ubiquitin-protein	0.988	0.597	0.808	1e-169
298205054	581	unnamed protein product [Vitis vinifera]	0.955	0.593	0.818	1e-167
147843035	588	hypothetical protein VITISV_023021 [Viti	0.969	0.595	0.776	1e-161
414586613	589	TPA: putative RING zinc finger domain su	0.969	0.594	0.752	1e-159
242073556	589	hypothetical protein SORBIDRAFT_06g02108	0.969	0.594	0.752	1e-158
38346221	589	OJ990528_30.1 [Oryza sativa Japonica Gro	0.969	0.594	0.75	1e-158
326522708	589	predicted protein [Hordeum vulgare subsp	0.969	0.594	0.75	1e-157

>gi|224109192|ref|XP_002315117.1| predicted protein [Populus trichocarpa] gi|222864157|gb|EEF01288.1| predicted protein [Populus trichocarpa]

 Score =  647 bits (1669), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 310/360 (86%), Positives = 336/360 (93%), Gaps = 5/360 (1%)

Query: 1   MESEDEFDMQDANASAEEDDFYSGGDDDAAPAYAFDSDDADVADYEFIDNDSDDSDDLVS 60
           M+SEDEFDMQDA A + EDDFYSGG++D      FDSDDADVADYEFIDNDSDDSDDL+S
Sbjct: 1   MDSEDEFDMQDAAAESAEDDFYSGGEEDG-----FDSDDADVADYEFIDNDSDDSDDLIS 55

Query: 61  NRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEE 120
           +RHQ NYTVL+E DIRQRQ++D+ RI+TVLSISKVAASILLR+YNWSVSKVHDEWFADEE
Sbjct: 56  HRHQQNYTVLSEEDIRQRQDDDVMRIATVLSISKVAASILLRYYNWSVSKVHDEWFADEE 115

Query: 121 RVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAIND 180
           +VRKAVGLLE+P V FPDG EMTCGICFE YPSDRLLAAACGHPFC+SCW GYISTAIND
Sbjct: 116 KVRKAVGLLEEPVVPFPDGREMTCGICFETYPSDRLLAAACGHPFCNSCWAGYISTAIND 175

Query: 181 GPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDY 240
           GPGCLMLRCPDPSC AA+GQDMI LL+SDED  K++RYFIRSY+EDNRKTKWCPAPGCDY
Sbjct: 176 GPGCLMLRCPDPSCNAAIGQDMINLLTSDEDSEKHSRYFIRSYIEDNRKTKWCPAPGCDY 235

Query: 241 AVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSK 300
           AVDF+VGSG+YDVTCRC+YSFCWNCTEEAHRPVDC TVAKW+LKNSAESENMNWILANSK
Sbjct: 236 AVDFIVGSGSYDVTCRCAYSFCWNCTEEAHRPVDCGTVAKWILKNSAESENMNWILANSK 295

Query: 301 PCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGV 360
           PCP+CKRPIEKNQGCMH+TCTPPCKFEFC LCLG WSDHGERTGGFYACNRYETAKQEGV
Sbjct: 296 PCPKCKRPIEKNQGCMHITCTPPCKFEFCRLCLGAWSDHGERTGGFYACNRYETAKQEGV 355

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224101249|ref|XP_002312201.1| predicted protein [Populus trichocarpa] gi|222852021|gb|EEE89568.1| predicted protein [Populus trichocarpa]

 Score =  633 bits (1632), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 302/360 (83%), Positives = 330/360 (91%), Gaps = 5/360 (1%)

Query: 1   MESEDEFDMQDANASAEEDDFYSGGDDDAAPAYAFDSDDADVADYEFIDNDSDDSDDLVS 60
           M SEDE DMQDA A + EDDFYSGG++D      FDSDDADVADYEFIDNDSDDSDDL+S
Sbjct: 1   MVSEDELDMQDAAAESAEDDFYSGGEEDG-----FDSDDADVADYEFIDNDSDDSDDLIS 55

Query: 61  NRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEE 120
           +R+Q NYT+L+E DIRQRQ++DI RI+TVLSISKVAA+ILLR+YNWSVSKVHDEWFADEE
Sbjct: 56  HRYQQNYTILSEGDIRQRQDDDIMRIATVLSISKVAATILLRYYNWSVSKVHDEWFADEE 115

Query: 121 RVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAIND 180
           +VR+AVGLLE+P V FPDG EMTCGICFE YPSDRL A  CGH FC+SCW GYISTAIND
Sbjct: 116 KVRRAVGLLEEPVVPFPDGREMTCGICFETYPSDRLRAVVCGHAFCNSCWAGYISTAIND 175

Query: 181 GPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDY 240
           GPGCLMLRCPDPSC AAVGQDMI +L+S+ED  KY+RYFIRSY+EDNRKTKWCPAPGCDY
Sbjct: 176 GPGCLMLRCPDPSCNAAVGQDMINVLTSNEDSDKYSRYFIRSYIEDNRKTKWCPAPGCDY 235

Query: 241 AVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSK 300
           AVDF+VGSG+YDV CRC+YSFCWNCTEEAHRPVDC TVAKW+LKNSAESENMNWILANSK
Sbjct: 236 AVDFIVGSGSYDVICRCAYSFCWNCTEEAHRPVDCGTVAKWILKNSAESENMNWILANSK 295

Query: 301 PCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGV 360
           PCP+CKRPIEKNQGCMH+TCTPPCKFEFCWLCLG WSDHGERTGGFYACNRYETAKQEGV
Sbjct: 296 PCPKCKRPIEKNQGCMHITCTPPCKFEFCWLCLGAWSDHGERTGGFYACNRYETAKQEGV 355

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495753|ref|XP_002268068.2| PREDICTED: probable E3 ubiquitin-protein ligase ARI8-like [Vitis vinifera]

 Score =  600 bits (1547), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 294/360 (81%), Positives = 319/360 (88%), Gaps = 9/360 (2%)

Query: 1   MESEDEFDMQDANASAEEDDFYSGGDDDAAPAYAFDSDDADVADYEFIDNDSDDSDDLVS 60
           MESED  DM DAN +   DDFYSG     +          D ADYEFIDNDSDDSDDL S
Sbjct: 66  MESED--DMHDANDAESLDDFYSGETAADSDD-------LDAADYEFIDNDSDDSDDLTS 116

Query: 61  NRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEE 120
           +R+Q NYT+LTEADIRQRQE+DITRISTVLSI +V+ASILLR Y WSVSKVHDEWFADEE
Sbjct: 117 HRYQQNYTILTEADIRQRQEDDITRISTVLSIPRVSASILLRHYYWSVSKVHDEWFADEE 176

Query: 121 RVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAIND 180
           +VRKAVGLLEKP VQFP+  E+TCGICFENYP DR+ +AACGHPFC +CW GY STAI D
Sbjct: 177 KVRKAVGLLEKPVVQFPNARELTCGICFENYPRDRISSAACGHPFCGTCWAGYTSTAITD 236

Query: 181 GPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDY 240
           GPGCLMLRCPDP+CGAAVGQDMI LL+SDEDK KY+RYF+RSY+EDNRKTKWCPAPGCDY
Sbjct: 237 GPGCLMLRCPDPTCGAAVGQDMINLLASDEDKEKYSRYFLRSYIEDNRKTKWCPAPGCDY 296

Query: 241 AVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSK 300
           AVDF+VGSG+YDV+CRCSYSFCWNCTEEAHRPVDC TVAKW+LKNSAESENMNWILANSK
Sbjct: 297 AVDFIVGSGSYDVSCRCSYSFCWNCTEEAHRPVDCGTVAKWILKNSAESENMNWILANSK 356

Query: 301 PCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGV 360
           PCP+CKRPIEKNQGCMH+TCTPPCKFEFCWLCLG WSDHGERTGGFYACNRYETAKQEGV
Sbjct: 357 PCPKCKRPIEKNQGCMHITCTPPCKFEFCWLCLGAWSDHGERTGGFYACNRYETAKQEGV 416

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449442245|ref|XP_004138892.1| PREDICTED: probable E3 ubiquitin-protein ligase ARI8-like [Cucumis sativus]

 Score =  599 bits (1544), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 295/365 (80%), Positives = 327/365 (89%), Gaps = 8/365 (2%)

Query: 1   MESEDEFDMQDANASAEEDD-----FYSGGDDDAAPAYAFDSDDADVADYEFIDNDSDDS 55
           MESEDE DM DA+   ++       FYSGGDDDAA     DSDDADV DYEF+DNDSDDS
Sbjct: 1   MESEDELDMHDAHDDDDDSVDNEEDFYSGGDDDAA---GIDSDDADVGDYEFVDNDSDDS 57

Query: 56  DDLVSNRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEW 115
           DD+VS RHQ NY +L EADI+Q QEEDITR+STVLSISKVAASILLR+YNWSVSKVHDEW
Sbjct: 58  DDMVSYRHQQNYIILAEADIQQCQEEDITRVSTVLSISKVAASILLRYYNWSVSKVHDEW 117

Query: 116 FADEERVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYIS 175
           FADEE+VR++VGLL+KP ++  +  E+ CGICFE YP D++ +AACGHPFC++CWTGYIS
Sbjct: 118 FADEEKVRRSVGLLQKPVLRHSNELELPCGICFEIYPLDKIQSAACGHPFCNACWTGYIS 177

Query: 176 TAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPA 235
           T+INDGPGCLMLRCPDPSCGAAVGQDMI LL SD++K KY RYF+RSYVEDNRKTKWCPA
Sbjct: 178 TSINDGPGCLMLRCPDPSCGAAVGQDMINLLVSDDEKKKYFRYFVRSYVEDNRKTKWCPA 237

Query: 236 PGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWI 295
           PGCDYAVDF+VGSG+YDVTCRCSYSFCWNCTEEAHRPVDC TVA+W+LKNSAESENMNWI
Sbjct: 238 PGCDYAVDFIVGSGSYDVTCRCSYSFCWNCTEEAHRPVDCVTVARWILKNSAESENMNWI 297

Query: 296 LANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETA 355
           LANSKPCP+CKRPIEKNQGCMH+TCTPPCKFEFCWLCLG WSDHGERTGGFYACNRYETA
Sbjct: 298 LANSKPCPKCKRPIEKNQGCMHLTCTPPCKFEFCWLCLGPWSDHGERTGGFYACNRYETA 357

Query: 356 KQEGV 360
           KQEGV
Sbjct: 358 KQEGV 362

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|298205054|emb|CBI38350.3| unnamed protein product [Vitis vinifera]

 Score =  594 bits (1531), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 288/352 (81%), Positives = 313/352 (88%), Gaps = 7/352 (1%)

Query: 9   MQDANASAEEDDFYSGGDDDAAPAYAFDSDDADVADYEFIDNDSDDSDDLVSNRHQLNYT 68
           M DAN +   DDFYSG     +          D ADYEFIDNDSDDSDDL S+R+Q NYT
Sbjct: 1   MHDANDAESLDDFYSGETAADSDD-------LDAADYEFIDNDSDDSDDLTSHRYQQNYT 53

Query: 69  VLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGL 128
           +LTEADIRQRQE+DITRISTVLSI +V+ASILLR Y WSVSKVHDEWFADEE+VRKAVGL
Sbjct: 54  ILTEADIRQRQEDDITRISTVLSIPRVSASILLRHYYWSVSKVHDEWFADEEKVRKAVGL 113

Query: 129 LEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLR 188
           LEKP VQFP+  E+TCGICFENYP DR+ +AACGHPFC +CW GY STAI DGPGCLMLR
Sbjct: 114 LEKPVVQFPNARELTCGICFENYPRDRISSAACGHPFCGTCWAGYTSTAITDGPGCLMLR 173

Query: 189 CPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGS 248
           CPDP+CGAAVGQDMI LL+SDEDK KY+RYF+RSY+EDNRKTKWCPAPGCDYAVDF+VGS
Sbjct: 174 CPDPTCGAAVGQDMINLLASDEDKEKYSRYFLRSYIEDNRKTKWCPAPGCDYAVDFIVGS 233

Query: 249 GNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRP 308
           G+YDV+CRCSYSFCWNCTEEAHRPVDC TVAKW+LKNSAESENMNWILANSKPCP+CKRP
Sbjct: 234 GSYDVSCRCSYSFCWNCTEEAHRPVDCGTVAKWILKNSAESENMNWILANSKPCPKCKRP 293

Query: 309 IEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGV 360
           IEKNQGCMH+TCTPPCKFEFCWLCLG WSDHGERTGGFYACNRYETAKQEGV
Sbjct: 294 IEKNQGCMHITCTPPCKFEFCWLCLGAWSDHGERTGGFYACNRYETAKQEGV 345

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147843035|emb|CAN83309.1| hypothetical protein VITISV_023021 [Vitis vinifera]

 Score =  575 bits (1483), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 281/362 (77%), Positives = 304/362 (83%), Gaps = 12/362 (3%)

Query: 1   MESEDEFDMQDANASAEEDDFYSGGDDDAAPAYAFDSDDADVADYE--FIDNDSDDSDDL 58
           MESED  DM DAN +   DDFYSG     +          D ADYE  F           
Sbjct: 1   MESED--DMHDANDAESLDDFYSGETAADSDD-------LDAADYEGLFFPILHGFWLPF 51

Query: 59  VSNRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFAD 118
                Q NYT+LTEADIRQRQE+DITRISTVLSI +V+ASILLR Y WSVSKVHDEWFAD
Sbjct: 52  CGGLMQ-NYTILTEADIRQRQEDDITRISTVLSIPRVSASILLRHYYWSVSKVHDEWFAD 110

Query: 119 EERVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAI 178
           EE+VRKAVGLLEKP VQFP+  E+TCGICFENYP DR+ +AACGHPFC +CW GY STAI
Sbjct: 111 EEKVRKAVGLLEKPVVQFPNARELTCGICFENYPRDRISSAACGHPFCGTCWAGYTSTAI 170

Query: 179 NDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGC 238
            DGPGCLMLRCPDP+CGAAVGQDMI LL+SDEDK KY+RYF+RSY+EDNRKTKWCPAPGC
Sbjct: 171 TDGPGCLMLRCPDPTCGAAVGQDMINLLASDEDKEKYSRYFLRSYIEDNRKTKWCPAPGC 230

Query: 239 DYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILAN 298
           DYAVDF+VGSG+YDV+CRCSYSFCWNCTEEAHRPVDC TVAKW+LKNSAESENMNWILAN
Sbjct: 231 DYAVDFIVGSGSYDVSCRCSYSFCWNCTEEAHRPVDCGTVAKWILKNSAESENMNWILAN 290

Query: 299 SKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQE 358
           SKPCP+CKRPIEKNQGCMH+TCTPPCKFEFCWLCLG WSDHGERTGGFYACNRYETAKQE
Sbjct: 291 SKPCPKCKRPIEKNQGCMHITCTPPCKFEFCWLCLGAWSDHGERTGGFYACNRYETAKQE 350

Query: 359 GV 360
           GV
Sbjct: 351 GV 352

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414586613|tpg|DAA37184.1| TPA: putative RING zinc finger domain superfamily protein [Zea mays]

 Score =  565 bits (1457), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 271/360 (75%), Positives = 307/360 (85%), Gaps = 10/360 (2%)

Query: 1   MESEDEFDMQDANASAEEDDFYSGGDDDAAPAYAFDSDDADVADYEFIDNDSDDSDDLVS 60
           MESED  DM DAN SAE DDFYSGG+   A      SDD D ADY+F D+DSDDS +L+S
Sbjct: 1   MESED--DMHDANDSAE-DDFYSGGEAGLAA-----SDDGD-ADYDFADHDSDDSAELIS 51

Query: 61  NRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEE 120
           +R Q NY++L+E DI++RQE+DI R+STVLSISK  A +LLR YNWSVSKVHDEWFADEE
Sbjct: 52  HRQQQNYSILSEVDIQRRQEDDINRVSTVLSISKPEACVLLRNYNWSVSKVHDEWFADEE 111

Query: 121 RVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAIND 180
           RVRK VGL EK   + P+  E+TCGICFE+ P   + AAACGHPFCS+CW GYISTAI+D
Sbjct: 112 RVRKVVGLPEKHN-EMPNDREVTCGICFESCPRGSMSAAACGHPFCSTCWRGYISTAISD 170

Query: 181 GPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDY 240
           GPGCLMLRCPDPSC AAVGQDMI  L++D+DK KY RY  RSY+EDNRKTKWCPAPGC+Y
Sbjct: 171 GPGCLMLRCPDPSCAAAVGQDMINSLAADDDKEKYGRYLRRSYIEDNRKTKWCPAPGCEY 230

Query: 241 AVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSK 300
           AV+FV+GSG+YDV C CSY FCWNCTEEAHRPVDC TV+KW+LKNSAESENMNWILANSK
Sbjct: 231 AVEFVMGSGSYDVNCNCSYGFCWNCTEEAHRPVDCATVSKWILKNSAESENMNWILANSK 290

Query: 301 PCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGV 360
           PCP+CKRPIEKNQGCMH+TCTPPCKFEFCWLCLG WS+HGERTGGFYACNRYE+A+QEG 
Sbjct: 291 PCPKCKRPIEKNQGCMHITCTPPCKFEFCWLCLGPWSEHGERTGGFYACNRYESARQEGA 350

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242073556|ref|XP_002446714.1| hypothetical protein SORBIDRAFT_06g021080 [Sorghum bicolor] gi|241937897|gb|EES11042.1| hypothetical protein SORBIDRAFT_06g021080 [Sorghum bicolor]

 Score =  564 bits (1453), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 271/360 (75%), Positives = 305/360 (84%), Gaps = 10/360 (2%)

Query: 1   MESEDEFDMQDANASAEEDDFYSGGDDDAAPAYAFDSDDADVADYEFIDNDSDDSDDLVS 60
           MESED  DM DAN SAE DDFYSGG+   A      SDD D ADY+F D+DSDDS +L+S
Sbjct: 1   MESED--DMHDANDSAE-DDFYSGGEAGLAA-----SDDGD-ADYDFADHDSDDSAELLS 51

Query: 61  NRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEE 120
           +R Q NY++L+E DI++RQE+DI R+STVLSISK  A +LLR YNWSVSKVHDEWFADEE
Sbjct: 52  HRQQQNYSILSEVDIKRRQEDDINRVSTVLSISKPEACVLLRNYNWSVSKVHDEWFADEE 111

Query: 121 RVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAIND 180
           RVRK VGL EK   + P+  E+TCGICFE+ P   + AAACGHPFC +CW GYISTAI+D
Sbjct: 112 RVRKVVGLPEKHN-EMPNDREVTCGICFESCPRGSMSAAACGHPFCGTCWRGYISTAISD 170

Query: 181 GPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDY 240
           GPGCLMLRCPDPSC AAVGQDMI  L+ DEDK KY RY  RSY+EDNRKTKWCPAPGC+Y
Sbjct: 171 GPGCLMLRCPDPSCAAAVGQDMINSLADDEDKEKYGRYLCRSYIEDNRKTKWCPAPGCEY 230

Query: 241 AVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSK 300
           AV+FV+GSG+YDV C CSY FCWNCTEEAHRPVDC TV+KW+LKNSAESENMNWILANSK
Sbjct: 231 AVEFVMGSGSYDVNCNCSYGFCWNCTEEAHRPVDCATVSKWILKNSAESENMNWILANSK 290

Query: 301 PCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGV 360
           PCP+CKRPIEKNQGCMH+TCTPPCKFEFCWLCLG WS+HGERTGGFYACNRYE+A+QEG 
Sbjct: 291 PCPKCKRPIEKNQGCMHITCTPPCKFEFCWLCLGPWSEHGERTGGFYACNRYESARQEGA 350

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|38346221|emb|CAE02043.2| OJ990528_30.1 [Oryza sativa Japonica Group] gi|38347453|emb|CAE02496.2| OSJNBa0076N16.22 [Oryza sativa Japonica Group] gi|116310337|emb|CAH67352.1| OSIGBa0130B08.12 [Oryza sativa Indica Group] gi|116310738|emb|CAH67533.1| H0425E08.1 [Oryza sativa Indica Group] gi|218195110|gb|EEC77537.1| hypothetical protein OsI_16435 [Oryza sativa Indica Group]

 Score =  563 bits (1451), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 270/360 (75%), Positives = 305/360 (84%), Gaps = 10/360 (2%)

Query: 1   MESEDEFDMQDANASAEEDDFYSGGDDDAAPAYAFDSDDADVADYEFIDNDSDDSDDLVS 60
           M+SED  DM DAN SA+ DDFYSGG+     A    SDD D ADY+F D+DSDDS +L+S
Sbjct: 1   MDSED--DMLDANDSAD-DDFYSGGE-----AGLGGSDDGD-ADYDFADHDSDDSAELLS 51

Query: 61  NRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEE 120
           +R Q NY++L+EADI+QRQE+DI R+STVLSISK  A +LLR YNWSVSKVHDEWFADEE
Sbjct: 52  HRQQQNYSILSEADIQQRQEDDINRVSTVLSISKSEACVLLRNYNWSVSKVHDEWFADEE 111

Query: 121 RVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAIND 180
            VRK VG  EK  ++ P+  E+TCGICFEN P   + AAACGHPFCS+CW GYIST+IND
Sbjct: 112 HVRKVVGFPEK-LIEMPNDRELTCGICFENCPRTSMSAAACGHPFCSACWRGYISTSIND 170

Query: 181 GPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDY 240
           GPGCLMLRCPDPSC AAVGQDMI  L+ DED+ KY RY  RSY+EDNRKTKWCPAPGC+Y
Sbjct: 171 GPGCLMLRCPDPSCTAAVGQDMINSLADDEDREKYGRYLRRSYIEDNRKTKWCPAPGCEY 230

Query: 241 AVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSK 300
           AV+FV+GSG+YDV C CSY FCWNCTEEAHRPVDC TV+KW+LKNSAESENMNWILANSK
Sbjct: 231 AVEFVMGSGSYDVNCNCSYGFCWNCTEEAHRPVDCATVSKWILKNSAESENMNWILANSK 290

Query: 301 PCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGV 360
           PCP+CKRPIEKNQGCMH+TCTPPCKFEFCWLCLG WS+HGERTGGFYACNRYE A+QEG 
Sbjct: 291 PCPKCKRPIEKNQGCMHITCTPPCKFEFCWLCLGPWSEHGERTGGFYACNRYEAARQEGA 350

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326522708|dbj|BAJ88400.1| predicted protein [Hordeum vulgare subsp. vulgare] gi|326527705|dbj|BAK08127.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  561 bits (1446), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 270/360 (75%), Positives = 300/360 (83%), Gaps = 10/360 (2%)

Query: 1   MESEDEFDMQDANASAEEDDFYSGGDDDAAPAYAFDSDDADVADYEFIDNDSDDSDDLVS 60
           M+SED  DM DAN SA+ DDFYSGG+   A      SDD D ADY+F D+DSDDS +L+S
Sbjct: 1   MDSED--DMHDANDSAD-DDFYSGGEAGLAA-----SDDGD-ADYDFADHDSDDSPELLS 51

Query: 61  NRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEE 120
            R Q NY +L+EA I+QRQE+DI R+STVLSISK  A  LLR YNWSVSKVHDEWF DEE
Sbjct: 52  LRQQQNYCILSEAGIKQRQEDDINRVSTVLSISKSEACALLRSYNWSVSKVHDEWFVDEE 111

Query: 121 RVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAIND 180
           RVRK VG  EK  ++ P+  E+ CGICFEN P   + AAACGHPFCS CW GYISTAIND
Sbjct: 112 RVRKVVGFPEK-RIEMPNDRELACGICFENCPHASMSAAACGHPFCSVCWRGYISTAIND 170

Query: 181 GPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDY 240
           GPGCLMLRCPDPSC AAVGQDMI  L+++EDK KY RY  RSY+EDNRKTKWCPAPGC+Y
Sbjct: 171 GPGCLMLRCPDPSCAAAVGQDMINSLANEEDKEKYGRYLRRSYIEDNRKTKWCPAPGCEY 230

Query: 241 AVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSK 300
           AV+FVVGSG+YDV C CSY FCWNCTEEAHRPVDC TV+KW+LKNSAESENMNWILANSK
Sbjct: 231 AVEFVVGSGSYDVNCNCSYGFCWNCTEEAHRPVDCATVSKWILKNSAESENMNWILANSK 290

Query: 301 PCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGV 360
           PCP+CKRPIEKNQGCMH+TCTPPCKFEFCWLCLG WS+HGERTGGFYACNRYE A+QEG 
Sbjct: 291 PCPKCKRPIEKNQGCMHITCTPPCKFEFCWLCLGSWSEHGERTGGFYACNRYEAARQEGA 350

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

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	361
TAIR|locus:2206315	567	ARI8 "ARIADNE 8" [Arabidopsis	0.944	0.601	0.749	1.2e-150
TAIR|locus:2065954	562	ARI7 "ARIADNE 7" [Arabidopsis	0.972	0.624	0.697	1.5e-147
TAIR|locus:2045188	543	ARI9 "ARIADNE 9" [Arabidopsis	0.905	0.602	0.516	4.9e-101
TAIR|locus:2045223	514	ARI10 "ARIADNE 10" [Arabidopsi	0.875	0.614	0.524	5.6e-100
DICTYBASE|DDB_G0286961	520	rbrA "IBR zinc finger-containi	0.939	0.651	0.369	1.5e-65
UNIPROTKB|G4NDZ4	522	MGG_00859 "Ariadne-1" [Magnapo	0.933	0.645	0.341	7.5e-57
POMBASE|SPAC328.02	504	SPAC328.02 "ubiquitin-protein	0.891	0.638	0.331	1.1e-56
ASPGD|ASPL0000014787	511	AN3689 [Emericella nidulans (t	0.930	0.657	0.348	6.8e-56
MGI|MGI:1344363	555	Arih1 "ariadne ubiquitin-conju	0.778	0.506	0.370	1.3e-55
UNIPROTKB|A2VEA3	555	ARIH1 "E3 ubiquitin-protein li	0.778	0.506	0.370	2e-55

TAIR|locus:2206315 ARI8 "ARIADNE 8" [Arabidopsis thaliana (taxid:3702)]

 Score = 1470 (522.5 bits), Expect = 1.2e-150, P = 1.2e-150
 Identities = 257/343 (74%), Positives = 292/343 (85%)

Query:    18 EDDFYSGGDDDAAPAYAFDSDDADVADYEFIXXXXXXXXXLVSNRHQLNYTVLTEADIRQ 77
             +DDFYSG ++ +  A + D DDAD  +YEF+         L+  R Q NY+VL+EADI +
Sbjct:     4 DDDFYSGTENYSDYADS-DEDDAD-GEYEFVDDAADDSDDLIFRRRQQNYSVLSEADICK 61

Query:    78 RQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLLEKPAVQFP 137
              QE+DI+RISTVLSIS+ +++ILLR YNW VS+VHDEWFADEE+VR AVGLLEKP V FP
Sbjct:    62 LQEDDISRISTVLSISRNSSAILLRHYNWCVSRVHDEWFADEEKVRDAVGLLEKPVVDFP 121

Query:   138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA 197
                E+ CGICFE + SD+L AAACGHPFC SCW GYI+TAINDGPGCL LRCPDPSC AA
Sbjct:   122 TDGELDCGICFETFLSDKLHAAACGHPFCDSCWEGYITTAINDGPGCLTLRCPDPSCRAA 181

Query:   198 VGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTCRC 257
             VGQDMI LL+ D+DK KY  YF+RSYVEDNRKTKWCPAPGCDYAV+FVVGSGNYDV CRC
Sbjct:   182 VGQDMINLLAPDKDKQKYTSYFVRSYVEDNRKTKWCPAPGCDYAVNFVVGSGNYDVNCRC 241

Query:   258 SYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKNQGCMH 317
              YSFCWNC EEAHRPVDCDTV+KWVLKNSAESENMNWILANSKPCP+CKRPIEKNQGCMH
Sbjct:   242 CYSFCWNCAEEAHRPVDCDTVSKWVLKNSAESENMNWILANSKPCPKCKRPIEKNQGCMH 301

Query:   318 MTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGV 360
             +TCTPPCKFEFCWLCLG W++HGE+TGGFYACNRYE AKQ+G+
Sbjct:   302 ITCTPPCKFEFCWLCLGAWTEHGEKTGGFYACNRYEAAKQDGI 344

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

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

TAIR|locus:2065954 ARI7 "ARIADNE 7" [Arabidopsis thaliana (taxid:3702)]

 Score = 1441 (512.3 bits), Expect = 1.5e-147, P = 1.5e-147
 Identities = 251/360 (69%), Positives = 294/360 (81%)

Query:     1 MESEDEFDMQDAN-ASAEEDDFYSGGDDDAAPAYAFDSDDADVADYEFIXXXXXXXXXLV 59
             M+SE+  DM DA+   + EDDFYSGG DD       DSDD +  DY F+         + 
Sbjct:     1 MDSEE--DMLDAHDMESGEDDFYSGGTDDCN-----DSDDGE-PDYGFVEEDADDSAMIA 52

Query:    60 SNRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADE 119
             S+R Q N+ VL E DIR+ Q ++I R+S VLSI++V ASILLR ++WSV +VHDEWFADE
Sbjct:    53 SHRSQKNFCVLREEDIRRHQMDNIERVSVVLSITEVEASILLRHFHWSVGRVHDEWFADE 112

Query:   120 ERVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAIN 179
             ERVRK VG+LE   V   D  E+TCGICF++YP +++ + +CGHPFC++CWTGYIST IN
Sbjct:   113 ERVRKTVGILESHVVPPSDDSELTCGICFDSYPPEKIASVSCGHPFCTTCWTGYISTTIN 172

Query:   180 DGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCD 239
             DGPGCLMLRCPDPSC AAVG DM+  L+S+++K KYNRYF+RSY+EDNRK KWCPAPGCD
Sbjct:   173 DGPGCLMLRCPDPSCLAAVGHDMVDKLASEDEKEKYNRYFLRSYIEDNRKMKWCPAPGCD 232

Query:   240 YAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANS 299
             +A+DFV GSGNYDV+C CS+SFCWNCTEEAHRPVDC TV+KW+LKNSAESENMNWILANS
Sbjct:   233 FAIDFVAGSGNYDVSCLCSFSFCWNCTEEAHRPVDCSTVSKWILKNSAESENMNWILANS 292

Query:   300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEG 359
             KPCPRCKRPIEKNQGCMHMTCTPPCK+EFCWLCLG W DHGERTGGFYACNRYE AKQEG
Sbjct:   293 KPCPRCKRPIEKNQGCMHMTCTPPCKYEFCWLCLGAWMDHGERTGGFYACNRYEVAKQEG 352

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2045188 ARI9 "ARIADNE 9" [Arabidopsis thaliana (taxid:3702)]

 Score = 1002 (357.8 bits), Expect = 4.9e-101, P = 4.9e-101
 Identities = 190/368 (51%), Positives = 246/368 (66%)

Query:     1 MESEDEFDMQDANASAEEDDFYSGGDDDAAPAYAFDSDDA-DVADYEFIXXXXXXXXXLV 59
             M+  D+ DM D N S EE+  Y GG++         SDD  DV D             ++
Sbjct:     1 MDFSDD-DMID-NKSGEENYSYGGGNE---------SDDYNDVVD------------TII 37

Query:    60 SNRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADE 119
              +  + +Y +L E DI + Q +DI R+S++LS+S+V   +LL  YNW VSKV DEWF DE
Sbjct:    38 PS--EKSYVILKEEDILKLQRDDIERVSSILSLSQVEVIVLLLHYNWCVSKVEDEWFTDE 95

Query:   120 ERVRKAVGLLEKPAVQFPDGEE--------MTCGICFENYPSDRLLAAACGHPFCSSCWT 171
             ER+RKAVGLL++P V F  GE+        + CGICFE+Y  + +   +CGHP+C +CW 
Sbjct:    96 ERIRKAVGLLKEPVVDFNGGEKDKKCRKVNIQCGICFESYTREEIARVSCGHPYCKTCWA 155

Query:   172 GYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTK 231
             GYI+T I DGPGCL ++CP+PSC AAVG+DMI  ++  +   KY+RY +RSYVED +K K
Sbjct:   156 GYITTKIEDGPGCLRVKCPEPSCSAAVGKDMIEDVTETKVNEKYSRYILRSYVEDGKKIK 215

Query:   232 WCPAPGCDYAVDFVVG-SGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESE 290
             WCP+PGC YAV+F    S +YDV+C CSY FCWNC+E+AH PVDCDTV+KW+ KN  ESE
Sbjct:   216 WCPSPGCGYAVEFGGSESSSYDVSCLCSYRFCWNCSEDAHSPVDCDTVSKWIFKNQDESE 275

Query:   291 NMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACN 350
             N NW+LANSKPCP CKRPIEKN GC HMTC+ PC  EFCW+CL  +  H   +G   ACN
Sbjct:   276 NKNWMLANSKPCPECKRPIEKNDGCNHMTCSAPCGHEFCWICLKAYRRH---SG---ACN 329

Query:   351 RYETAKQE 358
             R+   + E
Sbjct:   330 RFVVEQAE 337

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2045223 ARI10 "ARIADNE 10" [Arabidopsis thaliana (taxid:3702)]

 Score = 992 (354.3 bits), Expect = 5.6e-100, P = 5.6e-100
 Identities = 172/328 (52%), Positives = 227/328 (69%)

Query:    26 DDDAAPAYAFDSDDADVADYEFIXXXXXXXXXLVSNRHQLNYTVLTEADIRQRQEEDITR 85
             DDD     + + +++D    E           ++S +   +Y ++ E +I + Q +DI R
Sbjct:     5 DDDMIDNESGEENNSDGGGNESYNYNAAVDTIILSEK---SYVIIKEEEILKLQRDDIER 61

Query:    86 ISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLLEKPAVQFPDGE-EMTC 144
             +ST+L +S+V A +LL  Y+W VSK+ DEWF DEER+RK VG+L++P V     E ++ C
Sbjct:    62 VSTILFLSQVEAIVLLLHYHWCVSKLEDEWFTDEERIRKTVGILKEPVVDVNGTEVDIQC 121

Query:   145 GICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIY 204
             GICFE+Y    + + +CGHP+C +CWTGYI+T I DGPGCL ++CP+PSC A VGQDMI 
Sbjct:   122 GICFESYTRKEIASVSCGHPYCKTCWTGYITTKIEDGPGCLRVKCPEPSCYAVVGQDMID 181

Query:   205 LLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWN 264
              ++  +DK KY RYF+RSYVED +K KWCP+PGC+ AV+F   SG YDV C CSY FCWN
Sbjct:   182 EVTEKKDKDKYYRYFLRSYVEDGKKMKWCPSPGCECAVEFGESSG-YDVACLCSYRFCWN 240

Query:   265 CTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPC 324
             C+E+AH PVDC+TV+KW+ KN  ESEN NWILANSKPCP+CKRPIEK+ GC HMTC+  C
Sbjct:   241 CSEDAHSPVDCETVSKWIFKNQDESENKNWILANSKPCPKCKRPIEKSHGCNHMTCSASC 300

Query:   325 KFEFCWLCLGQWSDHGERTGGFYACNRY 352
                FCW+C   +SDH       YACN Y
Sbjct:   301 GHRFCWICGKSYSDH-------YACNNY 321

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

DICTYBASE|DDB_G0286961 rbrA "IBR zinc finger-containing protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 667 (239.9 bits), Expect = 1.5e-65, P = 1.5e-65
 Identities = 131/355 (36%), Positives = 189/355 (53%)

Query:    18 EDDFYSGGD--DDAAPAYAFDS-DDA---DVADYEFIXXXXXXXXXLVSNRHQLNYTVLT 71
             +D+ Y   D  DD+A     +S DD    D A  EF          L     Q ++ VL 
Sbjct:     3 DDEMYEDYDVDDDSAEESGNESLDDTEYDDAATQEFDFDENQPQRSLGKLTRQKSFEVLN 62

Query:    72 EADIRQRQEEDITRISTVLSI-SKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGL-- 128
             + D+     + I  +  VLSI S+ A S LLR   W+  K+ + +  + E++    G+  
Sbjct:    63 KDDLFSESHKIIKEVKDVLSIPSEAAVSTLLRHMKWNKEKLIERYMENPEKLCIDAGVPN 122

Query:   129 -LEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLML 187
              ++  A        ++C IC E+YP  +  A  C H +C  C+  Y+   +++GP C+  
Sbjct:   123 VMKLNATIVEKSGNVSCLICLEDYPPTQTFALICNHRYCLPCYKNYLEIKVSEGPECIYT 182

Query:   188 RCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVG 247
              CP P C   V QD    + S E   ++N + ++SYV+DN + KWCPAPGC Y++     
Sbjct:   183 PCPAPKCKVIVHQDAFKQIVSPEVFERFNNFILKSYVDDNPQVKWCPAPGCIYSIRCDRK 242

Query:   248 SGNYDVTCRCSYSFCWNCTEEA---HRPVDCDTVAKWVLKNSAESENMNWILANSKPCPR 304
                  V C+C + +C+NC +     H P  C  V KW+ K S ESEN+ W+LAN+K CP 
Sbjct:   243 ERKEAVNCKCGFQYCFNCNDYEIGDHMPCPCSQVDKWLQKASDESENVTWMLANTKKCPE 302

Query:   305 CKRPIEKNQGCMHMTCTPP---CKFEFCWLCLGQWSDHGERTGGFYACNRYETAK 356
             C+ PIEKN GCMHMTC      C FEFCWLC G W++HG  TGG+Y CN+Y+ +K
Sbjct:   303 CRSPIEKNGGCMHMTCRKNAGGCGFEFCWLCRGPWTEHGSTTGGYYNCNKYDKSK 357

GO:0030435 "sporulation resulting in formation of a cellular spore" evidence=IMP

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

UNIPROTKB|G4NDZ4 MGG_00859 "Ariadne-1" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 585 (211.0 bits), Expect = 7.5e-57, P = 7.5e-57
 Identities = 124/363 (34%), Positives = 189/363 (52%)

Query:     1 MESEDEFDMQDANASAEEDDFYSGGDDDAAPAYAFDSD-DADVADYEFIXXXXXXXXXLV 59
             M+SEDEF    A +S +ED      ++D + A  FDS+ DAD+ D +             
Sbjct:     1 MDSEDEF--MSAISSGDED--VMSDNEDMSGAEDFDSELDADL-DVDLAKDPPKRKAA-- 53

Query:    60 SNRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADE 119
                H + ++V    D+R++Q++ I  ++ +L + K  A+ILLR + W+  ++ +E+  + 
Sbjct:    54 ---HDITFSVYNPDDLRKQQDDLIDEVNMILEMRKEDAAILLRHFGWNRERLIEEYMDNR 110

Query:   120 ERVRKAVGLLEK----PAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYIS 175
             ++V +  GL       P +Q   G    C IC E+    +  A  CGH +C  C+  Y++
Sbjct:   111 KKVLEVAGLGPNVGGGPQLQVIPG--FCCEICCEDEEGLQSFAMKCGHRYCVDCYRQYLT 168

Query:   176 TAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPA 235
               I +      ++CP   C   +    + LL + E K +Y+    R+YVED    KWCP 
Sbjct:   169 QKIREEGEAARIQCPSEGCHRIIDAKSLDLLVTPELKERYHVLLQRTYVEDKDTLKWCPG 228

Query:   236 PGCDYAVDFVVGSGNYD-----VTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESE 290
             P C  A+D  +   +       VTC C   FC+ CT   H+P  C+ V  W+ K + +SE
Sbjct:   229 PDCQNAIDCSIKKKDLHRVVPTVTCNCKMRFCFGCTLNDHQPAPCELVKMWLKKCADDSE 288

Query:   291 NMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACN 350
               NWI AN+K CP+C   IEKN GC HMTC   C+ EFCW+C+G WS+HG     +Y CN
Sbjct:   289 TANWISANTKECPKCNSTIEKNGGCNHMTCRK-CRHEFCWMCMGIWSEHGT---SWYNCN 344

Query:   351 RYE 353
             R+E
Sbjct:   345 RFE 347

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0043581 "mycelium development" evidence=IEP

POMBASE|SPAC328.02 SPAC328.02 "ubiquitin-protein ligase involved in sporulation" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 561 (202.5 bits), Expect = 1.1e-56, Sum P(2) = 1.1e-56
 Identities = 115/347 (33%), Positives = 185/347 (53%)

Query:    18 EDDFYSGG-DDDAAPAYAFDSD---DADVADYEFIXXXXXXXXXLVSNRHQLNYTVLTEA 73
             +D+FY    ++D   A  F+ +   DA++ D  F               H ++Y V++  
Sbjct:     6 DDEFYEEEFENDLLDASEFEDEFDEDAEIDDDGFTVERKRRRA------HSVSYRVVSVR 59

Query:    74 DIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWF-ADEERVRKA-VGLLEK 131
             D+R    E I ++++++ +++     L R++ W+  ++ + +  A EE ++KA VGL   
Sbjct:    60 DLRASLNEKINQLTSIIDLTREQVLGLYRYFKWNRERLLERYIDAPEESLQKAGVGLSGS 119

Query:   132 PAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPD 191
                +     E TC IC++        +A C H FC +C+  Y+ + I++G    +++CP+
Sbjct:   120 KQREVVH-HEGTCEICYDEGCLP-FFSAECDHEFCLACYRQYLDSRISEGES--VIQCPE 175

Query:   192 PSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNY 251
              SC   V    I  +  ++   +Y+R   RS+V+DN   +WCPAP C++A++  V   + 
Sbjct:   176 ESCTQIVSIQSITKVLDEKSLDRYHRLLDRSFVDDNDHLRWCPAPDCEFAIECHVTQASL 235

Query:   252 D-----VTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCK 306
                   VTC C   FC+ C  + H+P  C  V  W+ K   +SE  NWI AN+K CP+C 
Sbjct:   236 SSVVPTVTCNCGKQFCFGCGHDNHQPTICPLVKIWLQKCQDDSETANWIHANTKECPKCS 295

Query:   307 RPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYE 353
               IEKN GC HMTC   CK+EFCW+CLG W++HG     +Y CNRYE
Sbjct:   296 TTIEKNGGCNHMTCKK-CKYEFCWVCLGPWTEHGNN---WYTCNRYE 338

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

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0007127 "meiosis I" evidence=IEP

GO:0008270 "zinc ion binding" evidence=ISM

GO:0016567 "protein ubiquitination" evidence=ISM

GO:0030437 "ascospore formation" evidence=IMP

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

ASPGD|ASPL0000014787 AN3689 [Emericella nidulans (taxid:162425)]

 Score = 576 (207.8 bits), Expect = 6.8e-56, P = 6.8e-56
 Identities = 127/364 (34%), Positives = 182/364 (50%)

Query:     1 MESEDEFDMQDANASAEEDDFYS--GGDDDAAPAYAFDSDDADVADYEFIXXXXXXXXXL 58
             MES+D+F M  A+++   DDF    G DD++        D  D  D++            
Sbjct:     1 MESDDDF-MSVASSA---DDFLGTQGSDDES-----LGDDFGD--DFDGGFSKDKDIFSN 49

