Citrus Sinensis ID: 039247

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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
MSWIHHQMKQKDDLYTYPPPLSPSSFHRESTSPSSSSSGTRISPAVLFIIVILAVLFFISGLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDALQRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQKTAEIEEIVVDKGVLPVRLGKFRRLNDGLAVEAGGETSSSNLDARRCYSMGSYQYVLGNSDLRVSLCTDRCGRDTKLSKGTENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLWSKKGKFSSSSDAQMGMPPSLKMDLPWLGKTEEK
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHHHHHcccccccccHHHHHHcccEEEEccccccccccccEEccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccEEEccEEEcccccccccccccccccccccccEEcccccHHccccccEEEEcccccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccEEEEEcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHHccHHccccccccHHHHHHccEEEEEccccccccccEEEEEccccccccEEEcccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccEcccccccccccccccccccccccEEEEcccEEEEEccccEEEEEccccccccccHHcccccccccccccccccccEEEEEccccEEEEEEEEEccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mswihhqmkqkddlytyppplspssfhrestspsssssgtrispAVLFIIVILAVLFFISGLLHLLVRFLVkhpsssasnsqsnarypteisgsDALQRQLQQLFHLHDsgldqafidalpvfqykeivglkepfdcavclcefsekdklrllpmcshafHINCIdtwllsnstcplcrdtlftpgfsienpmfdfddfreedgghvcgengltasqKTAEIEEIVVdkgvlpvrlgkfrrlndglaveaggetsssnldarrcysmGSYQYVLGNSDLRVSLctdrcgrdtklskgtennrnspvdgdveakkisnmakgesfsVSKIWLWskkgkfssssdaqmgmppslkmdlpwlgkteek
Flexible Loop (DISEMBL)
MSWIHHQMKQKDDLYTYPPPLSPSSFHREstspsssssgtriSPAVLFIIVILAVLFFISGLLHLLVRFLVKHPsssasnsqsnarYPTEISGSDALQRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQKTAEIEeivvdkgvlpvrlgkfrrlndglaveaggetsssnldarrCYSMGSYQYVLGNSDLRVSLCTDRCGRdtklskgtennrnspvdgdvEAKKisnmakgesfsvskIWLWSKKGKFSsssdaqmgmppslkmdlpwlgkteek
Low Complexity Region (SEG)
MSWIHHQMKQKDDLYTYppplspssfhrestspsssssgtrisPavlfiivilavlffiSGLLHLLVRFLVKHPsssasnsqsnaRYPTEISGSDAlqrqlqqlfhlhDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSIENPMfdfddfREEDGGHVCGENGLTASQKTAEIEEIVVDKGVLPVRLGKFRRLNDGLAVEAGGETSSSNLDARRCYSMGSYQYVLGNSDLRVSLCTDRCGRDTKLSKGTENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLWSKKGKFSSSSDAQMGMPPSLKMDLPWLGKTEEK
Disordered region (IsUnstruct)
******************************************SPAVLFIIVILAVLFFISGLLHLLVRFLVK****************************LQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQKTAEIEEIVVDKGVLPVRLGKFRRLNDGLAVEA********LDARRCYSMGSYQYVLGNSDLRVSLCTDRCG***********************************SVSKIWLWS********************************
Disordered Region (DISOPRED)
********************************************AVLFIIVILAVLFFISGLLHLLVRFLVKH*************************************GLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF*******************************************************************************************************************************************************************************LG*****
Disordered Region (DISEMBL)
***********DDLYTYPPPLSP*****************RISPAVLFIIVILAVLFFISGLLHLLVRFLVKH*****************ISGSDALQRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQKTAEIEEIVVDKGVLPVRLGKFRRLNDGLAVEAGGETSSSNLDARRCYSMGSYQYVLGNSDLRVSLCTDRCGRDTKLSKGTENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLWSKK***********GMPPSLKMDLPWLGKTEEK
Disordered Region (DISPRO)
*SWIHHQMKQKDDLYTYPPPLSP****************TRISPAVLFIIVILAVLFFISGLLHLLVRFLVKH*************************RQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL**********************************************KGVLPVRLGKF*******************LDARRCYSMGSYQYVLGNSDLRVSLCTD**************************KKISNMAKGESFSVSKIWLWSKK******************************
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSWIHHQMKQKDDLYTYPPPLSPSSFHRESTSPSSSSSGTRISPAVLFIIVILAVLFFISGLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDALQRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQKTAEIEEIVVDKGVLPVRLGKFRRLNDGLAVEAGGETSSSNLDARRCYSMGSYQYVLGNSDLRVSLCTDRCGRDTKLSKGTENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLWSKKGKFSSSSDAQMGMPPSLKMDLPWLGKTEEK
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	365	2.2.26 [Sep-21-2011]
Q9FL07	376	RING-H2 finger protein AT	yes	no	0.945	0.917	0.662	1e-127
Q8GW38	369	RING-H2 finger protein AT	no	no	0.890	0.880	0.552	6e-83
Q9ZV53	423	Putative RING-H2 finger p	no	no	0.810	0.699	0.414	9e-49
Q940Q4	472	RING-H2 finger protein AT	no	no	0.668	0.516	0.428	1e-46
Q7X843	349	RING-H2 finger protein AT	no	no	0.643	0.673	0.406	6e-41
Q9FHG8	210	Putative RING-H2 finger p	no	no	0.364	0.633	0.535	2e-37
Q8W571	323	RING-H2 finger protein AT	no	no	0.375	0.424	0.360	8e-23
Q9M0R6	302	Putative RING-H2 finger p	no	no	0.427	0.516	0.342	2e-20
Q8LFY8	413	RING-H2 finger protein AT	no	no	0.479	0.423	0.318	3e-20
Q9SRQ8	356	RING-H2 finger protein AT	no	no	0.383	0.393	0.366	3e-20

>sp|Q9FL07|ATL46_ARATH RING-H2 finger protein ATL46 OS=Arabidopsis thaliana GN=ATL46 PE=2 SV=1

 Score =  454 bits (1169), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 251/379 (66%), Positives = 286/379 (75%), Gaps = 34/379 (8%)

Query: 1   MSWIHHQMKQKDDLYTYPPPLSPSSFHRESTSPSSSSSGTRISPAVLFIIVILAVLFFIS 60
           MSW+   ++QKD  + YPPP          +     SSG RISPAVLF+IVILAVLFFIS
Sbjct: 1   MSWVRFTIEQKDGNFAYPPPFYKDPILSPPSP-PPPSSGNRISPAVLFVIVILAVLFFIS 59

Query: 61  GLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDALQRQLQQLFHLHDSGLDQAFIDAL 120
           GLLHLLVRFL+KHPS++AS S+SN R+P EIS SDALQRQLQQLFHL+DSGLDQAFIDAL
Sbjct: 60  GLLHLLVRFLIKHPSATAS-SRSN-RFP-EISTSDALQRQLQQLFHLNDSGLDQAFIDAL 116

Query: 121 PVFQYKEIVGL----------KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL 170
           PVF YKEIVG           +EPFDCAVCLCEFSEKDKLRLLPMCSHAFH+NCIDTWL 
Sbjct: 117 PVFHYKEIVGSAGGGGGNGAAQEPFDCAVCLCEFSEKDKLRLLPMCSHAFHLNCIDTWLQ 176

Query: 171 SNSTCPLCRDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQKTAEIEEIVVDKG 230
           SNSTCPLCR TLF+PGFS+ENPMFDFDD RE++ G    ENG   SQKT EI+EIVV+KG
Sbjct: 177 SNSTCPLCRGTLFSPGFSMENPMFDFDDIREDEEG--VTENG---SQKTMEIQEIVVEKG 231

Query: 231 VLPVRLGKFRRLND-----GLAVEAGGETSSSNLDARRCYSMGSYQYVLGNSDLRVSLCT 285
           VLPVRLGKF+RL++     G  V AGGETSSSNLDARRC+SMGSYQY+LGNS+L+V    
Sbjct: 232 VLPVRLGKFKRLDNVGNGQGQDVVAGGETSSSNLDARRCFSMGSYQYILGNSELKVPFAN 291

Query: 286 DRCGRDTKLSKGTENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLWSKKGKFSSSSDAQ 345
           DR  R     K +E   NS  + +   KKI+ +AKGESFSVSKIWLW KK KF  SSDAQ
Sbjct: 292 DRLPRLKPQDKESEQTGNSSSEDN---KKINTVAKGESFSVSKIWLWPKKDKF--SSDAQ 346