Query:    59 VSNRHQLNYTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFAD 118
                 +++++ VL+  DI + Q   I  +S++L +   +++ILLRF  W+  K+ + +   
Sbjct:    50 TRKPYEVDFKVLSPEDIEREQNLQINEVSSILGLPPESSAILLRFGRWNREKLIESYMDH 109

Query:   119 EERVRKAVGL---LEK-PAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYI 174
              E   +  GL    E  P  +   G   TC IC E+       A  CGH FC  C+  Y+
Sbjct:   110 PELTLEEAGLGTNFESTPKTEVVPG--FTCDICCEDGDDLETYAMRCGHRFCVDCYRHYL 167

Query:   175 STAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCP 234
             +  I +      ++CP   C   V    + LL +D+ K +Y     R+YV+D    KWCP
Sbjct:   168 AQKIREEGEAARIQCPGNDCHMIVDSKSLSLLVTDDLKDRYQTLLTRTYVDDKENLKWCP 227

Query:   235 APGCDYAVDFVVGSGNYD-----VTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAES 289
             AP C+YAVD  V           V C C + FC+ CT   H+P  C  V  W+ K   +S
Sbjct:   228 APNCEYAVDCHVKQRELHRIVPTVQCGCKHYFCFGCTLNDHQPSPCRLVKMWLQKCEDDS 287

Query:   290 ENMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYAC 349
             E  NWI AN+K CP+C   IEKN GC HMTC   CK EFCW+C+G WS+HG     +Y C
Sbjct:   288 ETANWISANTKECPKCHSTIEKNGGCNHMTCRK-CKHEFCWMCMGLWSEHGT---SWYNC 343

Query:   350 NRYE 353
             NR+E
Sbjct:   344 NRFE 347

GO:0008270 "zinc ion binding" evidence=IEA

GO:0030437 "ascospore formation" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

MGI|MGI:1344363 Arih1 "ariadne ubiquitin-conjugating enzyme E2 binding protein homolog 1 (Drosophila)" [Mus musculus (taxid:10090)]

 Score = 541 (195.5 bits), Expect = 1.3e-55, Sum P(2) = 1.3e-55
 Identities = 110/297 (37%), Positives = 150/297 (50%)

Query:    67 YTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWF-ADEERVRKA 125
             Y VLT   I Q   E I  ++ V+        ILL  +NW   K+ + +F  + E++   
Sbjct:    99 YEVLTAEQILQHMVECIREVNEVIQNPATITRILLSHFNWDKEKLMERYFDGNLEKLFAE 158

Query:   126 VGLL---EKPAVQFPD----GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAI 178
               ++   +K   +  +     ++M C IC+ NYP+       CGH FC  CW+ Y++T I
Sbjct:   159 CHVINPSKKSRTRQMNTRSSAQDMPCQICYLNYPNSYFTGLECGHKFCMQCWSEYLTTKI 218

Query:   179 -NDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDED-KVKYNRYFIRSYVEDNRKTKWCPAP 236
               +G G   + CP   C   V  + +  L +D   K+KY      S+VE NR  KWCPAP
Sbjct:   219 MEEGMG-QTISCPAHGCDILVDDNTVMRLITDSKVKLKYQHLITNSFVECNRLLKWCPAP 277

Query:   237 GCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWIL 296
              C + V          V C+C   FC+NC E  H PV C  + KW+ K   +SE  NWI 
Sbjct:   278 DCHHVVKVQYPDAK-PVRCKCGRQFCFNCGENWHDPVKCKWLKKWIKKCDDDSETSNWIA 336

Query:   297 ANSKPCPRCKRPIEKNQGCMHMTC-TPPCKFEFCWLCLGQWSDHGERTGGFYACNRY 352
             AN+K CP+C   IEK+ GC HM C    CK EFCW+CLG W  HG     +Y CNRY
Sbjct:   337 ANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGS---AWYNCNRY 390

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

GO:0005737 "cytoplasm" evidence=ISO

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

GO:0008152 "metabolic process" evidence=IEA

GO:0008270 "zinc ion binding" evidence=ISO

GO:0016567 "protein ubiquitination" evidence=ISO

GO:0016874 "ligase activity" evidence=IEA

GO:0031625 "ubiquitin protein ligase binding" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|A2VEA3 ARIH1 "E3 ubiquitin-protein ligase ARIH1" [Bos taurus (taxid:9913)]

 Score = 541 (195.5 bits), Expect = 2.0e-55, Sum P(2) = 2.0e-55
 Identities = 110/297 (37%), Positives = 150/297 (50%)

Query:    67 YTVLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWF-ADEERVRKA 125
             Y VLT   I Q   E I  ++ V+        ILL  +NW   K+ + +F  + E++   
Sbjct:    99 YEVLTAEQILQHMVECIREVNEVIQNPATITRILLSHFNWDKEKLMERYFDGNLEKLFAE 158

Query:   126 VGLL---EKPAVQFPD----GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAI 178
               ++   +K   +  +     ++M C IC+ NYP+       CGH FC  CW+ Y++T I
Sbjct:   159 CHVINPSKKSRTRQMNTRSSAQDMPCQICYLNYPNSYFTGLECGHKFCMQCWSEYLTTKI 218

Query:   179 -NDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDED-KVKYNRYFIRSYVEDNRKTKWCPAP 236
               +G G   + CP   C   V  + +  L +D   K+KY      S+VE NR  KWCPAP
Sbjct:   219 MEEGMG-QTISCPAHGCDILVDDNTVMRLITDSKVKLKYQHLITNSFVECNRLLKWCPAP 277

Query:   237 GCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWIL 296
              C + V          V C+C   FC+NC E  H PV C  + KW+ K   +SE  NWI 
Sbjct:   278 DCHHVVKVQYPDAK-PVRCKCGRQFCFNCGENWHDPVKCKWLKKWIKKCDDDSETSNWIA 336

Query:   297 ANSKPCPRCKRPIEKNQGCMHMTC-TPPCKFEFCWLCLGQWSDHGERTGGFYACNRY 352
             AN+K CP+C   IEK+ GC HM C    CK EFCW+CLG W  HG     +Y CNRY
Sbjct:   337 ANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGS---AWYNCNRY 390

GO:0016567 "protein ubiquitination" evidence=ISS

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

GO:0008270 "zinc ion binding" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0031625 "ubiquitin protein ligase binding" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" 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)
Q8W468	ARI8_ARATH	6, ., 3, ., 2, ., -	0.7667	0.9445	0.6014	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	361
smart00647	64	smart00647, IBR, In Between Ring fingers	6e-19
pfam01485	63	pfam01485, IBR, IBR domain	1e-12
pfam01485	63	pfam01485, IBR, IBR domain	3e-05

>gnl|CDD|214763 smart00647, IBR, In Between Ring fingers

 Score = 79.4 bits (196), Expect = 6e-19
 Identities = 29/63 (46%), Positives = 34/63 (53%), Gaps = 1/63 (1%)

Query: 214 KYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNCTEEAHRP 272
           KY R  + SYVE N   KWCPAP C  A+      G   VTC +C +SFC+ C    H P
Sbjct: 2   KYERLLLESYVESNPDLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWHSP 61

Query: 273 VDC 275
           V C
Sbjct: 62  VSC 64

the domains occurs between pairs og RING fingers. Length = 64

>gnl|CDD|216524 pfam01485, IBR, IBR domain

 Score = 62.2 bits (151), Expect = 1e-12
 Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 2/63 (3%)

Query: 214 KYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNCTEEAHRP 272
           KY +  ++ YVE  +  KWCP P C   +      G+ +VTC +C   FC++C E  H  
Sbjct: 2   KYLKLSLKKYVESPKNLKWCPTPDCGNII-EKTDGGSQNVTCSKCGTEFCFSCKEPWHEG 60

Query: 273 VDC 275
           + C
Sbjct: 61  LTC 63

The IBR (In Between Ring fingers) domain is often found to occur between pairs of ring fingers (pfam00097). This domain has also been called the C6HC domain and DRIL (for double RING finger linked) domain. Proteins that contain two Ring fingers and an IBR domain (these proteins are also termed RBR family proteins) are thought to exist in all eukaryotic organisms. RBR family members play roles in protein quality control and can indirectly regulate transcription. Evidence suggests that RBR proteins are often parts of cullin-containing ubiquitin ligase complexes. The ubiquitin ligase Parkin is an RBR family protein whose mutations are involved in forms of familial Parkinson's disease. Length = 63

>gnl|CDD|216524 pfam01485, IBR, IBR domain

 Score = 41.0 bits (96), Expect = 3e-05
 Identities = 17/42 (40%), Positives = 19/42 (45%), Gaps = 4/42 (9%)

Query: 298 NSKPCPR--CKRPIEKNQGCMH-MTCTPPCKFEFCWLCLGQW 336
           N K CP   C   IEK  G    +TC   C  EFC+ C   W
Sbjct: 17  NLKWCPTPDCGNIIEKTDGGSQNVTC-SKCGTEFCFSCKEPW 57

The IBR (In Between Ring fingers) domain is often found to occur between pairs of ring fingers (pfam00097). This domain has also been called the C6HC domain and DRIL (for double RING finger linked) domain. Proteins that contain two Ring fingers and an IBR domain (these proteins are also termed RBR family proteins) are thought to exist in all eukaryotic organisms. RBR family members play roles in protein quality control and can indirectly regulate transcription. Evidence suggests that RBR proteins are often parts of cullin-containing ubiquitin ligase complexes. The ubiquitin ligase Parkin is an RBR family protein whose mutations are involved in forms of familial Parkinson's disease. Length = 63

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	361
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	100.0
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	100.0
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	100.0
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	99.95
smart00647	64	IBR In Between Ring fingers. the domains occurs be	99.4
PF01485	64	IBR: IBR domain; InterPro: IPR002867 Zinc finger (	99.29
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.67
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.46
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.39
PF01485	64	IBR: IBR domain; InterPro: IPR002867 Zinc finger (	98.39
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.39
smart00647	64	IBR In Between Ring fingers. the domains occurs be	98.36
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.33
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.27
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.25
PF14634	44	zf-RING_5: zinc-RING finger domain	98.12
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.06
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.05
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	97.97
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	97.85
PHA02929	238	N1R/p28-like protein; Provisional	97.76
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.75
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	97.74
PHA02926	242	zinc finger-like protein; Provisional	97.73
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	97.69
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.68
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	97.63
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.33
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.27
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	97.17
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	96.97
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	96.96
PF14555	43	UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A	96.96
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.95
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	96.73
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.73
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	96.68
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	96.61
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	96.6
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	96.41
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	96.08
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.04
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.01
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	95.93
KOG4367	699	consensus Predicted Zn-finger protein [Function un	95.87
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	95.14
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.1
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	94.94
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	94.43
KOG2660	331	consensus Locus-specific chromosome binding protei	94.41
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	94.04
COG5152	259	Uncharacterized conserved protein, contains RING a	93.99
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	93.81
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	92.98
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	92.86
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	92.78
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	92.36
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	92.3
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	91.71
smart00661	52	RPOL9 RNA polymerase subunit 9.	91.49
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	91.41
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	91.22
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	91.07
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	90.89
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	90.64
PF13248	26	zf-ribbon_3: zinc-ribbon domain	90.51
KOG4739	233	consensus Uncharacterized protein involved in syna	90.37
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	90.28
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	90.2
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	90.2
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	90.1
PF13240	23	zinc_ribbon_2: zinc-ribbon domain	89.95
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	89.78
PF09297	32	zf-NADH-PPase: NADH pyrophosphatase zinc ribbon do	89.74
PHA00626	59	hypothetical protein	89.27
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	89.2
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	89.1
PRK14559	645	putative protein serine/threonine phosphatase; Pro	89.09
KOG0297	391	consensus TNF receptor-associated factor [Signal t	88.99
PRK00432	50	30S ribosomal protein S27ae; Validated	88.8
PF14952	44	zf-tcix: Putative treble-clef, zinc-finger, Zn-bin	88.65
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	88.54
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	88.49
PF08274	30	PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR01	88.47
PF04931	784	DNA_pol_phi: DNA polymerase phi; InterPro: IPR0070	88.17
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	87.52
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	87.32
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	87.29
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	85.96
PHA03096	284	p28-like protein; Provisional	85.4
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	85.21
KOG1001	674	consensus Helicase-like transcription factor HLTF/	85.0
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	84.94
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	84.87
TIGR00622	112	ssl1 transcription factor ssl1. This family is bas	84.53
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	84.22
TIGR02098	38	MJ0042_CXXC MJ0042 family finger-like domain. This	84.13
PF13719	37	zinc_ribbon_5: zinc-ribbon domain	83.69
KOG1941	518	consensus Acetylcholine receptor-associated protei	83.07
PF00627	37	UBA: UBA/TS-N domain; InterPro: IPR000449 UBA doma	83.0
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	82.85
PF04931	784	DNA_pol_phi: DNA polymerase phi; InterPro: IPR0070	82.54
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	82.53
PRK00398	46	rpoP DNA-directed RNA polymerase subunit P; Provis	82.36
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	81.75
KOG4445	368	consensus Uncharacterized conserved protein, conta	81.35
KOG2038	988	consensus CAATT-binding transcription factor/60S r	81.09
KOG2807	378	consensus RNA polymerase II transcription initiati	80.59
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	80.4
PHA02926	242	zinc finger-like protein; Provisional	80.2
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	80.04

>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=5.9e-52  Score=408.44  Aligned_cols=280  Identities=50%  Similarity=1.027  Sum_probs=258.1

Q ss_pred             eeCHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHcCCChHHHHHHhhhcHHHHHHHcCCCCCCCCCCCCCCcccccccc
Q 018073           69 VLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLLEKPAVQFPDGEEMTCGICF  148 (361)
Q Consensus        69 ~l~~~~i~~~~~~~i~~v~~~l~i~~~~a~~LL~~~~w~~~~l~e~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~C~IC~  148 (361)
                      +|+.++|...|.+.|.+|+++|++++.+|++||.+|.|+..++++.|+.+++.++..+|+...+    ......+|.||+
T Consensus         2 vl~~~~~~~~~~~~i~~~~~~ls~~~~~~~~ll~~~~W~~~kl~~~~~~~~~~~~~~~g~~~~~----~~~~~~~c~ic~   77 (444)
T KOG1815|consen    2 VLTPDDIAALMREDIIEVSDILSLSHAVARILLAHFCWNVEKLLEEWVEDEETGCFFVGLLLWP----KKKGDVQCGICV   77 (444)
T ss_pred             CCchHhhhHHhHhhHHHHHHhhcCCHHHHHHHHHhcCcchHHHHHHHHhcCcchhhhccccccC----CCCccccCCccc
Confidence            6889999999999999999999999999999999999999999999999999999999987653    345578899999


Q ss_pred             ccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhhcCCh-HHHHHHHHHHHHHHHhhC
Q 018073          149 ENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSD-EDKVKYNRYFIRSYVEDN  227 (361)
Q Consensus       149 e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~ll~~-~~~~~y~~~~~~~~i~~~  227 (361)
                      +.++. .+..+.|||.||..||..|+..+|..+.... |+||.+.|.+.+..+.|..++++ +...+|.++++++|++.+
T Consensus        78 ~~~~~-~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~-i~cp~~~C~a~v~~~~i~~~~s~~~~~~ky~~~i~~syve~~  155 (444)
T KOG1815|consen   78 ESYDG-EIIGLGCGHPFCPPCWTGYLGTKIHEGEEAK-IKCPAHGCPALVGEDTVEKLVSDKEDKEKYQRYILRSYVEDN  155 (444)
T ss_pred             CCCcc-hhhhcCCCcHHHHHHHHHHhhheeecccccc-ccCCCCCccccCCCceeeeecCCHHHHHHHHHHHHHHHHhcC
Confidence            98865 6778899999999999999999999986433 99999999999999999999988 599999999999999999


Q ss_pred             CCccccCCCCCCcceeeecCCCCceEEeccCCccccccCCcCCCCCCchhHHHHHHhhhhhhHHHHHHHhhcCCCCCCCc
Q 018073          228 RKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKR  307 (361)
Q Consensus       228 ~~~~~CP~p~C~~~i~~~~~~~~~~v~C~C~~~fC~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~~i~~~~k~CP~C~~  307 (361)
                      ..++|||+|+|++++.+. ......|.|.|++.|||.|+.+||.|.+|....+|+++...++++.+||.+|+|+||+|.+
T Consensus       156 ~~lkwCP~~~C~~av~~~-~~~~~~v~C~~g~~FC~~C~~~~H~p~~C~~~~~wl~k~~~~se~~~wi~~ntk~CP~c~~  234 (444)
T KOG1815|consen  156 VPLKWCPAPGCGLAVKFG-SLESVEVDCGCGHEFCFACGEESHSPVSCPGAKKWLKKCRDDSETINWILANTKECPKCKV  234 (444)
T ss_pred             CccccCCCCCCCceeecc-CCCccceeCCCCchhHhhccccccCCCcccchHHHHHhhhhhhhhhhhhhccCccCCCccc
Confidence            999999999999998864 4456889999999999999999999999999999999999999999999999999999999


Q ss_pred             ceeecCCCCceeec-CCCccceeccccccccccCCCCCCcccCCCccchhc
Q 018073          308 PIEKNQGCMHMTCT-PPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQ  357 (361)
Q Consensus       308 ~IeK~~GCnhm~C~-~~C~~~FCw~C~~~~~~h~~~~g~~y~C~~~~~~~~  357 (361)
                      +|||++|||||+|. +.|+++|||+|++.|..|+..+  +|.|++|...+.
T Consensus       235 ~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h~~~~--~~~c~~~~~~~~  283 (444)
T KOG1815|consen  235 PIEKDGGCNHMTCKSASCKHEFCWVCLASLSDHGSST--GYSCNRYVDGKS  283 (444)
T ss_pred             chhccCCccccccccCCcCCeeceeeecccccccccc--eeeeeeeechhh
Confidence            99999999999998 2399999999999999999865  999999977653

>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=7.9e-38  Score=300.39  Aligned_cols=205  Identities=26%  Similarity=0.687  Sum_probs=176.4

Q ss_pred             CccccccccccccC-Ccccc-ccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhhcCChHHHHHHHH
Q 018073          140 EEMTCGICFENYPS-DRLLA-AACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNR  217 (361)
Q Consensus       140 ~~~~C~IC~e~~~~-~~~~~-l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~ll~~~~~~~y~~  217 (361)
                      ...+|.||+...+. ..++. +.|+|.||.+||++|++.+...|   ..++||..+|+..++.+....++++.++++|++
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~---~~~~C~~~~C~~~l~~~~c~~llt~kl~e~~e~  221 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSG---TVIRCPHDGCESRLTLESCRKLLTPKLREMWEQ  221 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccC---CCccCCCCCCCccCCHHHHhhhcCHHHHHHHHH
Confidence            46789999954443 34444 56999999999999999995555   489999999999999999999999999999999


Q ss_pred             HHHHHHHhhCCCccccCCCCCCcceeeecC---CCCceEEe-ccCCccccccCCcCCCCCCchhHHHHHHhhhhhhHHHH
Q 018073          218 YFIRSYVEDNRKTKWCPAPGCDYAVDFVVG---SGNYDVTC-RCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMN  293 (361)
Q Consensus       218 ~~~~~~i~~~~~~~~CP~p~C~~~i~~~~~---~~~~~v~C-~C~~~fC~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~  293 (361)
                      ++.+.++.....+ +||.|+|...+....-   .......| .|+..||.+|+.+||.+.+|+++++|......+..+.+
T Consensus       222 ~~~e~~i~~~~~~-ycp~~~C~~l~~~~el~~~~~~~~~~C~~C~~~fCv~C~~~wh~~~sC~eykk~~~~~~~d~~~~~  300 (384)
T KOG1812|consen  222 RLKEEVIPSLDRV-YCPYPRCSSLMSKTELSSEVKSKRRPCVKCHELFCVKCKVPWHANLSCEEYKKLNPEEYVDDITLK  300 (384)
T ss_pred             HHHHHhhhhhhcc-cCCCCCchHhhhhhhhccchhhcccccccCCCceeecCCCcCCCCCCHHHHHHhCCcccccHHHHH
Confidence            9999999888877 9999999987654321   22344568 89999999999999999999999999876666677788


Q ss_pred             HHHhhcCCCCCCCcceeecCCCCceeecCCCccceeccccccccccCCCCCCcccCCCcc
Q 018073          294 WILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYE  353 (361)
Q Consensus       294 ~i~~~~k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~~~~g~~y~C~~~~  353 (361)
                      |+.+++|+||+|+..|++++|||||+|+  ||++|||.|+++|..|+.   .+|.|.|+.
T Consensus       301 ~la~~wr~CpkC~~~ie~~~GCnhm~Cr--C~~~fcy~C~~~~~~~~~---~~~~~~r~~  355 (384)
T KOG1812|consen  301 YLAKRWRQCPKCKFMIELSEGCNHMTCR--CGHQFCYMCGGDWKTHNG---ECYECCRYK  355 (384)
T ss_pred             HHHHhcCcCcccceeeeecCCcceEEee--ccccchhhcCcchhhCCc---cccCccccc
Confidence            8888899999999999999999999998  999999999999999885   677787765

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

Probab=100.00  E-value=3.9e-37  Score=284.54  Aligned_cols=196  Identities=30%  Similarity=0.697  Sum_probs=170.5

Q ss_pred             CCCccccccccccccC-CccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhhcCChHHHHHHH
Q 018073          138 DGEEMTCGICFENYPS-DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYN  216 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~-~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~ll~~~~~~~y~  216 (361)
                      ..+.+.|.|||+.... ..+..++|+|.||+.|++.|+...|++|. +..++||+++|+...+...|+.++..++++||+
T Consensus       181 ~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~-v~~l~Cp~~~C~~~a~~g~vKelvg~EL~arYe  259 (445)
T KOG1814|consen  181 VNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQ-VSCLKCPDPKCGSVAPPGQVKELVGDELFARYE  259 (445)
T ss_pred             HhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcce-eeeecCCCCCCcccCCchHHHHHHHHHHHHHHH
Confidence            3457899999998765 66788999999999999999999999997 578999999999999999999999999999999


Q ss_pred             HHHHHHHHhhCCCccccCCCCCCcceeeecCCCCceEEe-ccCCccccccCCcCCCCCCchhH--------HHHHH----
Q 018073          217 RYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNCTEEAHRPVDCDTV--------AKWVL----  283 (361)
Q Consensus       217 ~~~~~~~i~~~~~~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~H~~~~C~~~--------~~~~~----  283 (361)
                      ++++.+.++...+.++||++.|..++..  ..+...+.| +|..+||+-|+..||...+|.--        ..|..    
T Consensus       260 ~l~lqk~l~~msdv~yCPr~~Cq~p~~~--d~~~~l~~CskCnFaFCtlCk~t~HG~s~Ck~~~~~~~~l~~~~~~~d~a  337 (445)
T KOG1814|consen  260 KLMLQKTLELMSDVVYCPRACCQLPVKQ--DPGRALAICSKCNFAFCTLCKLTWHGVSPCKVKAEKLIELYLEYLEADEA  337 (445)
T ss_pred             HHHHHHHHHhhcccccCChhhccCcccc--CchhhhhhhccCccHHHHHHHHhhcCCCcccCchHHHHHHHHHHhhcCHH
Confidence            9999999999999999999999988743  345667899 99999999999999999899743        11211    


Q ss_pred             ---------------hhhhhhHHHHHHHhhcCCCCCCCcceeecCCCCceeecCCCccceecccccccc
Q 018073          284 ---------------KNSAESENMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWS  337 (361)
Q Consensus       284 ---------------~~~~~~~~~~~i~~~~k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~  337 (361)
                                     ....+..+..|+..|.|+||+|+++|||++|||||+|. .|++.|||+|+....
T Consensus       338 ~k~ele~Ryg~rvve~~vn~~lsekwl~~N~krCP~C~v~IEr~eGCnKM~C~-~c~~~fc~~c~~~l~  405 (445)
T KOG1814|consen  338 RKRELEKRYGKRVVEELVNDFLSEKWLESNSKRCPKCKVVIERSEGCNKMHCT-KCGTYFCWICAELLY  405 (445)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHhcCCCCCcccceeecCCCccceeec-cccccceeehhhhcC
Confidence                           11123345589999999999999999999999999999 899999999998776

>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]

Probab=99.95  E-value=5.8e-28  Score=216.16  Aligned_cols=195  Identities=31%  Similarity=0.727  Sum_probs=151.5

Q ss_pred             CCCCccccccccccccCCccccccCC--CcccHhhHHHHHHhhhcCCC------CeeeeccCCCcCCCccchh-HHhhcC
Q 018073          137 PDGEEMTCGICFENYPSDRLLAAACG--HPFCSSCWTGYISTAINDGP------GCLMLRCPDPSCGAAVGQD-MIYLLS  207 (361)
Q Consensus       137 ~~~~~~~C~IC~e~~~~~~~~~l~Cg--H~fC~~Cl~~~i~~~i~~~~------~~~~i~CP~~~C~~~i~~~-~i~~ll  207 (361)
                      .|.+..+|..|-+.-  +.+..++|.  |..|.+|++.|..+.+++..      ....+.||. +|...+-.+ .-.+++
T Consensus       217 ~N~~ni~C~~Ctdv~--~~vlvf~Cns~HvtC~dCFr~yc~~Rl~~rqf~~~p~~gyslpc~a-gc~~s~i~e~HHF~il  293 (446)
T KOG0006|consen  217 TNSRNITCITCTDVR--SPVLVFQCNSRHVTCLDCFRLYCVTRLNDRQFVHDPQLGYSLPCVA-GCPNSLIKELHHFRIL  293 (446)
T ss_pred             cccccceeEEecCCc--cceEEEecCCceeehHHhhhhHhhhcccccccccCccccccccccC-CCchHHHHhhhhheec
Confidence            356788999998753  345567887  99999999999999997753      125688885 787765433 445788


Q ss_pred             ChHHHHHHHHHHHHHHHhhCCCccccCCCCCCcceeeecCCCCceEEe--ccCCccccccCCcCCCCCCchhHHH-----
Q 018073          208 SDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC--RCSYSFCWNCTEEAHRPVDCDTVAK-----  280 (361)
Q Consensus       208 ~~~~~~~y~~~~~~~~i~~~~~~~~CP~p~C~~~i~~~~~~~~~~v~C--~C~~~fC~~C~~~~H~~~~C~~~~~-----  280 (361)
                      ..+.+.+|+++..+.++.... -+-||+|+|+..+...+  ....|+|  .|++.||..|.+.+|.+ .|...-.     
T Consensus       294 g~e~Y~rYQr~atEe~vlq~g-GVlCP~pgCG~gll~EP--D~rkvtC~~gCgf~FCR~C~e~yh~g-eC~~~~~as~t~  369 (446)
T KOG0006|consen  294 GEEQYNRYQRYATEECVLQMG-GVLCPRPGCGAGLLPEP--DQRKVTCEGGCGFAFCRECKEAYHEG-ECSAVFEASGTT  369 (446)
T ss_pred             chhHHHHHHHhhhhhheeecC-CEecCCCCCCcccccCC--CCCcccCCCCchhHhHHHHHhhhccc-cceeeecccccc
Confidence            999999999999999988766 56999999998876654  5678999  59999999999999987 3431100     


Q ss_pred             ---H-HHhhhh-----hhHHHHHHHhhcCCCCCCCcceeecCCCCceeec-CCCccceeccccccccc
Q 018073          281 ---W-VLKNSA-----ESENMNWILANSKPCPRCKRPIEKNQGCMHMTCT-PPCKFEFCWLCLGQWSD  338 (361)
Q Consensus       281 ---~-~~~~~~-----~~~~~~~i~~~~k~CP~C~~~IeK~~GCnhm~C~-~~C~~~FCw~C~~~~~~  338 (361)
                         + ...+.+     +..+..-|+..||+||+|+++.||||||+||.|+ ++||.+|||.|+-.|+.
T Consensus       370 tc~y~vde~~a~~arwd~as~~TIk~tTkpCPkChvptErnGGCmHm~Ct~~~Cg~eWCw~C~tEW~r  437 (446)
T KOG0006|consen  370 TCAYRVDERAAEQARWDAASKETIKKTTKPCPKCHVPTERNGGCMHMKCTQPQCGLEWCWNCGTEWNR  437 (446)
T ss_pred             ceeeecChhhhhhhhhhhhhhhhhhhccCCCCCccCccccCCceEEeecCCCCCCceeEeccCChhhh
Confidence               0 001111     2233445888999999999999999999999998 46999999999999985

>smart00647 IBR In Between Ring fingers

Probab=99.40  E-value=4.4e-13  Score=96.46  Aligned_cols=63  Identities=46%  Similarity=1.028  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHHHhhCCCccccCCCCCCcceeeecCCCCceEEe-ccCCccccccCCcCCCCCCc
Q 018073          213 VKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNCTEEAHRPVDC  275 (361)
Q Consensus       213 ~~y~~~~~~~~i~~~~~~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~H~~~~C  275 (361)
                      ++|++++++++|+.++.++|||+|+|+.++......+...|.| .|++.||+.|+.+||.|.+|
T Consensus         1 ~~y~~~~~~~~i~~~~~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~H~~~~C   64 (64)
T smart00647        1 EKYERLLLESYVESNPDLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWHSPVSC   64 (64)
T ss_pred             ChHHHHHHHHHHhcCCCccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcCCCCCCC
Confidence            4799999999999989999999999999987753346678999 99999999999999999987

the domains occurs between pairs og RING fingers

>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=99.29  E-value=4e-13  Score=96.67  Aligned_cols=63  Identities=35%  Similarity=0.964  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHHHhhCCCccccCCCCCCcceeeecCCCCceEEe-ccCCccccccCCcCCCCCCc
Q 018073          213 VKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNCTEEAHRPVDC  275 (361)
Q Consensus       213 ~~y~~~~~~~~i~~~~~~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~H~~~~C  275 (361)
                      ++|++++++.+++.++.++|||+|+|+.++..........|+| .|++.||+.|+.+||.|.+|
T Consensus         1 eky~~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~H~~~~C   64 (64)
T PF01485_consen    1 EKYQKFLLKRYLESDPNIRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPWHEGVTC   64 (64)
T ss_dssp             HCHHHCCCHS---S---CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSESCTTS-H
T ss_pred             ChHHHHHHHHHHHCCCCccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCcccCCCCCC
Confidence            4788899999998888999999999999998764443335999 69999999999999999887

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 a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.

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

Probab=98.67  E-value=1.3e-08  Score=66.49  Aligned_cols=40  Identities=30%  Similarity=0.848  Sum_probs=29.3

Q ss_pred             cccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccC
Q 018073          144 CGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCP  190 (361)
Q Consensus       144 C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP  190 (361)
                      |+||++.+  .++++++|||.||..|+..++...-..     .+.||
T Consensus         1 CpiC~~~~--~~Pv~l~CGH~FC~~Cl~~~~~~~~~~-----~~~CP   40 (42)
T PF15227_consen    1 CPICLDLF--KDPVSLPCGHSFCRSCLERLWKEPSGS-----GFSCP   40 (42)
T ss_dssp             ETTTTSB---SSEEE-SSSSEEEHHHHHHHHCCSSSS-----T---S
T ss_pred             CCccchhh--CCccccCCcCHHHHHHHHHHHHccCCc-----CCCCc
Confidence            89999987  688999999999999999999764322     37888

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

Probab=98.46  E-value=1.1e-07  Score=80.04  Aligned_cols=58  Identities=22%  Similarity=0.636  Sum_probs=46.5

Q ss_pred             CCCCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhh
Q 018073          137 PDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYL  205 (361)
Q Consensus       137 ~~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~  205 (361)
                      .+...+.||||++.+....+++..|||.||+.|++.-+..         ..+||  .|...|...++-.
T Consensus       127 ~~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~---------~~~CP--~C~kkIt~k~~~r  184 (187)
T KOG0320|consen  127 RKEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN---------TNKCP--TCRKKITHKQFHR  184 (187)
T ss_pred             ccccccCCCceecchhhccccccccchhHHHHHHHHHHHh---------CCCCC--Ccccccchhhhee
Confidence            3455789999999987666788999999999999988865         45799  8888777665543

>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=98.39  E-value=1.3e-07  Score=62.45  Aligned_cols=34  Identities=29%  Similarity=0.885  Sum_probs=30.1

Q ss_pred             cccccccccc-CCccccccCCCcccHhhHHHHHHh
Q 018073          143 TCGICFENYP-SDRLLAAACGHPFCSSCWTGYIST  176 (361)
Q Consensus       143 ~C~IC~e~~~-~~~~~~l~CgH~fC~~Cl~~~i~~  176 (361)
                      +|+||++.+. ...++.++|||.||.+|+..|++.
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~   36 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR   36 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh
Confidence            5999999985 466778899999999999999977

...

>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.39  E-value=1.5e-07  Score=67.30  Aligned_cols=38  Identities=45%  Similarity=1.097  Sum_probs=29.3

Q ss_pred             hcCCCCC--CCcceeecCCCCc--eeecCCCccceeccccccc
Q 018073          298 NSKPCPR--CKRPIEKNQGCMH--MTCTPPCKFEFCWLCLGQW  336 (361)
Q Consensus       298 ~~k~CP~--C~~~IeK~~GCnh--m~C~~~C~~~FCw~C~~~~  336 (361)
                      +.+.||+  |...|++..|.++  |+|. .|++.|||.|+++|
T Consensus        17 ~~~~Cp~~~C~~~~~~~~~~~~~~~~C~-~C~~~fC~~C~~~~   58 (64)
T PF01485_consen   17 NIRWCPNPDCEYIIEKDDGCNSPIVTCP-SCGTEFCFKCGEPW   58 (64)
T ss_dssp             -CC--TTSST---ECS-SSTTS--CCTT-SCCSEECSSSTSES
T ss_pred             CccCCCCCCCcccEEecCCCCCCeeECC-CCCCcCccccCccc
Confidence            3479987  9999999999999  9998 79999999999999

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 a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.

>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=98.39  E-value=1.8e-07  Score=60.12  Aligned_cols=32  Identities=34%  Similarity=1.053  Sum_probs=26.5

Q ss_pred             cccccccccCCccccccCCCcccHhhHHHHHHh
Q 018073          144 CGICFENYPSDRLLAAACGHPFCSSCWTGYIST  176 (361)
Q Consensus       144 C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~  176 (361)
                      |+||++.+. +.++.++|||.||.+||.+|++.
T Consensus         1 C~iC~~~~~-~~~~~~~CGH~fC~~C~~~~~~~   32 (39)
T PF13923_consen    1 CPICLDELR-DPVVVTPCGHSFCKECIEKYLEK   32 (39)
T ss_dssp             ETTTTSB-S-SEEEECTTSEEEEHHHHHHHHHC
T ss_pred             CCCCCCccc-CcCEECCCCCchhHHHHHHHHHC
Confidence            899998764 33467899999999999999987

>smart00647 IBR In Between Ring fingers

Probab=98.36  E-value=4.8e-07  Score=64.73  Aligned_cols=38  Identities=39%  Similarity=1.046  Sum_probs=34.5

Q ss_pred             hcCCCC--CCCcceeecC--CCCceeecCCCccceeccccccc
Q 018073          298 NSKPCP--RCKRPIEKNQ--GCMHMTCTPPCKFEFCWLCLGQW  336 (361)
Q Consensus       298 ~~k~CP--~C~~~IeK~~--GCnhm~C~~~C~~~FCw~C~~~~  336 (361)
                      +.+.||  +|+..|+...  |..+|+|. .|++.|||.|+.+|
T Consensus        17 ~~~~CP~~~C~~~~~~~~~~~~~~v~C~-~C~~~fC~~C~~~~   58 (64)
T smart00647       17 DLKWCPAPDCSAAIIVTEEEGCNRVTCP-KCGFSFCFRCKVPW   58 (64)
T ss_pred             CccCCCCCCCcceEEecCCCCCCeeECC-CCCCeECCCCCCcC
Confidence            458899  9999999864  99999996 69999999999998

the domains occurs between pairs og RING fingers

>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=98.33  E-value=4.2e-07  Score=59.01  Aligned_cols=39  Identities=33%  Similarity=1.022  Sum_probs=31.2

Q ss_pred             cccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccC
Q 018073          144 CGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCP  190 (361)
Q Consensus       144 C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP  190 (361)
                      |+||++.+. .....++|||.||..||.+++..   .    ..++||
T Consensus         1 C~iC~~~~~-~~~~~~~C~H~fC~~C~~~~~~~---~----~~~~CP   39 (41)
T PF00097_consen    1 CPICLEPFE-DPVILLPCGHSFCRDCLRKWLEN---S----GSVKCP   39 (41)
T ss_dssp             ETTTSSBCS-SEEEETTTSEEEEHHHHHHHHHH---T----SSSBTT
T ss_pred             CCcCCcccc-CCCEEecCCCcchHHHHHHHHHh---c----CCccCC
Confidence            899999764 23347899999999999999997   2    257798

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 ....

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.27  E-value=6.6e-07  Score=77.27  Aligned_cols=65  Identities=23%  Similarity=0.589  Sum_probs=47.2

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCC-------CCeeeeccCCCcCCCccchhHHhhcC
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDG-------PGCLMLRCPDPSCGAAVGQDMIYLLS  207 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~-------~~~~~i~CP~~~C~~~i~~~~i~~ll  207 (361)
                      ...++|+||++.+  .+++.+.|||.||..|+..|+...-...       ......+||  .|+..+....+..+.
T Consensus        16 ~~~~~CpICld~~--~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CP--vCR~~Is~~~LvPiy   87 (193)
T PLN03208         16 GGDFDCNICLDQV--RDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCP--VCKSDVSEATLVPIY   87 (193)
T ss_pred             CCccCCccCCCcC--CCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCC--CCCCcCChhcEEEee
Confidence            4568999999976  5667788999999999999986431100       011257999  999999876665544

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

Probab=98.25  E-value=6.4e-07  Score=58.52  Aligned_cols=41  Identities=29%  Similarity=0.812  Sum_probs=22.9

Q ss_pred             cccccccccC--CccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccC
Q 018073          144 CGICFENYPS--DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCP  190 (361)
Q Consensus       144 C~IC~e~~~~--~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP  190 (361)
                      |+||.+ +..  +.+..|+|||.||++|+.+.+.....     ..++||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~-----~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDR-----NRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S------S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCC-----CeeeCc
Confidence            899999 632  23577899999999999999986431     268887

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.12  E-value=1.8e-06  Score=57.04  Aligned_cols=42  Identities=40%  Similarity=1.036  Sum_probs=33.7

Q ss_pred             cccccccccc-CCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCC
Q 018073          143 TCGICFENYP-SDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCG  195 (361)
Q Consensus       143 ~C~IC~e~~~-~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~  195 (361)
                      .|+||++.+. ...++.++|||.||..|+....      +   ..+.||  .|+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~------~---~~~~CP--~C~   43 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK------G---KSVKCP--ICR   43 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc------C---CCCCCc--CCC
Confidence            4999999993 3456778999999999999888      2   267899  675

>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=98.06  E-value=3.6e-06  Score=55.11  Aligned_cols=44  Identities=34%  Similarity=0.986  Sum_probs=33.4

Q ss_pred             ccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCc
Q 018073          143 TCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA  197 (361)
Q Consensus       143 ~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~  197 (361)
                      +|+||++.+ ...+...+|||.||..|+..|+..    +    ..+||  .|+..
T Consensus         1 ~C~iC~~~~-~~~~~~~~C~H~~c~~C~~~~~~~----~----~~~Cp--~C~~~   44 (45)
T cd00162           1 ECPICLEEF-REPVVLLPCGHVFCRSCIDKWLKS----G----KNTCP--LCRTP   44 (45)
T ss_pred             CCCcCchhh-hCceEecCCCChhcHHHHHHHHHh----C----cCCCC--CCCCc
Confidence            499999887 233444569999999999999876    1    45798  78754

>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=98.05  E-value=3.2e-06  Score=57.45  Aligned_cols=46  Identities=33%  Similarity=0.853  Sum_probs=36.4

Q ss_pred             ccccccccccccCCccccccCCCc-ccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          141 EMTCGICFENYPSDRLLAAACGHP-FCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~-fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      ...|.||++..  ..++.++|||. ||..|+..++..         ..+||  .|+..|.
T Consensus         2 ~~~C~iC~~~~--~~~~~~pCgH~~~C~~C~~~~~~~---------~~~CP--~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENP--RDVVLLPCGHLCFCEECAERLLKR---------KKKCP--ICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSB--SSEEEETTCEEEEEHHHHHHHHHT---------TSBBT--TTTBB-S
T ss_pred             cCCCccCCccC--CceEEeCCCChHHHHHHhHHhccc---------CCCCC--cCChhhc
Confidence            35799999874  46778899999 999999999982         46899  8988764

...