Query: 346 MGMP-PSLKMD----LPWL 359
             +P  SL +D    LPW+
Sbjct: 347 RRLPSSSLNVDDLPKLPWM 365

Arabidopsis thaliana (taxid: 3702)

>sp|Q8GW38|ATL47_ARATH RING-H2 finger protein ATL47 OS=Arabidopsis thaliana GN=ATL47 PE=2 SV=1

 Score =  308 bits (788), Expect = 6e-83,   Method: Compositional matrix adjust.
 Identities = 196/355 (55%), Positives = 239/355 (67%), Gaps = 30/355 (8%)

Query: 4   IHHQMKQKDDLYTYPPPLSPSSF---HRESTSPSSSSSG--TRISPAVLFIIVILAVLFF 58
           IH+   + D+L    P  +PS     H+ + S SSSSSG   RISP +LFIIV+L+V+FF
Sbjct: 6   IHYSQLKNDNLNQISPSSAPSPITLNHQLTDSSSSSSSGGNNRISPIILFIIVLLSVIFF 65

Query: 59  ISGLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDALQRQLQQLFHLHDSGLDQAFID 118
           I  +LHLLVR+ +K   S+ S+S + +    E S SD  QRQLQQLFHLHDSGLDQA ID
Sbjct: 66  ICSILHLLVRYYLKKKRSNLSSSPNESNQNPEFSDSDTYQRQLQQLFHLHDSGLDQALID 125

Query: 119 ALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLC 178
           ALPVF YKEI G KEPFDCAVCLCEFSE DKLRLLP CSHAFHI+CIDTWLLSNSTCPLC
Sbjct: 126 ALPVFLYKEIKGTKEPFDCAVCLCEFSEDDKLRLLPNCSHAFHIDCIDTWLLSNSTCPLC 185

Query: 179 RDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQKTAEIEEIVVDKGVLPVRLGK 238
           R TLF+ G   E P F+F  F  +DGG       ++  QK AE E   + K V  VRLGK
Sbjct: 186 RGTLFSLGHQFEYPDFNFGFFAGDDGGGGV---RVSPVQKPAENE---IGKRVFSVRLGK 239

Query: 239 FRRLN----DGLAVEAGGETSSSNLDARRCYSMGSYQYVLGNSDLRVSLCTDRCGRDTKL 294
           FR  N      + V  GGETSSS+LD RRC+SMGSYQY++  SDL V+LC +        
Sbjct: 240 FRSSNIVNNGEVVVGGGGETSSSSLDNRRCFSMGSYQYIVAESDLVVALCPN-------- 291

Query: 295 SKGTENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLWS-KKGKFSSSSDAQMGM 348
           ++G +NN+      DVE KKI+  +KGESFSVSKIW WS K+ KF ++  ++  +
Sbjct: 292 NEGLKNNK------DVEGKKINMRSKGESFSVSKIWQWSNKRSKFPNNHPSETNL 340

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZV53|ATL49_ARATH Putative RING-H2 finger protein ATL49 OS=Arabidopsis thaliana GN=ATL49 PE=3 SV=1

 Score =  194 bits (493), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 144/347 (41%), Positives = 203/347 (58%), Gaps = 51/347 (14%)

Query: 31  TSPSSSSSGTRISPAVLFIIVILAVLFFISGLLHLLVRFLVKHPSSSASNSQSNARYPTE 90
           ++ S S+  ++I+P +L II+IL+++FFISGLLH+LV+FL+        + +S   Y   
Sbjct: 28  SNTSLSNLNSKITPNILLIIIILSIIFFISGLLHILVKFLL------TPSRESREDYFDN 81

Query: 91  ISGSDALQRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLK-EPFDCAVCLCEFSEKDK 149
           ++   ALQ QLQQLF+LHDSG+DQ+ ID LPVF YK IVGLK  PFDC VCLCEF  +DK
Sbjct: 82  VT---ALQGQLQQLFNLHDSGVDQSLIDTLPVFHYKSIVGLKISPFDCPVCLCEFETEDK 138

Query: 150 LRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSIEN------------------ 191
           LRLLP CSHAFH+ CIDTWLLS+STCPLCR  L + GFS  +                  
Sbjct: 139 LRLLPKCSHAFHVECIDTWLLSHSTCPLCRSNLLS-GFSSHHNLSSSYLLVLESEQSSRD 197

Query: 192 --PMFDFDDFREEDGGHVCGENGLTASQKTAEIEEIV--VDKGVLP--VRLGKFRRLNDG 245
             P+ + +     D  +      + + +K+ + +  +  +D+ V+P  V+LGKFR ++  
Sbjct: 198 MVPVLESNSQLGYDVNNDSESTRIRSGRKSCDPDGDMDGLDEKVVPLEVKLGKFRNID-- 255

Query: 246 LAVEAGGET-------SSSNLDARRCYSMGSYQYVLGN-SDLRVSLCTDR-CGRDTKLSK 296
             V  G +        +S N+D RRC SMGSY+Y++   + L+V + T +  G+D   S 
Sbjct: 256 -HVGEGSDQKKNSISGNSKNVDGRRCLSMGSYEYIMDQEATLKVHVSTKKLSGKDRVPSH 314

Query: 297 GTENNRNSPVDGDVEAKKIS-NMAKGESFSVSKIWLWSKKGKFSSSS 342
            T     S    D   K I  ++ + ESFS+SKIWL  KK K   +S
Sbjct: 315 RT---VMSECGFDPTVKGIEKSVVERESFSLSKIWLRGKKEKQKGTS 358

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q940Q4|ATL13_ARATH RING-H2 finger protein ATL13 OS=Arabidopsis thaliana GN=ATL13 PE=2 SV=2

 Score =  187 bits (474), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 128/299 (42%), Positives = 165/299 (55%), Gaps = 55/299 (18%)

Query: 96  ALQRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKE-PFDCAVCLCEFSEKDKLRLLP 154
           ALQ QLQQLFHLHDSG+DQ+FID LPVF YK I+GLK  PFDCAVCLCEF  +DKLRLLP
Sbjct: 92  ALQGQLQQLFHLHDSGVDQSFIDTLPVFHYKSIIGLKNYPFDCAVCLCEFETEDKLRLLP 151

Query: 155 MCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSIENPMFDF--------DDFREEDGGH 206
            CSHAFH++CIDTWLLS+STCPLCR +L +   S ++P   F        D    E GG 
Sbjct: 152 KCSHAFHMDCIDTWLLSHSTCPLCRSSLLSDLSSHQDPRSSFLLVLESASDHSSREIGGD 211

Query: 207 ---------------------VCGENGLTASQKTAEIEEIVVD-------KGVLP--VRL 236
                                + G N L +++  +   +  +D         V+P  V+L
Sbjct: 212 RDSAACVAANDDIDVSSAHLGLVGNNDLGSTRIDSGHGDQYLDGELGGSVGKVVPFSVKL 271

Query: 237 GKFRRLNDGLAV-EAGGETSSSNLDARRCYSMGSYQYVLG-NSDLRVSLCTDRC------ 288
           GKFR ++ G          +SS+LD RRC+SMGSY+Y++   + L+V + T +       
Sbjct: 272 GKFRNIDIGEGTSSNNNIGNSSSLDERRCFSMGSYEYIMDEETTLKVHVSTKKQSSKNRG 331

Query: 289 --GRDTKLSK-GTENNRNSPVDGD-----VEAKKISNMAKGESFSVSKIWLWSKKGKFS 339
             G  T +S+ G +        G      VE     N+ + ESFSVSKIWL  KK K S
Sbjct: 332 LPGHRTAMSECGFDPTGRLKFSGSGSMRIVEEAAEKNVVERESFSVSKIWLRGKKEKHS 390

Arabidopsis thaliana (taxid: 3702)

>sp|Q7X843|ATL48_ARATH RING-H2 finger protein ATL48 OS=Arabidopsis thaliana GN=ATL48 PE=2 SV=2

 Score =  168 bits (425), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 109/268 (40%), Positives = 145/268 (54%), Gaps = 33/268 (12%)

Query: 29  ESTSPSSSSSGT------------RISPAVLFIIVILAVLFFISGLLHLLVRFLVKHPSS 76
           E+ SP SSS+ T             I   +  +I  LA++    G+L+L+ +FL K  SS
Sbjct: 91  EALSPKSSSAATLTLMNQKDPSSSSIVSVLCLVISGLALIIVFLGVLYLIFKFLRK--SS 148