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

Probab=97.97  E-value=3.9e-06  Score=73.88  Aligned_cols=59  Identities=34%  Similarity=0.730  Sum_probs=47.6

Q ss_pred             CCCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhhc
Q 018073          138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLL  206 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~l  206 (361)
                      ....++|.||++.-  .+++...|||.||..||-+|+..+.+.      -.||  .|+..|+.+.|-.|
T Consensus        44 ~~~~FdCNICLd~a--kdPVvTlCGHLFCWpClyqWl~~~~~~------~~cP--VCK~~Vs~~~vvPl  102 (230)
T KOG0823|consen   44 DGGFFDCNICLDLA--KDPVVTLCGHLFCWPCLYQWLQTRPNS------KECP--VCKAEVSIDTVVPL  102 (230)
T ss_pred             CCCceeeeeecccc--CCCEEeecccceehHHHHHHHhhcCCC------eeCC--ccccccccceEEee
Confidence            45689999999864  677888899999999999999886553      3578  99999877765444

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

Probab=97.85  E-value=1.5e-05  Score=72.38  Aligned_cols=52  Identities=31%  Similarity=0.705  Sum_probs=42.0

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHH
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMI  203 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i  203 (361)
                      .....|.+|++..  ..+..++|||.||..|+..|...+-         .||  .|+..+....+
T Consensus       237 ~a~~kC~LCLe~~--~~pSaTpCGHiFCWsCI~~w~~ek~---------eCP--lCR~~~~pskv  288 (293)
T KOG0317|consen  237 EATRKCSLCLENR--SNPSATPCGHIFCWSCILEWCSEKA---------ECP--LCREKFQPSKV  288 (293)
T ss_pred             CCCCceEEEecCC--CCCCcCcCcchHHHHHHHHHHcccc---------CCC--cccccCCCcce
Confidence            3457899999875  5778899999999999999998742         399  89988766543

>PHA02929 N1R/p28-like protein; Provisional

Probab=97.76  E-value=2.2e-05  Score=70.74  Aligned_cols=50  Identities=24%  Similarity=0.615  Sum_probs=37.4

Q ss_pred             CCccccccccccccCCc------cccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          139 GEEMTCGICFENYPSDR------LLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~------~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      ....+|+||++.+....      .+.++|+|.||..|+..|+..         ...||  .|+..+.
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~---------~~tCP--lCR~~~~  227 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE---------KNTCP--VCRTPFI  227 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc---------CCCCC--CCCCEee
Confidence            34678999999864322      234579999999999999864         23799  8988764

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

Probab=97.75  E-value=1.4e-05  Score=74.85  Aligned_cols=106  Identities=25%  Similarity=0.507  Sum_probs=64.1

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhhcCChHHHHHHHHH
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRY  218 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~ll~~~~~~~y~~~  218 (361)
                      ...++|+||++.+.  .+..++|||.||..|+...+.     +    .+.||  .|+. ...    .+...-.....   
T Consensus        11 ~~~~~C~iC~~~~~--~p~~l~C~H~~c~~C~~~~~~-----~----~~~Cp--~cr~-~~~----~~~~n~~l~~~---   69 (386)
T KOG2177|consen   11 QEELTCPICLEYFR--EPVLLPCGHNFCRACLTRSWE-----G----PLSCP--VCRP-PSR----NLRPNVLLANL---   69 (386)
T ss_pred             cccccChhhHHHhh--cCccccccchHhHHHHHHhcC-----C----CcCCc--ccCC-chh----ccCccHHHHHH---
Confidence            35688999999985  337889999999999999998     1    58999  8884 222    22111111111   


Q ss_pred             HHHHHHhhCCC------ccccCCCCCCcceeeecCCCCceEEe-ccCCccccccC-CcCCCCCCchh
Q 018073          219 FIRSYVEDNRK------TKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNCT-EEAHRPVDCDT  277 (361)
Q Consensus       219 ~~~~~i~~~~~------~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~-~~~H~~~~C~~  277 (361)
                       ...+-.....      ...|+.           ......+.| .|....|..|. ...|..+.-..
T Consensus        70 -~~~~~~~~~~~~~~~~~~~c~~-----------~~~~~~~~c~~~~~~~c~~c~~~~~h~~h~~~~  124 (386)
T KOG2177|consen   70 -VERLRQLRLSRPLGSKEELCEK-----------HGEELKLFCEEDEKLLCVLCRESGEHRGHPVLP  124 (386)
T ss_pred             -HHHHHhcCCcccccccchhhhh-----------cCCcceEEecccccccCCCCCCcccccCCcccc
Confidence             1111111100      002221           111256789 89999999998 66777665433

>smart00184 RING Ring finger

Probab=97.74  E-value=2.3e-05  Score=49.33  Aligned_cols=30  Identities=37%  Similarity=0.986  Sum_probs=26.1

Q ss_pred             cccccccccCCccccccCCCcccHhhHHHHHH
Q 018073          144 CGICFENYPSDRLLAAACGHPFCSSCWTGYIS  175 (361)
Q Consensus       144 C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~  175 (361)
                      |+||++.  ...++.++|+|.||..|+..|+.
T Consensus         1 C~iC~~~--~~~~~~~~C~H~~c~~C~~~~~~   30 (39)
T smart00184        1 CPICLEE--LKDPVVLPCGHTFCRSCIRKWLK   30 (39)
T ss_pred             CCcCccC--CCCcEEecCCChHHHHHHHHHHH
Confidence            7899987  35677789999999999999987

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)

>PHA02926 zinc finger-like protein; Provisional

Probab=97.73  E-value=2.6e-05  Score=68.24  Aligned_cols=57  Identities=35%  Similarity=0.679  Sum_probs=40.6

Q ss_pred             CCCccccccccccccC-----Cc--cccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          138 DGEEMTCGICFENYPS-----DR--LLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~-----~~--~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      .+...+|+||++..-.     ..  .+..+|+|.||..|++.|..++...|   ..-.||  .|+..+.
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~---~~rsCP--iCR~~f~  230 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETG---ASDNCP--ICRTRFR  230 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccC---cCCcCC--CCcceee
Confidence            3456889999987521     11  23457999999999999998754333   245799  8987653

>smart00504 Ubox Modified RING finger domain

Probab=97.69  E-value=4.2e-05  Score=54.37  Aligned_cols=48  Identities=13%  Similarity=0.252  Sum_probs=38.2

Q ss_pred             cccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhH
Q 018073          142 MTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDM  202 (361)
Q Consensus       142 ~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~  202 (361)
                      +.|+||.+.+  .+++.++|||.||+.|+..|+..   .      ..||  .|+..++...
T Consensus         2 ~~Cpi~~~~~--~~Pv~~~~G~v~~~~~i~~~~~~---~------~~cP--~~~~~~~~~~   49 (63)
T smart00504        2 FLCPISLEVM--KDPVILPSGQTYERRAIEKWLLS---H------GTDP--VTGQPLTHED   49 (63)
T ss_pred             cCCcCCCCcC--CCCEECCCCCEEeHHHHHHHHHH---C------CCCC--CCcCCCChhh
Confidence            5799999876  45677899999999999999976   1      3688  6877775544

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

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

Probab=97.68  E-value=2.5e-05  Score=76.11  Aligned_cols=59  Identities=27%  Similarity=0.634  Sum_probs=45.2

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhhcC
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLS  207 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~ll  207 (361)
                      ...|||||+..+  -...+.|||.||..|+-+|+......+    ..+||  -|...|....+..+.
T Consensus       186 ~~~CPICL~~~~--~p~~t~CGHiFC~~CiLqy~~~s~~~~----~~~CP--iC~s~I~~kdl~pv~  244 (513)
T KOG2164|consen  186 DMQCPICLEPPS--VPVRTNCGHIFCGPCILQYWNYSAIKG----PCSCP--ICRSTITLKDLLPVF  244 (513)
T ss_pred             CCcCCcccCCCC--cccccccCceeeHHHHHHHHhhhcccC----CccCC--chhhhccccceeeee
Confidence            678999998743  334455999999999999999873322    67899  899988776665544

>TIGR00599 rad18 DNA repair protein rad18

Probab=97.63  E-value=4.2e-05  Score=73.92  Aligned_cols=65  Identities=25%  Similarity=0.543  Sum_probs=45.7

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHh-hcCChHHHHHHH
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIY-LLSSDEDKVKYN  216 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~-~ll~~~~~~~y~  216 (361)
                      ...+.|+||++.+  ..++.++|||.||..|+..|+..         ...||  .|+..+....+. ..+-.++.+.|.
T Consensus        24 e~~l~C~IC~d~~--~~PvitpCgH~FCs~CI~~~l~~---------~~~CP--~Cr~~~~~~~Lr~N~~L~~iVe~~~   89 (397)
T TIGR00599        24 DTSLRCHICKDFF--DVPVLTSCSHTFCSLCIRRCLSN---------QPKCP--LCRAEDQESKLRSNWLVSEIVESFK   89 (397)
T ss_pred             ccccCCCcCchhh--hCccCCCCCCchhHHHHHHHHhC---------CCCCC--CCCCccccccCccchHHHHHHHHHH
Confidence            3468999999877  45667899999999999999864         13699  899887654222 222234555554

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

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

Probab=97.33  E-value=0.00022  Score=72.90  Aligned_cols=55  Identities=29%  Similarity=0.699  Sum_probs=44.7

Q ss_pred             CccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhhc
Q 018073          140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLL  206 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~l  206 (361)
                      ..++||+|...  ..+.+...|+|.||..|++..+.++        .-+||  .|+..++...|..+
T Consensus       642 ~~LkCs~Cn~R--~Kd~vI~kC~H~FC~~Cvq~r~etR--------qRKCP--~Cn~aFganDv~~I  696 (698)
T KOG0978|consen  642 ELLKCSVCNTR--WKDAVITKCGHVFCEECVQTRYETR--------QRKCP--KCNAAFGANDVHRI  696 (698)
T ss_pred             hceeCCCccCc--hhhHHHHhcchHHHHHHHHHHHHHh--------cCCCC--CCCCCCCccccccc
Confidence            36799999943  3567788899999999999999885        34899  99999988776543

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

Probab=97.27  E-value=0.00021  Score=66.11  Aligned_cols=63  Identities=30%  Similarity=0.657  Sum_probs=46.9

Q ss_pred             CccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhh-cCChHHHHHH
Q 018073          140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYL-LSSDEDKVKY  215 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~-ll~~~~~~~y  215 (361)
                      ..+.|.||++.|.  -+...+|+|.||.-|++.|+..         ...||  .|...+....++. .+-.++++.|
T Consensus        22 ~lLRC~IC~eyf~--ip~itpCsHtfCSlCIR~~L~~---------~p~CP--~C~~~~~Es~Lr~n~il~Eiv~S~   85 (442)
T KOG0287|consen   22 DLLRCGICFEYFN--IPMITPCSHTFCSLCIRKFLSY---------KPQCP--TCCVTVTESDLRNNRILDEIVKSL   85 (442)
T ss_pred             HHHHHhHHHHHhc--CceeccccchHHHHHHHHHhcc---------CCCCC--ceecccchhhhhhhhHHHHHHHHH
Confidence            3567999999874  4456779999999999999976         45799  8999887766643 2334555554

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

Probab=97.17  E-value=0.00051  Score=64.91  Aligned_cols=47  Identities=32%  Similarity=0.810  Sum_probs=39.6

Q ss_pred             cccccccccccC-CccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCcc
Q 018073          142 MTCGICFENYPS-DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV  198 (361)
Q Consensus       142 ~~C~IC~e~~~~-~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i  198 (361)
                      .+|.||+|.|.. +.+..|+|.|.|...|+..|+...        .-.||  .|+..+
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~--------r~~CP--vCK~di  277 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT--------RTFCP--VCKRDI  277 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc--------CccCC--CCCCcC
Confidence            699999999975 567889999999999999999874        23599  888755

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

Probab=96.97  E-value=0.0005  Score=62.78  Aligned_cols=51  Identities=29%  Similarity=0.735  Sum_probs=42.5

Q ss_pred             CccccccccccccC-CccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          140 EEMTCGICFENYPS-DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       140 ~~~~C~IC~e~~~~-~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      ...+|.||++.+.. ++...++|.|.|...|+.+|+..        ...+||  .|+..+++
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~--------y~~~CP--vCrt~iPP  373 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLG--------YSNKCP--VCRTAIPP  373 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhh--------hcccCC--ccCCCCCC
Confidence            45799999998854 45678899999999999999974        367899  99988764

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=96.96  E-value=0.0014  Score=60.98  Aligned_cols=51  Identities=25%  Similarity=0.612  Sum_probs=35.6

Q ss_pred             cccccccccccC-Ccc--ccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhH
Q 018073          142 MTCGICFENYPS-DRL--LAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDM  202 (361)
Q Consensus       142 ~~C~IC~e~~~~-~~~--~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~  202 (361)
                      ..||+|....-. ..+  ....|||.||..|+...+..    +    +..||  .|+..+....
T Consensus         4 ~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~----~----~~~CP--~C~~~lrk~~   57 (309)
T TIGR00570         4 QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR----G----SGSCP--ECDTPLRKNN   57 (309)
T ss_pred             CCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcC----C----CCCCC--CCCCccchhh
Confidence            569999985322 222  22279999999999999742    2    35899  9998775443

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).

>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A

Probab=96.96  E-value=0.002  Score=42.11  Aligned_cols=40  Identities=20%  Similarity=0.408  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCChHHHHHHhhhcH
Q 018073           80 EEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADE  119 (361)
Q Consensus        80 ~~~i~~v~~~l~i~~~~a~~LL~~~~w~~~~l~e~~~~~~  119 (361)
                      ++.|.+.+++.++++..|..+|...+||++..++.||.++
T Consensus         1 ~e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~   40 (43)
T PF14555_consen    1 DEKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDG   40 (43)
T ss_dssp             HHHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS
T ss_pred             CHHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCC
Confidence            4678999999999999999999999999999999999864

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

Probab=96.95  E-value=0.0006  Score=47.47  Aligned_cols=47  Identities=28%  Similarity=0.641  Sum_probs=30.2

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCC
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCG  195 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~  195 (361)
                      .+.|||-...+. +.+.+..|||.|-++.+.+||.    .+   ..++||..+|.
T Consensus        11 ~~~CPiT~~~~~-~PV~s~~C~H~fek~aI~~~i~----~~---~~~~CPv~GC~   57 (57)
T PF11789_consen   11 SLKCPITLQPFE-DPVKSKKCGHTFEKEAILQYIQ----RN---GSKRCPVAGCN   57 (57)
T ss_dssp             -SB-TTTSSB-S-SEEEESSS--EEEHHHHHHHCT----TT---S-EE-SCCC-S
T ss_pred             ccCCCCcCChhh-CCcCcCCCCCeecHHHHHHHHH----hc---CCCCCCCCCCC
Confidence            578999998763 4445668999999999999992    22   36899998884

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

Probab=96.73  E-value=0.0044  Score=58.25  Aligned_cols=94  Identities=18%  Similarity=0.324  Sum_probs=56.5

Q ss_pred             HHHHHHHHHcCCChHHHHHHhhhcHHHHHHHcCCCC---CCCCCCCCCCcccccccccc-ccCC----------cccccc
Q 018073           95 VAASILLRFYNWSVSKVHDEWFADEERVRKAVGLLE---KPAVQFPDGEEMTCGICFEN-YPSD----------RLLAAA  160 (361)
Q Consensus        95 ~~a~~LL~~~~w~~~~l~e~~~~~~~~~~~~~~l~~---~~~~~~~~~~~~~C~IC~e~-~~~~----------~~~~l~  160 (361)
                      ..-..|+|.--|....|..+..+--.-.|....+..   ...+..-.....+|.||+++ +...          .+..++
T Consensus       238 r~Pi~l~r~~~t~~~AL~~~i~~~~~~~r~~kdl~~~~~t~t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp  317 (491)
T COG5243         238 RVPIYLIRQMYTCFYALFRRIREHARFRRATKDLNAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP  317 (491)
T ss_pred             hchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhcchhhhhhhcCCCCeEEEecccccCCCCccCcccccCCccccc
Confidence            345667777777777766554322111111111110   00011113346789999998 3322          246789


Q ss_pred             CCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          161 CGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       161 CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      |||.+...|++.|++.+         -.||  -|+.++-
T Consensus       318 CGHilHl~CLknW~ERq---------QTCP--ICr~p~i  345 (491)
T COG5243         318 CGHILHLHCLKNWLERQ---------QTCP--ICRRPVI  345 (491)
T ss_pred             ccceeeHHHHHHHHHhc---------cCCC--cccCccc
Confidence            99999999999999873         3688  8988753

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

Probab=96.73  E-value=0.00096  Score=65.21  Aligned_cols=57  Identities=25%  Similarity=0.781  Sum_probs=45.8

Q ss_pred             CCCCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchh
Q 018073          137 PDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD  201 (361)
Q Consensus       137 ~~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~  201 (361)
                      .+.....|.+|-++-  .+.+...|.|.||+-|++.|+.......    .+.||  .|...++.+
T Consensus       532 enk~~~~C~lc~d~a--ed~i~s~ChH~FCrlCi~eyv~~f~~~~----nvtCP--~C~i~LsiD  588 (791)
T KOG1002|consen  532 ENKGEVECGLCHDPA--EDYIESSCHHKFCRLCIKEYVESFMENN----NVTCP--VCHIGLSID  588 (791)
T ss_pred             cccCceeecccCChh--hhhHhhhhhHHHHHHHHHHHHHhhhccc----CCCCc--ccccccccc
Confidence            355678999998753  5677788999999999999999876643    48999  898876544

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

Probab=96.68  E-value=0.0015  Score=58.83  Aligned_cols=54  Identities=28%  Similarity=0.528  Sum_probs=40.6

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHH
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMI  203 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i  203 (361)
                      ...+.|.||++.-  ..+..++|||.||..|+-..+..+       ..-.||  .|++.+....|
T Consensus       213 ~~d~kC~lC~e~~--~~ps~t~CgHlFC~~Cl~~~~t~~-------k~~~Cp--lCRak~~pk~v  266 (271)
T COG5574         213 LADYKCFLCLEEP--EVPSCTPCGHLFCLSCLLISWTKK-------KYEFCP--LCRAKVYPKKV  266 (271)
T ss_pred             ccccceeeeeccc--CCcccccccchhhHHHHHHHHHhh-------ccccCc--hhhhhccchhh
Confidence            4467899999863  667788999999999998854332       134599  89988766554

>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=96.61  E-value=0.0015  Score=48.06  Aligned_cols=35  Identities=26%  Similarity=0.630  Sum_probs=26.2

Q ss_pred             cccccccccccCC-----------ccccccCCCcccHhhHHHHHHh
Q 018073          142 MTCGICFENYPSD-----------RLLAAACGHPFCSSCWTGYIST  176 (361)
Q Consensus       142 ~~C~IC~e~~~~~-----------~~~~l~CgH~fC~~Cl~~~i~~  176 (361)
                      -.|.||++.+...           .+....|||.|...|+.+|+..
T Consensus        20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~   65 (73)
T PF12678_consen   20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ   65 (73)
T ss_dssp             SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT
T ss_pred             CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc
Confidence            3599999988211           1233469999999999999965

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 ....

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

Probab=96.60  E-value=0.0014  Score=47.81  Aligned_cols=58  Identities=21%  Similarity=0.632  Sum_probs=27.5

Q ss_pred             cccccccccccc-CCcc--cc---ccCCCcccHhhHHHHHHhhhcCCCCe--eeeccCCCcCCCccch
Q 018073          141 EMTCGICFENYP-SDRL--LA---AACGHPFCSSCWTGYISTAINDGPGC--LMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       141 ~~~C~IC~e~~~-~~~~--~~---l~CgH~fC~~Cl~~~i~~~i~~~~~~--~~i~CP~~~C~~~i~~  200 (361)
                      +..|+||+..+. ....  +.   ..|++.|...||.+|+.+.-+.....  ..=.||  .|+..|.-
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP--~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECP--YCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-T--TT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCc--CCCCeeeE
Confidence            467999998754 2222  11   25899999999999998765543221  223799  89988754

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

Probab=96.41  E-value=0.00073  Score=47.53  Aligned_cols=43  Identities=35%  Similarity=0.874  Sum_probs=20.8

Q ss_pred             cccccccccccCCcccc-ccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          142 MTCGICFENYPSDRLLA-AACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       142 ~~C~IC~e~~~~~~~~~-l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      +.|++|.+.+  ..++. ..|.|.||..|++..+.           -.||  .|..+.-
T Consensus         8 LrCs~C~~~l--~~pv~l~~CeH~fCs~Ci~~~~~-----------~~CP--vC~~Paw   51 (65)
T PF14835_consen    8 LRCSICFDIL--KEPVCLGGCEHIFCSSCIRDCIG-----------SECP--VCHTPAW   51 (65)
T ss_dssp             TS-SSS-S----SS-B---SSS--B-TTTGGGGTT-----------TB-S--SS--B-S
T ss_pred             cCCcHHHHHh--cCCceeccCccHHHHHHhHHhcC-----------CCCC--CcCChHH
Confidence            5699999876  55655 46999999999966332           2499  8987653

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

Probab=96.08  E-value=0.01  Score=43.56  Aligned_cols=50  Identities=16%  Similarity=0.208  Sum_probs=36.7

Q ss_pred             CccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchh
Q 018073          140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD  201 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~  201 (361)
                      ..+.|+|+.+-+  .+++.+++||.|++.++..|+..    +    ...||  .++..+...
T Consensus         3 ~~f~CpIt~~lM--~dPVi~~~G~tyer~~I~~~l~~----~----~~~~P--~t~~~l~~~   52 (73)
T PF04564_consen    3 DEFLCPITGELM--RDPVILPSGHTYERSAIERWLEQ----N----GGTDP--FTRQPLSES   52 (73)
T ss_dssp             GGGB-TTTSSB---SSEEEETTSEEEEHHHHHHHHCT----T----SSB-T--TT-SB-SGG
T ss_pred             cccCCcCcCcHh--hCceeCCcCCEEcHHHHHHHHHc----C----CCCCC--CCCCcCCcc
Confidence            368899999876  67888999999999999999987    1    35788  677777654

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 ....

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

Probab=96.04  E-value=0.017  Score=52.44  Aligned_cols=52  Identities=27%  Similarity=0.620  Sum_probs=39.3

Q ss_pred             CCCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      .+...+|++|-+. |....+..+|||.||--|+..-+...       ..+.||  .|+..+.
T Consensus       236 ~t~~~~C~~Cg~~-PtiP~~~~~C~HiyCY~Ci~ts~~~~-------asf~Cp--~Cg~~~~  287 (298)
T KOG2879|consen  236 GTSDTECPVCGEP-PTIPHVIGKCGHIYCYYCIATSRLWD-------ASFTCP--LCGENVE  287 (298)
T ss_pred             ccCCceeeccCCC-CCCCeeeccccceeehhhhhhhhcch-------hhcccC--ccCCCCc
Confidence            4457899999864 44455566799999999998877653       258999  8998765

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

Probab=96.01  E-value=0.0059  Score=40.60  Aligned_cols=44  Identities=25%  Similarity=0.742  Sum_probs=21.5

Q ss_pred             cccccccccCCc--cccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCc
Q 018073          144 CGICFENYPSDR--LLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA  197 (361)
Q Consensus       144 C~IC~e~~~~~~--~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~  197 (361)
                      |++|.+.+....  +...+||+.+|+.||..-.+.    +    .=+||  +|+..
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~----~----~g~CP--gCr~~   46 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILEN----E----GGRCP--GCREP   46 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTS----S-----SB-T--TT--B
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhc----c----CCCCC--CCCCC
Confidence            789999875443  344569999999999877652    1    23699  89865

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

Probab=95.93  E-value=0.0044  Score=56.36  Aligned_cols=48  Identities=29%  Similarity=0.618  Sum_probs=36.7

Q ss_pred             CccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      ....|-||-+.+  .-+...+|||.||.-|++.|+..         ...||  .|....-.
T Consensus        24 s~lrC~IC~~~i--~ip~~TtCgHtFCslCIR~hL~~---------qp~CP--~Cr~~~~e   71 (391)
T COG5432          24 SMLRCRICDCRI--SIPCETTCGHTFCSLCIRRHLGT---------QPFCP--VCREDPCE   71 (391)
T ss_pred             hHHHhhhhhhee--ecceecccccchhHHHHHHHhcC---------CCCCc--cccccHHh
Confidence            356799998876  34566789999999999999976         34588  78776533

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

Probab=95.87  E-value=0.0029  Score=60.48  Aligned_cols=35  Identities=26%  Similarity=0.707  Sum_probs=29.3

Q ss_pred             CccccccccccccCCccccccCCCcccHhhHHHHHHh
Q 018073          140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYIST  176 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~  176 (361)
                      +++.|+||..-|  .+++.|+|+|..|+.|.+..+.+
T Consensus         3 eelkc~vc~~f~--~epiil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    3 EELKCPVCGSFY--REPIILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             ccccCceehhhc--cCceEeecccHHHHHHHHhhccc
Confidence            357799998766  67889999999999999977654

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

Probab=95.14  E-value=0.011  Score=54.20  Aligned_cols=55  Identities=20%  Similarity=0.509  Sum_probs=41.5

Q ss_pred             CCCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHh
Q 018073          138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIY  204 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~  204 (361)
                      ....-+|.||+.+-  .-++.+.|+|.||.-|+++-+...        ...|+  .|...|+...+.
T Consensus         4 ~~~~~eC~IC~nt~--n~Pv~l~C~HkFCyiCiKGsy~nd--------k~~Ca--vCR~pids~i~~   58 (324)
T KOG0824|consen    4 RTKKKECLICYNTG--NCPVNLYCFHKFCYICIKGSYKND--------KKTCA--VCRFPIDSTIDF   58 (324)
T ss_pred             cccCCcceeeeccC--CcCccccccchhhhhhhcchhhcC--------CCCCc--eecCCCCcchhc
Confidence            34456899999864  456889999999999999866542        34588  899988766543

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

Probab=95.10  E-value=0.0061  Score=58.18  Aligned_cols=41  Identities=34%  Similarity=0.957  Sum_probs=36.7

Q ss_pred             hhcCCCCC--CCcceeecCCCCceeecCCCccceeccccccccc
Q 018073          297 ANSKPCPR--CKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSD  338 (361)
Q Consensus       297 ~~~k~CP~--C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~  338 (361)
                      ++.+-||+  |..|+-...|++-..|. +|++.||.+|...|..
T Consensus       271 sdv~yCPr~~Cq~p~~~d~~~~l~~Cs-kCnFaFCtlCk~t~HG  313 (445)
T KOG1814|consen  271 SDVVYCPRACCQLPVKQDPGRALAICS-KCNFAFCTLCKLTWHG  313 (445)
T ss_pred             cccccCChhhccCccccCchhhhhhhc-cCccHHHHHHHHhhcC
Confidence            45789998  99999777999999999 8999999999988864

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

Probab=94.94  E-value=0.02  Score=54.45  Aligned_cols=59  Identities=24%  Similarity=0.584  Sum_probs=39.9

Q ss_pred             CCCCCccccccccccccCCc-----ccc-ccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCcc
Q 018073          136 FPDGEEMTCGICFENYPSDR-----LLA-AACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV  198 (361)
Q Consensus       136 ~~~~~~~~C~IC~e~~~~~~-----~~~-l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i  198 (361)
                      .+.....+|+||++......     +-. .+|.|.||..|+++|=...-...  ...-.||  .|+...
T Consensus       156 ~~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~--~~sksCP--~CRv~s  220 (344)
T KOG1039|consen  156 LQKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFES--KTSKSCP--FCRVPS  220 (344)
T ss_pred             cCccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhcccc--ccccCCC--cccCcc
Confidence            34567889999999865333     222 45999999999999874432211  1356799  787653

>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines

Probab=94.43  E-value=0.021  Score=32.90  Aligned_cols=24  Identities=29%  Similarity=0.945  Sum_probs=15.7

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccce
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEF  328 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~F  328 (361)
                      |.||.|+..|-.+    -+.|. .|||.|
T Consensus         1 K~CP~C~~~V~~~----~~~Cp-~CG~~F   24 (26)
T PF10571_consen    1 KTCPECGAEVPES----AKFCP-HCGYDF   24 (26)
T ss_pred             CcCCCCcCCchhh----cCcCC-CCCCCC
Confidence            5788888888422    24565 577766

Several members are annotated as putative helicases.

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

Probab=94.41  E-value=0.019  Score=53.48  Aligned_cols=49  Identities=29%  Similarity=0.706  Sum_probs=37.2

Q ss_pred             CccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      ...+|.+|-.-+- +......|-|.||+.||-.|++.         ...||  .|...|..
T Consensus        14 ~~itC~LC~GYli-DATTI~eCLHTFCkSCivk~l~~---------~~~CP--~C~i~ih~   62 (331)
T KOG2660|consen   14 PHITCRLCGGYLI-DATTITECLHTFCKSCIVKYLEE---------SKYCP--TCDIVIHK   62 (331)
T ss_pred             cceehhhccceee-cchhHHHHHHHHHHHHHHHHHHH---------hccCC--ccceeccC
Confidence            3578999986552 44445569999999999999988         24699  88877643

>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]

Probab=94.04  E-value=0.093  Score=48.57  Aligned_cols=94  Identities=23%  Similarity=0.620  Sum_probs=55.7

Q ss_pred             cCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhhcCChHHHHHHHHHHHHHHHhhCCCccccCCCCCC
Q 018073          160 ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCD  239 (361)
Q Consensus       160 ~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~ll~~~~~~~y~~~~~~~~i~~~~~~~~CP~p~C~  239 (361)
                      .||-.||+.|+..|-.-.-..+.+...    -..|...+.+..       ....+|...... .|  ....+.||.  |.
T Consensus       341 gCgf~FCR~C~e~yh~geC~~~~~as~----t~tc~y~vde~~-------a~~arwd~as~~-TI--k~tTkpCPk--Ch  404 (446)
T KOG0006|consen  341 GCGFAFCRECKEAYHEGECSAVFEASG----TTTCAYRVDERA-------AEQARWDAASKE-TI--KKTTKPCPK--CH  404 (446)
T ss_pred             CchhHhHHHHHhhhccccceeeecccc----ccceeeecChhh-------hhhhhhhhhhhh-hh--hhccCCCCC--cc
Confidence            499999999999987543322210000    013444443321       123344443322 12  234678884  98


Q ss_pred             cceeeecCCCCceEEe-c--cCCccccccCCcCCC
Q 018073          240 YAVDFVVGSGNYDVTC-R--CSYSFCWNCTEEAHR  271 (361)
Q Consensus       240 ~~i~~~~~~~~~~v~C-~--C~~~fC~~C~~~~H~  271 (361)
                      .+...  ..+...+.| .  ||..+||+|+-+|..
T Consensus       405 vptEr--nGGCmHm~Ct~~~Cg~eWCw~C~tEW~r  437 (446)
T KOG0006|consen  405 VPTER--NGGCMHMKCTQPQCGLEWCWNCGTEWNR  437 (446)
T ss_pred             Ccccc--CCceEEeecCCCCCCceeEeccCChhhh
Confidence            76654  345678899 3  999999999998864

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

Probab=93.99  E-value=0.031  Score=48.20  Aligned_cols=32  Identities=38%  Similarity=0.943  Sum_probs=26.7

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHHHHH
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYI  174 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i  174 (361)
                      .|.|.||-.+|  ..++...|||.||..|...-+
T Consensus       196 PF~C~iCKkdy--~spvvt~CGH~FC~~Cai~~y  227 (259)
T COG5152         196 PFLCGICKKDY--ESPVVTECGHSFCSLCAIRKY  227 (259)
T ss_pred             ceeehhchhhc--cchhhhhcchhHHHHHHHHHh
Confidence            58899999887  567788999999999976544

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

Probab=93.81  E-value=0.068  Score=52.00  Aligned_cols=49  Identities=24%  Similarity=0.714  Sum_probs=37.1

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      .+.+.|.||+..+  ..+++++|||.||..|+..    .+..     ...||  .|+..+..
T Consensus        82 ~sef~c~vc~~~l--~~pv~tpcghs~c~~Cl~r----~ld~-----~~~cp--~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRAL--YPPVVTPCGHSFCLECLDR----SLDQ-----ETECP--LCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhc--CCCccccccccccHHHHHH----Hhcc-----CCCCc--cccccccc
Confidence            5579999999876  5677789999999999766    2222     35688  68887753

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

Probab=92.98  E-value=0.097  Score=47.41  Aligned_cols=74  Identities=18%  Similarity=0.445  Sum_probs=50.7

Q ss_pred             HHHHHcCCCCCCCCCCCCCCccccccccccccCC--------ccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCC
Q 018073          121 RVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSD--------RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDP  192 (361)
Q Consensus       121 ~~~~~~~l~~~~~~~~~~~~~~~C~IC~e~~~~~--------~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~  192 (361)
                      .+-..+|.-.....+....+...|.||-..+..+        ++..|+|+|.|...|+++|...    |+   .-.||  
T Consensus       204 ~mAs~iGfYs~~glPtkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWciv----GK---kqtCP--  274 (328)
T KOG1734|consen  204 YMASTIGFYSPSGLPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIV----GK---KQTCP--  274 (328)
T ss_pred             HHHHHhcccCCCCCCCCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheee----cC---CCCCc--
Confidence            3344555544434444445567899998766432        4678999999999999999865    22   45799  


Q ss_pred             cCCCccchhHH
Q 018073          193 SCGAAVGQDMI  203 (361)
Q Consensus       193 ~C~~~i~~~~i  203 (361)
                      -|+..+....+
T Consensus       275 YCKekVdl~rm  285 (328)
T KOG1734|consen  275 YCKEKVDLKRM  285 (328)
T ss_pred             hHHHHhhHhhh
Confidence            89998865433

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

Probab=92.86  E-value=0.12  Score=38.88  Aligned_cols=32  Identities=28%  Similarity=0.630  Sum_probs=25.1

Q ss_pred             ccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCcc
Q 018073          159 AACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV  198 (361)
Q Consensus       159 l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i  198 (361)
                      -.|+|.|...|+.+++.++-.      .-.||  -|+...
T Consensus        50 g~C~H~FH~hCI~kWl~~~~~------~~~CP--mCR~~w   81 (85)
T PF12861_consen   50 GKCSHNFHMHCILKWLSTQSS------KGQCP--MCRQPW   81 (85)
T ss_pred             ccCccHHHHHHHHHHHccccC------CCCCC--CcCCee
Confidence            359999999999999998632      23699  788764

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

Probab=92.78  E-value=0.12  Score=49.43  Aligned_cols=49  Identities=31%  Similarity=0.844  Sum_probs=38.2

Q ss_pred             ccccccccccccC---CccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCcc
Q 018073          141 EMTCGICFENYPS---DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV  198 (361)
Q Consensus       141 ~~~C~IC~e~~~~---~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i  198 (361)
                      ..+||||++.+..   ..++++.|||.|=.+|+++|+. ++      ...+||  .|...-
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~-k~------~~~~cp--~c~~ka   55 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG-KK------TKMQCP--LCSGKA   55 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHh-hh------hhhhCc--ccCChh
Confidence            3689999998643   3467889999999999999994 32      357899  787653

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

Probab=92.36  E-value=0.063  Score=54.95  Aligned_cols=46  Identities=30%  Similarity=0.723  Sum_probs=36.0

Q ss_pred             ccccccccccccCC-c--cccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCc
Q 018073          141 EMTCGICFENYPSD-R--LLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA  197 (361)
Q Consensus       141 ~~~C~IC~e~~~~~-~--~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~  197 (361)
                      ...|.||.+.+... +  +..++|+|.|+..|++.|++.+         -.||  .|+..
T Consensus       291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~---------qtCP--~CR~~  339 (543)
T KOG0802|consen  291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQ---------QTCP--TCRTV  339 (543)
T ss_pred             CCeeeeechhhccccccccceeecccchHHHHHHHHHHHh---------CcCC--cchhh
Confidence            57899999987531 1  5678999999999999999882         2588  67663

>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length

Probab=92.30  E-value=0.1  Score=37.59  Aligned_cols=58  Identities=24%  Similarity=0.454  Sum_probs=34.1

Q ss_pred             CCCCCCcceeecCCCCceeecCCCcc-----ceeccccccccccCCCCCCcccCCCccchhcccCC
Q 018073          301 PCPRCKRPIEKNQGCMHMTCTPPCKF-----EFCWLCLGQWSDHGERTGGFYACNRYETAKQEGVV  361 (361)
Q Consensus       301 ~CP~C~~~IeK~~GCnhm~C~~~C~~-----~FCw~C~~~~~~h~~~~g~~y~C~~~~~~~~~~~~  361 (361)
                      .||.|+.+++..+  .+..|. .|..     -||--|+.+......--..-|.|+.-..-+.+.+|
T Consensus         3 ~CP~C~~~L~~~~--~~~~C~-~C~~~~~~~a~CPdC~~~Le~LkACGAvdYFC~~c~gLiSKkrV   65 (70)
T PF07191_consen    3 TCPKCQQELEWQG--GHYHCE-ACQKDYKKEAFCPDCGQPLEVLKACGAVDYFCNHCHGLISKKRV   65 (70)
T ss_dssp             B-SSS-SBEEEET--TEEEET-TT--EEEEEEE-TTT-SB-EEEEETTEEEEE-TTTT-EE-TTTS
T ss_pred             cCCCCCCccEEeC--CEEECc-cccccceecccCCCcccHHHHHHHhcccceeeccCCceeecceE
Confidence            6999999999888  799998 7975     46999998876543211145778877665555443

Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.

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

Probab=91.71  E-value=0.18  Score=33.82  Aligned_cols=36  Identities=19%  Similarity=0.462  Sum_probs=27.3

Q ss_pred             ccccccccccCCccccccCC-----CcccHhhHHHHHHhhh
Q 018073          143 TCGICFENYPSDRLLAAACG-----HPFCSSCWTGYISTAI  178 (361)
Q Consensus       143 ~C~IC~e~~~~~~~~~l~Cg-----H~fC~~Cl~~~i~~~i  178 (361)
                      .|-||++.....++...+|.     |.+...|+..|+..+-
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~   41 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESG   41 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcC
Confidence            38899984444555667774     8899999999998753

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

>smart00661 RPOL9 RNA polymerase subunit 9

Probab=91.49  E-value=0.16  Score=34.30  Aligned_cols=28  Identities=25%  Similarity=0.647  Sum_probs=21.2

Q ss_pred             CCCCCCCcceeecC--CCCceeecCCCccce
Q 018073          300 KPCPRCKRPIEKNQ--GCMHMTCTPPCKFEF  328 (361)
Q Consensus       300 k~CP~C~~~IeK~~--GCnhm~C~~~C~~~F  328 (361)
                      +-||.|+.++....  +-++..|. .|++++
T Consensus         1 ~FCp~Cg~~l~~~~~~~~~~~vC~-~Cg~~~   30 (52)
T smart00661        1 KFCPKCGNMLIPKEGKEKRRFVCR-KCGYEE   30 (52)
T ss_pred             CCCCCCCCccccccCCCCCEEECC-cCCCeE
Confidence            46999999887553  35689998 798764

>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]

Probab=91.41  E-value=0.34  Score=53.37  Aligned_cols=74  Identities=19%  Similarity=0.351  Sum_probs=53.5

Q ss_pred             ccccccccccc-cCCccccccCCCcccHhhHHHHHHhhhcCCCC-eeeeccCCCcCCCccchhHHhhcCChHHHHHHHH
Q 018073          141 EMTCGICFENY-PSDRLLAAACGHPFCSSCWTGYISTAINDGPG-CLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNR  217 (361)
Q Consensus       141 ~~~C~IC~e~~-~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~-~~~i~CP~~~C~~~i~~~~i~~ll~~~~~~~y~~  217 (361)
                      .-.|.|||.+- ..-.-+.|.|+|.|...|.+..++.+-..... ...|.||  -|...|..-.++.|+.+ +++.|+.
T Consensus      3486 DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCP--iC~n~InH~~LkDLldP-iKel~ed 3561 (3738)
T KOG1428|consen 3486 DDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCP--ICKNKINHIVLKDLLDP-IKELYED 3561 (3738)
T ss_pred             CceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecc--cccchhhhHHHHHHHHH-HHHHHHH
Confidence            45699999753 33445678999999999999999887654321 2368999  89999988888877753 3444443

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

Probab=91.22  E-value=0.03  Score=52.56  Aligned_cols=48  Identities=25%  Similarity=0.662  Sum_probs=34.3

Q ss_pred             CccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCcc
Q 018073          140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV  198 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i  198 (361)
                      ..+.|+||++-+. .-+....|.|+||.+|+-.-+..    |    .-.||  .|+..+
T Consensus        42 ~~v~c~icl~llk-~tmttkeClhrfc~~ci~~a~r~----g----n~ecp--tcRk~l   89 (381)
T KOG0311|consen   42 IQVICPICLSLLK-KTMTTKECLHRFCFDCIWKALRS----G----NNECP--TCRKKL   89 (381)
T ss_pred             hhhccHHHHHHHH-hhcccHHHHHHHHHHHHHHHHHh----c----CCCCc--hHHhhc
Confidence            4678999998764 23444569999999998766654    2    23588  788754

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

Probab=91.07  E-value=0.11  Score=33.64  Aligned_cols=40  Identities=25%  Similarity=0.657  Sum_probs=23.1

Q ss_pred             CCCCCcceeecCCCCceeecCCCccceeccccccccccCCCCCCcccCC
Q 018073          302 CPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACN  350 (361)
Q Consensus       302 CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~~~~g~~y~C~  350 (361)
                      ||-|...+.     +.++=  .|||.||..|+..|......  ..+.|+
T Consensus         1 CpiC~~~~~-----~Pv~l--~CGH~FC~~Cl~~~~~~~~~--~~~~CP   40 (42)
T PF15227_consen    1 CPICLDLFK-----DPVSL--PCGHSFCRSCLERLWKEPSG--SGFSCP   40 (42)
T ss_dssp             ETTTTSB-S-----SEEE---SSSSEEEHHHHHHHHCCSSS--ST---S
T ss_pred             CCccchhhC-----Ccccc--CCcCHHHHHHHHHHHHccCC--cCCCCc
Confidence            555665554     34555  49999999999987655442  115565

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

Probab=90.89  E-value=0.81  Score=42.83  Aligned_cols=47  Identities=23%  Similarity=0.611  Sum_probs=33.2

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCc
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA  197 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~  197 (361)
                      ...|+||+.... +..+..-=|-.||-.|+-.|+..   .|      +||-.+|...
T Consensus       300 ~~~CpvClk~r~-Nptvl~vSGyVfCY~Ci~~Yv~~---~~------~CPVT~~p~~  346 (357)
T KOG0826|consen  300 REVCPVCLKKRQ-NPTVLEVSGYVFCYPCIFSYVVN---YG------HCPVTGYPAS  346 (357)
T ss_pred             cccChhHHhccC-CCceEEecceEEeHHHHHHHHHh---cC------CCCccCCcch
Confidence            467999997653 33333346899999999999984   22      5886666544

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

Probab=90.64  E-value=0.22  Score=47.15  Aligned_cols=48  Identities=23%  Similarity=0.573  Sum_probs=36.6

Q ss_pred             CCccccccccccccCCccccccCCCc-ccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHP-FCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~-fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      ....+|.||+.+-  .+.+.|+|.|. .|.+|.+..--.         .=+||  -|+..|.
T Consensus       288 ~~gkeCVIClse~--rdt~vLPCRHLCLCs~Ca~~Lr~q---------~n~CP--ICRqpi~  336 (349)
T KOG4265|consen  288 ESGKECVICLSES--RDTVVLPCRHLCLCSGCAKSLRYQ---------TNNCP--ICRQPIE  336 (349)
T ss_pred             cCCCeeEEEecCC--cceEEecchhhehhHhHHHHHHHh---------hcCCC--ccccchH
Confidence            4467899999864  67888999997 899998866521         12599  8998764

>PF13248 zf-ribbon_3: zinc-ribbon domain

Probab=90.51  E-value=0.15  Score=29.33  Aligned_cols=11  Identities=36%  Similarity=0.914  Sum_probs=8.5

Q ss_pred             CCCCCCCccee
Q 018073          300 KPCPRCKRPIE  310 (361)
Q Consensus       300 k~CP~C~~~Ie  310 (361)
                      +.||+|+..|.
T Consensus         3 ~~Cp~Cg~~~~   13 (26)
T PF13248_consen    3 MFCPNCGAEID   13 (26)
T ss_pred             CCCcccCCcCC
Confidence            67888888775

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

Probab=90.37  E-value=0.091  Score=47.05  Aligned_cols=45  Identities=29%  Similarity=0.721  Sum_probs=33.1

Q ss_pred             cccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          142 MTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       142 ~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      +.|..|+---+...++.++|+|.||..|.+.-.           +-.||  .|+..+.
T Consensus         4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~-----------~~~C~--lCkk~ir   48 (233)
T KOG4739|consen    4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASS-----------PDVCP--LCKKSIR   48 (233)
T ss_pred             EEeccccccCCCCceeeeechhhhhhhhcccCC-----------ccccc--cccceee
Confidence            568989875555667788899999999985321           22788  8998753

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

Probab=90.28  E-value=0.22  Score=46.80  Aligned_cols=52  Identities=31%  Similarity=0.646  Sum_probs=37.2

Q ss_pred             CCCCCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          136 FPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       136 ~~~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      .|.++...|+||+..  +..-+..+|+|.-|.+|+.+|+...         -+|-  .|+..+..
T Consensus       417 lp~sEd~lCpICyA~--pi~Avf~PC~H~SC~~CI~qHlmN~---------k~CF--fCktTv~~  468 (489)
T KOG4692|consen  417 LPDSEDNLCPICYAG--PINAVFAPCSHRSCYGCITQHLMNC---------KRCF--FCKTTVID  468 (489)
T ss_pred             CCCcccccCcceecc--cchhhccCCCCchHHHHHHHHHhcC---------Ceee--Eecceeee
Confidence            455677899999953  2344567899999999999998642         2454  67776543

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

Probab=90.20  E-value=0.98  Score=43.42  Aligned_cols=56  Identities=16%  Similarity=0.346  Sum_probs=39.5

Q ss_pred             CCccccccccccccC-CccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhH
Q 018073          139 GEEMTCGICFENYPS-DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDM  202 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~-~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~  202 (361)
                      -+.|.|||=-+.-.. +.+..+.|||.++++=+......    |.  ..++||  -|........
T Consensus       332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~n----g~--~sfKCP--YCP~e~~~~~  388 (394)
T KOG2817|consen  332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKN----GS--QSFKCP--YCPVEQLASD  388 (394)
T ss_pred             cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhC----CC--eeeeCC--CCCcccCHHh
Confidence            346899996665443 45678999999999977665543    32  479999  8987655443

>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length

Probab=90.20  E-value=0.11  Score=42.33  Aligned_cols=36  Identities=25%  Similarity=0.660  Sum_probs=28.7

Q ss_pred             ccccccccccccC-CccccccCC------CcccHhhHHHHHHh
Q 018073          141 EMTCGICFENYPS-DRLLAAACG------HPFCSSCWTGYIST  176 (361)
Q Consensus       141 ~~~C~IC~e~~~~-~~~~~l~Cg------H~fC~~Cl~~~i~~  176 (361)
                      ..+|.||++.+.. .-++.++||      |.||.+|++.|-..
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~   68 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRE   68 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence            5789999999876 456667776      77999999999433

The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.