Query: 77  SASNSQSNARYPTEISGSDALQRQLQQLFHLHDSGLDQAFIDALPVFQYKEI-VGLKEPF 135
           +          P   S S     QLQ LF LHDSGLDQ  IDALPVF Y  + + L++PF
Sbjct: 149 TLFPIPHFNYNPDLFSFSSP---QLQHLFFLHDSGLDQTAIDALPVFLYGNVTISLEQPF 205

Query: 136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSIENPMFD 195
           DCAVCL EFS+ DKLRLLP+CSHAFH++CIDTWLLSNSTCPLCR +L T      +    
Sbjct: 206 DCAVCLNEFSDTDKLRLLPVCSHAFHLHCIDTWLLSNSTCPLCRRSLSTSNVCYNHS--- 262

Query: 196 FDDFREEDGGHVCGENGLTASQKTAEIEEIVVDKGVLPVRLGKFRRLNDGLAVEAGGETS 255
            +       GH   ++G  +           + K V  VRLG+F+  N+  +     +  
Sbjct: 263 -ETLVAPLSGHQQVDDGKAS-----------LAKRVFSVRLGRFKSTNESQSQRHDVKDE 310

Query: 256 SSNLDARRCYSMGSYQYVLGNSDLRVSL 283
                 RRCYSMG+ QY++ + D  V+L
Sbjct: 311 IGVRMPRRCYSMGTQQYLVCDQDFVVAL 338

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FHG8|ATL50_ARATH Putative RING-H2 finger protein ATL50 OS=Arabidopsis thaliana GN=ATL50 PE=3 SV=1

 Score =  156 bits (395), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 75/140 (53%), Positives = 101/140 (72%), Gaps = 7/140 (5%)

Query: 42  ISPAVLFIIVILAVLFFISGLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDALQRQL 101
           ISP VL  I +L+++FF++ L+HLLV+FL + P +   ++     Y      S ALQ + 
Sbjct: 32  ISPIVLLYITLLSIIFFVAALIHLLVKFLHR-PQTRLDDA-----YDGITESSTALQGRY 85

Query: 102 QQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPF-DCAVCLCEFSEKDKLRLLPMCSHAF 160
           Q  F+LHD+ +DQ+FIDALP+  YK ++GL+    DCAVCL EF+ +D+LRLLP CSHAF
Sbjct: 86  QTRFNLHDAEIDQSFIDALPLLHYKTMIGLRHDLSDCAVCLREFTAEDELRLLPKCSHAF 145

Query: 161 HINCIDTWLLSNSTCPLCRD 180
           H+ CIDTWLL+NSTCPLCRD
Sbjct: 146 HVECIDTWLLTNSTCPLCRD 165

Arabidopsis thaliana (taxid: 3702)

>sp|Q8W571|ATL32_ARATH RING-H2 finger protein ATL32 OS=Arabidopsis thaliana GN=ATL32 PE=2 SV=3

 Score =  108 bits (269), Expect = 8e-23,   Method: Compositional matrix adjust.
 Identities = 57/158 (36%), Positives = 88/158 (55%), Gaps = 21/158 (13%)

Query: 29  ESTSPSSSSSGTRISPAVLFIIVILAVLFFISGLLHLLVRFLVKHPSSSASNSQSNARYP 88
           +S SPS     T  +P+   +  +L  LFF++GLL + +R   +      SN  S+ RY 
Sbjct: 29  QSFSPSPPDLQTGHTPSKTTVFAVLVTLFFLTGLLSVYIRHCAR------SNPDSSTRYF 82

Query: 89  TEISGSDALQRQLQQLFHLHDSGLDQAFIDALPVFQYKEI----VGLKEPFDCAVCLCEF 144
              +   + +R           GLD A +++ PVF Y  +    +G K+  +CA+CL E 
Sbjct: 83  RNRANDGSSRR----------GGLDNAVVESFPVFAYSSVKESKIGSKD-LECAICLNEL 131

Query: 145 SEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL 182
            + + +RLLP+C+H FHI+CIDTWL S++TCP+CR  L
Sbjct: 132 EDHETVRLLPICNHLFHIDCIDTWLYSHATCPVCRSNL 169

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M0R6|ATL35_ARATH Putative RING-H2 finger protein ATL35 OS=Arabidopsis thaliana GN=ATL35 PE=3 SV=1