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

Probab=90.10  E-value=0.047  Score=49.99  Aligned_cols=38  Identities=26%  Similarity=0.829  Sum_probs=29.7

Q ss_pred             hhcCCCCCCCcceeecCCCCceeecCCCccceeccccccccccCC
Q 018073          297 ANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGE  341 (361)
Q Consensus       297 ~~~k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~~  341 (361)
                      .++.+|--|-...+      |-+|+ +|||-|||-|.-.|-....
T Consensus       237 ~a~~kC~LCLe~~~------~pSaT-pCGHiFCWsCI~~w~~ek~  274 (293)
T KOG0317|consen  237 EATRKCSLCLENRS------NPSAT-PCGHIFCWSCILEWCSEKA  274 (293)
T ss_pred             CCCCceEEEecCCC------CCCcC-cCcchHHHHHHHHHHcccc
Confidence            34667777766665      67899 6999999999999986654

>PF13240 zinc_ribbon_2: zinc-ribbon domain

Probab=89.95  E-value=0.17  Score=28.23  Aligned_cols=10  Identities=50%  Similarity=1.105  Sum_probs=7.6

Q ss_pred             CCCCCCccee
Q 018073          301 PCPRCKRPIE  310 (361)
Q Consensus       301 ~CP~C~~~Ie  310 (361)
                      .||+|+..|+
T Consensus         1 ~Cp~CG~~~~   10 (23)
T PF13240_consen    1 YCPNCGAEIE   10 (23)
T ss_pred             CCcccCCCCC
Confidence            4788888886

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

Probab=89.78  E-value=0.51  Score=44.29  Aligned_cols=56  Identities=27%  Similarity=0.617  Sum_probs=40.7

Q ss_pred             ccccccccccccCC----ccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCc--cchhHHhhc
Q 018073          141 EMTCGICFENYPSD----RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA--VGQDMIYLL  206 (361)
Q Consensus       141 ~~~C~IC~e~~~~~----~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~--i~~~~i~~l  206 (361)
                      ...|.||-++|...    -+..|.|||.+|..|....+..        ..+.||  .|+..  ++...+..+
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~--------~~i~cp--fcR~~~~~~~~~~~~l   64 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGN--------SRILCP--FCRETTEIPDGDVKSL   64 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcC--------ceeecc--CCCCcccCCchhHhhh
Confidence            35799999998754    2456779999999999988865        256777  89887  444444443

>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains

Probab=89.74  E-value=0.45  Score=28.73  Aligned_cols=29  Identities=31%  Similarity=0.699  Sum_probs=18.9

Q ss_pred             hcCCCCCCCcceeecCCCCceeecCCCccc
Q 018073          298 NSKPCPRCKRPIEKNQGCMHMTCTPPCKFE  327 (361)
Q Consensus       298 ~~k~CP~C~~~IeK~~GCnhm~C~~~C~~~  327 (361)
                      +.+-||+|+.+.+...+=--|.|. .|+++
T Consensus         2 ~~rfC~~CG~~t~~~~~g~~r~C~-~Cg~~   30 (32)
T PF09297_consen    2 NHRFCGRCGAPTKPAPGGWARRCP-SCGHE   30 (32)
T ss_dssp             TTSB-TTT--BEEE-SSSS-EEES-SSS-E
T ss_pred             CCcccCcCCccccCCCCcCEeECC-CCcCE
Confidence            357899999999988887889997 78875

; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.

>PHA00626 hypothetical protein

Probab=89.27  E-value=0.31  Score=33.24  Aligned_cols=28  Identities=25%  Similarity=0.692  Sum_probs=21.3

Q ss_pred             CCCCCCc-ceeecCCCCc----eeecCCCcccee
Q 018073          301 PCPRCKR-PIEKNQGCMH----MTCTPPCKFEFC  329 (361)
Q Consensus       301 ~CP~C~~-~IeK~~GCnh----m~C~~~C~~~FC  329 (361)
                      .||+|+. -|.|.+=|+.    -.|. .||+.|=
T Consensus         2 ~CP~CGS~~Ivrcg~cr~~snrYkCk-dCGY~ft   34 (59)
T PHA00626          2 SCPKCGSGNIAKEKTMRGWSDDYVCC-DCGYNDS   34 (59)
T ss_pred             CCCCCCCceeeeeceecccCcceEcC-CCCCeec
Confidence            5999998 5888877754    6787 6888773

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

Probab=89.20  E-value=0.21  Score=49.06  Aligned_cols=50  Identities=24%  Similarity=0.587  Sum_probs=37.3

Q ss_pred             CccccccccccccCCc---------------cccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          140 EEMTCGICFENYPSDR---------------LLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~---------------~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      ....|.||+.+++...               ....+|.|.|.+.|+.+|..+        ..+.||  .|+..++
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~--------ykl~CP--vCR~pLP  634 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT--------YKLICP--VCRCPLP  634 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhh--------hcccCC--ccCCCCC
Confidence            4678999998765311               113489999999999999975        257899  8887765

>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=89.10  E-value=0.68  Score=45.21  Aligned_cols=42  Identities=26%  Similarity=0.827  Sum_probs=34.2

Q ss_pred             CCccccCCCCCCcceeeecCCCCceEEeccCCccccccCCcCCCCC
Q 018073          228 RKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPV  273 (361)
Q Consensus       228 ~~~~~CP~p~C~~~i~~~~~~~~~~v~C~C~~~fC~~C~~~~H~~~  273 (361)
                      ...+.||.  |...|...  .+...++|.||+.||+.|+.+|+...
T Consensus       304 ~~wr~Cpk--C~~~ie~~--~GCnhm~CrC~~~fcy~C~~~~~~~~  345 (384)
T KOG1812|consen  304 KRWRQCPK--CKFMIELS--EGCNHMTCRCGHQFCYMCGGDWKTHN  345 (384)
T ss_pred             HhcCcCcc--cceeeeec--CCcceEEeeccccchhhcCcchhhCC
Confidence            56789995  99888654  45888999999999999998886543

>PRK14559 putative protein serine/threonine phosphatase; Provisional

Probab=89.09  E-value=0.28  Score=51.00  Aligned_cols=12  Identities=17%  Similarity=0.163  Sum_probs=8.8

Q ss_pred             ccceeccccccc
Q 018073          325 KFEFCWLCLGQW  336 (361)
Q Consensus       325 ~~~FCw~C~~~~  336 (361)
                      +..||-.||.+.
T Consensus        40 ~~~fC~~CG~~~   51 (645)
T PRK14559         40 DEAHCPNCGAET   51 (645)
T ss_pred             ccccccccCCcc
Confidence            455999998764

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

Probab=88.99  E-value=0.44  Score=46.69  Aligned_cols=37  Identities=30%  Similarity=0.738  Sum_probs=29.7

Q ss_pred             CCCccccccccccccCCcccc-ccCCCcccHhhHHHHHHh
Q 018073          138 DGEEMTCGICFENYPSDRLLA-AACGHPFCSSCWTGYIST  176 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~~~~~-l~CgH~fC~~Cl~~~i~~  176 (361)
                      ......|++|...+.  +++. +.|||.||..|+..+...
T Consensus        18 ~~~~l~C~~C~~vl~--~p~~~~~cgh~fC~~C~~~~~~~   55 (391)
T KOG0297|consen   18 LDENLLCPICMSVLR--DPVQTTTCGHRFCAGCLLESLSN   55 (391)
T ss_pred             CcccccCcccccccc--CCCCCCCCCCcccccccchhhcc
Confidence            455689999998763  4444 689999999999998876

>PRK00432 30S ribosomal protein S27ae; Validated

Probab=88.80  E-value=0.22  Score=33.60  Aligned_cols=29  Identities=24%  Similarity=0.594  Sum_probs=21.4

Q ss_pred             hhcCCCCCCCc-ceeecCCCCceeecCCCccce
Q 018073          297 ANSKPCPRCKR-PIEKNQGCMHMTCTPPCKFEF  328 (361)
Q Consensus       297 ~~~k~CP~C~~-~IeK~~GCnhm~C~~~C~~~F  328 (361)
                      .+.+.||+|+. .+....  +.++|. .|++.+
T Consensus        18 ~~~~fCP~Cg~~~m~~~~--~r~~C~-~Cgyt~   47 (50)
T PRK00432         18 RKNKFCPRCGSGFMAEHL--DRWHCG-KCGYTE   47 (50)
T ss_pred             EccCcCcCCCcchheccC--CcEECC-CcCCEE
Confidence            34579999998 444333  799999 799875

>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding

Probab=88.65  E-value=0.34  Score=31.31  Aligned_cols=32  Identities=25%  Similarity=0.596  Sum_probs=23.7

Q ss_pred             HHHHhhcCCCCCCCcceeecCCCCceeecC-CCccce
Q 018073          293 NWILANSKPCPRCKRPIEKNQGCMHMTCTP-PCKFEF  328 (361)
Q Consensus       293 ~~i~~~~k~CP~C~~~IeK~~GCnhm~C~~-~C~~~F  328 (361)
                      .|.+...|.||+|++.-    |+--+.|.+ .|.+.|
T Consensus         5 k~TlRGirkCp~CGt~N----G~R~~~CKN~~C~~~~   37 (44)
T PF14952_consen    5 KPTLRGIRKCPKCGTYN----GTRGLSCKNKSCPQVF   37 (44)
T ss_pred             hhhHhccccCCcCcCcc----CcccccccCCccchhh
Confidence            46666789999999875    777788872 566654

>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=88.54  E-value=0.52  Score=36.82  Aligned_cols=31  Identities=23%  Similarity=0.562  Sum_probs=26.4

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHH
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWT  171 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~  171 (361)
                      ...|++|...+....+...+|||.|...|.+
T Consensus        78 ~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   78 STKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            4569999999877777788999999999975

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 [].

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

Probab=88.49  E-value=0.23  Score=48.19  Aligned_cols=116  Identities=22%  Similarity=0.346  Sum_probs=64.9

Q ss_pred             eCHHHHHHHHHHHHHHHHHHhCCCHH--HHHHHHHHcCCChHH--HHHHhhhc-----HHHHHH-----HcCCCCC-CCC
Q 018073           70 LTEADIRQRQEEDITRISTVLSISKV--AASILLRFYNWSVSK--VHDEWFAD-----EERVRK-----AVGLLEK-PAV  134 (361)
Q Consensus        70 l~~~~i~~~~~~~i~~v~~~l~i~~~--~a~~LL~~~~w~~~~--l~e~~~~~-----~~~~~~-----~~~l~~~-~~~  134 (361)
                      ||..||.+.+...+.+|+.+.=|..+  .-..+|.+|+=..+.  ..++|-..     +..+-.     .+.+... +..
T Consensus        86 mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~le~e~Chll~V~~ve~~~s~d~a  165 (493)
T KOG0804|consen   86 MTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFNSLEPEVCHLLYVDRVEVTESEDGA  165 (493)
T ss_pred             ccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCCCCCccceeEEEEEEEEEEecccCC
Confidence            78999999999888888877665422  223444455433221  11222110     000110     0111110 111


Q ss_pred             ---CCCCCCccccccccccccCC--ccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCcc
Q 018073          135 ---QFPDGEEMTCGICFENYPSD--RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV  198 (361)
Q Consensus       135 ---~~~~~~~~~C~IC~e~~~~~--~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i  198 (361)
                         +.......+||||++....+  -+.+..|.|.|-..|+..|.-           ..||  .|+...
T Consensus       166 s~~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~-----------~scp--vcR~~q  221 (493)
T KOG0804|consen  166 SEPPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD-----------SSCP--VCRYCQ  221 (493)
T ss_pred             CCCCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc-----------CcCh--hhhhhc
Confidence               11224467999999987643  345667999999999988763           4677  676543

>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues

Probab=88.47  E-value=0.4  Score=28.59  Aligned_cols=27  Identities=26%  Similarity=0.766  Sum_probs=14.9

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccce
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEF  328 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~F  328 (361)
                      -+||+|+....-..|.+ |.|. .|+++|
T Consensus         3 p~Cp~C~se~~y~D~~~-~vCp-~C~~ew   29 (30)
T PF08274_consen    3 PKCPLCGSEYTYEDGEL-LVCP-ECGHEW   29 (30)
T ss_dssp             ---TTT-----EE-SSS-EEET-TTTEEE
T ss_pred             CCCCCCCCcceeccCCE-EeCC-cccccC
Confidence            47999999888878876 8898 788875

The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.

>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar

Probab=88.17  E-value=1.4  Score=47.35  Aligned_cols=20  Identities=10%  Similarity=0.069  Sum_probs=13.1

Q ss_pred             HHHHHHHHcCCChHHHHHHh
Q 018073           96 AASILLRFYNWSVSKVHDEW  115 (361)
Q Consensus        96 ~a~~LL~~~~w~~~~l~e~~  115 (361)
                      .++.++.||+-.+-.|++-|
T Consensus       764 ~~~~~~~~Fk~RvlDLleiy  783 (784)
T PF04931_consen  764 EAKENVIHFKNRVLDLLEIY  783 (784)
T ss_pred             HHHHHHHHHHHHHHHHHHHh
Confidence            56677777776666666554

The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent

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

Probab=87.52  E-value=0.27  Score=46.87  Aligned_cols=46  Identities=33%  Similarity=0.810  Sum_probs=33.6

Q ss_pred             cccccccccccCC-cccccc-CCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCC
Q 018073          142 MTCGICFENYPSD-RLLAAA-CGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCG  195 (361)
Q Consensus       142 ~~C~IC~e~~~~~-~~~~l~-CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~  195 (361)
                      ..|.||-+-++.. ++...+ |||.|...|+.+|++..-..      -.||  .|.
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~------R~cp--ic~   52 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSN------RGCP--ICQ   52 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCcc------CCCC--cee
Confidence            5799996655543 445555 99999999999999886543      2477  565

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

Probab=87.32  E-value=0.22  Score=45.83  Aligned_cols=45  Identities=27%  Similarity=0.611  Sum_probs=34.6

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCcc
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV  198 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i  198 (361)
                      .+-|.||-..|  ..++...|+|+||..|....+..         .-+|+  .|...+
T Consensus       241 Pf~c~icr~~f--~~pVvt~c~h~fc~~ca~~~~qk---------~~~c~--vC~~~t  285 (313)
T KOG1813|consen  241 PFKCFICRKYF--YRPVVTKCGHYFCEVCALKPYQK---------GEKCY--VCSQQT  285 (313)
T ss_pred             Ccccccccccc--ccchhhcCCceeehhhhcccccc---------CCcce--eccccc
Confidence            46799999887  56788899999999998776643         23576  777654

>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=87.29  E-value=0.18  Score=32.11  Aligned_cols=32  Identities=38%  Similarity=1.003  Sum_probs=22.3

Q ss_pred             CCCCCcceeecCCCCceeecCCCccceecccccccccc
Q 018073          302 CPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDH  339 (361)
Q Consensus       302 CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h  339 (361)
                      ||-|........     +=. .|+|.||..|+..|...
T Consensus         1 C~iC~~~~~~~~-----~~~-~C~H~fC~~C~~~~~~~   32 (41)
T PF00097_consen    1 CPICLEPFEDPV-----ILL-PCGHSFCRDCLRKWLEN   32 (41)
T ss_dssp             ETTTSSBCSSEE-----EET-TTSEEEEHHHHHHHHHH
T ss_pred             CCcCCccccCCC-----EEe-cCCCcchHHHHHHHHHh
Confidence            555665555332     344 69999999999998764

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 ....

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

Probab=85.96  E-value=0.29  Score=33.21  Aligned_cols=45  Identities=29%  Similarity=0.690  Sum_probs=32.7

Q ss_pred             cccccccccccCCccccccCCCc-ccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCcc
Q 018073          142 MTCGICFENYPSDRLLAAACGHP-FCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV  198 (361)
Q Consensus       142 ~~C~IC~e~~~~~~~~~l~CgH~-fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i  198 (361)
                      -+|.||++.  +.+.+...|||. .|.+|-...++. .       .=.||  -|+++|
T Consensus         8 dECTICye~--pvdsVlYtCGHMCmCy~Cg~rl~~~-~-------~g~CP--iCRapi   53 (62)
T KOG4172|consen    8 DECTICYEH--PVDSVLYTCGHMCMCYACGLRLKKA-L-------HGCCP--ICRAPI   53 (62)
T ss_pred             cceeeeccC--cchHHHHHcchHHhHHHHHHHHHHc-c-------CCcCc--chhhHH
Confidence            579999985  234556679997 899998887765 1       23588  787765

>PHA03096 p28-like protein; Provisional

Probab=85.40  E-value=0.44  Score=44.42  Aligned_cols=38  Identities=24%  Similarity=0.542  Sum_probs=28.7

Q ss_pred             cccccccccccCC----ccc-cc-cCCCcccHhhHHHHHHhhhc
Q 018073          142 MTCGICFENYPSD----RLL-AA-ACGHPFCSSCWTGYISTAIN  179 (361)
Q Consensus       142 ~~C~IC~e~~~~~----~~~-~l-~CgH~fC~~Cl~~~i~~~i~  179 (361)
                      ..|+||++.....    ..+ .| .|.|.||..|++.|..++..
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~  222 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLY  222 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhh
Confidence            6799999975422    122 33 59999999999999988764

>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=85.21  E-value=0.47  Score=47.37  Aligned_cols=39  Identities=26%  Similarity=0.641  Sum_probs=32.3

Q ss_pred             cCCCC--CCCcceee-cCCCCceeecCCCccceecccccccccc
Q 018073          299 SKPCP--RCKRPIEK-NQGCMHMTCTPPCKFEFCWLCLGQWSDH  339 (361)
Q Consensus       299 ~k~CP--~C~~~IeK-~~GCnhm~C~~~C~~~FCw~C~~~~~~h  339 (361)
                      .|-||  .|+..+.- .+.+.-+.|.  |++.|||.|+.+|...
T Consensus       158 lkwCP~~~C~~av~~~~~~~~~v~C~--~g~~FC~~C~~~~H~p  199 (444)
T KOG1815|consen  158 LKWCPAPGCGLAVKFGSLESVEVDCG--CGHEFCFACGEESHSP  199 (444)
T ss_pred             cccCCCCCCCceeeccCCCccceeCC--CCchhHhhccccccCC
Confidence            35566  79999987 7889999997  9999999998887643

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

Probab=85.00  E-value=0.33  Score=50.76  Aligned_cols=51  Identities=29%  Similarity=0.740  Sum_probs=39.5

Q ss_pred             cccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHh
Q 018073          142 MTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIY  204 (361)
Q Consensus       142 ~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~  204 (361)
                      ++|.||.+   ....+...|+|.||.+||..+|...-.       ..||  .|...+....+.
T Consensus       455 ~~c~ic~~---~~~~~it~c~h~~c~~c~~~~i~~~~~-------~~~~--~cr~~l~~~~l~  505 (674)
T KOG1001|consen  455 HWCHICCD---LDSFFITRCGHDFCVECLKKSIQQSEN-------APCP--LCRNVLKEKKLL  505 (674)
T ss_pred             cccccccc---cccceeecccchHHHHHHHhccccccC-------CCCc--HHHHHHHHHHHh
Confidence            78999998   467788899999999999999976322       2677  888876554443

>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=84.94  E-value=0.31  Score=30.75  Aligned_cols=32  Identities=28%  Similarity=0.860  Sum_probs=22.2

Q ss_pred             CCCCCcceeecCCCCceeecCCCccceecccccccccc
Q 018073          302 CPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDH  339 (361)
Q Consensus       302 CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h  339 (361)
                      ||-|...+..     .++-. +|||.||+.|...|...
T Consensus         1 C~iC~~~~~~-----~~~~~-~CGH~fC~~C~~~~~~~   32 (39)
T PF13923_consen    1 CPICLDELRD-----PVVVT-PCGHSFCKECIEKYLEK   32 (39)
T ss_dssp             ETTTTSB-SS-----EEEEC-TTSEEEEHHHHHHHHHC
T ss_pred             CCCCCCcccC-----cCEEC-CCCCchhHHHHHHHHHC
Confidence            4556555442     44566 69999999999888655

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

Probab=84.87  E-value=0.37  Score=46.13  Aligned_cols=35  Identities=31%  Similarity=0.718  Sum_probs=28.1

Q ss_pred             CccccccccccccCCccccccCCCcccHhhHHHHHHh
Q 018073          140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYIST  176 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~  176 (361)
                      ....|.||.+.-  .++...+|||..|..|+..|-.+
T Consensus       368 TFeLCKICaend--KdvkIEPCGHLlCt~CLa~WQ~s  402 (563)
T KOG1785|consen  368 TFELCKICAEND--KDVKIEPCGHLLCTSCLAAWQDS  402 (563)
T ss_pred             hHHHHHHhhccC--CCcccccccchHHHHHHHhhccc
Confidence            345799999853  56677899999999999998654

>TIGR00622 ssl1 transcription factor ssl1

Probab=84.53  E-value=0.83  Score=36.21  Aligned_cols=40  Identities=23%  Similarity=0.546  Sum_probs=26.3

Q ss_pred             cccCCCCCCcceeeecC------CCCceEEe-ccCCccccccCCcCCCC
Q 018073          231 KWCPAPGCDYAVDFVVG------SGNYDVTC-RCSYSFCWNCTEEAHRP  272 (361)
Q Consensus       231 ~~CP~p~C~~~i~~~~~------~~~~~v~C-~C~~~fC~~C~~~~H~~  272 (361)
                      +.|-  +|...+...+.      .......| .|+..||..|..-+|.-
T Consensus        56 ~~C~--~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~  102 (112)
T TIGR00622        56 RFCF--GCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHES  102 (112)
T ss_pred             Cccc--CcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhh
Confidence            4577  48776542211      12235679 99999999998777753

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

>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=84.22  E-value=0.27  Score=43.79  Aligned_cols=49  Identities=27%  Similarity=0.621  Sum_probs=35.7

Q ss_pred             cccccccccccC-Ccccc--cc-CCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCcc
Q 018073          142 MTCGICFENYPS-DRLLA--AA-CGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV  198 (361)
Q Consensus       142 ~~C~IC~e~~~~-~~~~~--l~-CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i  198 (361)
                      ..||||-.+.-. .++..  -+ |-|+.|.+|+...++.    |    +-.||.++|+.++
T Consensus        11 ~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~----G----pAqCP~~gC~kIL   63 (314)
T COG5220          11 RRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSR----G----PAQCPYKGCGKIL   63 (314)
T ss_pred             ccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcC----C----CCCCCCccHHHHH
Confidence            359999875322 22322  23 9999999999988865    2    6789999999764

>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain

Probab=84.13  E-value=0.66  Score=29.08  Aligned_cols=27  Identities=26%  Similarity=0.705  Sum_probs=16.9

Q ss_pred             CCCCCCCcceeec------CCCCceeecCCCccce
Q 018073          300 KPCPRCKRPIEKN------QGCMHMTCTPPCKFEF  328 (361)
Q Consensus       300 k~CP~C~~~IeK~------~GCnhm~C~~~C~~~F  328 (361)
                      ..||+|+..+.-.      .| ..++|. .|++.|
T Consensus         3 ~~CP~C~~~~~v~~~~~~~~~-~~v~C~-~C~~~~   35 (38)
T TIGR02098         3 IQCPNCKTSFRVVDSQLGANG-GKVRCG-KCGHVW   35 (38)
T ss_pred             EECCCCCCEEEeCHHHcCCCC-CEEECC-CCCCEE
Confidence            3688888855422      12 278887 677765

This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.

>PF13719 zinc_ribbon_5: zinc-ribbon domain

Probab=83.69  E-value=0.82  Score=28.65  Aligned_cols=29  Identities=28%  Similarity=0.670  Sum_probs=20.9

Q ss_pred             cccCCCCCCcceeeecC---CCCceEEe-ccCCcc
Q 018073          231 KWCPAPGCDYAVDFVVG---SGNYDVTC-RCSYSF  261 (361)
Q Consensus       231 ~~CP~p~C~~~i~~~~~---~~~~~v~C-~C~~~f  261 (361)
                      +.||+  |+..+.+...   .+...|.| .|++.|
T Consensus         3 i~CP~--C~~~f~v~~~~l~~~~~~vrC~~C~~~f   35 (37)
T PF13719_consen    3 ITCPN--CQTRFRVPDDKLPAGGRKVRCPKCGHVF   35 (37)
T ss_pred             EECCC--CCceEEcCHHHcccCCcEEECCCCCcEe
Confidence            56885  9988876543   34568899 898876

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

Probab=83.07  E-value=1.9  Score=41.32  Aligned_cols=48  Identities=33%  Similarity=0.759  Sum_probs=37.7

Q ss_pred             ccccccccccccC--CccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCc
Q 018073          141 EMTCGICFENYPS--DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA  197 (361)
Q Consensus       141 ~~~C~IC~e~~~~--~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~  197 (361)
                      .+.|..|-+.+..  +.+..++|.|.|...|+..|+..   .+    +-.||  .|+..
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~---n~----~rsCP--~Crkl  414 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILEN---NG----TRSCP--NCRKL  414 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHh---CC----CCCCc--cHHHH
Confidence            5779999998754  45678899999999999999943   22    45799  78743

>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []

Probab=83.00  E-value=4  Score=25.29  Aligned_cols=33  Identities=27%  Similarity=0.339  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCChHHHHH
Q 018073           80 EEDITRISTVLSISKVAASILLRFYNWSVSKVHD  113 (361)
Q Consensus        80 ~~~i~~v~~~l~i~~~~a~~LL~~~~w~~~~l~e  113 (361)
                      .+.|.++.+. |.+...++..|+..+||++..++
T Consensus         3 ~~~v~~L~~m-Gf~~~~~~~AL~~~~~nve~A~~   35 (37)
T PF00627_consen    3 EEKVQQLMEM-GFSREQAREALRACNGNVERAVD   35 (37)
T ss_dssp             HHHHHHHHHH-TS-HHHHHHHHHHTTTSHHHHHH
T ss_pred             HHHHHHHHHc-CCCHHHHHHHHHHcCCCHHHHHH
Confidence            3567888888 99999999999999999988664

The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....

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

Probab=82.85  E-value=0.79  Score=32.43  Aligned_cols=35  Identities=26%  Similarity=0.720  Sum_probs=14.9

Q ss_pred             CCCCCCCcceeec---CCCCceeecCCCccce----ecccccc
Q 018073          300 KPCPRCKRPIEKN---QGCMHMTCTPPCKFEF----CWLCLGQ  335 (361)
Q Consensus       300 k~CP~C~~~IeK~---~GCnhm~C~~~C~~~F----Cw~C~~~  335 (361)
                      -+|++|.......   +||-|+.|+ .|-..+    |-+|..|
T Consensus         8 LrCs~C~~~l~~pv~l~~CeH~fCs-~Ci~~~~~~~CPvC~~P   49 (65)
T PF14835_consen    8 LRCSICFDILKEPVCLGGCEHIFCS-SCIRDCIGSECPVCHTP   49 (65)
T ss_dssp             TS-SSS-S--SS-B---SSS--B-T-TTGGGGTTTB-SSS--B
T ss_pred             cCCcHHHHHhcCCceeccCccHHHH-HHhHHhcCCCCCCcCCh
Confidence            6899999877543   788888887 563332    5666544

>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar

Probab=82.54  E-value=1.7  Score=46.63  Aligned_cols=8  Identities=13%  Similarity=0.173  Sum_probs=3.6

Q ss_pred             HHHHHhCC
Q 018073           85 RISTVLSI   92 (361)
Q Consensus        85 ~v~~~l~i   92 (361)
                      +++.+|+.
T Consensus       707 ~l~~aL~~  714 (784)
T PF04931_consen  707 ALAKALGD  714 (784)
T ss_pred             HHHHHhcc
Confidence            34444554

The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent

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

Probab=82.53  E-value=1.4  Score=46.33  Aligned_cols=69  Identities=23%  Similarity=0.469  Sum_probs=43.1

Q ss_pred             HHHHhhhcHHHHHHHcCCCCCCCCCCCCCCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccC
Q 018073          111 VHDEWFADEERVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCP  190 (361)
Q Consensus       111 l~e~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP  190 (361)
                      .++.|..+-++.++.++.+.......   ....|..|--++. -.++...|||.|...|+.        ++    .-+||
T Consensus       813 ~Ie~yk~~i~e~r~~l~~lr~sa~i~---q~skCs~C~~~Ld-lP~VhF~CgHsyHqhC~e--------~~----~~~CP  876 (933)
T KOG2114|consen  813 AIEVYKKDIEEKRQELETLRTSAQIF---QVSKCSACEGTLD-LPFVHFLCGHSYHQHCLE--------DK----EDKCP  876 (933)
T ss_pred             HHHHHHHHHHHHHHHHHHhhccccee---eeeeecccCCccc-cceeeeecccHHHHHhhc--------cC----cccCC
Confidence            34444444455555555544322211   2357999976653 245667899999999998        22    46899


Q ss_pred             CCcCCCc
Q 018073          191 DPSCGAA  197 (361)
Q Consensus       191 ~~~C~~~  197 (361)
                        .|...
T Consensus       877 --~C~~e  881 (933)
T KOG2114|consen  877 --KCLPE  881 (933)
T ss_pred             --ccchh
Confidence              88763

>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional

Probab=82.36  E-value=1.2  Score=29.26  Aligned_cols=29  Identities=24%  Similarity=0.623  Sum_probs=19.7

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCcccee
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFC  329 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FC  329 (361)
                      -.||+|+..++-..+=..++|. .||..+=
T Consensus         4 y~C~~CG~~~~~~~~~~~~~Cp-~CG~~~~   32 (46)
T PRK00398          4 YKCARCGREVELDEYGTGVRCP-YCGYRIL   32 (46)
T ss_pred             EECCCCCCEEEECCCCCceECC-CCCCeEE
Confidence            3689999888755433378887 6776553

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=81.75  E-value=0.5  Score=41.21  Aligned_cols=31  Identities=29%  Similarity=0.890  Sum_probs=24.0

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceecccccccc
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWS  337 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~  337 (361)
                      -.||-|.-.+.      .-.-+ .|||.|||.|+..|.
T Consensus        19 ~~CpICld~~~------dPVvT-~CGH~FC~~CI~~wl   49 (193)
T PLN03208         19 FDCNICLDQVR------DPVVT-LCGHLFCWPCIHKWT   49 (193)
T ss_pred             cCCccCCCcCC------CcEEc-CCCchhHHHHHHHHH
Confidence            57999988764      12335 599999999999985

>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]

Probab=81.35  E-value=3.5  Score=38.23  Aligned_cols=39  Identities=23%  Similarity=0.564  Sum_probs=31.0

Q ss_pred             CCccccccccccccCCc-cccccCCCcccHhhHHHHHHhh
Q 018073          139 GEEMTCGICFENYPSDR-LLAAACGHPFCSSCWTGYISTA  177 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~-~~~l~CgH~fC~~Cl~~~i~~~  177 (361)
                      .....|.||+--|.... +...+|.|+|...||..|+...
T Consensus       113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~  152 (368)
T KOG4445|consen  113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTEC  152 (368)
T ss_pred             CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHH
Confidence            34567999987776555 6677899999999999999754

>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]

Probab=81.09  E-value=1.1  Score=46.52  Aligned_cols=13  Identities=15%  Similarity=0.279  Sum_probs=6.2

Q ss_pred             CcchhhhhhhhcC
Q 018073            3 SEDEFDMQDANAS   15 (361)
Q Consensus         3 ~~~~~~~~~~~~~   15 (361)
                      .+||+|+.+.+++
T Consensus       882 eddd~d~~s~~~~  894 (988)
T KOG2038|consen  882 EDDDEDENSLGSE  894 (988)
T ss_pred             cccccchhcccCc
Confidence            3344455555543

>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]

Probab=80.59  E-value=0.6  Score=43.59  Aligned_cols=23  Identities=26%  Similarity=0.689  Sum_probs=18.6

Q ss_pred             CCceEEe-ccCCccccccCCcCCC
Q 018073          249 GNYDVTC-RCSYSFCWNCTEEAHR  271 (361)
Q Consensus       249 ~~~~v~C-~C~~~fC~~C~~~~H~  271 (361)
                      .....+| .|+..||..|..-.|.
T Consensus       342 ~~~~y~C~~Ck~~FCldCDv~iHe  365 (378)
T KOG2807|consen  342 SSGRYRCESCKNVFCLDCDVFIHE  365 (378)
T ss_pred             CCCcEEchhccceeeccchHHHHh
Confidence            3456899 9999999999876664

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=80.40  E-value=0.91  Score=42.59  Aligned_cols=52  Identities=27%  Similarity=0.619  Sum_probs=31.5

Q ss_pred             ccCCCCCCcceeeecCCCCceEEeccCCccccccCCcCCCCCCchhHHHHHHhhhhhhHHHHHHHhhcCCCCCCCcceee
Q 018073          232 WCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEK  311 (361)
Q Consensus       232 ~CP~p~C~~~i~~~~~~~~~~v~C~C~~~fC~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~~i~~~~k~CP~C~~~IeK  311 (361)
                      -||.  |.......+. ....+. .|||.||..|....                        | .....+||.|+.++-|
T Consensus         5 ~CP~--Ck~~~y~np~-~kl~i~-~CGH~~C~sCv~~l------------------------~-~~~~~~CP~C~~~lrk   55 (309)
T TIGR00570         5 GCPR--CKTTKYRNPS-LKLMVN-VCGHTLCESCVDLL------------------------F-VRGSGSCPECDTPLRK   55 (309)
T ss_pred             CCCc--CCCCCccCcc-cccccC-CCCCcccHHHHHHH------------------------h-cCCCCCCCCCCCccch
Confidence            5885  8754322211 122344 79999999996321                        1 1123589999998876


Q ss_pred             c
Q 018073          312 N  312 (361)
Q Consensus       312 ~  312 (361)
                      +
T Consensus        56 ~   56 (309)
T TIGR00570        56 N   56 (309)
T ss_pred             h
Confidence            5

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).

>PHA02926 zinc finger-like protein; Provisional

Probab=80.20  E-value=0.84  Score=40.52  Aligned_cols=54  Identities=22%  Similarity=0.502  Sum_probs=33.8

Q ss_pred             hcCCCCCCCcce-eec-CCCCceeecCCCccceeccccccccccCCCCCCcccCCC
Q 018073          298 NSKPCPRCKRPI-EKN-QGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNR  351 (361)
Q Consensus       298 ~~k~CP~C~~~I-eK~-~GCnhm~C~~~C~~~FCw~C~~~~~~h~~~~g~~y~C~~  351 (361)
                      .-+.|+-|--.+ +|. .++...-=.+.|+|-||+.|...|......+|.-..|+-
T Consensus       169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPi  224 (242)
T PHA02926        169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPI  224 (242)
T ss_pred             CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCC
Confidence            348899999665 442 222111111269999999999999875434455566764

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

Probab=80.04  E-value=0.58  Score=41.71  Aligned_cols=20  Identities=45%  Similarity=1.105  Sum_probs=16.8

Q ss_pred             eeecCCCccceeccccccccccC
Q 018073          318 MTCTPPCKFEFCWLCLGQWSDHG  340 (361)
Q Consensus       318 m~C~~~C~~~FCw~C~~~~~~h~  340 (361)
                      +||   |||-|||-|+-.|....
T Consensus        62 vTl---CGHLFCWpClyqWl~~~   81 (230)
T KOG0823|consen   62 VTL---CGHLFCWPCLYQWLQTR   81 (230)
T ss_pred             Eee---cccceehHHHHHHHhhc
Confidence            455   99999999999997654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	361
1wd2_A	60	Solution Structure Of The C-Terminal Ring From A Ri		1e-11

>pdb|1WD2|A Chain A, Solution Structure Of The C-Terminal Ring From A Ring-Ibr- Ring (Triad) Motif Length = 60

Iteration: 1
 Score = 67.0 bits (162), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 33/60 (55%), Positives = 38/60 (63%), Gaps = 4/60 (6%)
Query: 294 WILANSKPCPRCKRPIEKNQGCMHMTC-TPPCKFEFCWLCLGQWSDHGERTGGFYACNRY 352
           WI AN+K CP+C   IEK+ GC HM C    CK EFCW+CLG W  HG     +Y CNRY
Sbjct: 1   WIAANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGS---AWYNCNRY 57

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	361
1wd2_A	60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	3e-26
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	8e-17
2ct7_A	86	Ring finger protein 31; IBR, structural genomics,	2e-06
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-04

>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 60

 Score = 98.3 bits (245), Expect = 3e-26
 Identities = 33/61 (54%), Positives = 38/61 (62%), Gaps = 4/61 (6%)

Query: 294 WILANSKPCPRCKRPIEKNQGCMHMTCTPP-CKFEFCWLCLGQWSDHGERTGGFYACNRY 352
           WI AN+K CP+C   IEK+ GC HM C    CK EFCW+CLG W  HG     +Y CNRY
Sbjct: 1   WIAANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGS---AWYNCNRY 57

Query: 353 E 353
            
Sbjct: 58  N 58

>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 = 74.1 bits (182), Expect = 8e-17
 Identities = 19/91 (20%), Positives = 36/91 (39%), Gaps = 4/91 (4%)

Query: 140 EEMTCGICFENYPSDRLLA-AACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCG--A 196
               C +C   YP +++   A C   FC+ C   Y+   I +G     + CPD +C    
Sbjct: 4   GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLE-TAISCPDAACPKQG 62

Query: 197 AVGQDMIYLLSSDEDKVKYNRYFIRSYVEDN 227
            + ++ I  + + E   +Y +         +
Sbjct: 63  HLQENEIECMVAAEIMQRYKKLQFERSGPSS 93

>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.4 Length = 86

 Score = 44.2 bits (104), Expect = 2e-06
 Identities = 22/88 (25%), Positives = 33/88 (37%), Gaps = 8/88 (9%)

Query: 207 SSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNC 265
           SS      +++      +  + K  WC    C +   F+      + TC +C  +FC  C
Sbjct: 2   SSGSSGALFHKKLTEGVLMRDPKFLWCAQ--CSFG--FIYEREQLEATCPQCHQTFCVRC 57

Query: 266 T---EEAHRPVDCDTVAKWVLKNSAESE 290
               EE HR   C+    W   NS  S 
Sbjct: 58  KRQWEEQHRGRSCEDFQNWKRMNSGPSS 85

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

 Score = 37.4 bits (87), Expect = 3e-04
 Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 9/51 (17%)

Query: 139 GEEMTCGICFENY-----PSDRLLAAACGHPFCSSCWTGYISTAINDGPGC 184
           G  ++C IC + Y         +++  CGH FCS C    +  ++ +   C
Sbjct: 1   GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQC----LRDSLKNANTC 47

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	361
1wd2_A	60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	99.9
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	99.67
2ct7_A	86	Ring finger protein 31; IBR, structural genomics,	99.44
2jmo_A	80	Parkin; IBR, E3 ligase, zinc binding domain, RBR;	99.24
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.21
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.81
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	98.68
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.66
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	98.65
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	98.64
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.62
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.61
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.6
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	98.58
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	98.55
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.55
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	98.54
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.53
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.52
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.5
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	98.49
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	98.48
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.48
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	98.48
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.48
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.47
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.45
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.45
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	98.45
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.44
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.44
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.44
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.42
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.41
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.38
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.37
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.35
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	98.32
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.31
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.25
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.24
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.23
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.19
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.19
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.19
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.17
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.16
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.16
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.13
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.1
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.09
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.02
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.01
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	97.92
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	97.91
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	97.88
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	97.85
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	97.82
2ct7_A	86	Ring finger protein 31; IBR, structural genomics,	97.8
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	97.76
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	97.73
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	97.67
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	97.64
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	97.58
2ea5_A	68	Cell growth regulator with ring finger domain prot	97.55
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	97.54
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	97.45
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	97.4
2jmo_A	80	Parkin; IBR, E3 ligase, zinc binding domain, RBR;	97.4
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	96.94
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	96.77
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	96.47
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	96.46
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	96.14
1v92_A	46	NSFL1 cofactor P47; 3-helix bundle, recombination;	95.91
2dal_A	62	Protein KIAA0794; FAS associted factor 1, UBA-like	95.4
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	95.04
1wd2_A	60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	94.74
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	94.56
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.14
2jrp_A	81	Putative cytoplasmic protein; two-zinc binding pro	93.98
2dam_A	67	ETEA protein; KIAA0887, UBA-like domain, structura	93.97
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	93.7
2dzl_A	66	Protein FAM100B; UBA-like domain, structural genom	93.3
3e21_A	45	HFAF1, FAS-associated factor 1; UBA, alternative s	93.14
2jne_A	101	Hypothetical protein YFGJ; zinc fingers, two zinc,	93.09
1wj7_A	104	Hypothetical protein (RSGI RUH-015); UBA domain, u	93.02
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	90.51
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	90.38
1z96_A	40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	90.37
2di0_A	71	Activating signal cointegrator 1 complex subunit 2	89.83
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	89.79
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	89.11
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	87.34
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	87.15
2k4x_A	55	30S ribosomal protein S27AE; metal-binding, ribonu	87.07
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	86.74
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	86.51
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	86.3
1pft_A	50	TFIIB, PFTFIIBN; N-terminal domain, transcription	86.09
3nw0_A	238	Non-structural maintenance of chromosomes element	85.19
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	85.08
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	84.83
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	84.65
3j20_Y	50	30S ribosomal protein S27AE; archaea, archaeal, KI	84.39
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	83.88
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	83.7
1ify_A	49	HHR23A, UV excision repair protein RAD23 homolog A	83.43
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	83.41
2jr6_A	68	UPF0434 protein NMA0874; solution, structural geno	83.19
1vq8_Z	83	50S ribosomal protein L37AE; ribosome 50S, protein	82.94
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	82.76
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	82.6
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	82.57
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	82.51
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	82.43
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	82.43
2g3q_A	43	Protein YBL047C; endocytosis, solution structure,	82.32
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	82.01
3bq3_A	270	Defective in cullin neddylation protein 1; ubiquit	81.6
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	80.94
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	80.89
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	80.87
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	80.86
1vg5_A	73	RSGI RUH-014, rhomboid family protein; UBA domain,	80.6