 Score =  100 bits (248), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 62/181 (34%), Positives = 90/181 (49%), Gaps = 25/181 (13%)

Query: 49  IIVILAVLFFISGLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDALQRQLQQLFHLH 108
           +I I+ +  FIS  L ++  FL K              Y  E+  +       Q++FH  
Sbjct: 51  VIAIIVLAIFIS--LSMVACFLHK------------TFYRAEVEAAS------QEVFHSR 90

Query: 109 -DSGLDQAFIDALPVFQYKEIVGLK---EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINC 164
              GL++  +++ P+F Y E+ GLK      +CA+CL EF +K+ LR +P CSH FH NC
Sbjct: 91  ARRGLEKELVESFPIFLYSEVKGLKIGKGGVECAICLSEFVDKETLRWMPPCSHTFHANC 150

Query: 165 IDTWLLSNSTCPLCRDTL-FTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQKTAEIE 223
           ID WL S STCP CR  L   PG S   P+ D +   E+   H   + G    + T ++ 
Sbjct: 151 IDVWLSSQSTCPACRANLSLKPGESYPYPITDLETGNEQRDEHSLLQLGTNLDRFTLQLP 210

Query: 224 E 224
           E
Sbjct: 211 E 211

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LFY8|ATL54_ARATH RING-H2 finger protein ATL54 OS=Arabidopsis thaliana GN=ATL54 PE=2 SV=2

 Score = 99.8 bits (247), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 66/207 (31%), Positives = 102/207 (49%), Gaps = 32/207 (15%)

Query: 45  AVLFIIVILAVLFFISGLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDALQRQ---- 100
           A+  I +  AVL  +     L+ +F      S + N  +   Y ++   +D +  +    
Sbjct: 82  AISIITITGAVLAILLTGFFLVAKFF-----SDSVNRVNQGTYQSDNEDNDTVMEEEFQD 136

Query: 101 LQQLFH----LHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMC 156
            +Q+ H    +  +GL Q+ I+++ +  YK   GL E  DC VCL EF E + LRLLP C
Sbjct: 137 REQVDHPIWLIRTTGLQQSIINSITICNYKRGDGLIERTDCPVCLNEFEEDESLRLLPKC 196

Query: 157 SHAFHINCIDTWLLSNSTCPLCRDTL---------------FTPGFSIENPMFDFDDFRE 201
           +HAFHI+CIDTWL S++ CPLCR  +                TPG S      + D   E
Sbjct: 197 NHAFHISCIDTWLSSHTNCPLCRAGIAMISVTTPRYSGPVEVTPGGS--GSHLENDGVDE 254

Query: 202 EDGGHVCGENGLTASQKTAEIEEIVVD 228
           ED G +  EN + +  K ++  +I ++
Sbjct: 255 EDHGEI--ENRVDSDFKESDDSDIRIE 279

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SRQ8|ATL51_ARATH RING-H2 finger protein ATL51 OS=Arabidopsis thaliana GN=ATL51 PE=2 SV=2

 Score = 99.8 bits (247), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 55/150 (36%), Positives = 85/150 (56%), Gaps = 10/150 (6%)

Query: 44  PAVLFIIVILAVLFFISGLLHLLVRFL--VKHPSSSASNSQSNARYPTEIS-------GS 94
           P ++ +I ILA  F +     L+ ++    +H SSS S +  N R  ++ +        +
Sbjct: 58  PLLIALIGILASAFILVSYYTLISKYCHRRRHNSSSTSAAAIN-RISSDYTWQGTNNNNN 116

Query: 95  DALQRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLP 154
           +      Q +      GLD++ I ++ V++Y+++ G  E  DC+VCL EF E + LRLLP
Sbjct: 117 NGATNPNQTIGGGGGDGLDESLIKSITVYKYRKMDGFVESSDCSVCLSEFQENESLRLLP 176

Query: 155 MCSHAFHINCIDTWLLSNSTCPLCRDTLFT 184
            C+HAFH+ CIDTWL S+S CPLCR  + T
Sbjct: 177 KCNHAFHVPCIDTWLKSHSNCPLCRAFIVT 206

Arabidopsis thaliana (taxid: 3702)