>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.90  E-value=3.3e-25  Score=155.23  Aligned_cols=57  Identities=58%  Similarity=1.443  Sum_probs=54.0

Q ss_pred             HHHhhcCCCCCCCcceeecCCCCceeecCC--CccceeccccccccccCCCCCCcccCCCccc
Q 018073          294 WILANSKPCPRCKRPIEKNQGCMHMTCTPP--CKFEFCWLCLGQWSDHGERTGGFYACNRYET  354 (361)
Q Consensus       294 ~i~~~~k~CP~C~~~IeK~~GCnhm~C~~~--C~~~FCw~C~~~~~~h~~~~g~~y~C~~~~~  354 (361)
                      ||++++|+||+|+++|||++|||||+|+ .  |+++|||+|+++|+.|+.   .+|.||||++
T Consensus         1 wi~~~~k~CP~C~~~Iek~~GCnhmtC~-~~~C~~~FCw~C~~~~~~~~~---~~y~C~~y~~   59 (60)
T 1wd2_A            1 WIAANTKECPKCHVTIEKDGGCNHMVCR-NQNCKAEFCWVCLGPWEPHGS---AWYNCNRYNE   59 (60)
T ss_dssp             CCCCCCCCCTTTCCCCSSCCSCCSSSCC-SSGGGSCCSSSSCSCSGGGGT---SSSSSCSCCC
T ss_pred             CccccceECcCCCCeeEeCCCCCcEEEC-CCCcCCEEeeCcCCCcccCCC---ccccCCCccc
Confidence            7888999999999999999999999998 7  999999999999999986   7999999975

>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=99.67  E-value=3.8e-17  Score=126.17  Aligned_cols=87  Identities=21%  Similarity=0.537  Sum_probs=75.9

Q ss_pred             CCccccccccccccCCccccc-cCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCc--cchhHHhhcCChHHHHHH
Q 018073          139 GEEMTCGICFENYPSDRLLAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA--VGQDMIYLLSSDEDKVKY  215 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l-~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~--i~~~~i~~ll~~~~~~~y  215 (361)
                      +..++|+||++.++...++.+ +|||.||++||+.|+..+|.+|. ..+++||.++|+..  ++...++.+++++++++|
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~-~~~i~CP~~~C~~~~~~~~~~i~~ll~~~~~~ky   81 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGL-ETAISCPDAACPKQGHLQENEIECMVAAEIMQRY   81 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCS-CCCEECSCTTCSSCCEECHHHHHHHSCHHHHHHH
T ss_pred             CCCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCC-cccccCccccCCCCCccCHHHHHHHCCHHHHHHH
Confidence            456889999999876666655 69999999999999999998875 35799998889999  999999999999999999


Q ss_pred             HHHHHHHHHhh
Q 018073          216 NRYFIRSYVED  226 (361)
Q Consensus       216 ~~~~~~~~i~~  226 (361)
                      .+++++.|+..
T Consensus        82 ~~~~~~~~v~~   92 (94)
T 1wim_A           82 KKLQFERSGPS   92 (94)
T ss_dssp             HHHHHHSSCSS
T ss_pred             HHHHHHhhhcc
Confidence            99999887754

>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.4

Probab=99.44  E-value=1.6e-15  Score=114.69  Aligned_cols=78  Identities=22%  Similarity=0.603  Sum_probs=67.2

Q ss_pred             hHHHHHHHHHHHHHHHhhCCCccccCCCCCCcceeeecCCCCceEEe-ccCCccccccCCcC---CCCCCchhHHHHHHh
Q 018073          209 DEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNCTEEA---HRPVDCDTVAKWVLK  284 (361)
Q Consensus       209 ~~~~~~y~~~~~~~~i~~~~~~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~---H~~~~C~~~~~~~~~  284 (361)
                      ++++++|++++++++|..++.++|||  +|++++....  ....|+| .|++.||+.|+.+|   |.|.+|.++++|+.+
T Consensus         4 ~~~~e~y~~~l~e~~v~~~~~~~wCP--~C~~~~~~~~--~~~~v~C~~C~~~FC~~C~~~w~~~H~~~sC~~~~~w~~~   79 (86)
T 2ct7_A            4 GSSGALFHKKLTEGVLMRDPKFLWCA--QCSFGFIYER--EQLEATCPQCHQTFCVRCKRQWEEQHRGRSCEDFQNWKRM   79 (86)
T ss_dssp             CCCCCSSSSCCCCSCCCSCCCEECCS--SSCCCEECCC--SCSCEECTTTCCEECSSSCSBCCTTTTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCEeECc--CCCchheecC--CCCceEeCCCCCccccccCCchhhcCCCCChHHHHHHHHh
Confidence            34567788888888998899999999  8999886653  3567999 79999999999999   999999999999999


Q ss_pred             hhhhhH
Q 018073          285 NSAESE  290 (361)
Q Consensus       285 ~~~~~~  290 (361)
                      +.++++
T Consensus        80 n~~~~~   85 (86)
T 2ct7_A           80 NSGPSS   85 (86)
T ss_dssp             HTCSSC
T ss_pred             Cccccc
Confidence            877654

>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo sapiens}

Probab=99.24  E-value=5.5e-14  Score=104.58  Aligned_cols=69  Identities=29%  Similarity=0.623  Sum_probs=59.6

Q ss_pred             cCChHHHHHHHHHHHHHHHhhCCCccccCCCCCCcceeeecCCCCceEEe------ccCCccccccCCcCCCCCCchhH
Q 018073          206 LSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC------RCSYSFCWNCTEEAHRPVDCDTV  278 (361)
Q Consensus       206 ll~~~~~~~y~~~~~~~~i~~~~~~~~CP~p~C~~~i~~~~~~~~~~v~C------~C~~~fC~~C~~~~H~~~~C~~~  278 (361)
                      +|+++++++|++++++++|..+. ++|||+|+|++++....  ....|.|      .|++.||+.|+.+||. .+|.++
T Consensus         2 ~l~~~~~~rY~~~~~e~~v~~~~-~~~CP~p~C~~~v~~~~--~~~~v~C~~~~~~~C~~~FC~~C~~~wH~-~~C~~~   76 (80)
T 2jmo_A            2 HMGEEQYNRYQQYGAEECVLQMG-GVLCPRPGCGAGLLPEP--DQRKVTCEGGNGLGCGFAFCRECKEAYHE-GECSAV   76 (80)
T ss_dssp             CCCCCCCCSCCCSSSCCSSCCCS-SCCCCSSSCCCCCCCCS--CTTSBCTTSSSTTCCSCCEETTTTEECCS-SCSSSC
T ss_pred             CCCHHHHHHHHHHHHHHHhhhCC-cEECCCCCCCcccEECC--CCCcCCCCCCCCCCCCCeeccccCccccC-Cccccc
Confidence            46677888999999999998886 99999999999987653  4567999      6999999999999999 999753

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

Probab=99.21  E-value=8.5e-13  Score=107.79  Aligned_cols=117  Identities=26%  Similarity=0.674  Sum_probs=79.8

Q ss_pred             CCccccccccccccC-----CccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhhcCChHHHH
Q 018073          139 GEEMTCGICFENYPS-----DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKV  213 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~-----~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~ll~~~~~~  213 (361)
                      ...++|+||++.+..     ..++.++|||.||..||..|+..         ...||  .|+..+....+..+..     
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~---------~~~CP--~Cr~~~~~~~l~~l~i-----   68 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN---------ANTCP--TCRKKINHKRYHPIYI-----   68 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTT---------CSBCT--TTCCBCTTTCEEECBC-----
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHh---------CCCCC--CCCCcCcccccccccc-----
Confidence            346889999998742     12377899999999999999964         23799  8999987665544321     


Q ss_pred             HHHHHHHHHHHhhCCCccccCCCCCCcceeeecCCCCceEEeccCCccccccCCcCCCCCCchhHHHHHHhhhhhhHHHH
Q 018073          214 KYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMN  293 (361)
Q Consensus       214 ~y~~~~~~~~i~~~~~~~~CP~p~C~~~i~~~~~~~~~~v~C~C~~~fC~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~  293 (361)
                                   +.....||.  |...+..........+...||+.||..|...            |+.          
T Consensus        69 -------------~~~~~~C~i--C~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~------------~~~----------  111 (133)
T 4ap4_A           69 -------------GSGTVSCPI--CMDGYSEIVQNGRLIVSTECGHVFCSQCLRD------------SLK----------  111 (133)
T ss_dssp             -------------SSSSCBCTT--TCCBHHHHHHTTCCEEEETTSBEEEHHHHHH------------HHH----------
T ss_pred             -------------CCCCCCCCC--CCCccccccccCcceEeCCCCChhhHHHHHH------------HHH----------
Confidence                         234557885  7655432211222335559999999999633            321          


Q ss_pred             HHHhhcCCCCCCCcceeec
Q 018073          294 WILANSKPCPRCKRPIEKN  312 (361)
Q Consensus       294 ~i~~~~k~CP~C~~~IeK~  312 (361)
                          ..+.||.|+..|.++
T Consensus       112 ----~~~~CP~Cr~~~~~~  126 (133)
T 4ap4_A          112 ----NANTCPTCRKKINHK  126 (133)
T ss_dssp             ----HCSBCTTTCCBCCGG
T ss_pred             ----cCCCCCCCCCcCChh
Confidence                237999999999865

>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=98.81  E-value=8.9e-10  Score=93.96  Aligned_cols=82  Identities=22%  Similarity=0.516  Sum_probs=57.9

Q ss_pred             CCCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhhcCChHHHHHHHH
Q 018073          138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNR  217 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~ll~~~~~~~y~~  217 (361)
                      ....+.|+||++.+  ..++.++|||.||..||..++..+        ..+||  .|+..+....+.   ....      
T Consensus        15 ~~~~~~C~IC~~~~--~~pv~~~CgH~fC~~Ci~~~~~~~--------~~~CP--~Cr~~~~~~~~~---~~~~------   73 (170)
T 3hcs_A           15 LESKYECPICLMAL--REAVQTPCGHRFCKACIIKSIRDA--------GHKCP--VDNEILLENQLF---PDNF------   73 (170)
T ss_dssp             CCGGGBCTTTCSBC--SSEEECTTSCEEEHHHHHHHHHHH--------CSBCT--TTCCBCCGGGCE---ECHH------
T ss_pred             CCCCCCCCCCChhh--cCcEECCCCCHHHHHHHHHHHHhC--------CCCCC--CCccCcchhhhh---hhHH------
Confidence            45578999999987  456778999999999999999763        23899  899888765322   2111      


Q ss_pred             HHHHHHHhhCCCccccCCCCCCcceee
Q 018073          218 YFIRSYVEDNRKTKWCPAPGCDYAVDF  244 (361)
Q Consensus       218 ~~~~~~i~~~~~~~~CP~p~C~~~i~~  244 (361)
                        ++..+.  .-.+.||+.+|+..+.+
T Consensus        74 --~~~~i~--~l~v~C~n~GC~~~~~~   96 (170)
T 3hcs_A           74 --AKREIL--SLMVKCPNEGCLHKMEL   96 (170)
T ss_dssp             --HHHHHH--TSEEECCSTTCCCEEEG
T ss_pred             --HHHHHh--hcccCCCCCCCCceecH
Confidence              111222  24579999999987654

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

Probab=98.68  E-value=2.1e-08  Score=75.44  Aligned_cols=60  Identities=27%  Similarity=0.665  Sum_probs=46.6

Q ss_pred             CCccccccccccccCCc--cccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhhc
Q 018073          139 GEEMTCGICFENYPSDR--LLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLL  206 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~--~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~l  206 (361)
                      ...++|+||++.+....  ++.++|||.||..|+..|+....      ..++||  .|+..+....+..+
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~------~~~~CP--~Cr~~~~~~~i~~l   74 (88)
T 2ct2_A           13 REVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSI------NGVRCP--FCSKITRITSLTQL   74 (88)
T ss_dssp             CSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCS------SCBCCT--TTCCCBCCSSTTTS
T ss_pred             cCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCC------CCcCCC--CCCCcccchhHHHH
Confidence            45688999999886433  67789999999999999998641      157899  89998866555443

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

Probab=98.66  E-value=2.4e-08  Score=74.54  Aligned_cols=57  Identities=33%  Similarity=0.708  Sum_probs=46.0

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhH
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDM  202 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~  202 (361)
                      ...++|+||++.+  .+++.++|||.||..|+..|+..+...+.   .+.||  .|+..+....
T Consensus        17 ~~~~~C~IC~~~~--~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~---~~~CP--~Cr~~~~~~~   73 (85)
T 2ecv_A           17 KEEVTCPICLELL--TQPLSLDCGHSFCQACLTANHKKSMLDKG---ESSCP--VCRISYQPEN   73 (85)
T ss_dssp             CCCCCCTTTCSCC--SSCBCCSSSCCBCTTHHHHHHHHHHHTTS---CCCCT--TTCCSSCSSS
T ss_pred             cCCCCCCCCCccc--CCceeCCCCCHHHHHHHHHHHHHhhcCCC---CCcCC--CCCCccCHHh
Confidence            4568999999987  45667899999999999999988765543   67999  8999886543

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

Probab=98.65  E-value=2.9e-08  Score=70.63  Aligned_cols=53  Identities=25%  Similarity=0.618  Sum_probs=41.8

Q ss_pred             CCCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhH
Q 018073          138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDM  202 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~  202 (361)
                      ....++|+||++.+  .+++.++|||.||..|+..|+..    +    ...||  .|+..+....
T Consensus        12 ~~~~~~C~IC~~~~--~~p~~~~CgH~fC~~Ci~~~~~~----~----~~~CP--~Cr~~~~~~~   64 (66)
T 2ecy_A           12 VEDKYKCEKCHLVL--CSPKQTECGHRFCESCMAALLSS----S----SPKCT--ACQESIVKDK   64 (66)
T ss_dssp             CCCCEECTTTCCEE--SSCCCCSSSCCCCHHHHHHHHTT----S----SCCCT--TTCCCCCTTT
T ss_pred             CCcCCCCCCCChHh--cCeeECCCCCHHHHHHHHHHHHh----C----cCCCC--CCCcCCChhh
Confidence            34578999999987  45566899999999999999961    1    46799  8998876543

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

Probab=98.64  E-value=3.8e-08  Score=73.42  Aligned_cols=57  Identities=32%  Similarity=0.600  Sum_probs=45.2

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhH
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDM  202 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~  202 (361)
                      ...++|+||++.+  ..++.++|||.||..|+..|+......+.   ...||  .|+..+....
T Consensus        17 ~~~~~C~IC~~~~--~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~---~~~CP--~Cr~~~~~~~   73 (85)
T 2ecw_A           17 KEEVTCPICLELL--KEPVSADCNHSFCRACITLNYESNRNTDG---KGNCP--VCRVPYPFGN   73 (85)
T ss_dssp             CTTTSCTTTCSCC--SSCEECTTSCCBCHHHHHHHHHHSBCTTS---CBCCT--TTCCCCCTTC
T ss_pred             ccCCCCcCCChhh--CcceeCCCCCHHHHHHHHHHHHhccCCCC---CCCCC--CCCCcCCHHh
Confidence            4568999999987  45567899999999999999988653332   68899  8999886543

>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=98.62  E-value=3.7e-08  Score=78.31  Aligned_cols=80  Identities=21%  Similarity=0.418  Sum_probs=56.8

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhhcCChHHHHHHHHHHH
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFI  220 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~ll~~~~~~~y~~~~~  220 (361)
                      .++|+||++.+  .+++.++|||.||..|+..|+...        ...||  .|+..+....+...+ ..+         
T Consensus        23 ~~~C~IC~~~~--~~p~~~~CgH~fC~~Ci~~~~~~~--------~~~CP--~Cr~~~~~~~~~~~~-~~l---------   80 (116)
T 1rmd_A           23 SISCQICEHIL--ADPVETSCKHLFCRICILRCLKVM--------GSYCP--SCRYPCFPTDLESPV-KSF---------   80 (116)
T ss_dssp             HTBCTTTCSBC--SSEEECTTSCEEEHHHHHHHHHHT--------CSBCT--TTCCBCCGGGCBCCC-HHH---------
T ss_pred             CCCCCCCCcHh--cCcEEcCCCCcccHHHHHHHHhHC--------cCcCC--CCCCCCCHhhccccH-HHH---------
Confidence            57899999887  456678999999999999999762        24799  899998776544321 111         


Q ss_pred             HHHHhhCCCccccCCCCCCcceee
Q 018073          221 RSYVEDNRKTKWCPAPGCDYAVDF  244 (361)
Q Consensus       221 ~~~i~~~~~~~~CP~p~C~~~i~~  244 (361)
                      ...+.  .-..+||+.||+..+..
T Consensus        81 ~~~i~--~l~v~C~~~gC~~~~~~  102 (116)
T 1rmd_A           81 LNILN--SLMVKCPAQDCNEEVSL  102 (116)
T ss_dssp             HHHHH--HCEEECCSTTCCCEEEH
T ss_pred             HHHHH--HhcCCCCCCCCcchhhH
Confidence            11111  12468999999987654

>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=98.61  E-value=4.4e-08  Score=78.21  Aligned_cols=83  Identities=22%  Similarity=0.502  Sum_probs=58.8

Q ss_pred             CCCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhhcCChHHHHHHHH
Q 018073          138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNR  217 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~ll~~~~~~~y~~  217 (361)
                      ....+.|+||++.+  ..++.++|||.||..|+..|+...        ...||  .|+..+....+.   ....      
T Consensus        15 ~~~~~~C~IC~~~~--~~p~~~~CgH~fC~~Ci~~~~~~~--------~~~CP--~Cr~~~~~~~~~---~~~~------   73 (118)
T 3hct_A           15 LESKYECPICLMAL--REAVQTPCGHRFCKACIIKSIRDA--------GHKCP--VDNEILLENQLF---PDNF------   73 (118)
T ss_dssp             CCGGGBCTTTCSBC--SSEEECTTSCEEEHHHHHHHHHHH--------CSBCT--TTCCBCCGGGCE---ECHH------
T ss_pred             CCCCCCCCcCChhh--cCeEECCcCChhhHHHHHHHHhhC--------CCCCC--CCCCCcCHHhcc---cCHH------
Confidence            45578999999877  456778999999999999999763        23799  899988764332   2111      


Q ss_pred             HHHHHHHhhCCCccccCCCCCCcceeee
Q 018073          218 YFIRSYVEDNRKTKWCPAPGCDYAVDFV  245 (361)
Q Consensus       218 ~~~~~~i~~~~~~~~CP~p~C~~~i~~~  245 (361)
                        ++..+.  .-.+.||+.+|...+.+.
T Consensus        74 --l~~~i~--~l~v~C~n~gC~~~~~~~   97 (118)
T 3hct_A           74 --AKREIL--SLMVKCPNEGCLHKMELR   97 (118)
T ss_dssp             --HHHHHH--TSEEECSSTTCCCEEEGG
T ss_pred             --HHHHHc--cceeECCCCCCCCEEeeH
Confidence              112222  235799999999887654

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

Probab=98.60  E-value=1.2e-08  Score=75.17  Aligned_cols=59  Identities=32%  Similarity=0.643  Sum_probs=45.6

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHH
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMI  203 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i  203 (361)
                      ...++|+||++.+  .+++.++|||.||..|+..|+........  ....||  .|+..+....+
T Consensus        10 ~~~~~C~IC~~~~--~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~--~~~~CP--~Cr~~~~~~~l   68 (79)
T 2egp_A           10 QEEVTCPICLELL--TEPLSLDCGHSLCRACITVSNKEAVTSMG--GKSSCP--VCGISYSFEHL   68 (79)
T ss_dssp             CCCCEETTTTEEC--SSCCCCSSSCCCCHHHHSCCCCCCSSSCC--CCCCCS--SSCCCCCSSGG
T ss_pred             ccCCCCcCCCccc--CCeeECCCCCHHHHHHHHHHHHhcccCCC--CCCcCC--CCCCcCCHhhC
Confidence            4568999999987  45667899999999999999877543322  367899  89998865443

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

Probab=98.58  E-value=3e-08  Score=71.67  Aligned_cols=55  Identities=24%  Similarity=0.503  Sum_probs=44.0

Q ss_pred             CCCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhh
Q 018073          138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYL  205 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~  205 (361)
                      .....+|+||++.+  .+++.++|||.||..|+..|+..         ...||  .|+..+....+..
T Consensus        12 ~~~~~~C~IC~~~~--~~~~~~~CgH~fC~~Ci~~~~~~---------~~~CP--~Cr~~~~~~~~~~   66 (71)
T 2d8t_A           12 SLTVPECAICLQTC--VHPVSLPCKHVFCYLCVKGASWL---------GKRCA--LCRQEIPEDFLDS   66 (71)
T ss_dssp             SSSCCBCSSSSSBC--SSEEEETTTEEEEHHHHHHCTTC---------SSBCS--SSCCBCCHHHHSC
T ss_pred             CCCCCCCccCCccc--CCCEEccCCCHHHHHHHHHHHHC---------CCcCc--CcCchhCHhhccC
Confidence            44568999999886  45677899999999999998854         25799  8999988766543

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

Probab=98.55  E-value=6.5e-08  Score=70.05  Aligned_cols=53  Identities=28%  Similarity=0.521  Sum_probs=41.5

Q ss_pred             CCccccccccccccCCccccc-cCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHh
Q 018073          139 GEEMTCGICFENYPSDRLLAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIY  204 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l-~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~  204 (361)
                      ...++|+||++.+.  +++.+ +|||.||..|+..|+..         ...||  .|+..+....+.
T Consensus        13 ~~~~~C~IC~~~~~--~p~~~~~CgH~fC~~Ci~~~~~~---------~~~CP--~Cr~~~~~~~~~   66 (72)
T 2djb_A           13 TPYILCSICKGYLI--DATTITECLHTFCKSCIVRHFYY---------SNRCP--KCNIVVHQTQPL   66 (72)
T ss_dssp             CGGGSCTTTSSCCS--SCEECSSSCCEECHHHHHHHHHH---------CSSCT--TTCCCCCSSCSC
T ss_pred             CCCCCCCCCChHHH--CcCEECCCCCHHHHHHHHHHHHc---------CCcCC--CcCcccCccccc
Confidence            44689999998874  35554 89999999999999965         25799  899988665443

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

Probab=98.55  E-value=5e-08  Score=71.88  Aligned_cols=54  Identities=24%  Similarity=0.613  Sum_probs=41.1

Q ss_pred             CCccccccccccccCCcccccc--CCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhH
Q 018073          139 GEEMTCGICFENYPSDRLLAAA--CGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDM  202 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~--CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~  202 (361)
                      ...++|+||++.+...++..++  |||.||..||..++..    +    ..+||  .|+..+....
T Consensus         9 ~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~----~----~~~CP--~CR~~~~~~~   64 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTD----E----NGLCP--ACRKPYPEDP   64 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTS----S----CSBCT--TTCCBCSSCS
T ss_pred             ccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhc----C----CCCCC--CCCCccCCCc
Confidence            4568999999988655454444  9999999999988753    1    46899  8999886543

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

Probab=98.54  E-value=4.2e-08  Score=71.13  Aligned_cols=54  Identities=31%  Similarity=0.727  Sum_probs=42.3

Q ss_pred             CCCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchh
Q 018073          138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD  201 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~  201 (361)
                      ....+.|+||++.+  .+++.++|||.||..|+..|+...   +   ....||  .|+..+...
T Consensus        17 ~~~~~~C~IC~~~~--~~~~~~~CgH~fC~~Ci~~~~~~~---~---~~~~CP--~Cr~~~~~~   70 (73)
T 2ysl_A           17 LQEEVICPICLDIL--QKPVTIDCGHNFCLKCITQIGETS---C---GFFKCP--LCKTSVRKN   70 (73)
T ss_dssp             CCCCCBCTTTCSBC--SSEEECTTCCEEEHHHHHHHCSSS---C---SCCCCS--SSCCCCCCC
T ss_pred             CccCCEeccCCccc--CCeEEcCCCChhhHHHHHHHHHcC---C---CCCCCC--CCCCcCCcc
Confidence            34568999999987  456777999999999999998631   1   257899  899887654

>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=98.53  E-value=1.3e-07  Score=74.57  Aligned_cols=69  Identities=17%  Similarity=0.384  Sum_probs=49.5

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhhc-CChHHHHHHHHHH
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLL-SSDEDKVKYNRYF  219 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~l-l~~~~~~~y~~~~  219 (361)
                      .+.|+||++.+  ..++.++|||.||..|+..|+...-      ..+.||  .|+..+....+... .-..+.+.+.+.+
T Consensus        21 ~~~C~IC~~~~--~~p~~~~CgH~fC~~Ci~~~~~~~~------~~~~CP--~Cr~~~~~~~~~~~~~l~~~~~~~~~~~   90 (112)
T 1jm7_A           21 ILECPICLELI--KEPVSTKCDHIFCKFCMLKLLNQKK------GPSQCP--LCKNDITKRSLQESTRFSQLVEELLKII   90 (112)
T ss_dssp             HTSCSSSCCCC--SSCCBCTTSCCCCSHHHHHHHHSSS------SSCCCT--TTSCCCCTTTCBCCCSSSHHHHHHHHHH
T ss_pred             CCCCcccChhh--cCeEECCCCCHHHHHHHHHHHHhCC------CCCCCc--CCCCcCCHhhcCccHHHHHHHHHHHHHH
Confidence            46799999976  4566789999999999999998641      147899  89998876655432 2234555555544

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

Probab=98.52  E-value=1.2e-07  Score=66.65  Aligned_cols=45  Identities=33%  Similarity=0.752  Sum_probs=35.6

Q ss_pred             CCCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccC
Q 018073          138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCP  190 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP  190 (361)
                      ....++|+||++.+  .+++.++|||.||..|+..|+...   +   ...+||
T Consensus        17 ~~~~~~C~IC~~~~--~~p~~~~CgH~fC~~Ci~~~~~~~---~---~~~~CP   61 (63)
T 2ysj_A           17 LQEEVICPICLDIL--QKPVTIDCGHNFCLKCITQIGETS---C---GFFKCP   61 (63)
T ss_dssp             CCCCCBCTTTCSBC--SSCEECTTSSEECHHHHHHHHHHC---S---SCCCCS
T ss_pred             CccCCCCCcCCchh--CCeEEeCCCCcchHHHHHHHHHcC---C---CCCcCc
Confidence            34578999999987  456778999999999999999852   1   146788

>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=98.50  E-value=1.5e-08  Score=83.54  Aligned_cols=85  Identities=26%  Similarity=0.501  Sum_probs=56.3

Q ss_pred             CCCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHh------hcCChHH
Q 018073          138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIY------LLSSDED  211 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~------~ll~~~~  211 (361)
                      ....++|+||++.+  .+++.++|||.||..|+..|+..    +    ...||  .|+..+......      .++....
T Consensus        28 l~~~~~C~IC~~~~--~~pv~~~CgH~FC~~Ci~~~~~~----~----~~~CP--~Cr~~~~~~~~~~~l~~~~~~~d~~   95 (141)
T 3knv_A           28 LEAKYLCSACRNVL--RRPFQAQCGHRYCSFCLASILSS----G----PQNCA--ACVHEGIYEEGISILESSSAFPDNA   95 (141)
T ss_dssp             CCGGGBCTTTCSBC--SSEEECTTSCEEEHHHHHHHGGG----S----CEECH--HHHHTTCCCTTTTEECGGGCEECHH
T ss_pred             CCcCcCCCCCChhh--cCcEECCCCCccCHHHHHHHHhc----C----CCCCC--CCCCcccccccccccchhhhcccHH
Confidence            34578999999876  45677899999999999999853    1    36899  888765332211      2222221


Q ss_pred             HHHHHHHHHHHHHhhCCCccccCCCCCCcceee
Q 018073          212 KVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDF  244 (361)
Q Consensus       212 ~~~y~~~~~~~~i~~~~~~~~CP~p~C~~~i~~  244 (361)
                              ++..+.  .-.++||+.+|...+..
T Consensus        96 --------~~~~i~--~L~v~Cpn~GC~~~~~l  118 (141)
T 3knv_A           96 --------ARREVE--SLPAVCPSDGCTWKGTL  118 (141)
T ss_dssp             --------HHHHHH--TSEEECCSTTCCCEEEH
T ss_pred             --------HHHHHc--ccccccCCCCCCCEeEH
Confidence                    122222  33579999999977654

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

Probab=98.49  E-value=9.2e-08  Score=70.31  Aligned_cols=51  Identities=18%  Similarity=0.355  Sum_probs=41.5

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchh
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD  201 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~  201 (361)
                      ...+.|+||++.+  .+++.++|||.||+.|+..|+..    +    ...||  .|+..+...
T Consensus         6 ~~~~~C~IC~~~~--~~Pv~~~CgH~fc~~Ci~~~~~~----~----~~~CP--~C~~~~~~~   56 (78)
T 1t1h_A            6 PEYFRCPISLELM--KDPVIVSTGQTYERSSIQKWLDA----G----HKTCP--KSQETLLHA   56 (78)
T ss_dssp             SSSSSCTTTSCCC--SSEEEETTTEEEEHHHHHHHHTT----T----CCBCT--TTCCBCSSC
T ss_pred             cccCCCCCccccc--cCCEEcCCCCeecHHHHHHHHHH----C----cCCCC--CCcCCCChh
Confidence            3468999999977  56777899999999999999963    2    35799  899988654

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

Probab=98.48  E-value=1.8e-07  Score=69.33  Aligned_cols=48  Identities=27%  Similarity=0.622  Sum_probs=40.0

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      ...+.|+||++.+  .+++.++|||.||..|+..|+..         ...||  .|+..+.
T Consensus        13 ~~~~~C~IC~~~~--~~p~~~~CgH~fC~~Ci~~~~~~---------~~~CP--~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAF--QNPVVTKCRHYFCESCALEHFRA---------TPRCY--ICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBC--CSEEECTTSCEEEHHHHHHHHHH---------CSBCS--SSCCBCC
T ss_pred             CCCCCCcCCCchh--cCeeEccCCCHhHHHHHHHHHHC---------CCcCC--CcCcccc
Confidence            4468999999987  45667899999999999999964         34799  8999875

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

Probab=98.48  E-value=7.8e-08  Score=73.07  Aligned_cols=50  Identities=22%  Similarity=0.597  Sum_probs=40.6

Q ss_pred             CCCccccccccccccCCcccccc-CCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCcc
Q 018073          138 DGEEMTCGICFENYPSDRLLAAA-CGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV  198 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~~~~~l~-CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i  198 (361)
                      ....++|+||++.+  .+++.++ |||.||..|+..|+...   +    ...||  .|+..+
T Consensus        10 ~~~~~~C~IC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~~---~----~~~CP--~Cr~~~   60 (92)
T 3ztg_A           10 IPDELLCLICKDIM--TDAVVIPCCGNSYCDECIRTALLES---D----EHTCP--TCHQND   60 (92)
T ss_dssp             CCTTTEETTTTEEC--SSCEECTTTCCEECHHHHHHHHHHC---T----TCCCT--TTCCSS
T ss_pred             CCcCCCCCCCChhh--cCceECCCCCCHHHHHHHHHHHHhc---C----CCcCc--CCCCcC
Confidence            34578999999987  4667788 99999999999999742   1    36899  899886

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

Probab=98.48  E-value=4.1e-08  Score=70.75  Aligned_cols=55  Identities=27%  Similarity=0.790  Sum_probs=42.4

Q ss_pred             CCccccccccccccC-----CccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHh
Q 018073          139 GEEMTCGICFENYPS-----DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIY  204 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~-----~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~  204 (361)
                      ....+|+||++.+..     ..++.++|||.||..|+..|+..+         ..||  .|+..+....+.
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~---------~~CP--~Cr~~~~~~~~~   67 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA---------NTCP--TCRKKINHKRYH   67 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHC---------SBCT--TTCCBCCCCSCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcC---------CCCC--CCCCccChhhee
Confidence            456889999998742     223678999999999999999752         4799  899988765443

>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=98.48  E-value=9.8e-08  Score=65.07  Aligned_cols=49  Identities=24%  Similarity=0.656  Sum_probs=39.3

Q ss_pred             CccccccccccccC--CccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          140 EEMTCGICFENYPS--DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       140 ~~~~C~IC~e~~~~--~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      ...+|+||++.+..  ..+..++|+|.||..|+..|+...         ..||  .|+..+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~---------~~CP--~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG---------YRCP--LCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHT---------CCCT--TSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcC---------CcCC--CCCCcCC
Confidence            45789999998743  346778899999999999999873         4699  8987663

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

Probab=98.47  E-value=1.4e-07  Score=64.98  Aligned_cols=44  Identities=30%  Similarity=0.767  Sum_probs=34.2

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccC
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCP  190 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP  190 (361)
                      ...+.|+||++.+.  +++.++|||.||..|+..|+... .     ...+||
T Consensus        13 ~~~~~C~IC~~~~~--~p~~~~CgH~fC~~Ci~~~~~~~-~-----~~~~CP   56 (58)
T 2ecj_A           13 QVEASCSVCLEYLK--EPVIIECGHNFCKACITRWWEDL-E-----RDFPCP   56 (58)
T ss_dssp             CCCCBCSSSCCBCS--SCCCCSSCCCCCHHHHHHHTTSS-C-----CSCCCS
T ss_pred             ccCCCCccCCcccC--ccEeCCCCCccCHHHHHHHHHhc-C-----CCCCCC
Confidence            44688999999873  55678999999999999998641 1     146788

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

Probab=98.45  E-value=5e-08  Score=69.14  Aligned_cols=55  Identities=27%  Similarity=0.707  Sum_probs=41.0

Q ss_pred             ccccccccc-cccCCc--cccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhh
Q 018073          141 EMTCGICFE-NYPSDR--LLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYL  205 (361)
Q Consensus       141 ~~~C~IC~e-~~~~~~--~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~  205 (361)
                      ..+|+||++ .+....  ++.++|||.||..|+..++..    +    ..+||  .|+..+....+..
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~----~----~~~CP--~Cr~~~~~~~~~~   60 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR----G----AGNCP--ECGTPLRKSNFRV   60 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHT----T----SSSCT--TTCCCCSSCCCEE
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHc----C----CCcCC--CCCCcccccccee
Confidence            468999999 553222  246789999999999999863    1    35899  8999887665543

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

Probab=98.45  E-value=5.7e-08  Score=68.36  Aligned_cols=54  Identities=26%  Similarity=0.762  Sum_probs=41.7

Q ss_pred             ccccccccccccC-----CccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhh
Q 018073          141 EMTCGICFENYPS-----DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYL  205 (361)
Q Consensus       141 ~~~C~IC~e~~~~-----~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~  205 (361)
                      ..+|+||++.+..     ..++.++|||.||..|+..|+..         ...||  .|+..+....+..
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~---------~~~CP--~Cr~~~~~~~~~~   61 (64)
T 2xeu_A            3 MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN---------ANTCP--TCRKKINHKRYHP   61 (64)
T ss_dssp             CCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHH---------CSBCT--TTCCBCTTTCEEE
T ss_pred             CCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHc---------CCCCC--CCCccCCccceee
Confidence            5789999998742     12367789999999999999975         24799  8999887655443

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

Probab=98.45  E-value=1.9e-07  Score=67.91  Aligned_cols=49  Identities=22%  Similarity=0.635  Sum_probs=39.8

Q ss_pred             CCccccccccccccCCcccccc-CCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCcc
Q 018073          139 GEEMTCGICFENYPSDRLLAAA-CGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV  198 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~-CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i  198 (361)
                      ...+.|+||++.+  .+++.++ |||.||..|+..|+...   +    ...||  .|+..+
T Consensus        13 ~~~~~C~IC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~~---~----~~~CP--~Cr~~~   62 (74)
T 2yur_A           13 PDELLCLICKDIM--TDAVVIPCCGNSYCDECIRTALLES---D----EHTCP--TCHQND   62 (74)
T ss_dssp             CGGGSCSSSCCCC--TTCEECSSSCCEECTTHHHHHHHHS---S----SSCCS--SSCCSS
T ss_pred             CCCCCCcCCChHH--hCCeEcCCCCCHHHHHHHHHHHHhc---C----CCcCC--CCCCcC
Confidence            4578999999987  4567788 99999999999999863   1    36899  899864

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

Probab=98.44  E-value=1.3e-07  Score=67.61  Aligned_cols=51  Identities=27%  Similarity=0.823  Sum_probs=39.5

Q ss_pred             CCCccccccccccccCC-----ccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          138 DGEEMTCGICFENYPSD-----RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~-----~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      ......|+||++.+...     .++.++|||.||..|+..|+..         ...||  .|+..+.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~---------~~~CP--~Cr~~~~   67 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN---------ANTCP--TCRKKIN   67 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHH---------CSSCT--TTCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHc---------CCCCC--CCCCccC
Confidence            34568899999987421     1267899999999999999975         24799  8988764

>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=98.44  E-value=2.9e-07  Score=65.85  Aligned_cols=51  Identities=24%  Similarity=0.584  Sum_probs=40.3

Q ss_pred             CCccccccccccccC-CccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          139 GEEMTCGICFENYPS-DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~-~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      .....|+||++.+.. ..++.++|||.||..|+..|+...         ..||  .|+..+..
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~---------~~CP--~Cr~~~~~   63 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITN---------KKCP--ICRVDIEA   63 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHC---------SBCT--TTCSBSCS
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcC---------CCCc--CcCccccC
Confidence            446789999998754 456678999999999999999762         2599  89887643

>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=98.44  E-value=2.2e-07  Score=71.83  Aligned_cols=53  Identities=23%  Similarity=0.534  Sum_probs=42.9

Q ss_pred             ccccccccccccCCcccc-ccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhh
Q 018073          141 EMTCGICFENYPSDRLLA-AACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYL  205 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~-l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~  205 (361)
                      .++|+||++.+  ..++. ++|||.||..|+..|+...        ...||  .|+..+....+..
T Consensus        22 ~~~C~IC~~~~--~~p~~~~~CgH~FC~~Ci~~~~~~~--------~~~CP--~Cr~~~~~~~l~~   75 (100)
T 3lrq_A           22 VFRCFICMEKL--RDARLCPHCSKLCCFSCIRRWLTEQ--------RAQCP--HCRAPLQLRELVN   75 (100)
T ss_dssp             HTBCTTTCSBC--SSEEECTTTCCEEEHHHHHHHHHHT--------CSBCT--TTCCBCCGGGCEE
T ss_pred             CCCCccCCccc--cCccccCCCCChhhHHHHHHHHHHC--------cCCCC--CCCCcCCHHHhHh
Confidence            57899999987  45666 8999999999999999863        25799  8999987665443

>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=98.42  E-value=2.5e-07  Score=70.65  Aligned_cols=58  Identities=19%  Similarity=0.427  Sum_probs=44.6

Q ss_pred             CCccccccccccccCCcccccc-CCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCc-cchh
Q 018073          139 GEEMTCGICFENYPSDRLLAAA-CGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA-VGQD  201 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~-CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~-i~~~  201 (361)
                      ...+.|+||++.+  .+++.++ |||.||+.|+..|+...-..+   ....||..+|... +...
T Consensus         5 ~~~~~CPI~~~~~--~dPV~~~~cGh~f~r~cI~~~l~~~~~~~---~~~~CP~tgc~~~~l~~~   64 (94)
T 2yu4_A            5 SSGFTCPITKEEM--KKPVKNKVCGHTYEEDAIVRMIESRQKRK---KKAYCPQIGCSHTDIRKS   64 (94)
T ss_dssp             SSCCBCTTTCSBC--SSEEEESSSCCEEEHHHHHHHHHHHHTTT---CCBCCCSTTCCCCCBCGG
T ss_pred             CcEeECcCcCchh--cCCEEcCCCCCeecHHHHHHHHHHccCcC---CCCCCCcCcCcccccCHh
Confidence            3468999999877  5778885 999999999999998643212   2578998889876 5543

>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=98.41  E-value=5.1e-08  Score=77.39  Aligned_cols=50  Identities=30%  Similarity=0.738  Sum_probs=40.4

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      ...++|+||++.+  .+++.++|||.||..|+..|+..    +    ...||  .|+..+..
T Consensus        13 ~~~~~C~iC~~~~--~~p~~~~CgH~fC~~Ci~~~~~~----~----~~~CP--~Cr~~~~~   62 (115)
T 3l11_A           13 LSECQCGICMEIL--VEPVTLPCNHTLCKPCFQSTVEK----A----SLCCP--FCRRRVSS   62 (115)
T ss_dssp             HHHHBCTTTCSBC--SSCEECTTSCEECHHHHCCCCCT----T----TSBCT--TTCCBCHH
T ss_pred             CCCCCCccCCccc--CceeEcCCCCHHhHHHHHHHHhH----C----cCCCC--CCCcccCc
Confidence            4468999999887  46777899999999999988753    1    36899  89998864

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=98.38  E-value=1.7e-07  Score=68.84  Aligned_cols=54  Identities=24%  Similarity=0.626  Sum_probs=41.7

Q ss_pred             CCccccccccccccCC-ccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHH
Q 018073          139 GEEMTCGICFENYPSD-RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMI  203 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~-~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i  203 (361)
                      ....+|+||++.+... .+..++|+|.||..|+..|+...         ..||  .|+..+....+
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~---------~~CP--~Cr~~~~~~~~   67 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQH---------DSCP--VCRKSLTGQNT   67 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTT---------CSCT--TTCCCCCCSCS
T ss_pred             CCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcC---------CcCc--CcCCccCCccc
Confidence            4467899999988643 34567899999999999998542         3799  89988765433

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

Probab=98.37  E-value=1.8e-07  Score=72.08  Aligned_cols=48  Identities=33%  Similarity=0.884  Sum_probs=39.0