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	365
255552646	376	ring finger protein, putative [Ricinus c	0.991	0.962	0.770	1e-152
147860397	1090	hypothetical protein VITISV_043284 [Viti	0.986	0.330	0.718	1e-141
359488718	397	PREDICTED: RING-H2 finger protein ATL46-	0.986	0.906	0.721	1e-140
449449200	375	PREDICTED: RING-H2 finger protein ATL46-	0.986	0.96	0.683	1e-136
224055501	318	predicted protein [Populus trichocarpa]	0.852	0.977	0.782	1e-133
297805668	375	zinc finger family protein [Arabidopsis	0.945	0.92	0.664	1e-125
15242616	376	RING-H2 finger protein ATL46 [Arabidopsi	0.945	0.917	0.662	1e-125
356550006	410	PREDICTED: RING-H2 finger protein ATL46-	0.983	0.875	0.639	1e-124
209171162	392	RING finger protein [Glycine max]	0.983	0.915	0.637	1e-123
356571515	386	PREDICTED: RING-H2 finger protein ATL46-	0.986	0.932	0.651	1e-121

>gi|255552646|ref|XP_002517366.1| ring finger protein, putative [Ricinus communis] gi|223543377|gb|EEF44908.1| ring finger protein, putative [Ricinus communis]

 Score =  543 bits (1399), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 292/379 (77%), Positives = 317/379 (83%), Gaps = 17/379 (4%)

Query: 1   MSWIHHQMKQKDDLYTYPPPLS----------PSSFHRESTSPSSSSS---GTRISPAVL 47
           MSWI +Q+KQKD    YPPPLS           ++FH+EST  SSSS    GTRISPAVL
Sbjct: 1   MSWIQYQIKQKDGYLAYPPPLSPSPNLLSPPYTTTFHKESTPSSSSSPSSSGTRISPAVL 60

Query: 48  FIIVILAVLFFISGLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDALQRQLQQLFHL 107
           FIIVILAVLFFISGLLHLLVRFL+KHPSSSAS+  +N RYP EISG DALQRQLQQLFHL
Sbjct: 61  FIIVILAVLFFISGLLHLLVRFLIKHPSSSASSQSNN-RYP-EISGPDALQRQLQQLFHL 118

Query: 108 HDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDT 167
           HDSGLDQAFIDALPVFQY+EIVGLKEPFDCAVCLCEF+EKDKLRLLP+CSHAFHINCIDT
Sbjct: 119 HDSGLDQAFIDALPVFQYREIVGLKEPFDCAVCLCEFTEKDKLRLLPVCSHAFHINCIDT 178

Query: 168 WLLSNSTCPLCRDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQKTAEIEE-IV 226
           WLLSNSTCPLCR TLFTPGFSIENPMFDFDD RE DG    GENG  ASQK  EIEE  V
Sbjct: 179 WLLSNSTCPLCRGTLFTPGFSIENPMFDFDDLRENDGYPGSGENGFPASQKIMEIEEPAV 238

Query: 227 VDKGVLPVRLGKFRRLNDGLAVEAGGETSSSNLDARRCYSMGSYQYVLGNSDLRVSLCTD 286
           ++KGVLPVRLGKFRRL DG   EAGGETSSSNLDARRC+SMGSYQYVLG+SDLRV+LCTD
Sbjct: 239 IEKGVLPVRLGKFRRLTDGTG-EAGGETSSSNLDARRCFSMGSYQYVLGDSDLRVALCTD 297

Query: 287 RCGRDTKLSKGTENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLWSKKGKFSSSSDAQM 346
           R  R  K  KG + N +  VDGD+E KKIS + K ESFSVSKIWLWSKKGKFSSS+DAQM
Sbjct: 298 RHARSVKPEKGNDQNGSVLVDGDLEGKKISRVTKRESFSVSKIWLWSKKGKFSSSTDAQM 357

Query: 347 GMPPSLKMDLPWLGKTEEK 365
           GMP SL +DLPW+ +T+EK
Sbjct: 358 GMPSSLSLDLPWMDRTQEK 376

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147860397|emb|CAN80445.1| hypothetical protein VITISV_043284 [Vitis vinifera]

 Score =  506 bits (1304), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 268/373 (71%), Positives = 305/373 (81%), Gaps = 13/373 (3%)