Q ss_pred             ccccccccccccCCccccc-cCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchh
Q 018073          141 EMTCGICFENYPSDRLLAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD  201 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l-~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~  201 (361)
                      .++|+||++.+.  +++.+ +|||.||..|+..|+..         ...||  .|+..+...
T Consensus        22 ~~~C~IC~~~~~--~p~~~~~CgH~fC~~Ci~~~~~~---------~~~CP--~Cr~~~~~~   70 (99)
T 2y43_A           22 LLRCGICFEYFN--IAMIIPQCSHNYCSLCIRKFLSY---------KTQCP--TCCVTVTEP   70 (99)
T ss_dssp             HTBCTTTCSBCS--SEEECTTTCCEEEHHHHHHHHTT---------CCBCT--TTCCBCCGG
T ss_pred             CCCcccCChhhC--CcCEECCCCCHhhHHHHHHHHHC---------CCCCC--CCCCcCChh
Confidence            478999999874  45555 89999999999999974         24799  899988754

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.35  E-value=5.6e-07  Score=65.31  Aligned_cols=50  Identities=26%  Similarity=0.667  Sum_probs=39.3

Q ss_pred             CCccccccccccccC-CccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          139 GEEMTCGICFENYPS-DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~-~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      .....|+||++.+.. ..+..++|+|.||..|+..|+...         ..||  .|+..+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~---------~~CP--~Cr~~~~   63 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVR---------KVCP--LCNMPVL   63 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHC---------SBCT--TTCCBCS
T ss_pred             CCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcC---------CcCC--CcCcccc
Confidence            346789999999854 334556899999999999999752         2799  8998764

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=98.32  E-value=2.2e-07  Score=76.27  Aligned_cols=46  Identities=30%  Similarity=0.824  Sum_probs=38.1

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      .++|+||++.+  .+++.++|||.||..|+..|+..         ...||  .|+..+.
T Consensus        53 ~~~C~iC~~~~--~~~~~~~CgH~fc~~Ci~~~~~~---------~~~CP--~Cr~~~~   98 (138)
T 4ayc_A           53 ELQCIICSEYF--IEAVTLNCAHSFCSYCINEWMKR---------KIECP--ICRKDIK   98 (138)
T ss_dssp             HSBCTTTCSBC--SSEEEETTSCEEEHHHHHHHTTT---------CSBCT--TTCCBCC
T ss_pred             cCCCcccCccc--CCceECCCCCCccHHHHHHHHHc---------CCcCC--CCCCcCC
Confidence            36799999987  46778899999999999999753         24699  8998874

>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=98.31  E-value=3.9e-07  Score=73.27  Aligned_cols=48  Identities=25%  Similarity=0.663  Sum_probs=40.0

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      .++|+||++.+  .+++.++|||.||..|+..|+..    +    ...||  .|+..+..
T Consensus        52 ~~~C~IC~~~~--~~p~~~~CgH~fC~~Ci~~~~~~----~----~~~CP--~Cr~~~~~   99 (124)
T 3fl2_A           52 TFQCICCQELV--FRPITTVCQHNVCKDCLDRSFRA----Q----VFSCP--ACRYDLGR   99 (124)
T ss_dssp             HTBCTTTSSBC--SSEEECTTSCEEEHHHHHHHHHT----T----CCBCT--TTCCBCCT
T ss_pred             CCCCCcCChHH--cCcEEeeCCCcccHHHHHHHHhH----C----cCCCC--CCCccCCC
Confidence            57899999987  46777899999999999999972    1    46899  89998865

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

Probab=98.25  E-value=2.4e-06  Score=63.88  Aligned_cols=50  Identities=8%  Similarity=-0.072  Sum_probs=41.6

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchh
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD  201 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~  201 (361)
                      ...+.|+||++.+  .+++.++|||.||+.|+..|+..         ...||  .|+..+...
T Consensus        12 p~~~~CpI~~~~m--~dPV~~~cGhtf~r~~I~~~l~~---------~~~cP--~~~~~l~~~   61 (85)
T 2kr4_A           12 PDEFRDPLMDTLM--TDPVRLPSGTVMDRSIILRHLLN---------SPTDP--FNRQMLTES   61 (85)
T ss_dssp             CTTTBCTTTCSBC--SSEEECTTSCEEEHHHHHHHHHH---------CSBCT--TTCCBCCGG
T ss_pred             chheECcccCchh--cCCeECCCCCEECHHHHHHHHhc---------CCCCC--CCcCCCChH
Confidence            3479999999876  67888899999999999999974         13699  888887654

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=98.24  E-value=4.7e-07  Score=61.63  Aligned_cols=49  Identities=22%  Similarity=0.639  Sum_probs=37.5

Q ss_pred             CccccccccccccCC-cccccc-CCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          140 EEMTCGICFENYPSD-RLLAAA-CGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~-~~~~l~-CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      ...+|+||++.+... .+..++ |||.||..|+..|+..         ...||  .|+..+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~---------~~~CP--~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS---------HSTCP--LCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT---------CCSCS--SSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHc---------CCcCc--CCCCEeE
Confidence            356799999988643 355666 9999999999999854         23699  8987653

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

Probab=98.23  E-value=7.4e-07  Score=63.49  Aligned_cols=47  Identities=34%  Similarity=0.742  Sum_probs=37.7

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      ..+|+||++.+. +..+.++|||.||..|+..|+..         ...||  .|+..+.
T Consensus         5 ~~~C~IC~~~~~-~~~~~~~C~H~fc~~Ci~~~~~~---------~~~CP--~Cr~~~~   51 (68)
T 1chc_A            5 AERCPICLEDPS-NYSMALPCLHAFCYVCITRWIRQ---------NPTCP--LCKVPVE   51 (68)
T ss_dssp             CCCCSSCCSCCC-SCEEETTTTEEESTTHHHHHHHH---------SCSTT--TTCCCCC
T ss_pred             CCCCeeCCcccc-CCcEecCCCCeeHHHHHHHHHhC---------cCcCc--CCChhhH
Confidence            467999999874 33467899999999999999864         23799  8998775

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens}

Probab=98.19  E-value=9.5e-07  Score=66.95  Aligned_cols=51  Identities=27%  Similarity=0.623  Sum_probs=39.8

Q ss_pred             CCccccccccccccCC-ccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          139 GEEMTCGICFENYPSD-RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~-~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      .....|+||++.+... .+..++|||.||..|+..|+..         ...||  .|+..+..
T Consensus        38 ~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~---------~~~CP--~Cr~~~~~   89 (91)
T 2l0b_A           38 GQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQK---------SGTCP--VCRCMFPP   89 (91)
T ss_dssp             SSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTT---------TCBCT--TTCCBSSC
T ss_pred             CCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHc---------CCcCc--CcCccCCC
Confidence            3467899999988543 3566889999999999999854         23799  89987753

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.19  E-value=6.9e-07  Score=65.06  Aligned_cols=51  Identities=27%  Similarity=0.686  Sum_probs=39.9

Q ss_pred             CCccccccccccccCC-ccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          139 GEEMTCGICFENYPSD-RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~-~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      .....|+||++.+... .+..++|+|.||..|+..|+...         ..||  .|+..+..
T Consensus        21 ~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~---------~~CP--~Cr~~~~~   72 (75)
T 1x4j_A           21 SEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN---------RTCP--ICRADSGP   72 (75)
T ss_dssp             SSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHC---------SSCT--TTCCCCCC
T ss_pred             CCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcC---------CcCc--CcCCcCCC
Confidence            3467899999988643 34667899999999999999752         3699  89887653

>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=98.19  E-value=7.8e-07  Score=69.66  Aligned_cols=48  Identities=27%  Similarity=0.681  Sum_probs=38.7

Q ss_pred             CccccccccccccCCccccc-cCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          140 EEMTCGICFENYPSDRLLAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l-~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      ..++|+||++.+  .+++.+ +|||.||..|+..|+..         ...||  .|+..+..
T Consensus        14 ~~~~C~IC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~---------~~~CP--~Cr~~~~~   62 (108)
T 2ckl_A           14 PHLMCVLCGGYF--IDATTIIECLHSFCKTCIVRYLET---------SKYCP--ICDVQVHK   62 (108)
T ss_dssp             GGTBCTTTSSBC--SSEEEETTTCCEEEHHHHHHHHTS---------CSBCT--TTCCBSCS
T ss_pred             CcCCCccCChHH--hCcCEeCCCCChhhHHHHHHHHHh---------CCcCc--CCCccccc
Confidence            357899999987  345665 99999999999999975         25799  89988753

>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=98.17  E-value=1.9e-06  Score=78.74  Aligned_cols=52  Identities=13%  Similarity=0.100  Sum_probs=42.2

Q ss_pred             CCCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchh
Q 018073          138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD  201 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~  201 (361)
                      ....+.|+||++.+  .+++.++|||+||+.|+..|+...   +     ..||  .|+..+...
T Consensus       205 ~~~~~~c~i~~~~~--~dPv~~~~gh~f~~~~i~~~~~~~---~-----~~cP--~~~~~~~~~  256 (281)
T 2c2l_A          205 IPDYLCGKISFELM--REPCITPSGITYDRKDIEEHLQRV---G-----HFNP--VTRSPLTQE  256 (281)
T ss_dssp             CCSTTBCTTTCSBC--SSEEECSSCCEEETTHHHHHHHHT---C-----SSCT--TTCCCCCGG
T ss_pred             CCcccCCcCcCCHh--cCCeECCCCCEECHHHHHHHHHHC---C-----CCCc--CCCCCCchh
Confidence            34578999999976  678889999999999999999752   1     2399  899988654

>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=98.16  E-value=1.1e-06  Score=73.17  Aligned_cols=49  Identities=24%  Similarity=0.644  Sum_probs=40.9

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchh
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD  201 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~  201 (361)
                      .+.|+||++.+  .+++.++|||.||..|+..|+..    +    ...||  .|+..+...
T Consensus        78 ~~~C~IC~~~~--~~pv~~~CgH~fC~~Ci~~~~~~----~----~~~CP--~Cr~~~~~~  126 (150)
T 1z6u_A           78 SFMCVCCQELV--YQPVTTECFHNVCKDCLQRSFKA----Q----VFSCP--ACRHDLGQN  126 (150)
T ss_dssp             HTBCTTTSSBC--SSEEECTTSCEEEHHHHHHHHHT----T----CCBCT--TTCCBCCTT
T ss_pred             CCEeecCChhh--cCCEEcCCCCchhHHHHHHHHHh----C----CCcCC--CCCccCCCC
Confidence            47899999977  46677899999999999999974    1    46899  899988765

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

Probab=98.16  E-value=4.6e-07  Score=62.15  Aligned_cols=44  Identities=25%  Similarity=0.571  Sum_probs=35.6

Q ss_pred             CccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      ..++|+||++.+.  +++.++|||.||..|+..        .    .++||  .|+..+.
T Consensus         5 ~~~~C~IC~~~~~--~p~~l~CgH~fC~~Ci~~--------~----~~~CP--~Cr~~~~   48 (56)
T 1bor_A            5 QFLRCQQCQAEAK--CPKLLPCLHTLCSGCLEA--------S----GMQCP--ICQAPWP   48 (56)
T ss_dssp             CCSSCSSSCSSCB--CCSCSTTSCCSBTTTCSS--------S----SSSCS--SCCSSSS
T ss_pred             cCCCceEeCCccC--CeEEcCCCCcccHHHHcc--------C----CCCCC--cCCcEee
Confidence            4678999999874  567889999999999866        1    46899  8988764

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.13  E-value=2.2e-07  Score=66.75  Aligned_cols=48  Identities=27%  Similarity=0.731  Sum_probs=37.9

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      .....|+||++.+..   +.++|||.||..|+..|+..         ...||  .|+..+..
T Consensus        13 ~~~~~C~IC~~~~~~---~~~~CgH~fc~~Ci~~~~~~---------~~~CP--~Cr~~~~~   60 (70)
T 2ecn_A           13 TDEEECCICMDGRAD---LILPCAHSFCQKCIDKWSDR---------HRNCP--ICRLQMTG   60 (70)
T ss_dssp             CCCCCCSSSCCSCCS---EEETTTEEECHHHHHHSSCC---------CSSCH--HHHHCTTC
T ss_pred             CCCCCCeeCCcCccC---cccCCCCcccHHHHHHHHHC---------cCcCC--CcCCcccC
Confidence            346789999998753   77899999999999998762         35798  78776643

>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=98.10  E-value=2.5e-06  Score=67.34  Aligned_cols=54  Identities=30%  Similarity=0.570  Sum_probs=39.3

Q ss_pred             ccccccccccccCCc----------------cccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          141 EMTCGICFENYPSDR----------------LLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~----------------~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      ..+|+||++.+....                ...++|+|.||..|+..|+......    ....||  .|+..+..
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~----~~~~CP--~CR~~~~~   94 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKD----GSLQCP--SCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCS----SCCBCT--TTCCBSSS
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCC----CCCcCC--CCCCccCC
Confidence            458999999874321                1257899999999999999643322    246899  89987643

>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=98.09  E-value=6.6e-07  Score=71.17  Aligned_cols=45  Identities=27%  Similarity=0.627  Sum_probs=37.3

Q ss_pred             ccccccccccccCCccccc-cCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          141 EMTCGICFENYPSDRLLAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l-~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      .++|+||++.+  .+++.+ +|||.||..|+..|+.           ..||  .|+..+..
T Consensus        22 ~~~C~IC~~~~--~~pv~~~~CgH~fC~~Ci~~~~~-----------~~CP--~Cr~~~~~   67 (117)
T 1jm7_B           22 LLRCSRCTNIL--REPVCLGGCEHIFCSNCVSDCIG-----------TGCP--VCYTPAWI   67 (117)
T ss_dssp             TTSCSSSCSCC--SSCBCCCSSSCCBCTTTGGGGTT-----------TBCS--SSCCBCSC
T ss_pred             CCCCCCCChHh--hCccEeCCCCCHHHHHHHHHHhc-----------CCCc--CCCCcCcc
Confidence            47799999987  466777 8999999999998875           4699  89988754

>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=98.02  E-value=6.5e-06  Score=63.21  Aligned_cols=50  Identities=10%  Similarity=-0.087  Sum_probs=41.6

Q ss_pred             CCccccccccccccCCccccccCC-CcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchh
Q 018073          139 GEEMTCGICFENYPSDRLLAAACG-HPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD  201 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~Cg-H~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~  201 (361)
                      ...+.|+||++.+  .+++.++|| |.||+.|+..|+..         ...||  .|+..+...
T Consensus        20 p~~~~CpI~~~~m--~dPV~~~cG~htf~r~cI~~~l~~---------~~~cP--~~~~~l~~~   70 (98)
T 1wgm_A           20 CDEFLDPIMSTLM--CDPVVLPSSRVTVDRSTIARHLLS---------DQTDP--FNRSPLTMD   70 (98)
T ss_dssp             CTTTBCTTTCSBC--SSEEECTTTCCEEEHHHHHHHTTT---------SCBCT--TTCSBCCTT
T ss_pred             cHhcCCcCccccc--cCCeECCCCCeEECHHHHHHHHHh---------CCCCC--CCCCCCChh
Confidence            4579999999876  678889999 99999999999974         13699  899888654

>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=98.01  E-value=1.8e-06  Score=66.58  Aligned_cols=50  Identities=8%  Similarity=-0.069  Sum_probs=41.4

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchh
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD  201 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~  201 (361)
                      ...+.|+||++.+  .+++.++|||.||+.|+..|+..         ...||  .|+..+...
T Consensus        27 p~~~~CpI~~~~m--~dPV~~~cGhtf~r~~I~~~l~~---------~~~cP--~~~~~l~~~   76 (100)
T 2kre_A           27 PDEFRDPLMDTLM--TDPVRLPSGTIMDRSIILRHLLN---------SPTDP--FNRQTLTES   76 (100)
T ss_dssp             STTTBCTTTCSBC--SSEEEETTTEEEEHHHHHHHTTS---------CSBCS--SSCCBCCTT
T ss_pred             cHhhCCcCccCcc--cCCeECCCCCEEchHHHHHHHHc---------CCCCC--CCCCCCChh
Confidence            3479999999876  67888899999999999999963         24699  898887653

>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=97.92  E-value=4.8e-06  Score=70.25  Aligned_cols=48  Identities=27%  Similarity=0.764  Sum_probs=38.4

Q ss_pred             CccccccccccccCCccccc-cCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          140 EEMTCGICFENYPSDRLLAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l-~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      ..+.|+||++.+.  +++.+ +|||.||..|+..|+..    +    ...||  .|+..+.
T Consensus        53 ~~~~C~IC~~~~~--~p~~~~~CgH~fC~~Ci~~~~~~----~----~~~CP--~Cr~~~~  101 (165)
T 2ckl_B           53 SELMCPICLDMLK--NTMTTKECLHRFCADCIITALRS----G----NKECP--TCRKKLV  101 (165)
T ss_dssp             HHHBCTTTSSBCS--SEEEETTTCCEEEHHHHHHHHHT----T----CCBCT--TTCCBCC
T ss_pred             CCCCCcccChHhh--CcCEeCCCCChhHHHHHHHHHHh----C----cCCCC--CCCCcCC
Confidence            3579999999874  45554 99999999999999974    1    35799  8998874

>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=97.91  E-value=3.3e-06  Score=75.59  Aligned_cols=54  Identities=26%  Similarity=0.505  Sum_probs=43.0

Q ss_pred             CccccccccccccCCcccc-ccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhH
Q 018073          140 EEMTCGICFENYPSDRLLA-AACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDM  202 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~-l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~  202 (361)
                      ..++||||++.+  .+++. ..|||.||+.|+..|+...   +    ...||..+|+..+....
T Consensus       180 ~el~CPIcl~~f--~DPVts~~CGHsFcR~cI~~~~~~~---~----~~~CPvtGCr~~l~~~d  234 (267)
T 3htk_C          180 IELTCPITCKPY--EAPLISRKCNHVFDRDGIQNYLQGY---T----TRDCPQAACSQVVSMRD  234 (267)
T ss_dssp             CCSBCTTTSSBC--SSEEEESSSCCEEEHHHHHHHSTTC---S----CEECSGGGCSCEECGGG
T ss_pred             eeeECcCccCcc--cCCeeeCCCCCcccHHHHHHHHHhC---C----CCCCCcccccCcCchhh
Confidence            468999999987  45665 5899999999999999742   2    47899888999876543

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.88  E-value=7.5e-06  Score=60.51  Aligned_cols=51  Identities=27%  Similarity=0.554  Sum_probs=36.7

Q ss_pred             CccccccccccccC------------Cccccc-cCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchh
Q 018073          140 EEMTCGICFENYPS------------DRLLAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD  201 (361)
Q Consensus       140 ~~~~C~IC~e~~~~------------~~~~~l-~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~  201 (361)
                      ...+|+||++.+..            ..++.+ +|+|.|+..|+..|+..+         -.||  .|+..+...
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~---------~~CP--~CR~~~~~~   77 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQN---------NRCP--LCQQDWVVQ   77 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTC---------CBCT--TTCCBCCEE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhC---------CCCC--CcCCCcchh
Confidence            35568888887732            223444 599999999999998752         2799  899887543

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=97.85  E-value=1.5e-05  Score=67.86  Aligned_cols=51  Identities=16%  Similarity=0.134  Sum_probs=42.0

Q ss_pred             CCccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchh
Q 018073          139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD  201 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~  201 (361)
                      ...+.||||++.+  .+++.++|||.||+.|+..|+...   +    . .||  .|+..+...
T Consensus       104 p~~f~CPI~~elm--~DPV~~~~Ghtfer~~I~~~l~~~---~----~-tcP--~t~~~l~~~  154 (179)
T 2f42_A          104 PDYLCGKISFELM--REPCITPSGITYDRKDIEEHLQRV---G----H-FDP--VTRSPLTQD  154 (179)
T ss_dssp             CGGGBCTTTCSBC--SSEEECTTSCEEEHHHHHHHHHHT---C----S-BCT--TTCCBCCGG
T ss_pred             cHhhcccCccccC--CCCeECCCCCEECHHHHHHHHHhC---C----C-CCC--CCcCCCChh
Confidence            4579999999876  578888999999999999999762   2    2 599  899888654

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=97.82  E-value=5.4e-06  Score=60.18  Aligned_cols=43  Identities=28%  Similarity=0.705  Sum_probs=34.8

Q ss_pred             ccccccccccccCCccccccCCCc-ccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          141 EMTCGICFENYPSDRLLAAACGHP-FCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~-fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      ...|+||++.+  .+++.++|||. ||..|+..+             .+||  .|+..+..
T Consensus        24 ~~~C~iC~~~~--~~~~~~pCgH~~~C~~C~~~~-------------~~CP--~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMDRN--IAIVFVPCGHLVTCKQCAEAV-------------DKCP--MCYTVITF   67 (74)
T ss_dssp             HTBCTTTSSSB--CCEEEETTCCBCCCHHHHTTC-------------SBCT--TTCCBCSE
T ss_pred             CCCCCCCCCCC--CCEEEcCCCChhHHHHhhhcC-------------ccCC--CcCcCccC
Confidence            46799999875  56778899999 999998755             4799  89987753

>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.4

Probab=97.80  E-value=5.2e-06  Score=62.15  Aligned_cols=51  Identities=24%  Similarity=0.594  Sum_probs=40.9

Q ss_pred             cCCCCCCCcceeecCCCCceeecCCCccceeccccccc-cccCCCCCCcccCCCccch
Q 018073          299 SKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQW-SDHGERTGGFYACNRYETA  355 (361)
Q Consensus       299 ~k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~-~~h~~~~g~~y~C~~~~~~  355 (361)
                      .+-||.|...+....+-..++|. .|++.||+.|+.+| ..|..     ..|..|+.-
T Consensus        25 ~~wCP~C~~~~~~~~~~~~v~C~-~C~~~FC~~C~~~w~~~H~~-----~sC~~~~~w   76 (86)
T 2ct7_A           25 FLWCAQCSFGFIYEREQLEATCP-QCHQTFCVRCKRQWEEQHRG-----RSCEDFQNW   76 (86)
T ss_dssp             EECCSSSCCCEECCCSCSCEECT-TTCCEECSSSCSBCCTTTTT-----SCHHHHHHH
T ss_pred             EeECcCCCchheecCCCCceEeC-CCCCccccccCCchhhcCCC-----CChHHHHHH
Confidence            35699999999888888889997 79999999999999 44543     457766543

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.76  E-value=1.3e-05  Score=58.20  Aligned_cols=43  Identities=28%  Similarity=0.726  Sum_probs=34.2

Q ss_pred             ccccccccccccCCccccccCCCc-ccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          141 EMTCGICFENYPSDRLLAAACGHP-FCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~-fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      ..+|+||++.+  .+++.++|||. ||..|+..             ..+||  .|+..+..
T Consensus        25 ~~~C~IC~~~~--~~~~~~pCgH~~~C~~C~~~-------------~~~CP--~Cr~~i~~   68 (75)
T 2ecg_A           25 EKLCKICMDRN--IAIVFVPCGHLVTCKQCAEA-------------VDKCP--MCYTVITF   68 (75)
T ss_dssp             HHSCSSSCSSC--CCBCCSSSCCCCBCHHHHHH-------------CSBCT--TTCCBCCC
T ss_pred             CCCCCcCCCCC--CCEEEecCCCHHHHHHHhhC-------------CCCCc--cCCceecC
Confidence            35799999875  56778899999 99999942             25799  89988754

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

Probab=97.73  E-value=9.8e-06  Score=65.31  Aligned_cols=57  Identities=25%  Similarity=0.732  Sum_probs=43.7

Q ss_pred             CCCccccccccccccC-----CccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhh
Q 018073          138 DGEEMTCGICFENYPS-----DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYL  205 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~-----~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~  205 (361)
                      +.....|+||++.+..     ...+.++|||.||..|+..|+..         ...||  .|+..+..+.+..
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~---------~~~CP--~Cr~~~~~~~~~~  130 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN---------ANTCP--TCRKKINHKRYHP  130 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHH---------CSBCT--TTCCBCCGGGEEE
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHc---------CCCCC--CCCCcCChhccee
Confidence            3457889999998742     12266789999999999999975         24799  8999987766543

>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=97.67  E-value=1.9e-05  Score=55.59  Aligned_cols=48  Identities=21%  Similarity=0.384  Sum_probs=36.5

Q ss_pred             CCccccccccccccCCccccc--cCCCc-ccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          139 GEEMTCGICFENYPSDRLLAA--ACGHP-FCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l--~CgH~-fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      .....|.||++..  .+.+.+  +|||. ||..|+..+...         .-+||  .|+..+.
T Consensus         6 ~~~~~C~IC~~~~--~~~~~~~~pCgH~~~C~~C~~~~~~~---------~~~CP--iCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRP--KNGCIVHGKTGHLMACFTCAKKLKKR---------NKPCP--VCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSC--SCEEEEETTEEEEEECHHHHHHHHHT---------TCCCT--TTCCCCC
T ss_pred             CCcCCCCcCCCCC--CCEEEECCCCCChhhHHHHHHHHHHc---------CCcCC--CcCcchh
Confidence            3456899999875  344444  99999 899999988753         23699  8998774

>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=97.64  E-value=2e-05  Score=55.24  Aligned_cols=49  Identities=18%  Similarity=0.439  Sum_probs=35.4

Q ss_pred             CccccccccccccCCccccccCCCc-ccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          140 EEMTCGICFENYPSDRLLAAACGHP-FCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l~CgH~-fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      ....|.||++......++.++|||. ||..|...+...         .-+||  .|+..+.
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~---------~~~CP--iCR~~i~   55 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKA---------GASCP--ICKKEIQ   55 (63)
T ss_dssp             GGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHT---------TCBCT--TTCCBCC
T ss_pred             cCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHh---------CCcCC--CcCchhh
Confidence            3568999998653212223499998 999999987753         13799  8998874

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.58  E-value=9e-05  Score=54.49  Aligned_cols=53  Identities=19%  Similarity=0.394  Sum_probs=41.7

Q ss_pred             CCccccccccccccCCccccccCC-----CcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          139 GEEMTCGICFENYPSDRLLAAACG-----HPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l~Cg-----H~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      .....|.||++.+.......++|.     |.|...|+..|+..+   +    ...||  .|+..+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~---~----~~~Cp--lCr~~~~~   70 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSS---D----TRCCE--LCKYEFIM   70 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHH---C----CSBCS--SSCCBCCC
T ss_pred             CCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhC---C----CCCCC--CCCCeeec
Confidence            345789999998865555567886     999999999999874   1    36899  89987754

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.55  E-value=9.7e-05  Score=52.53  Aligned_cols=46  Identities=22%  Similarity=0.616  Sum_probs=36.2

Q ss_pred             CCCccccccccccccCCccccccCCCc-ccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          138 DGEEMTCGICFENYPSDRLLAAACGHP-FCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~~~~~l~CgH~-fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      ......|.||++..  .+++.++|||. ||..|+..             ..+||  .|+..|..
T Consensus        12 ~~~~~~C~IC~~~~--~~~v~~pCgH~~~C~~C~~~-------------~~~CP--~CR~~i~~   58 (68)
T 2ea5_A           12 EENSKDCVVCQNGT--VNWVLLPCRHTCLCDGCVKY-------------FQQCP--MCRQFVQE   58 (68)
T ss_dssp             CCCSSCCSSSSSSC--CCCEETTTTBCCSCTTHHHH-------------CSSCT--TTCCCCCC
T ss_pred             CCCCCCCCCcCcCC--CCEEEECCCChhhhHHHHhc-------------CCCCC--CCCcchhc
Confidence            34467899999865  56788999999 99999982             14799  89987754

>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=97.54  E-value=5.5e-05  Score=58.80  Aligned_cols=49  Identities=20%  Similarity=0.385  Sum_probs=37.4

Q ss_pred             CccccccccccccCC----------------ccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          140 EEMTCGICFENYPSD----------------RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~----------------~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      ...+|.||++.+...                .++.++|+|.|+..|+..|+..         ...||  .|+..+.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~---------~~~CP--~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT---------RQVCP--LDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT---------CSBCS--SSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHc---------CCcCc--CCCCcce
Confidence            346799999887533                1345789999999999999875         24699  8988753

>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=97.45  E-value=7.3e-05  Score=71.00  Aligned_cols=48  Identities=31%  Similarity=0.715  Sum_probs=39.5

Q ss_pred             cccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchh
Q 018073          142 MTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD  201 (361)
Q Consensus       142 ~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~  201 (361)
                      ..|+||++.+  .+++.++|||.||..|+..|+..    +    ...||  .|+..+...
T Consensus       333 ~~C~ICle~~--~~pv~lpCGH~FC~~Ci~~wl~~----~----~~~CP--~CR~~i~~~  380 (389)
T 2y1n_A          333 QLCKICAEND--KDVKIEPCGHLMCTSCLTSWQES----E----GQGCP--FCRCEIKGT  380 (389)
T ss_dssp             SBCTTTSSSB--CCEEEETTCCEECHHHHHHHHHH----T----CSBCT--TTCCBCCEE
T ss_pred             CCCCccCcCC--CCeEEeCCCChhhHHHHHHHHhc----C----CCCCC--CCCCccCCc
Confidence            6899999876  56778899999999999999874    1    35799  899987654

>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=97.40  E-value=3.8e-05  Score=56.38  Aligned_cols=42  Identities=33%  Similarity=0.747  Sum_probs=34.1

Q ss_pred             cccccccccccCCccccccCCCc-ccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          142 MTCGICFENYPSDRLLAAACGHP-FCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       142 ~~C~IC~e~~~~~~~~~l~CgH~-fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      ..|+||++..  .+++.++|||. ||..|+..+             ..||  .|+..+..
T Consensus        19 ~~C~IC~~~~--~~~v~~pCgH~~~C~~C~~~~-------------~~CP--~Cr~~i~~   61 (79)
T 2yho_A           19 MLCMVCCEEE--INSTFCPCGHTVCCESCAAQL-------------QSCP--VCRSRVEH   61 (79)
T ss_dssp             TBCTTTSSSB--CCEEEETTCBCCBCHHHHTTC-------------SBCT--TTCCBCCE
T ss_pred             CEeEEeCccc--CcEEEECCCCHHHHHHHHHhc-------------CcCC--CCCchhhC
Confidence            5699999875  56778899999 999998643             2799  89998754

>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo sapiens}

Probab=97.40  E-value=7e-05  Score=55.09  Aligned_cols=40  Identities=28%  Similarity=0.699  Sum_probs=35.2

Q ss_pred             cCCCCC--CCcceeecCCCCceeecC----CCccceeccccccccc
Q 018073          299 SKPCPR--CKRPIEKNQGCMHMTCTP----PCKFEFCWLCLGQWSD  338 (361)
Q Consensus       299 ~k~CP~--C~~~IeK~~GCnhm~C~~----~C~~~FCw~C~~~~~~  338 (361)
                      .+-||.  |+..|....+...++|..    .|++.||+.|+.+|-.
T Consensus        25 ~~~CP~p~C~~~v~~~~~~~~v~C~~~~~~~C~~~FC~~C~~~wH~   70 (80)
T 2jmo_A           25 GVLCPRPGCGAGLLPEPDQRKVTCEGGNGLGCGFAFCRECKEAYHE   70 (80)
T ss_dssp             SCCCCSSSCCCCCCCCSCTTSBCTTSSSTTCCSCCEETTTTEECCS
T ss_pred             cEECCCCCCCcccEECCCCCcCCCCCCCCCCCCCeeccccCccccC
Confidence            578997  999999888999999941    4999999999999965

>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=96.94  E-value=0.00013  Score=57.63  Aligned_cols=48  Identities=21%  Similarity=0.406  Sum_probs=0.4

Q ss_pred             ccccccccccccCC----------------ccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          141 EMTCGICFENYPSD----------------RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       141 ~~~C~IC~e~~~~~----------------~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      .-+|.||++.+...                .++.++|+|.|+..|+..|+..         ...||  .|+..+.
T Consensus        48 ~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~---------~~~CP--~Cr~~~~  111 (117)
T 4a0k_B           48 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT---------RQVCP--LDNREWE  111 (117)
T ss_dssp             C--------------------------------------------------------------------------
T ss_pred             CCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHc---------CCcCC--CCCCeee
Confidence            45899999987531                1223579999999999999976         23699  8887653

>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=96.77  E-value=0.0003  Score=66.14  Aligned_cols=43  Identities=28%  Similarity=0.780  Sum_probs=35.2

Q ss_pred             ccccccccccccCCccccccCCCc-ccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          141 EMTCGICFENYPSDRLLAAACGHP-FCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~-fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      ...|+||++.+  ..++.++|||. ||..|+..+             ..||  .|+..+..
T Consensus       295 ~~~C~IC~~~~--~~~v~lpCgH~~fC~~C~~~~-------------~~CP--~CR~~i~~  338 (345)
T 3t6p_A          295 ERTCKVCMDKE--VSVVFIPCGHLVVCQECAPSL-------------RKCP--ICRGIIKG  338 (345)
T ss_dssp             TCBCTTTSSSB--CCEEEETTCCEEECTTTGGGC-------------SBCT--TTCCBCCE
T ss_pred             CCCCCccCCcC--CceEEcCCCChhHhHHHHhcC-------------CcCC--CCCCCccC
Confidence            57899999876  56778899999 999998744             4799  89988753

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

Probab=96.47  E-value=0.0037  Score=44.96  Aligned_cols=50  Identities=22%  Similarity=0.499  Sum_probs=37.6

Q ss_pred             CccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      ...+|.||++.+.... .-..|+|.|...|+.+||+++-       .-.||  .|+..+.
T Consensus        14 ~i~~C~IC~~~i~~g~-~C~~C~h~fH~~Ci~kWl~~~~-------~~~CP--~Cr~~w~   63 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQ-SCETCGIRMHLPCVAKYFQSNA-------EPRCP--HCNDYWP   63 (74)
T ss_dssp             SSCBCSSSCCBCSSSE-ECSSSCCEECHHHHHHHSTTCS-------SCCCT--TTCSCCC
T ss_pred             CCCcCcchhhHcccCC-ccCCCCchhhHHHHHHHHHhcC-------CCCCC--CCcCcCC
Confidence            3568999999886433 2237999999999999997631       24799  8987764

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster}

Probab=96.46  E-value=0.0054  Score=56.84  Aligned_cols=62  Identities=23%  Similarity=0.506  Sum_probs=43.5

Q ss_pred             CCccccccccccccC-Cccc-----cccCCCcccHhhHHHHHHhhhcCCC--CeeeeccCCCcCCCccchhH
Q 018073          139 GEEMTCGICFENYPS-DRLL-----AAACGHPFCSSCWTGYISTAINDGP--GCLMLRCPDPSCGAAVGQDM  202 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~-~~~~-----~l~CgH~fC~~Cl~~~i~~~i~~~~--~~~~i~CP~~~C~~~i~~~~  202 (361)
                      ....+|+||++.+.. ..+.     ...|+|.|...|+..|+.+.-....  ....=.||  -|+..|+...
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CP--yCr~pIs~sf  375 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCP--FCKAKLSTSF  375 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECT--TTCCEEEGGG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCC--CCCCcCCccH
Confidence            346789999998754 2221     2469999999999999987654322  12334799  8999886543

>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=96.14  E-value=0.0033  Score=43.39  Aligned_cols=50  Identities=20%  Similarity=0.262  Sum_probs=38.1

Q ss_pred             ccccccccccccCCccccc-cCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHH
Q 018073          141 EMTCGICFENYPSDRLLAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMI  203 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l-~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i  203 (361)
                      .+.|+|+++.+  .+++.+ ++||.|++.|+..|+...   +      +||  ..+..+....+
T Consensus         3 ~~~CpIs~~~m--~dPV~~~~sG~~yer~~I~~~l~~~---~------~cP--~t~~~L~~~~L   53 (61)
T 2bay_A            3 HMLCAISGKVP--RRPVLSPKSRTIFEKSLLEQYVKDT---G------NDP--ITNEPLSIEEI   53 (61)
T ss_dssp             -CCCTTTCSCC--SSEEEETTTTEEEEHHHHHHHHHHH---S------BCT--TTCCBCCGGGC
T ss_pred             eEEecCCCCCC--CCCEEeCCCCcEEcHHHHHHHHHhC---C------CCc--CCcCCCChhhc
Confidence            46799999876  466777 899999999999999752   2      388  67777765544

>1v92_A NSFL1 cofactor P47; 3-helix bundle, recombination; NMR {Rattus norvegicus} SCOP: a.5.2.3

Probab=95.91  E-value=0.015  Score=37.49  Aligned_cols=40  Identities=13%  Similarity=0.334  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHcCCChHHHHHHhhhc
Q 018073           79 QEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFAD  118 (361)
Q Consensus        79 ~~~~i~~v~~~l~i~~~~a~~LL~~~~w~~~~l~e~~~~~  118 (361)
                      +++.|.+...+.+.++..|+.+|...+||++..+..||.+
T Consensus         5 ~~~~i~~F~~iTg~~~~~A~~~L~~~~wdle~Ai~~ff~~   44 (46)
T 1v92_A            5 RQDALREFVAVTGAEEDRARFFLESAGWDLQIALASFYED   44 (46)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHTTSCSHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence            4567899999999999999999999999999999999875

>2dal_A Protein KIAA0794; FAS associted factor 1, UBA-like domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=95.40  E-value=0.031  Score=38.55  Aligned_cols=42  Identities=12%  Similarity=0.112  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHcCCChHHHHHHhhhcH
Q 018073           78 RQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADE  119 (361)
Q Consensus        78 ~~~~~i~~v~~~l~i~~~~a~~LL~~~~w~~~~l~e~~~~~~  119 (361)
                      .+++.|.+.+.+.+.++..|+.+|...+||++..+..||..+
T Consensus        14 ~~~e~i~qF~~iTg~~~~~A~~~Le~~~WnLe~Av~~ff~~~   55 (62)
T 2dal_A           14 ALKGLIQQFTTITGASESVGKHMLEACNNNLEMAVTMFLDGG   55 (62)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHTTTSCHHHHHHHHHHSC
T ss_pred             cHHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHcCC
Confidence            456789999999999999999999999999999999999763

>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=95.04  E-value=0.053  Score=38.79  Aligned_cols=52  Identities=23%  Similarity=0.566  Sum_probs=38.6

Q ss_pred             CCCCCccccccccccccCCcccccc--CCCcccHhhHHHHHHhhhcCCCCeeeeccCC
Q 018073          136 FPDGEEMTCGICFENYPSDRLLAAA--CGHPFCSSCWTGYISTAINDGPGCLMLRCPD  191 (361)
Q Consensus       136 ~~~~~~~~C~IC~e~~~~~~~~~l~--CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~  191 (361)
                      .++...+.|.+|.+.+...-++..+  =.|.||..|-+.+|+.+-..+    .+-||.
T Consensus        10 ~~~~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~q~~~~----EvyCPS   63 (93)
T 2cs3_A           10 MANSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGATG----EVYCPS   63 (93)
T ss_dssp             SCSCCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHHHHSSS----CCCCTT
T ss_pred             CCCCCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHhcCCCC----cEECCC
Confidence            3456678999999988655454433  379999999999999976543    567775

>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=94.74  E-value=0.012  Score=40.46  Aligned_cols=38  Identities=32%  Similarity=0.830  Sum_probs=30.9

Q ss_pred             CccccCCCCCCcceeeecCCCCceEEe-c--cCCccccccCCcCC
Q 018073          229 KTKWCPAPGCDYAVDFVVGSGNYDVTC-R--CSYSFCWNCTEEAH  270 (361)
Q Consensus       229 ~~~~CP~p~C~~~i~~~~~~~~~~v~C-~--C~~~fC~~C~~~~H  270 (361)
                      ..+.||  .|+..|...  .+...++| .  |++.||+.|+.+|-
T Consensus         5 ~~k~CP--~C~~~Iek~--~GCnhmtC~~~~C~~~FCw~C~~~~~   45 (60)
T 1wd2_A            5 NTKECP--KCHVTIEKD--GGCNHMVCRNQNCKAEFCWVCLGPWE   45 (60)
T ss_dssp             CCCCCT--TTCCCCSSC--CSCCSSSCCSSGGGSCCSSSSCSCSG
T ss_pred             cceECc--CCCCeeEeC--CCCCcEEECCCCcCCEEeeCcCCCcc
Confidence            467899  599988764  46788999 5  99999999998763

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=94.56  E-value=0.022  Score=42.88  Aligned_cols=45  Identities=24%  Similarity=0.399  Sum_probs=30.9

Q ss_pred             ccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCcc
Q 018073          143 TCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV  198 (361)
Q Consensus       143 ~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i  198 (361)
                      .|++|--++. .....++|.|.||.+|...+.....        -.||  .|+..|
T Consensus         3 fC~~C~~Pi~-iygRmIPCkHvFCydCa~~~~~~~~--------k~Cp--~C~~~V   47 (101)
T 3vk6_A            3 FCDKCGLPIK-VYGRMIPCKHVFCYDCAILHEKKGD--------KMCP--GCSDPV   47 (101)
T ss_dssp             BCTTTCSBCS-EEEEEETTCCEEEHHHHHHHHHTTC--------CBCT--TTCCBC
T ss_pred             ecCccCCCeE-EEeeeccccccHHHHHHHHHHhccC--------CCCc--CcCCee
Confidence            4888864432 2345679999999999998876532        2466  677665

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=94.14  E-value=0.024  Score=43.03  Aligned_cols=33  Identities=18%  Similarity=0.630  Sum_probs=24.6

Q ss_pred             ccccccccccccCCcccc-ccCCCcccHhhHHHH
Q 018073          141 EMTCGICFENYPSDRLLA-AACGHPFCSSCWTGY  173 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~-l~CgH~fC~~Cl~~~  173 (361)
                      .+.|+||.+.+....+.. +.|+|.||..|+..+
T Consensus         3 e~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCCCceEECCcCChHHhHHHCHHH
Confidence            578999997643222222 789999999999983

>2jrp_A Putative cytoplasmic protein; two-zinc binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium LT2}

Probab=93.98  E-value=0.041  Score=39.85  Aligned_cols=59  Identities=20%  Similarity=0.371  Sum_probs=40.5

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCcc-----ceeccccccccccCCCCCCcccCCCccchhcccCC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKF-----EFCWLCLGQWSDHGERTGGFYACNRYETAKQEGVV  361 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~-----~FCw~C~~~~~~h~~~~g~~y~C~~~~~~~~~~~~  361 (361)
                      ..||.|+.+|+.++|  +..|. .|+.     -||-.|+++......--..-|.||.=.+-+.+.+|
T Consensus         3 ~~CP~C~~~l~~~~~--~~~C~-~C~~~~~~~afCPeCgq~Le~lkACGA~~yFC~~C~~LiSkkrv   66 (81)
T 2jrp_A            3 ITCPVCHHALERNGD--TAHCE-TCAKDFSLQALCPDCRQPLQVLKACGAVDYFCQNGHGLISKKRV   66 (81)
T ss_dssp             CCCSSSCSCCEECSS--EEECT-TTCCEEEEEEECSSSCSCCCEEEETTEEEECCTTTTCCCCTTSS
T ss_pred             CCCCCCCCccccCCC--ceECc-cccccCCCcccCcchhhHHHHHHhcCCcCeeeccCCCEeecceE
Confidence            579999999999888  66798 7863     48999998875432110135678876655554443

>2dam_A ETEA protein; KIAA0887, UBA-like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=93.97  E-value=0.12  Score=36.12  Aligned_cols=41  Identities=15%  Similarity=0.245  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHHhC-CCHHHHHHHHHHcCCChHHHHHHhhhc
Q 018073           78 RQEEDITRISTVLS-ISKVAASILLRFYNWSVSKVHDEWFAD  118 (361)
Q Consensus        78 ~~~~~i~~v~~~l~-i~~~~a~~LL~~~~w~~~~l~e~~~~~  118 (361)
                      .+.+.|.+.+.+.+ ..+..|+.+|...+||++..+..||..
T Consensus        17 ~~~e~i~qF~~ITg~~d~~~A~~~Le~~~WnLe~Av~~ff~~   58 (67)
T 2dam_A           17 EQTEKLLQFQDLTGIESMDQCRHTLEQHNWNIEAAVQDRLNE   58 (67)
T ss_dssp             HHHHHHHHHHHHHCCSCHHHHHHHHHHHTSCHHHHHHHHHHS
T ss_pred             hHHHHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence            35667999999999 789999999999999999999999976

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=93.70  E-value=0.1  Score=35.63  Aligned_cols=49  Identities=22%  Similarity=0.482  Sum_probs=35.2

Q ss_pred             CccccccccccccCCccccccC--CC---cccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          140 EEMTCGICFENYPSDRLLAAAC--GH---PFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l~C--gH---~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      ....|.||++... .. ..++|  .|   .|...|+..|+..+-       ...||  .|+..+.
T Consensus         5 ~~~~CrIC~~~~~-~~-l~~PC~C~gs~~~~H~~Cl~~W~~~~~-------~~~C~--~C~~~~~   58 (60)
T 1vyx_A            5 DVPVCWICNEELG-NE-RFRACGCTGELENVHRSCLSTWLTISR-------NTACQ--ICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECS-CC-CCCSCCCSSGGGSCCHHHHHHHHHHHT-------CSBCT--TTCCBCC
T ss_pred             CCCEeEEeecCCC-Cc-eecCcCCCCchhhhHHHHHHHHHHhCC-------CCccC--CCCCeee
Confidence            3567999998743 23 34665  45   899999999997642       35799  8887653

>2dzl_A Protein FAM100B; UBA-like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=93.30  E-value=0.14  Score=35.70  Aligned_cols=38  Identities=16%  Similarity=0.255  Sum_probs=35.3

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCChHHHHHHhhhc
Q 018073           81 EDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFAD  118 (361)
Q Consensus        81 ~~i~~v~~~l~i~~~~a~~LL~~~~w~~~~l~e~~~~~  118 (361)
                      +.|.+...+.+.++..|+..|...+||++..+..||.+
T Consensus        19 ~~i~qF~~iTg~~~~~A~~~Le~~~WdLe~Al~~ff~~   56 (66)
T 2dzl_A           19 VMINQFVLAAGCAADQAKQLLQAAHWQFETALSTFFQE   56 (66)
T ss_dssp             HHHHHHHHHHCCCHHHHHHHHHTTTTCHHHHHHHHHTC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence            46888899999999999999999999999999999976

>3e21_A HFAF1, FAS-associated factor 1; UBA, alternative splicing, apoptosis, nucleus, phosphoprotein; 1.73A {Homo sapiens}

Probab=93.14  E-value=0.11  Score=33.18  Aligned_cols=38  Identities=18%  Similarity=0.233  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHHhCCCH-HHHHHHHHHcCCChHHHHHHhh
Q 018073           79 QEEDITRISTVLSISK-VAASILLRFYNWSVSKVHDEWF  116 (361)
Q Consensus        79 ~~~~i~~v~~~l~i~~-~~a~~LL~~~~w~~~~l~e~~~  116 (361)
                      ..+.|.+.+++.|++. ..|+..|-..+||.+.....||
T Consensus         5 ~de~ia~F~~iTG~~d~~~A~~~Lea~nWDLe~Av~~f~   43 (45)
T 3e21_A            5 REMILADFQACTGIENIDEAITLLEQNNWDLVAAINGVI   43 (45)
T ss_dssp             HHHHHHHHHHHHCCCCHHHHHHHHHHTTTCHHHHHTTC-
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHcCCcHHHHHHHHc
Confidence            3567888999999985 9999999999999988877665

>2jne_A Hypothetical protein YFGJ; zinc fingers, two zinc, structural genomics, PSI-2, protein structure initiative; NMR {Escherichia coli} SCOP: g.41.18.1

Probab=93.09  E-value=0.049  Score=40.53  Aligned_cols=59  Identities=20%  Similarity=0.435  Sum_probs=43.0

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCcc-----ceeccccccccccCCCCCCcccCCCccchhcccCC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKF-----EFCWLCLGQWSDHGERTGGFYACNRYETAKQEGVV  361 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~-----~FCw~C~~~~~~h~~~~g~~y~C~~~~~~~~~~~~  361 (361)
                      ..||.|+..++.++|  +..|. .|..     -||--|+++......--..-|.|+.-..-+.+.+|
T Consensus        33 ~~CP~Cq~eL~~~g~--~~hC~-~C~~~f~~~a~CPdC~q~LevLkACGAvdYFC~~chgLiSKkRV   96 (101)
T 2jne_A           33 LHCPQCQHVLDQDNG--HARCR-SCGEFIEMKALCPDCHQPLQVLKACGAVDYFCQHGHGLISKKRV   96 (101)
T ss_dssp             CBCSSSCSBEEEETT--EEEET-TTCCEEEEEEECTTTCSBCEEEEETTEEEEEETTTTEEECTTTS
T ss_pred             ccCccCCCcceecCC--EEECc-cccchhhccccCcchhhHHHHHHHhcCcchhhccCCceeecceE
Confidence            689999999999988  77898 7975     46999998876543211145778877665555544

>1wj7_A Hypothetical protein (RSGI RUH-015); UBA domain, ubiquitin associated domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.5.2.1

Probab=93.02  E-value=0.17  Score=38.35  Aligned_cols=40  Identities=15%  Similarity=0.162  Sum_probs=37.2

Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHcCCChHHHHHHhhhc
Q 018073           79 QEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFAD  118 (361)
Q Consensus        79 ~~~~i~~v~~~l~i~~~~a~~LL~~~~w~~~~l~e~~~~~  118 (361)
                      +++.|..|+++.+++++.|+..|...+|++...++.++..
T Consensus        39 ~eekVk~L~EmtG~seeeAr~AL~~~ngDl~~AI~~Lleg   78 (104)
T 1wj7_A           39 FEEKVKQLIDITGKNQDECVIALHDCNGDVNRAINVLLEG   78 (104)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhhCCCHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence            3789999999999999999999999999999999988865

>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=90.51  E-value=0.073  Score=40.29  Aligned_cols=35  Identities=20%  Similarity=0.590  Sum_probs=29.1

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccccC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHG  340 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~  340 (361)
                      -.||-|...+.     +.++|. .|||.||+.|+..|-...
T Consensus        23 ~~C~IC~~~~~-----~p~~~~-~CgH~FC~~Ci~~~~~~~   57 (100)
T 3lrq_A           23 FRCFICMEKLR-----DARLCP-HCSKLCCFSCIRRWLTEQ   57 (100)
T ss_dssp             TBCTTTCSBCS-----SEEECT-TTCCEEEHHHHHHHHHHT
T ss_pred             CCCccCCcccc-----CccccC-CCCChhhHHHHHHHHHHC
Confidence            57999998886     467778 699999999999986654

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

Probab=90.38  E-value=0.094  Score=36.03  Aligned_cols=32  Identities=25%  Similarity=0.795  Sum_probs=22.9

Q ss_pred             ccCCccccccCCcCCCCCCchhHHHHHHhhhhhhHHHHHHHhhcCCCCCCCcceeec
Q 018073          256 RCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKN  312 (361)
Q Consensus       256 ~C~~~fC~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~~i~~~~k~CP~C~~~IeK~  312 (361)
                      .||+.||..|...            |             +..+...||.|+.++.++
T Consensus        25 ~CgH~fC~~Ci~~------------~-------------~~~~~~~CP~Cr~~~~~~   56 (65)
T 1g25_A           25 VCGHTLCESCVDL------------L-------------FVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             TTCCCEEHHHHHH------------H-------------HHTTSSSCTTTCCCCSSC
T ss_pred             CCCCHhHHHHHHH------------H-------------HHcCCCcCCCCCCccccc
Confidence            7999999998622            2             122236899999998753

>1z96_A DNA-damage, UBA-domain protein MUD1; ubiquitin, three-helix bundle, protein transport; 1.80A {Schizosaccharomyces pombe} SCOP: a.5.2.1

Probab=90.37  E-value=0.55  Score=28.74  Aligned_cols=35  Identities=11%  Similarity=0.111  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCChHHHHHHh
Q 018073           80 EEDITRISTVLSISKVAASILLRFYNWSVSKVHDEW  115 (361)
Q Consensus        80 ~~~i~~v~~~l~i~~~~a~~LL~~~~w~~~~l~e~~  115 (361)
                      .+.|.++.+. |.++..|+..|+..+||++...+-+
T Consensus         5 ~~~i~~L~~m-Gf~~~~a~~AL~~~~~n~e~A~~~L   39 (40)
T 1z96_A            5 NSKIAQLVSM-GFDPLEAAQALDAANGDLDVAASFL   39 (40)
T ss_dssp             HHHHHHHHHT-TCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHc-CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            4578888886 9999999999999999998877644

>2di0_A Activating signal cointegrator 1 complex subunit 2; ASCC2, CUE domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.4

Probab=89.83  E-value=0.89  Score=31.94  Aligned_cols=41  Identities=12%  Similarity=0.310  Sum_probs=36.2

Q ss_pred             HHHHHHHHHHHHh-CCCHHHHHHHHHHcCCChHHHHHHhhhc
Q 018073           78 RQEEDITRISTVL-SISKVAASILLRFYNWSVSKVHDEWFAD  118 (361)
Q Consensus        78 ~~~~~i~~v~~~l-~i~~~~a~~LL~~~~w~~~~l~e~~~~~  118 (361)
                      .+.+.|.+|.++| .+..+....+|.+|+-|++.++..++++
T Consensus        12 ~l~s~I~qV~DLfPdLG~gfi~~~L~~y~~nvE~vin~LLE~   53 (71)
T 2di0_A           12 ELDSLISQVKDLLPDLGEGFILACLEYYHYDPEQVINNILEE   53 (71)
T ss_dssp             HHHHHHHHHHHHCCSSCHHHHHHHHHHTTTCHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcccCCHHHHHHHHHHhCCCHHHHHHHHHcc
Confidence            4567888898888 6799999999999999999999988876

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=89.79  E-value=0.17  Score=38.09  Aligned_cols=49  Identities=22%  Similarity=0.687  Sum_probs=33.8

Q ss_pred             ccCCCCCCcceeeecCCCCceEEe-ccCCccccccCCcCCCCCCchhHHHHHHhhhhhhHHHHHHHhhcCCCCCCCccee
Q 018073          232 WCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIE  310 (361)
Q Consensus       232 ~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~~i~~~~k~CP~C~~~Ie  310 (361)
                      +|+.  |+..|..-       ..- .|++.||..|..                         .|.+...+.||.|+.+|.
T Consensus         3 fC~~--C~~Pi~iy-------gRmIPCkHvFCydCa~-------------------------~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDK--CGLPIKVY-------GRMIPCKHVFCYDCAI-------------------------LHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTT--TCSBCSEE-------EEEETTCCEEEHHHHH-------------------------HHHHTTCCBCTTTCCBCS
T ss_pred             ecCc--cCCCeEEE-------eeeccccccHHHHHHH-------------------------HHHhccCCCCcCcCCeee
Confidence            5774  87665332       344 799999999852                         222334589999999998


Q ss_pred             ecCC
Q 018073          311 KNQG  314 (361)
Q Consensus       311 K~~G  314 (361)
                      +.+-
T Consensus        49 rVe~   52 (101)
T 3vk6_A           49 RIEQ   52 (101)
T ss_dssp             EEEE
T ss_pred             eeEE
Confidence            7654

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

Probab=89.11  E-value=0.12  Score=35.29  Aligned_cols=33  Identities=27%  Similarity=0.677  Sum_probs=26.2

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceecccccccccc
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDH  339 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h  339 (361)
                      ..||-|...+.     +.++-  +|||.||+.|+..|...
T Consensus        21 ~~C~IC~~~~~-----~p~~~--~CgH~fC~~Ci~~~~~~   53 (63)
T 2ysj_A           21 VICPICLDILQ-----KPVTI--DCGHNFCLKCITQIGET   53 (63)
T ss_dssp             CBCTTTCSBCS-----SCEEC--TTSSEECHHHHHHHHHH
T ss_pred             CCCCcCCchhC-----CeEEe--CCCCcchHHHHHHHHHc
Confidence            57999998776     24444  39999999999999764

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

Probab=87.34  E-value=0.24  Score=34.59  Aligned_cols=32  Identities=28%  Similarity=0.701  Sum_probs=25.6

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccc
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSD  338 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~  338 (361)
                      ..||-|...+.     +.++-  +|||.||+.|+..|..
T Consensus        21 ~~C~IC~~~~~-----~~~~~--~CgH~fC~~Ci~~~~~   52 (73)
T 2ysl_A           21 VICPICLDILQ-----KPVTI--DCGHNFCLKCITQIGE   52 (73)
T ss_dssp             CBCTTTCSBCS-----SEEEC--TTCCEEEHHHHHHHCS
T ss_pred             CEeccCCcccC-----CeEEc--CCCChhhHHHHHHHHH
Confidence            57999998776     23444  4999999999999976

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=87.15  E-value=0.31  Score=34.37  Aligned_cols=37  Identities=27%  Similarity=0.734  Sum_probs=25.9

Q ss_pred             eEEe-ccCCccccccCCcCCCCCCchhHHHHHHhhhhhhHHHHHHHhhcCCCCCCCcceeecCC
Q 018073          252 DVTC-RCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKNQG  314 (361)
Q Consensus       252 ~v~C-~C~~~fC~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~~i~~~~k~CP~C~~~IeK~~G  314 (361)
                      .+.. .|++.||..|..            +|+             .. ...||.|+..|....|
T Consensus        38 ~~~~l~C~H~fh~~Ci~------------~w~-------------~~-~~~CP~Cr~~~~~~~g   75 (75)
T 1x4j_A           38 LLRVLPCNHEFHAKCVD------------KWL-------------KA-NRTCPICRADSGPSSG   75 (75)
T ss_dssp             EEEEETTTEEEETTHHH------------HHH-------------HH-CSSCTTTCCCCCCCCC
T ss_pred             eEEEECCCCHhHHHHHH------------HHH-------------Hc-CCcCcCcCCcCCCCCC
Confidence            3444 799999988863            232             22 2589999999987766

>2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein, zinc, zinc-finger, structural genomics, PSI-2; NMR {Thermoplasma acidophilum} SCOP: g.41.8.8

Probab=87.07  E-value=0.23  Score=33.27  Aligned_cols=30  Identities=20%  Similarity=0.542  Sum_probs=21.5

Q ss_pred             hcCCCCCCCcceeecCCCCceeecCCCccce
Q 018073          298 NSKPCPRCKRPIEKNQGCMHMTCTPPCKFEF  328 (361)
Q Consensus       298 ~~k~CP~C~~~IeK~~GCnhm~C~~~C~~~F  328 (361)
                      ..+.||+|+..+.-...-+..+|. +|++.+
T Consensus        17 ~~~fCPkCG~~~~ma~~~dr~~C~-kCgyt~   46 (55)
T 2k4x_A           17 KHRFCPRCGPGVFLAEHADRYSCG-RCGYTE   46 (55)
T ss_dssp             SSCCCTTTTTTCCCEECSSEEECT-TTCCCE
T ss_pred             ccccCcCCCCceeEeccCCEEECC-CCCCEE
Confidence            358999999855422334689998 798874

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

Probab=86.74  E-value=0.18  Score=35.36  Aligned_cols=34  Identities=26%  Similarity=0.435  Sum_probs=26.2

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceecccccccccc
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDH  339 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h  339 (361)
                      ..||-|...+..     .++-. +|+|.||+.|...|...
T Consensus        16 ~~C~IC~~~~~~-----p~~~~-~CgH~fC~~Ci~~~~~~   49 (72)
T 2djb_A           16 ILCSICKGYLID-----ATTIT-ECLHTFCKSCIVRHFYY   49 (72)
T ss_dssp             GSCTTTSSCCSS-----CEECS-SSCCEECHHHHHHHHHH
T ss_pred             CCCCCCChHHHC-----cCEEC-CCCCHHHHHHHHHHHHc
Confidence            589999887763     45555 59999999999888654

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

Probab=86.51  E-value=0.21  Score=34.35  Aligned_cols=32  Identities=22%  Similarity=0.559  Sum_probs=25.1

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccc
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSD  338 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~  338 (361)
                      ..||-|...+..     .++ . +|||.||+.|...|..
T Consensus        16 ~~C~IC~~~~~~-----p~~-~-~CgH~fC~~Ci~~~~~   47 (66)
T 2ecy_A           16 YKCEKCHLVLCS-----PKQ-T-ECGHRFCESCMAALLS   47 (66)
T ss_dssp             EECTTTCCEESS-----CCC-C-SSSCCCCHHHHHHHHT
T ss_pred             CCCCCCChHhcC-----eeE-C-CCCCHHHHHHHHHHHH
Confidence            479999887752     233 4 5999999999999975

>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=86.30  E-value=0.22  Score=41.24  Aligned_cols=34  Identities=26%  Similarity=0.525  Sum_probs=27.5

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceecccccccccc
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDH  339 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h  339 (361)
                      -.||-|...+..     .++.. +|||.||+.|...|-..
T Consensus        55 ~~C~IC~~~~~~-----p~~~~-~CgH~fC~~Ci~~~~~~   88 (165)
T 2ckl_B           55 LMCPICLDMLKN-----TMTTK-ECLHRFCADCIITALRS   88 (165)
T ss_dssp             HBCTTTSSBCSS-----EEEET-TTCCEEEHHHHHHHHHT
T ss_pred             CCCcccChHhhC-----cCEeC-CCCChhHHHHHHHHHHh
Confidence            379999988763     57775 59999999999998764

>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1

Probab=86.09  E-value=0.43  Score=31.03  Aligned_cols=29  Identities=21%  Similarity=0.628  Sum_probs=22.3

Q ss_pred             cCCCCCCCc-ceeecCCCCceeecCCCccce
Q 018073          299 SKPCPRCKR-PIEKNQGCMHMTCTPPCKFEF  328 (361)
Q Consensus       299 ~k~CP~C~~-~IeK~~GCnhm~C~~~C~~~F  328 (361)
                      ...||.|+. .|.....=..+.|. .||..|
T Consensus         5 ~~~CP~C~~~~l~~d~~~gelvC~-~CG~v~   34 (50)
T 1pft_A            5 QKVCPACESAELIYDPERGEIVCA-KCGYVI   34 (50)
T ss_dssp             CCSCTTTSCCCEEEETTTTEEEES-SSCCBC
T ss_pred             cEeCcCCCCcceEEcCCCCeEECc-ccCCcc
Confidence            468999998 88777666779998 576644

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

Probab=85.19  E-value=0.52  Score=41.62  Aligned_cols=51  Identities=22%  Similarity=0.512  Sum_probs=37.4

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchh
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD  201 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~  201 (361)
                      ...|.||.+.+..... -..|+|.|...|+..|+++.       ...+||  .|+..++..
T Consensus       180 i~~C~iC~~iv~~g~~-C~~C~~~~H~~C~~~~~~~~-------~~~~CP--~C~~~W~~~  230 (238)
T 3nw0_A          180 VKICNICHSLLIQGQS-CETCGIRMHLPCVAKYFQSN-------AEPRCP--HCNDYWPHE  230 (238)
T ss_dssp             CCBCTTTCSBCSSCEE-CSSSCCEECHHHHHHHTTTC-------SSCBCT--TTCCBCCSC
T ss_pred             CCcCcchhhHHhCCcc-cCccChHHHHHHHHHHHHhC-------CCCCCC--CCCCCCCCC
Confidence            5679999987754321 22399999999999999752       145899  899876543

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

Probab=85.08  E-value=0.32  Score=34.93  Aligned_cols=45  Identities=22%  Similarity=0.575  Sum_probs=29.8

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccccCCCCCCcccCCC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNR  351 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~~~~g~~y~C~~  351 (361)
                      -.||-|...+..     .++-  +|+|.||+.|+..|.......++...|+.
T Consensus        20 ~~C~IC~~~~~~-----p~~~--~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~   64 (85)
T 2ecw_A           20 VTCPICLELLKE-----PVSA--DCNHSFCRACITLNYESNRNTDGKGNCPV   64 (85)
T ss_dssp             TSCTTTCSCCSS-----CEEC--TTSCCBCHHHHHHHHHHSBCTTSCBCCTT
T ss_pred             CCCcCCChhhCc-----ceeC--CCCCHHHHHHHHHHHHhccCCCCCCCCCC
Confidence            579999888753     2443  49999999999998655321122344553

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

Probab=84.83  E-value=0.25  Score=35.86  Aligned_cols=38  Identities=21%  Similarity=0.448  Sum_probs=26.7

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccccC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHG  340 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~  340 (361)
                      ..||-|...+..... ..+.-  +|||.||+.|...|....
T Consensus        16 ~~C~IC~~~~~~~~~-~~~~~--~CgH~fC~~Ci~~~~~~~   53 (88)
T 2ct2_A           16 LECPICMESFTEEQL-RPKLL--HCGHTICRQCLEKLLASS   53 (88)
T ss_dssp             CBCTTTCCBCCTTSS-CEEEC--SSSCEEEHHHHHHHHHHC
T ss_pred             CCCccCCccccccCC-CeEEC--CCCChhhHHHHHHHHHcC
Confidence            579999988764321 12333  499999999999997654

>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=84.65  E-value=0.41  Score=31.28  Aligned_cols=38  Identities=21%  Similarity=0.511  Sum_probs=27.8

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccccC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHG  340 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~  340 (361)
                      ..||-|...+...+  ..+.-. +|+|.||+.|+..|....
T Consensus         6 ~~C~IC~~~~~~~~--~~~~~~-~CgH~fc~~Ci~~~~~~~   43 (55)
T 2ecm_A            6 SGCPICLEDIHTSR--VVAHVL-PCGHLLHRTCYEEMLKEG   43 (55)
T ss_dssp             CSCTTTCCCCCTTT--SCEEEC-TTSCEEETTHHHHHHHHT
T ss_pred             CcCcccChhhcCCC--cCeEec-CCCCcccHHHHHHHHHcC
Confidence            57999988775221  235556 599999999999997554

>3j20_Y 30S ribosomal protein S27AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=84.39  E-value=0.28  Score=32.15  Aligned_cols=29  Identities=28%  Similarity=0.691  Sum_probs=20.4

Q ss_pred             hcCCCCCCCccee-ecCCCCceeecCCCccce
Q 018073          298 NSKPCPRCKRPIE-KNQGCMHMTCTPPCKFEF  328 (361)
Q Consensus       298 ~~k~CP~C~~~Ie-K~~GCnhm~C~~~C~~~F  328 (361)
                      ..+.||+|+..+. .+.+ +...|. .||+.+
T Consensus        18 ~~k~CP~CG~~~fm~~~~-~R~~C~-kCG~t~   47 (50)
T 3j20_Y           18 KNKFCPRCGPGVFMADHG-DRWACG-KCGYTE   47 (50)
T ss_dssp             SSEECSSSCSSCEEEECS-SEEECS-SSCCEE
T ss_pred             ecccCCCCCCceEEecCC-CeEECC-CCCCEE
Confidence            3478999998543 3333 788998 798753

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

Probab=83.88  E-value=0.74  Score=30.49  Aligned_cols=27  Identities=30%  Similarity=0.795  Sum_probs=21.5

Q ss_pred             ccCCccccccCCcCCCCCCchhHHHHHHhhhhhhHHHHHHHhhcCCCCCCCcceee
Q 018073          256 RCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEK  311 (361)
Q Consensus       256 ~C~~~fC~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~~i~~~~k~CP~C~~~IeK  311 (361)
                      .||+.||..|...+                             ...||.|+..+..
T Consensus        23 ~CgH~fC~~Ci~~~-----------------------------~~~CP~Cr~~~~~   49 (56)
T 1bor_A           23 PCLHTLCSGCLEAS-----------------------------GMQCPICQAPWPL   49 (56)
T ss_dssp             TTSCCSBTTTCSSS-----------------------------SSSCSSCCSSSSC
T ss_pred             CCCCcccHHHHccC-----------------------------CCCCCcCCcEeec
Confidence            69999999997541                             2689999998863

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

Probab=83.70  E-value=0.31  Score=33.56  Aligned_cols=35  Identities=26%  Similarity=0.856  Sum_probs=25.1

Q ss_pred             cCCCCCCCcceeecCCCCceeecCCCccceecccccccccc
Q 018073          299 SKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDH  339 (361)
Q Consensus       299 ~k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h  339 (361)
                      ...||-|...+..     ...-. +|||.||+.|...|...
T Consensus         5 ~~~C~IC~~~~~~-----~~~~~-~C~H~fc~~Ci~~~~~~   39 (68)
T 1chc_A            5 AERCPICLEDPSN-----YSMAL-PCLHAFCYVCITRWIRQ   39 (68)
T ss_dssp             CCCCSSCCSCCCS-----CEEET-TTTEEESTTHHHHHHHH
T ss_pred             CCCCeeCCccccC-----CcEec-CCCCeeHHHHHHHHHhC
Confidence            3689999988752     23445 58888888888888643

>1ify_A HHR23A, UV excision repair protein RAD23 homolog A; ubiquitin associated domain, UBA domain, ubiquitin proteosome pathway, DNA binding protein; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=83.43  E-value=2.7  Score=27.12  Aligned_cols=38  Identities=13%  Similarity=0.077  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHcCCChHHHHHHhhh
Q 018073           79 QEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFA  117 (361)
Q Consensus        79 ~~~~i~~v~~~l~i~~~~a~~LL~~~~w~~~~l~e~~~~  117 (361)
                      ..+.|.++.+. |.++..|+..|+..+||+++..+-+++
T Consensus         8 ~~~~i~~L~~M-GF~~~~a~~AL~~~~~n~e~A~e~L~~   45 (49)
T 1ify_A            8 YETMLTEIMSM-GYERERVVAALRASYNNPHRAVEYLLT   45 (49)
T ss_dssp             HHHHHHHHHHT-TCCHHHHHHHHHTTTSCSHHHHHHHHH
T ss_pred             CHHHHHHHHHc-CCCHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            34556666554 899999999999999999998887665

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

Probab=83.41  E-value=0.42  Score=34.36  Aligned_cols=35  Identities=29%  Similarity=0.851  Sum_probs=23.0

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceecccccccc
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWS  337 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~  337 (361)
                      ..||-|.-++.. ..-..+.|.  |||.||..|+..+.
T Consensus        12 ~~CpICle~~~~-~d~~~~p~~--CGH~fC~~Cl~~~~   46 (78)
T 1e4u_A           12 VECPLCMEPLEI-DDINFFPCT--CGYQICRFCWHRIR   46 (78)
T ss_dssp             CBCTTTCCBCCT-TTTTCCSST--TSCCCCHHHHHHHT
T ss_pred             CcCCccCccCcc-ccccccccC--CCCCcCHHHHHHHH
Confidence            579999987742 112223354  88888888887754

>2jr6_A UPF0434 protein NMA0874; solution, structural genomics, PSI, structure initiative, northeast structural genomics consort NESG; NMR {Neisseria meningitidis}

Probab=83.19  E-value=0.75  Score=32.14  Aligned_cols=29  Identities=21%  Similarity=0.311  Sum_probs=24.4

Q ss_pred             cCCCCCCCcceeecCCCCceeecCCCccce
Q 018073          299 SKPCPRCKRPIEKNQGCMHMTCTPPCKFEF  328 (361)
Q Consensus       299 ~k~CP~C~~~IeK~~GCnhm~C~~~C~~~F  328 (361)
                      .-.||.|+.+++-..+...++|. .|+..|
T Consensus         8 iL~CP~ck~~L~~~~~~~~LiC~-~cg~~Y   36 (68)
T 2jr6_A            8 ILVCPVTKGRLEYHQDKQELWSR-QAKLAY   36 (68)
T ss_dssp             CCBCSSSCCBCEEETTTTEEEET-TTTEEE
T ss_pred             heECCCCCCcCeEeCCCCEEEcC-CCCcEe
Confidence            35899999999988888999998 677655

>1vq8_Z 50S ribosomal protein L37AE; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 1vq4_Z* 1vq6_Z* 1vq5_Z* 1vq7_Z* 1vq9_Z* 1vqk_Z* 1vql_Z* 1vqm_Z* 1vqn_Z* 1vqo_Z* 1vqp_Z* 1yhq_Z* 1yi2_Z* 1yij_Z* 1yit_Z* 1yj9_Z* 1yjn_Z* 1yjw_Z* 2qa4_Z* 1s72_Z* ...

Probab=82.94  E-value=0.46  Score=34.61  Aligned_cols=36  Identities=25%  Similarity=0.649  Sum_probs=29.4

Q ss_pred             cCCCCCCCcceeecCCCCceeecCCCccceeccccccccc
Q 018073          299 SKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSD  338 (361)
Q Consensus       299 ~k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~  338 (361)
                      .-.||.|+....+..+=..+.|. .|++.|-   |+.|..
T Consensus        27 ~y~Cp~CG~~~v~r~atGiW~C~-~Cg~~~a---ggay~~   62 (83)
T 1vq8_Z           27 DHACPNCGEDRVDRQGTGIWQCS-YCDYKFT---GGSYKP   62 (83)
T ss_dssp             CEECSSSCCEEEEEEETTEEEET-TTCCEEE---CCSSSS
T ss_pred             cCcCCCCCCcceeccCCCeEECC-CCCCEec---CCEecc
Confidence            35899999999999888899999 7999874   455554

>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=82.76  E-value=0.39  Score=37.59  Aligned_cols=33  Identities=21%  Similarity=0.417  Sum_probs=25.0

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceecccccccccc
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDH  339 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h  339 (361)
                      -.||-|...+.     +.++-  +|||.||..|+..|-..
T Consensus        53 ~~C~IC~~~~~-----~p~~~--~CgH~fC~~Ci~~~~~~   85 (124)
T 3fl2_A           53 FQCICCQELVF-----RPITT--VCQHNVCKDCLDRSFRA   85 (124)
T ss_dssp             TBCTTTSSBCS-----SEEEC--TTSCEEEHHHHHHHHHT
T ss_pred             CCCCcCChHHc-----CcEEe--eCCCcccHHHHHHHHhH
Confidence            57999998776     33443  49999999999888653

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=82.60  E-value=0.57  Score=30.59  Aligned_cols=37  Identities=19%  Similarity=0.454  Sum_probs=27.4

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceecccccccccc
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDH  339 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h  339 (361)
                      ..||-|...+.....  .+.-. .|+|.||..|+..|...
T Consensus         6 ~~C~IC~~~~~~~~~--~~~~~-~C~H~f~~~Ci~~w~~~   42 (55)
T 1iym_A            6 VECAVCLAELEDGEE--ARFLP-RCGHGFHAECVDMWLGS   42 (55)
T ss_dssp             CCCTTTCCCCCTTSC--CEECS-SSCCEECTTHHHHTTTT
T ss_pred             CcCccCCccccCCCc--eEECC-CCCCcccHHHHHHHHHc
Confidence            579999888764432  33443 49999999999999754

>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=82.57  E-value=0.41  Score=33.02  Aligned_cols=37  Identities=24%  Similarity=0.618  Sum_probs=27.0

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccccC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHG  340 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~  340 (361)
                      ..||-|...+....   .+... +|+|.||+.|+..|....
T Consensus        15 ~~C~IC~~~~~~~~---~~~~~-~C~H~fc~~Ci~~~~~~~   51 (69)
T 2kiz_A           15 EKCTICLSILEEGE---DVRRL-PCMHLFHQVCVDQWLITN   51 (69)
T ss_dssp             CSBTTTTBCCCSSS---CEEEC-TTSCEEEHHHHHHHHHHC
T ss_pred             CCCeeCCccccCCC---cEEEe-CCCCHHHHHHHHHHHHcC
Confidence            68999988775322   24444 599999999999997553

>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=82.51  E-value=0.36  Score=36.80  Aligned_cols=35  Identities=20%  Similarity=0.420  Sum_probs=27.6

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccccC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHG  340 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~  340 (361)
                      -.||-|...+.     +.++.. +|||.||+.|...|...+
T Consensus        16 ~~C~IC~~~~~-----~p~~~~-~CgH~fC~~Ci~~~~~~~   50 (108)
T 2ckl_A           16 LMCVLCGGYFI-----DATTII-ECLHSFCKTCIVRYLETS   50 (108)
T ss_dssp             TBCTTTSSBCS-----SEEEET-TTCCEEEHHHHHHHHTSC
T ss_pred             CCCccCChHHh-----CcCEeC-CCCChhhHHHHHHHHHhC
Confidence            57999998875     356665 499999999999986543

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

Probab=82.43  E-value=0.45  Score=33.53  Aligned_cols=35  Identities=17%  Similarity=0.295  Sum_probs=26.5

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccccC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHG  340 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~  340 (361)
                      -.||-|...+.     +.++-. .|||.||+.|...|-...
T Consensus        16 ~~C~IC~~~~~-----~p~~~~-~CgH~fC~~Ci~~~~~~~   50 (74)
T 2yur_A           16 LLCLICKDIMT-----DAVVIP-CCGNSYCDECIRTALLES   50 (74)
T ss_dssp             GSCSSSCCCCT-----TCEECS-SSCCEECTTHHHHHHHHS
T ss_pred             CCCcCCChHHh-----CCeEcC-CCCCHHHHHHHHHHHHhc
Confidence            57999988775     345532 399999999999997643

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

Probab=82.43  E-value=0.49  Score=33.50  Aligned_cols=34  Identities=15%  Similarity=0.293  Sum_probs=26.3

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccccC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHG  340 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~  340 (361)
                      -.||-|...+.     +.++-  .|||.||..|...|-..+
T Consensus         9 ~~C~IC~~~~~-----~Pv~~--~CgH~fc~~Ci~~~~~~~   42 (78)
T 1t1h_A            9 FRCPISLELMK-----DPVIV--STGQTYERSSIQKWLDAG   42 (78)
T ss_dssp             SSCTTTSCCCS-----SEEEE--TTTEEEEHHHHHHHHTTT
T ss_pred             CCCCCcccccc-----CCEEc--CCCCeecHHHHHHHHHHC
Confidence            47999998775     23554  399999999999987653

>2g3q_A Protein YBL047C; endocytosis, solution structure, UBA domain, endocytosis/signaling protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1

Probab=82.32  E-value=2.7  Score=26.12  Aligned_cols=37  Identities=14%  Similarity=0.249  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCChHHHHHHhhh
Q 018073           80 EEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFA  117 (361)
Q Consensus        80 ~~~i~~v~~~l~i~~~~a~~LL~~~~w~~~~l~e~~~~  117 (361)
                      ++.|.++.+ +|.++..|...|+..+||++...+-++.
T Consensus         5 e~~i~~L~~-MGF~~~~a~~AL~~~~~n~e~A~~~L~~   41 (43)
T 2g3q_A            5 SLAVEELSG-MGFTEEEAHNALEKCNWDLEAATNFLLD   41 (43)
T ss_dssp             HHHHHHHHT-TTSCHHHHHHHHHHHTSCHHHHHHHHHT
T ss_pred             HHHHHHHHH-cCCCHHHHHHHHHHhCcCHHHHHHHHHc
Confidence            355777776 6999999999999999999988776554

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

Probab=82.01  E-value=0.37  Score=36.05  Aligned_cols=34  Identities=21%  Similarity=0.548  Sum_probs=26.8

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceecccccccccc
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDH  339 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h  339 (361)
                      -.||-|...+..     .++.. +|||.||..|...|...
T Consensus        23 ~~C~IC~~~~~~-----p~~~~-~CgH~fC~~Ci~~~~~~   56 (99)
T 2y43_A           23 LRCGICFEYFNI-----AMIIP-QCSHNYCSLCIRKFLSY   56 (99)
T ss_dssp             TBCTTTCSBCSS-----EEECT-TTCCEEEHHHHHHHHTT
T ss_pred             CCcccCChhhCC-----cCEEC-CCCCHhhHHHHHHHHHC
Confidence            589999988763     45554 59999999999998764

>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=80.94  E-value=0.5  Score=36.02  Aligned_cols=34  Identities=26%  Similarity=0.677  Sum_probs=25.8

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccccC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHG  340 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~  340 (361)
                      -.||-|...+..     .++ . +|||.||+.|...|....
T Consensus        22 ~~C~IC~~~~~~-----p~~-~-~CgH~fC~~Ci~~~~~~~   55 (112)
T 1jm7_A           22 LECPICLELIKE-----PVS-T-KCDHIFCKFCMLKLLNQK   55 (112)
T ss_dssp             TSCSSSCCCCSS-----CCB-C-TTSCCCCSHHHHHHHHSS
T ss_pred             CCCcccChhhcC-----eEE-C-CCCCHHHHHHHHHHHHhC
Confidence            589999987742     234 3 499999999999887654

>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=80.89  E-value=0.77  Score=35.26  Aligned_cols=34  Identities=21%  Similarity=0.546  Sum_probs=25.6

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccccC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHG  340 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~  340 (361)
                      -.||-|...+..     .++ . .|||.||..|...|...+
T Consensus        16 ~~C~iC~~~~~~-----p~~-~-~CgH~fC~~Ci~~~~~~~   49 (115)
T 3l11_A           16 CQCGICMEILVE-----PVT-L-PCNHTLCKPCFQSTVEKA   49 (115)
T ss_dssp             HBCTTTCSBCSS-----CEE-C-TTSCEECHHHHCCCCCTT
T ss_pred             CCCccCCcccCc-----eeE-c-CCCCHHhHHHHHHHHhHC
Confidence            379999977752     233 3 499999999999998653

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

Probab=80.87  E-value=0.49  Score=31.21  Aligned_cols=32  Identities=22%  Similarity=0.772  Sum_probs=25.0

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccc
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSD  338 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~  338 (361)
                      ..||-|...+...     ++ . +|+|.||+.|+..|..
T Consensus        16 ~~C~IC~~~~~~p-----~~-~-~CgH~fC~~Ci~~~~~   47 (58)
T 2ecj_A           16 ASCSVCLEYLKEP-----VI-I-ECGHNFCKACITRWWE   47 (58)
T ss_dssp             CBCSSSCCBCSSC-----CC-C-SSCCCCCHHHHHHHTT
T ss_pred             CCCccCCcccCcc-----Ee-C-CCCCccCHHHHHHHHH
Confidence            5799999887632     33 3 4999999999999954

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

Probab=80.86  E-value=0.29  Score=35.16  Aligned_cols=33  Identities=24%  Similarity=0.651  Sum_probs=24.9

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceecccccccccc
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDH  339 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h  339 (361)
                      ..||-|...+..     .++-  +|+|.||..|+..|...
T Consensus        20 ~~C~IC~~~~~~-----p~~~--~CgH~fC~~Ci~~~~~~   52 (85)
T 2ecv_A           20 VTCPICLELLTQ-----PLSL--DCGHSFCQACLTANHKK   52 (85)
T ss_dssp             CCCTTTCSCCSS-----CBCC--SSSCCBCTTHHHHHHHH
T ss_pred             CCCCCCCcccCC-----ceeC--CCCCHHHHHHHHHHHHH
Confidence            589999988753     2333  49999999999888654

>1vg5_A RSGI RUH-014, rhomboid family protein; UBA domain, cDNA, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=80.60  E-value=2.8  Score=29.59  Aligned_cols=37  Identities=8%  Similarity=0.200  Sum_probs=30.7

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCChHHHHHHhhhc
Q 018073           81 EDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFAD  118 (361)
Q Consensus        81 ~~i~~v~~~l~i~~~~a~~LL~~~~w~~~~l~e~~~~~  118 (361)
                      +.|.++.+ ++.+...|+..|+..+||+++..+-++..
T Consensus        31 e~I~~L~e-MGF~r~~a~~AL~~~~~nve~Ave~Ll~~   67 (73)
T 1vg5_A           31 EQIQKLVA-MGFDRTQVEVALAAADDDLTVAVEILMSQ   67 (73)
T ss_dssp             HHHHHHHT-TTCCHHHHHHHHHHHTSCHHHHHHHHHTC
T ss_pred             HHHHHHHH-cCCCHHHHHHHHHHhCCCHHHHHHHHHHC
Confidence            45666665 58999999999999999999998877654

---

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	361
d1wd2a_	60	g.44.1.1 (A:) Ariadne-1 protein homolog {Human (Ho	4e-22
d2ct7a1	73	g.44.1.4 (A:8-80) Ring finger protein 31 {Human (H	6e-15
d2ct7a1	73	g.44.1.4 (A:8-80) Ring finger protein 31 {Human (H	2e-07
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	4e-12

>d1wd2a_ g.44.1.1 (A:) Ariadne-1 protein homolog {Human (Homo sapiens) [TaxId: 9606]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Ariadne-1 protein homolog
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 86.1 bits (213), Expect = 4e-22
 Identities = 33/61 (54%), Positives = 38/61 (62%), Gaps = 4/61 (6%)

Query: 294 WILANSKPCPRCKRPIEKNQGCMHMTCTPP-CKFEFCWLCLGQWSDHGERTGGFYACNRY 352
           WI AN+K CP+C   IEK+ GC HM C    CK EFCW+CLG W  HG     +Y CNRY
Sbjct: 1   WIAANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHG---SAWYNCNRY 57

Query: 353 E 353
            
Sbjct: 58  N 58

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]} Length = 73

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: IBR domain
domain: Ring finger protein 31
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 67.0 bits (163), Expect = 6e-15
 Identities = 13/62 (20%), Positives = 21/62 (33%), Gaps = 5/62 (8%)

Query: 297 ANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAK 356
                C +C       +  +  TC P C   FC  C  QW +         +C  ++  K
Sbjct: 16  PKFLWCAQCSFGFIYEREQLEATC-PQCHQTFCVRCKRQWEEQHR----GRSCEDFQNWK 70

Query: 357 QE 358
           + 
Sbjct: 71  RM 72

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]} Length = 73

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: IBR domain
domain: Ring finger protein 31
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.8 bits (108), Expect = 2e-07
 Identities = 13/75 (17%), Positives = 23/75 (30%), Gaps = 6/75 (8%)

Query: 214 KYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEE---AH 270
            +++      +  + K  WC    C +               +C  +FC  C  +    H
Sbjct: 2   LFHKKLTEGVLMRDPKFLWCA--QCSFGF-IYEREQLEATCPQCHQTFCVRCKRQWEEQH 58

Query: 271 RPVDCDTVAKWVLKN 285
           R   C+    W   N
Sbjct: 59  RGRSCEDFQNWKRMN 73

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

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]

 Score = 59.7 bits (144), Expect = 4e-12
 Identities = 19/89 (21%), Positives = 35/89 (39%), Gaps = 4/89 (4%)

Query: 140 EEMTCGICFENYPSDRLLA-AACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSC--GA 196
               C +C   YP +++   A C   FC+ C   Y+   I +G     + CPD +C    
Sbjct: 4   GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLE-TAISCPDAACPKQG 62

Query: 197 AVGQDMIYLLSSDEDKVKYNRYFIRSYVE 225
            + ++ I  + + E   +Y +        
Sbjct: 63  HLQENEIECMVAAEIMQRYKKLQFERSGP 91

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	361
d1wd2a_	60	Ariadne-1 protein homolog {Human (Homo sapiens) [T	99.89
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	99.6
d2ct7a1	73	Ring finger protein 31 {Human (Homo sapiens) [TaxI	99.27
d2ct7a1	73	Ring finger protein 31 {Human (Homo sapiens) [TaxI	99.24
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.66
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.63
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	98.56
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.41
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.4
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.35
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.34
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.33
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.23
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.23
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.22
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.2
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.15
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	97.43
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	97.43
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	97.4
d1v92a_	46	NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {	96.23
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	95.55
d1wd2a_	60	Ariadne-1 protein homolog {Human (Homo sapiens) [T	94.71
d2jnea1	71	Hypothetical protein YfgJ {Escherichia coli [TaxId	92.57
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	92.45
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	91.52
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	90.84
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	90.81
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	89.72
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	89.37
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	87.3
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	87.25
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	85.8
d2k4xa1	55	Ribosomal protein S27ae {Thermoplasma acidophilum	84.52
d2akla2	38	Hypothetical protein PA0128, N-terminal domain {Ps	81.18
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	80.45
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	80.45

>d1wd2a_ g.44.1.1 (A:) Ariadne-1 protein homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Ariadne-1 protein homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=5.2e-25  Score=152.25  Aligned_cols=58  Identities=57%  Similarity=1.417  Sum_probs=53.7

Q ss_pred             HHHhhcCCCCCCCcceeecCCCCceeec-CCCccceeccccccccccCCCCCCcccCCCccc
Q 018073          294 WILANSKPCPRCKRPIEKNQGCMHMTCT-PPCKFEFCWLCLGQWSDHGERTGGFYACNRYET  354 (361)
Q Consensus       294 ~i~~~~k~CP~C~~~IeK~~GCnhm~C~-~~C~~~FCw~C~~~~~~h~~~~g~~y~C~~~~~  354 (361)
                      ||.+|||+||+|+++|||++|||||+|+ +.|+++|||+|+++|..|+.   ++|.||+|++
T Consensus         1 wi~~ntK~CP~C~~~ieK~~GCnhM~C~~~~C~~~fCw~C~~~~~~~~~---~~~~C~~~~e   59 (60)
T d1wd2a_           1 WIAANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGS---AWYNCNRYNE   59 (60)
T ss_dssp             CCCCCCCCCTTTCCCCSSCCSCCSSSCCSSGGGSCCSSSSCSCSGGGGT---SSSSSCSCCC
T ss_pred             CchhcCcCCCCCCCeEEECCCCCCeEeCCCCCCCeEECCCCCccccCCC---CCCCCcCCcc
Confidence            7889999999999999999999999996 24999999999999999986   7899999975

>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=99.60  E-value=2.6e-16  Score=119.62  Aligned_cols=84  Identities=21%  Similarity=0.567  Sum_probs=71.7

Q ss_pred             CCccccccccccccCCccccc-cCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCC--ccchhHHhhcCChHHHHHH
Q 018073          139 GEEMTCGICFENYPSDRLLAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGA--AVGQDMIYLLSSDEDKVKY  215 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l-~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~--~i~~~~i~~ll~~~~~~~y  215 (361)
                      +....|+||+++++.++++.+ +|+|.||.+||+.|++++|.++. ...|+||...|+.  .+....|+.+++.+++++|
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~-~~~i~CP~~~C~~~~~~~~~~i~~ll~~~~~~ky   81 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGL-ETAISCPDAACPKQGHLQENEIECMVAAEIMQRY   81 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCS-CCCEECSCTTCSSCCEECHHHHHHHSCHHHHHHH
T ss_pred             CCCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCC-ccccCCcCCCCCCCcccCHHHHHHhCCHHHHHHH
Confidence            446789999999987776554 79999999999999999998875 3689999888865  4788899999999999999


Q ss_pred             HHHHHHHH
Q 018073          216 NRYFIRSY  223 (361)
Q Consensus       216 ~~~~~~~~  223 (361)
                      .++.++..
T Consensus        82 ~~~~l~~~   89 (94)
T d1wima_          82 KKLQFERS   89 (94)
T ss_dssp             HHHHHHSS
T ss_pred             HHHHHHhc
Confidence            99988643

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: IBR domain
domain: Ring finger protein 31
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=3.4e-13  Score=96.73  Aligned_cols=55  Identities=22%  Similarity=0.539  Sum_probs=46.8

Q ss_pred             hcCCCCCCCcceeecCCCCceeecCCCccceeccccccccccCCCCCCcccCCCccchhc
Q 018073          298 NSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQ  357 (361)
Q Consensus       298 ~~k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~~~~g~~y~C~~~~~~~~  357 (361)
                      +++.||+|+.+|++++||+||+|. .|++.|||.|+++|..++.    ...|..|++-++
T Consensus        17 ~~k~CP~C~~~~~~~~~~~~~~C~-~C~~~fC~~C~~~w~~~H~----~~tC~~~~~wk~   71 (73)
T d2ct7a1          17 KFLWCAQCSFGFIYEREQLEATCP-QCHQTFCVRCKRQWEEQHR----GRSCEDFQNWKR   71 (73)
T ss_dssp             CEECCSSSCCCEECCCSCSCEECT-TTCCEECSSSCSBCCTTTT----TSCHHHHHHHHH
T ss_pred             CCCCCCCCCCEeEECCCCCEEEcC-CCCCeECcccCcchhcCCC----CCCHHHHHHHHH
Confidence            569999999999999999999997 7999999999999976543    256888876543

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: IBR domain
domain: Ring finger protein 31
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.24  E-value=2.2e-13  Score=97.81  Aligned_cols=66  Identities=21%  Similarity=0.690  Sum_probs=56.4

Q ss_pred             HHHHHHHHHHhhCCCccccCCCCCCcceeeecCCCCceEEe-ccCCccccccCCcC---CCCCCchhHHHHHHh
Q 018073          215 YNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNCTEEA---HRPVDCDTVAKWVLK  284 (361)
Q Consensus       215 y~~~~~~~~i~~~~~~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~---H~~~~C~~~~~~~~~  284 (361)
                      |++++++.+|..+++++|||  +|++++...  .+...++| .|++.||+.|+.+|   |.|.+|+++++|...
T Consensus         3 Y~~~l~~~~l~~~~~~k~CP--~C~~~~~~~--~~~~~~~C~~C~~~fC~~C~~~w~~~H~~~tC~~~~~wk~~   72 (73)
T d2ct7a1           3 FHKKLTEGVLMRDPKFLWCA--QCSFGFIYE--REQLEATCPQCHQTFCVRCKRQWEEQHRGRSCEDFQNWKRM   72 (73)
T ss_dssp             SSSCCCCSCCCSCCCEECCS--SSCCCEECC--CSCSCEECTTTCCEECSSSCSBCCTTTTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCCCCC--CCCCEeEEC--CCCCEEEcCCCCCeECcccCcchhcCCCCCCHHHHHHHHHc
Confidence            55666677788899999997  699998765  35678999 99999999999999   999999999999654

>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=98.66  E-value=1.6e-08  Score=76.89  Aligned_cols=67  Identities=18%  Similarity=0.398  Sum_probs=47.6

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHhh-cCChHHHHHHHH
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYL-LSSDEDKVKYNR  217 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~~-ll~~~~~~~y~~  217 (361)
                      .+.|+||++.+  .+++.++|||.||..|+..|+..+-      ...+||  .|+..+....+.. ..-..+.+++.+
T Consensus        21 ~l~CpIC~~~~--~~pv~~~CgH~fC~~Ci~~~~~~~~------~~~~CP--~Cr~~~~~~~l~~n~~l~~~ve~l~~   88 (103)
T d1jm7a_          21 ILECPICLELI--KEPVSTKCDHIFCKFCMLKLLNQKK------GPSQCP--LCKNDITKRSLQESTRFSQLVEELLK   88 (103)
T ss_dssp             HTSCSSSCCCC--SSCCBCTTSCCCCSHHHHHHHHSSS------SSCCCT--TTSCCCCTTTCBCCCSSSHHHHHHHH
T ss_pred             CcCCCccCchh--CCeEEcCCCCchhhHHHHHHHHHCC------CCCcCc--CCCCcCChhhCCcCHHHHHHHHHHHH
Confidence            36799999877  5677889999999999999987531      146899  8999887655432 122345555543

>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=98.63  E-value=6.9e-09  Score=68.62  Aligned_cols=49  Identities=24%  Similarity=0.723  Sum_probs=38.0

Q ss_pred             cccccccccccCCc--cccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          142 MTCGICFENYPSDR--LLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       142 ~~C~IC~e~~~~~~--~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      ++|+||++.+....  +..++|||.||..|+.+|+..+        ..+||  .|+..+..
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~--------~~~CP--~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDE--------NGLCP--ACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTS--------CCBCT--TTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhc--------CCCCC--ccCCcCCC
Confidence            47999999886433  3456899999999999998641        34799  89988754

>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=98.56  E-value=1.6e-08  Score=73.99  Aligned_cols=52  Identities=23%  Similarity=0.503  Sum_probs=42.2

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHh
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIY  204 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~  204 (361)
                      .++|+||++.+  .+++.++|||.||..|+..|+...        .-+||  .|+..+....+.
T Consensus        23 ~l~C~IC~~~~--~~pv~~~CgH~FC~~Ci~~~~~~~--------~~~CP--~Cr~p~~~~~l~   74 (86)
T d1rmda2          23 SISCQICEHIL--ADPVETSCKHLFCRICILRCLKVM--------GSYCP--SCRYPCFPTDLE   74 (86)
T ss_dssp             HTBCTTTCSBC--SSEEECTTSCEEEHHHHHHHHHHT--------CSBCT--TTCCBCCGGGCB
T ss_pred             CcCCccCCcch--hcceecCCCChhhHHHHHHHHhhC--------CCcCc--ccCCCCChhhcc
Confidence            57899999876  567888999999999999999652        23699  899988765543

>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=98.41  E-value=9.9e-08  Score=68.67  Aligned_cols=47  Identities=32%  Similarity=0.735  Sum_probs=38.4

Q ss_pred             cccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          142 MTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       142 ~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      ..|+||++.+  .+++.++|||.||..|+..|+..+        .-+||  .|+..|..
T Consensus        24 ~~C~IC~~~~--~~~~~~~CgH~fC~~Ci~~wl~~~--------~~~CP--~Cr~~i~~   70 (79)
T d1fbva4          24 QLCKICAEND--KDVKIEPCGHLMCTSCLTSWQESE--------GQGCP--FCRCEIKG   70 (79)
T ss_dssp             TBCTTTSSSB--CCEECSSSCCEECHHHHHHHHHTT--------CCSCT--TTCCCCCC
T ss_pred             CCCccCCCcC--CCeEEeCCCCeeeHHHHHHHHHHC--------cCcCC--CCCcCccC
Confidence            4699999876  567888999999999999998752        23699  89988753

>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=98.40  E-value=4.5e-08  Score=67.76  Aligned_cols=52  Identities=25%  Similarity=0.643  Sum_probs=38.3

Q ss_pred             ccccccccccccC--C-ccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhH
Q 018073          141 EMTCGICFENYPS--D-RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDM  202 (361)
Q Consensus       141 ~~~C~IC~e~~~~--~-~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~  202 (361)
                      ..+|+||++.+..  . .++.++|||.||..|+..|+...        .-+||  .|+..+....
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~--------~~~CP--~CR~~i~~~~   57 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG--------AGNCP--ECGTPLRKSN   57 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTT--------SSSCT--TTCCCCSSCC
T ss_pred             CCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcC--------cCCCC--CCCcCccccc
Confidence            4679999986421  2 23456899999999999999642        12599  9999886543

>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=98.35  E-value=2.3e-07  Score=66.84  Aligned_cols=51  Identities=12%  Similarity=0.064  Sum_probs=41.2

Q ss_pred             CccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhH
Q 018073          140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDM  202 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~  202 (361)
                      ..+.|+||++.+  .+++.++|||.||+.|+.+|+...        .-.||  .|+..+....
T Consensus         6 ~~l~CpIc~~l~--~dPv~~~cGhtfc~~ci~~~l~~~--------~~~cP--~c~~~l~~~~   56 (80)
T d2c2la2           6 DYLCGKISFELM--REPCITPSGITYDRKDIEEHLQRV--------GHFNP--VTRSPLTQEQ   56 (80)
T ss_dssp             STTBCTTTCSBC--SSEEECSSCCEEETTHHHHHHHHT--------CSSCT--TTCCCCCGGG
T ss_pred             ccccCcCcCchh--hhhcccCCcCeecHHHHHHHHhcC--------CccCC--Cccccccccc
Confidence            468999999877  567889999999999999998651        23688  7888876554

>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=98.34  E-value=1.6e-07  Score=67.42  Aligned_cols=52  Identities=15%  Similarity=0.315  Sum_probs=41.2

Q ss_pred             CccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHH
Q 018073          140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMI  203 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i  203 (361)
                      ..+.|+||++.+  .+++.++|||.||+.|+..|+...        .-.||  .|+..+....+
T Consensus         7 ~~l~CpIc~~~m--~dPV~~~cgh~fc~~ci~~~~~~~--------~~~cP--~~~~~l~~~~l   58 (78)
T d1t1ha_           7 EYFRCPISLELM--KDPVIVSTGQTYERSSIQKWLDAG--------HKTCP--KSQETLLHAGL   58 (78)
T ss_dssp             SSSSCTTTSCCC--SSEEEETTTEEEEHHHHHHHHTTT--------CCBCT--TTCCBCSSCCC
T ss_pred             ccCCCcCcCchh--hCceEccCCCcchHHHHHHHHHHC--------CCCCC--cccccCCcccc
Confidence            579999999877  567788999999999999999752        23688  78887765443

>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=98.33  E-value=1.5e-07  Score=65.71  Aligned_cols=46  Identities=35%  Similarity=0.759  Sum_probs=36.9

Q ss_pred             cccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          142 MTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       142 ~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      -.|+||++.+. +..+.++|||.||..|+..|+..         .-+||  .|+..+.
T Consensus         6 d~C~IC~~~~~-~~~~~~~C~H~Fc~~Ci~~w~~~---------~~~CP--~CR~~i~   51 (68)
T d1chca_           6 ERCPICLEDPS-NYSMALPCLHAFCYVCITRWIRQ---------NPTCP--LCKVPVE   51 (68)
T ss_dssp             CCCSSCCSCCC-SCEEETTTTEEESTTHHHHHHHH---------SCSTT--TTCCCCC
T ss_pred             CCCccCCcCcc-CCcEEeCCCCcCcHHHHHHHHHh---------CCcCC--CCCcchH
Confidence            45999999874 34566899999999999999975         13699  8998764

>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=98.23  E-value=2.2e-07  Score=61.84  Aligned_cols=47  Identities=23%  Similarity=0.668  Sum_probs=36.4

Q ss_pred             ccccccccccccCC-ccccc-cCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCcc
Q 018073          141 EMTCGICFENYPSD-RLLAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV  198 (361)
Q Consensus       141 ~~~C~IC~e~~~~~-~~~~l-~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i  198 (361)
                      ..+|+||++++... .+..+ .|+|.||..|+..|+..+         -.||  .|+..|
T Consensus         5 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~---------~~CP--~CR~~i   53 (55)
T d1iyma_           5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH---------STCP--LCRLTV   53 (55)
T ss_dssp             SCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTC---------CSCS--SSCCCS
T ss_pred             CCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhC---------CcCC--CCCCEe
Confidence            45799999998754 34444 599999999999998641         2599  898765

>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=98.23  E-value=4.5e-07  Score=69.90  Aligned_cols=54  Identities=31%  Similarity=0.627  Sum_probs=40.3

Q ss_pred             ccccccccccccCC----------------ccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          141 EMTCGICFENYPSD----------------RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       141 ~~~C~IC~e~~~~~----------------~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      ...|+||++.+...                .+..++|+|.||..||..|+..+-..+    .++||  .|+..+..
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~----~~~CP--~CR~~~~~   94 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDG----SLQCP--SCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSS----CCBCT--TTCCBSSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCC----CCccc--cccchhcc
Confidence            45799999986421                123468999999999999998754333    57899  89987744

>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=98.22  E-value=3e-07  Score=61.43  Aligned_cols=50  Identities=18%  Similarity=0.179  Sum_probs=39.1

Q ss_pred             cccccccccccCCccccc-cCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhHHh
Q 018073          142 MTCGICFENYPSDRLLAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIY  204 (361)
Q Consensus       142 ~~C~IC~e~~~~~~~~~l-~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~i~  204 (361)
                      +.|+||++.+  .+++.+ .|||.||++|+.+|+...         -+||  .|+..+..+.+-
T Consensus         1 l~C~Ic~~~~--~~Pv~~~~cGh~fc~~cI~~~l~~~---------~~CP--~c~~~l~~~dLi   51 (56)
T d2baya1           1 MLCAISGKVP--RRPVLSPKSRTIFEKSLLEQYVKDT---------GNDP--ITNEPLSIEEIV   51 (56)
T ss_dssp             CCCTTTCSCC--SSEEEETTTTEEEEHHHHHHHHHHH---------SBCT--TTCCBCCGGGCE
T ss_pred             CCCccCCchH--HhcCccCCCCCcccHHHHHHHHhhc---------cCCC--ccCCcCCHHhce
Confidence            4699999876  455554 699999999999999862         2599  799988776543

>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=98.20  E-value=2.2e-07  Score=62.01  Aligned_cols=44  Identities=25%  Similarity=0.536  Sum_probs=35.1

Q ss_pred             ccccccccccccCCccccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccch
Q 018073          141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ  200 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~  200 (361)
                      .+.|+||++.+  .+++.++|||.||..|+.+            ...+||  .|+..++.
T Consensus         6 ~l~C~IC~~~~--~~p~~lpCgH~fC~~Ci~~------------~~~~CP--~Cr~~~~~   49 (56)
T d1bora_           6 FLRCQQCQAEA--KCPKLLPCLHTLCSGCLEA------------SGMQCP--ICQAPWPL   49 (56)
T ss_dssp             CSSCSSSCSSC--BCCSCSTTSCCSBTTTCSS------------SSSSCS--SCCSSSSC
T ss_pred             CCCCcccCccc--CCCEEecCCCHHhHHHHHc------------CCCcCc--CCCCcccC
Confidence            46899999987  4677889999999999742            145799  89988754

>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=98.15  E-value=1.8e-07  Score=70.13  Aligned_cols=46  Identities=28%  Similarity=0.660  Sum_probs=35.3

Q ss_pred             ccccccccccccCCcccc-ccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchh
Q 018073          141 EMTCGICFENYPSDRLLA-AACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD  201 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~~~~-l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~  201 (361)
                      .++|+||++.+  .+++. .+|||.||..|+..|+..           +||  .|+..+...
T Consensus        22 ~l~C~IC~~~~--~~pv~~~~CgH~fC~~Ci~~~~~~-----------~CP--~Cr~~~~~~   68 (97)
T d1jm7b_          22 LLRCSRCTNIL--REPVCLGGCEHIFCSNCVSDCIGT-----------GCP--VCYTPAWIQ   68 (97)
T ss_dssp             TTSCSSSCSCC--SSCBCCCSSSCCBCTTTGGGGTTT-----------BCS--SSCCBCSCS
T ss_pred             cCCCccCCchh--hcCceeCCCCCchhHHHHHHHHhc-----------ccc--ccCCcCchh
Confidence            46799999987  34554 479999999999888632           499  899876543

>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=97.43  E-value=7.7e-05  Score=55.26  Aligned_cols=50  Identities=10%  Similarity=-0.059  Sum_probs=38.0

Q ss_pred             CccccccccccccCCccccccCC-CcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccchhH
Q 018073          140 EEMTCGICFENYPSDRLLAAACG-HPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDM  202 (361)
Q Consensus       140 ~~~~C~IC~e~~~~~~~~~l~Cg-H~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~~~~  202 (361)
                      ..+.||||.+.+  .+++.++|+ |.||+.|+..|+..    +     -.||  .|+..+....
T Consensus        21 ~~f~CPI~~~lm--~dPV~~~~~~~ty~r~~I~~~l~~----~-----~~~P--~~~~~l~~~~   71 (98)
T d1wgma_          21 DEFLDPIMSTLM--CDPVVLPSSRVTVDRSTIARHLLS----D-----QTDP--FNRSPLTMDQ   71 (98)
T ss_dssp             TTTBCTTTCSBC--SSEEECTTTCCEEEHHHHHHHTTT----S-----CBCT--TTCSBCCTTT
T ss_pred             HHhCCcCchhHH--HHHHhcccccchhhHHHHHHHHHh----c-----CCcc--cccccccchh
Confidence            479999999876  677777755 58999999999854    1     2588  6887776543

>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=97.43  E-value=7.3e-05  Score=50.06  Aligned_cols=52  Identities=21%  Similarity=0.421  Sum_probs=37.1

Q ss_pred             CCccccccccccccCCccccc---cCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          139 GEEMTCGICFENYPSDRLLAA---ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       139 ~~~~~C~IC~e~~~~~~~~~l---~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      .....|.||++.+....+...   +|+|.|+..||..|+..+-       ..+||  .|+..+.
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~-------~~~CP--~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISR-------NTACQ--ICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHT-------CSBCT--TTCCBCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCC-------CCCCc--ccCCeee
Confidence            345679999998753332222   3579999999999997642       24799  8988764

>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=97.40  E-value=5.3e-05  Score=55.03  Aligned_cols=48  Identities=21%  Similarity=0.400  Sum_probs=34.6

Q ss_pred             ccccccccccccCCc----------------cccccCCCcccHhhHHHHHHhhhcCCCCeeeeccCCCcCCCccc
Q 018073          141 EMTCGICFENYPSDR----------------LLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG  199 (361)
Q Consensus       141 ~~~C~IC~e~~~~~~----------------~~~l~CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~~~C~~~i~  199 (361)
                      .-.|+||++.+....                +..++|||.|+..|+..|++.+         -.||  .|+..+.
T Consensus        21 ~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~---------~~CP--~CR~~~~   84 (88)
T d3dplr1          21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR---------QVCP--LDNREWE   84 (88)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC---------SBCS--SSCSBCC
T ss_pred             CCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHC---------CcCC--CCCCccc
Confidence            345888877653311                3446799999999999999752         2599  8998764

>d1v92a_ a.5.2.3 (A:) NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TAP-C domain-like
domain: NSFL1 (p97 ATPase) cofactor p47, UBA-like domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.23  E-value=0.005  Score=38.29  Aligned_cols=41  Identities=12%  Similarity=0.329  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHcCCChHHHHHHhhhc
Q 018073           78 RQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFAD  118 (361)
Q Consensus        78 ~~~~~i~~v~~~l~i~~~~a~~LL~~~~w~~~~l~e~~~~~  118 (361)
                      .+.+.|.+..+|.+.++..|+..|...+||++..+..||.+
T Consensus         4 ~~~~lI~qF~~iTg~~~~~A~~~Le~~~w~Le~Ai~~yfe~   44 (46)
T d1v92a_           4 ERQDALREFVAVTGAEEDRARFFLESAGWDLQIALASFYED   44 (46)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHTTSCSHHHHHHHHHT
T ss_pred             cHHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHHhc
Confidence            46788999999999999999999999999999999999864

>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=95.55  E-value=0.0096  Score=39.78  Aligned_cols=50  Identities=24%  Similarity=0.576  Sum_probs=37.9

Q ss_pred             CCCccccccccccccCCcccccc--CCCcccHhhHHHHHHhhhcCCCCeeeeccCC
Q 018073          138 DGEEMTCGICFENYPSDRLLAAA--CGHPFCSSCWTGYISTAINDGPGCLMLRCPD  191 (361)
Q Consensus       138 ~~~~~~C~IC~e~~~~~~~~~l~--CgH~fC~~Cl~~~i~~~i~~~~~~~~i~CP~  191 (361)
                      ++..+.|.+|.+.+...-++..+  =+|.||..|-+.+|+.+-..+    .+-||.
T Consensus         5 ~~~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~q~~~~----evyCPS   56 (80)
T d2cs3a1           5 NSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGATG----EVYCPS   56 (80)
T ss_dssp             SCCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHHHHSSS----CCCCTT
T ss_pred             CCCceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHhcCCCC----cEECCC
Confidence            45568899999987554444433  379999999999999987765    467875

>d1wd2a_ g.44.1.1 (A:) Ariadne-1 protein homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Ariadne-1 protein homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.71  E-value=0.0054  Score=40.49  Aligned_cols=37  Identities=35%  Similarity=0.894  Sum_probs=29.8

Q ss_pred             CccccCCCCCCcceeeecCCCCceEEec---cCCccccccCCcC
Q 018073          229 KTKWCPAPGCDYAVDFVVGSGNYDVTCR---CSYSFCWNCTEEA  269 (361)
Q Consensus       229 ~~~~CP~p~C~~~i~~~~~~~~~~v~C~---C~~~fC~~C~~~~  269 (361)
                      +.+.||.  |+.+|...  .+...++|.   |++.||+.|+++|
T Consensus         5 ntK~CP~--C~~~ieK~--~GCnhM~C~~~~C~~~fCw~C~~~~   44 (60)
T d1wd2a_           5 NTKECPK--CHVTIEKD--GGCNHMVCRNQNCKAEFCWVCLGPW   44 (60)
T ss_dssp             CCCCCTT--TCCCCSSC--CSCCSSSCCSSGGGSCCSSSSCSCS
T ss_pred             cCcCCCC--CCCeEEEC--CCCCCeEeCCCCCCCeEECCCCCcc
Confidence            4678985  99988664  567888993   9999999999765

>d2jnea1 g.41.18.1 (A:1-71) Hypothetical protein YfgJ {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: Rubredoxin-like
superfamily: YfgJ-like
family: YfgJ-like
domain: Hypothetical protein YfgJ
species: Escherichia coli [TaxId: 562]

Probab=92.57  E-value=0.031  Score=37.37  Aligned_cols=56  Identities=23%  Similarity=0.525  Sum_probs=42.0

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCcc-----ceeccccccccc---cCCCCCCcccCCCccchhcccCC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKF-----EFCWLCLGQWSD---HGERTGGFYACNRYETAKQEGVV  361 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~-----~FCw~C~~~~~~---h~~~~g~~y~C~~~~~~~~~~~~  361 (361)
                      ..||.|+..++..+|  +..|. .|..     -||--|.++...   .|.   --|.|+.-..-+.+.+|
T Consensus         3 ~~CP~C~~eL~~~~~--~~~C~-~C~~~~~~~a~CPdC~~~Le~LkACGA---vdYFC~~cn~LiSKkrv   66 (71)
T d2jnea1           3 LHCPQCQHVLDQDNG--HARCR-SCGEFIEMKALCPDCHQPLQVLKACGA---VDYFCQHGHGLISKKRV   66 (71)
T ss_dssp             CBCSSSCSBEEEETT--EEEET-TTCCEEEEEEECTTTCSBCEEEEETTE---EEEEETTTTEEECTTTS
T ss_pred             CcCCCccCcccccCC--CEehh-hhhhhheeEEeCCccccHHHHHHhccc---hhhhhccCCceeEeeeE
Confidence            479999999998887  99998 7965     579999988654   443   45778876665555543

>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=92.45  E-value=0.016  Score=39.09  Aligned_cols=37  Identities=24%  Similarity=0.767  Sum_probs=29.4

Q ss_pred             hcCCCCCCCcceeecCCCCceeecCCCccceeccccccccccC
Q 018073          298 NSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHG  340 (361)
Q Consensus       298 ~~k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~  340 (361)
                      ....||-|.-.+.     +..++. +|||.||+.|...|-..+
T Consensus         4 ~~d~C~IC~~~~~-----~~~~~~-~C~H~Fc~~Ci~~w~~~~   40 (68)
T d1chca_           4 VAERCPICLEDPS-----NYSMAL-PCLHAFCYVCITRWIRQN   40 (68)
T ss_dssp             CCCCCSSCCSCCC-----SCEEET-TTTEEESTTHHHHHHHHS
T ss_pred             CCCCCccCCcCcc-----CCcEEe-CCCCcCcHHHHHHHHHhC
Confidence            3478999988774     245777 699999999999997654

>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=91.52  E-value=0.022  Score=37.99  Aligned_cols=40  Identities=28%  Similarity=0.551  Sum_probs=29.1

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccccCC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGE  341 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~~  341 (361)
                      ..||-|...+..+....-+.-  +|||.||..|+..|-.++.
T Consensus         4 ~~CpIC~~~~~~~~~~~~~~~--~C~H~fc~~Ci~~~~~~~~   43 (65)
T d1g25a_           4 QGCPRCKTTKYRNPSLKLMVN--VCGHTLCESCVDLLFVRGA   43 (65)
T ss_dssp             TCCSTTTTHHHHCSSCCEEEC--TTCCCEEHHHHHHHHHTTS
T ss_pred             CCCCcCCceeecCCceEEEeC--ccChHhhHHHHHHHhCcCc
Confidence            479999877655554444443  4999999999999975543

>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=90.84  E-value=0.032  Score=39.46  Aligned_cols=47  Identities=23%  Similarity=0.551  Sum_probs=31.1

Q ss_pred             ccCCCCCCcceeeecCCCCceEEeccCCccccccCCcCCCCCCchhHHHHHHhhhhhhHHHHHHHhhcCCCCCCCcceee
Q 018073          232 WCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEK  311 (361)
Q Consensus       232 ~CP~p~C~~~i~~~~~~~~~~v~C~C~~~fC~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~~i~~~~k~CP~C~~~IeK  311 (361)
                      -||-  |...+.       .-+.-.||+.||..|..                         .|+....+.||.|+.++..
T Consensus        25 ~C~I--C~~~~~-------~pv~~~CgH~FC~~Ci~-------------------------~~~~~~~~~CP~Cr~p~~~   70 (86)
T d1rmda2          25 SCQI--CEHILA-------DPVETSCKHLFCRICIL-------------------------RCLKVMGSYCPSCRYPCFP   70 (86)
T ss_dssp             BCTT--TCSBCS-------SEEECTTSCEEEHHHHH-------------------------HHHHHTCSBCTTTCCBCCG
T ss_pred             CCcc--CCcchh-------cceecCCCChhhHHHHH-------------------------HHHhhCCCcCcccCCCCCh
Confidence            5885  765431       12344899999999962                         2344444689999998864


Q ss_pred             c
Q 018073          312 N  312 (361)
Q Consensus       312 ~  312 (361)
                      .
T Consensus        71 ~   71 (86)
T d1rmda2          71 T   71 (86)
T ss_dssp             G
T ss_pred             h
Confidence            3

>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=90.81  E-value=0.15  Score=35.05  Aligned_cols=53  Identities=19%  Similarity=0.459  Sum_probs=33.2

Q ss_pred             hCCCccccCCCCCCcceeeecCCCCceEEeccCCccccccCCcCCCCCCchhHHHHHHhhhhhhHHHHHHHhhcCCCCCC
Q 018073          226 DNRKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRC  305 (361)
Q Consensus       226 ~~~~~~~CP~p~C~~~i~~~~~~~~~~v~C~C~~~fC~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~~i~~~~k~CP~C  305 (361)
                      ......-||-  |-..+.       ..+.-.||+.||..|..                         .|+..+.+.||-|
T Consensus        19 ~~~~~~~C~I--C~~~~~-------~~~~~~CgH~fC~~Ci~-------------------------~wl~~~~~~CP~C   64 (79)
T d1fbva4          19 MGSTFQLCKI--CAENDK-------DVKIEPCGHLMCTSCLT-------------------------SWQESEGQGCPFC   64 (79)
T ss_dssp             TSCCTTBCTT--TSSSBC-------CEECSSSCCEECHHHHH-------------------------HHHHTTCCSCTTT
T ss_pred             cCCCCCCCcc--CCCcCC-------CeEEeCCCCeeeHHHHH-------------------------HHHHHCcCcCCCC
Confidence            3444556885  653221       11222799999998852                         3444445789999


Q ss_pred             Ccceeec
Q 018073          306 KRPIEKN  312 (361)
Q Consensus       306 ~~~IeK~  312 (361)
                      +..|.+.
T Consensus        65 r~~i~~~   71 (79)
T d1fbva4          65 RCEIKGT   71 (79)
T ss_dssp             CCCCCCC
T ss_pred             CcCccCC
Confidence            9999754

>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=89.72  E-value=0.038  Score=34.95  Aligned_cols=33  Identities=27%  Similarity=0.866  Sum_probs=23.1

Q ss_pred             EeccCCccccccCCcCCCCCCchhHHHHHHhhhhhhHHHHHHHhhcCCCCCCCcceee
Q 018073          254 TCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEK  311 (361)
Q Consensus       254 ~C~C~~~fC~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~~i~~~~k~CP~C~~~IeK  311 (361)
                      .+.||+.||..|..            +             |+......||.|+.++..
T Consensus        19 ~~~CgH~~c~~C~~------------~-------------w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_          19 PCTCGYQICRFCWH------------R-------------IRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             SSSSSCCCCHHHHH------------H-------------HTTTSCCBCTTTCCBCSC
T ss_pred             ecCCCCccchHHHH------------H-------------HHhhcCCCCCccCCcCCC
Confidence            45899999998852            2             333333579999998854

>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=89.37  E-value=0.08  Score=38.02  Aligned_cols=33  Identities=21%  Similarity=0.545  Sum_probs=27.0

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccc
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSD  338 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~  338 (361)
                      -.||-|...+.     +.++.. .|||.||..|...|-.
T Consensus        23 l~C~IC~~~~~-----~pv~~~-~CgH~fC~~Ci~~~~~   55 (97)
T d1jm7b_          23 LRCSRCTNILR-----EPVCLG-GCEHIFCSNCVSDCIG   55 (97)
T ss_dssp             TSCSSSCSCCS-----SCBCCC-SSSCCBCTTTGGGGTT
T ss_pred             CCCccCCchhh-----cCceeC-CCCCchhHHHHHHHHh
Confidence            47999999886     347776 5999999999988863

>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=87.30  E-value=0.085  Score=38.33  Aligned_cols=34  Identities=24%  Similarity=0.647  Sum_probs=26.0

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccccC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHG  340 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~  340 (361)
                      -.||-|...++.     .++-  +|||.||..|...|-.+.
T Consensus        22 l~CpIC~~~~~~-----pv~~--~CgH~fC~~Ci~~~~~~~   55 (103)
T d1jm7a_          22 LECPICLELIKE-----PVST--KCDHIFCKFCMLKLLNQK   55 (103)
T ss_dssp             TSCSSSCCCCSS-----CCBC--TTSCCCCSHHHHHHHHSS
T ss_pred             cCCCccCchhCC-----eEEc--CCCCchhhHHHHHHHHHC
Confidence            479999988862     4554  499999999998886543

>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=87.25  E-value=0.19  Score=32.07  Aligned_cols=30  Identities=27%  Similarity=0.689  Sum_probs=22.5

Q ss_pred             EeccCCccccccCCcCCCCCCchhHHHHHHhhhhhhHHHHHHHhhcCCCCCCCcceeec
Q 018073          254 TCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKN  312 (361)
Q Consensus       254 ~C~C~~~fC~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~~i~~~~k~CP~C~~~IeK~  312 (361)
                      ...||+.||..|...+                             ...||.|+..|...
T Consensus        21 ~lpCgH~fC~~Ci~~~-----------------------------~~~CP~Cr~~~~~~   50 (56)
T d1bora_          21 LLPCLHTLCSGCLEAS-----------------------------GMQCPICQAPWPLG   50 (56)
T ss_dssp             CSTTSCCSBTTTCSSS-----------------------------SSSCSSCCSSSSCC
T ss_pred             EecCCCHHhHHHHHcC-----------------------------CCcCcCCCCcccCC
Confidence            3479999999997421                             15799999988644

>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=85.80  E-value=0.14  Score=32.58  Aligned_cols=38  Identities=18%  Similarity=0.430  Sum_probs=29.1

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccceeccccccccccC
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHG  340 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~  340 (361)
                      ..||-|...++..+-  -++.. .|+|.||+.|...|-...
T Consensus         6 ~~C~ICl~~~~~~~~--~~~l~-~C~H~Fh~~Ci~~Wl~~~   43 (55)
T d1iyma_           6 VECAVCLAELEDGEE--ARFLP-RCGHGFHAECVDMWLGSH   43 (55)
T ss_dssp             CCCTTTCCCCCTTSC--CEECS-SSCCEECTTHHHHTTTTC
T ss_pred             CCCeEECccccCCCE--EEEeC-CCCCcccHHHHHHHHHhC
Confidence            579999988875433  23455 599999999999998654

>d2k4xa1 g.41.8.8 (A:1-55) Ribosomal protein S27ae {Thermoplasma acidophilum [TaxId: 2303]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein S27a
domain: Ribosomal protein S27ae
species: Thermoplasma acidophilum [TaxId: 2303]

Probab=84.52  E-value=0.24  Score=31.16  Aligned_cols=28  Identities=21%  Similarity=0.617  Sum_probs=21.7

Q ss_pred             cCCCCCCCcceeecCCCCceeecCCCccc
Q 018073          299 SKPCPRCKRPIEKNQGCMHMTCTPPCKFE  327 (361)
Q Consensus       299 ~k~CP~C~~~IeK~~GCnhm~C~~~C~~~  327 (361)
                      .+.||+|+.-|.-..-=+..+|. +|++-
T Consensus        18 ~k~CP~CG~GvFmA~H~dR~~CG-KCgyT   45 (55)
T d2k4xa1          18 HRFCPRCGPGVFLAEHADRYSCG-RCGYT   45 (55)
T ss_dssp             SCCCTTTTTTCCCEECSSEEECT-TTCCC
T ss_pred             cCcCcCCCCcEEeeecCCCcccc-CCccc
Confidence            37899998877655555899999 79864

>d2akla2 g.41.3.5 (A:3-40) Hypothetical protein PA0128, N-terminal domain {Pseudomonas aeruginosa [TaxId: 287]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: PhnA zinc-binding domain
domain: Hypothetical protein PA0128, N-terminal domain
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=81.18  E-value=0.61  Score=26.93  Aligned_cols=27  Identities=30%  Similarity=0.930  Sum_probs=19.0

Q ss_pred             CCCCCCCcceeecCCCCceeecCCCccce
Q 018073          300 KPCPRCKRPIEKNQGCMHMTCTPPCKFEF  328 (361)
Q Consensus       300 k~CP~C~~~IeK~~GCnhm~C~~~C~~~F  328 (361)
                      -+||+|+...-=..|= .+.|. .|+|+|
T Consensus         4 P~CP~C~seytYedg~-l~vCP-eC~hEW   30 (38)
T d2akla2           4 PPCPQCNSEYTYEDGA-LLVCP-ECAHEW   30 (38)
T ss_dssp             CCCTTTCCCCCEECSS-SEEET-TTTEEE
T ss_pred             CcCCCCCCcceEcCCC-EEECC-cccCcC
Confidence            4799999877655553 47787 577664

>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=80.45  E-value=0.62  Score=31.67  Aligned_cols=48  Identities=6%  Similarity=-0.033  Sum_probs=30.0

Q ss_pred             CccccCCCCCCcceeeecCCCCceEEeccCCccccccCCcCCCCCCchhHHHHHHhhhhhhHHHHHHHhhcCCCCCCCcc
Q 018073          229 KTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRP  308 (361)
Q Consensus       229 ~~~~CP~p~C~~~i~~~~~~~~~~v~C~C~~~fC~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~~i~~~~k~CP~C~~~  308 (361)
                      ....||-  |..++.      .+ |.-.||+.||..|..                         .|+..+...||.|+.+
T Consensus         6 ~~l~CpI--c~~l~~------dP-v~~~cGhtfc~~ci~-------------------------~~l~~~~~~cP~c~~~   51 (80)
T d2c2la2           6 DYLCGKI--SFELMR------EP-CITPSGITYDRKDIE-------------------------EHLQRVGHFNPVTRSP   51 (80)
T ss_dssp             STTBCTT--TCSBCS------SE-EECSSCCEEETTHHH-------------------------HHHHHTCSSCTTTCCC
T ss_pred             ccccCcC--cCchhh------hh-cccCCcCeecHHHHH-------------------------HHHhcCCccCCCcccc
Confidence            3446885  665542      12 444799999988752                         2333344678888887


Q ss_pred             ee
Q 018073          309 IE  310 (361)
Q Consensus       309 Ie  310 (361)
                      +.
T Consensus        52 l~   53 (80)
T d2c2la2          52 LT   53 (80)
T ss_dssp             CC
T ss_pred             cc
Confidence            75

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=80.45  E-value=0.75  Score=31.53  Aligned_cols=61  Identities=21%  Similarity=0.645  Sum_probs=41.7

Q ss_pred             ccccCCCCCCcceeeecCCCCceEEe-ccCCccccccCCcCCCCCCchhHHHHHHhhhhhhHHHHHHHhhcCCCCCCCcc
Q 018073          230 TKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNCTEEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRP  308 (361)
Q Consensus       230 ~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~~i~~~~k~CP~C~~~  308 (361)
                      ...|-.  |+--|-.. ..+...|-| .|++..|..|.          ++.               ++...+-||.|+++
T Consensus        16 ~q~Cqi--CGd~VG~~-~~Ge~FVAC~eC~FPvCrpCy----------EYE---------------rkeG~q~CpqCkt~   67 (93)
T d1weoa_          16 GQFCEI--CGDQIGLT-VEGDLFVACNECGFPACRPCY----------EYE---------------RREGTQNCPQCKTR   67 (93)
T ss_dssp             SCBCSS--SCCBCCBC-SSSSBCCSCSSSCCCCCHHHH----------HHH---------------HHTSCSSCTTTCCC
T ss_pred             cchhhh--cccccccC-CCCCEEEEecccCCccchHHH----------HHH---------------HhccCccCcccCCh
Confidence            345654  77666554 335678889 89999887664          322               12235899999999


Q ss_pred             eeecCCCCce
Q 018073          309 IEKNQGCMHM  318 (361)
Q Consensus       309 IeK~~GCnhm  318 (361)
                      ..+-.|+..+
T Consensus        68 Ykr~kgsprv   77 (93)
T d1weoa_          68 YKRLRGSPRV   77 (93)
T ss_dssp             CCCCTTCCCC
T ss_pred             hhhhcCCCCC
Confidence            9988887654