Query: 1    MSWIHHQMKQKDDLYTYPPPLS-------PSSFHRESTSPSSSSS-GTRISPAVLFIIVI 52
            MSWI HQ+KQKD   TYPPPL+        ++FH+ ST+PSSSSS GTRISPAVLFIIVI
Sbjct: 721  MSWIQHQIKQKDGYLTYPPPLTPSSSSPYTAAFHKGSTAPSSSSSSGTRISPAVLFIIVI 780

Query: 53   LAVLFFISGLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDALQRQLQQLFHLHDSGL 112
            +AVLFFISGLLHLLVRFL++HPSSS S+  +  RYP EIS SDALQRQLQQLFHLHDSGL
Sbjct: 781  VAVLFFISGLLHLLVRFLIRHPSSSTSSQSN--RYP-EISESDALQRQLQQLFHLHDSGL 837

Query: 113  DQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN 172
            DQAFIDALPVF YKEIVGLKEPFDCAVCLCEFSEKDKLRLLP+CSHAFHINCIDTWLLSN
Sbjct: 838  DQAFIDALPVFLYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPVCSHAFHINCIDTWLLSN 897

Query: 173  STCPLCRDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQKTAEIEEIVVDKGVL 232
            STCPLCR TLF PGFS+ENP+FDFDD REEDG    GENG  +  KT EIEE+V +KGV 
Sbjct: 898  STCPLCRGTLFAPGFSMENPIFDFDDLREEDGFPGHGENGFASGPKTVEIEEVVGEKGVF 957

Query: 233  PVRLGKFRRLNDGLAVEAGGETSSSNLDARRCYSMGSYQYVLGNSDLRVSLCTDRCGRDT 292
            PVRLGKFR++ D     AGGETSSSNLDARRCYSMGS+QYV+G+S LRV+L  ++   D 
Sbjct: 958  PVRLGKFRKVADXSGETAGGETSSSNLDARRCYSMGSFQYVVGDSILRVALNHEQQHPDG 1017

Query: 293  KLSKGTENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLWSKKGKFSSSSD-AQMGMPPS 351
            K+ KG ENN N  ++ + E  + S + KG+S+SVSKIWLWSKKGKF SSSD  Q GM PS
Sbjct: 1018 KIVKGIENNANPSINEETEGTRNSFVTKGDSYSVSKIWLWSKKGKFPSSSDNTQTGM-PS 1076

Query: 352  LKMDLPWLGKTEE 364
            L +DLPW+G+ +E
Sbjct: 1077 LNVDLPWMGRKQE 1089

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488718|ref|XP_003633804.1| PREDICTED: RING-H2 finger protein ATL46-like [Vitis vinifera]

 Score =  503 bits (1295), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 269/373 (72%), Positives = 306/373 (82%), Gaps = 13/373 (3%)

Query: 1   MSWIHHQMKQKDDLYTYPPPLS-------PSSFHRESTSPSSSSS-GTRISPAVLFIIVI 52
           MSWI HQ+KQKD   TYPPPL+        ++FH+ ST+PSSSSS GTRISPAVLFIIVI
Sbjct: 28  MSWIQHQIKQKDGYLTYPPPLTPSSSSPYTAAFHKGSTAPSSSSSSGTRISPAVLFIIVI 87

Query: 53  LAVLFFISGLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDALQRQLQQLFHLHDSGL 112
           +AVLFFISGLLHLLVRFL++HPSSS S+  +  RYP EIS SDALQRQLQQLFHLHDSGL
Sbjct: 88  VAVLFFISGLLHLLVRFLIRHPSSSTSSQSN--RYP-EISESDALQRQLQQLFHLHDSGL 144

Query: 113 DQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN 172
           DQAFIDALPVF YKEIVGLKEPFDCAVCLCEFSEKDKLRLLP+CSHAFHINCIDTWLLSN
Sbjct: 145 DQAFIDALPVFLYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPVCSHAFHINCIDTWLLSN 204

Query: 173 STCPLCRDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQKTAEIEEIVVDKGVL 232
           STCPLCR TLF PGFS+ENP+FDFDD REEDG    GENG  +  KT EIEE+V +KGV 
Sbjct: 205 STCPLCRGTLFAPGFSMENPIFDFDDLREEDGFPGHGENGFASGPKTVEIEEVVGEKGVF 264

Query: 233 PVRLGKFRRLNDGLAVEAGGETSSSNLDARRCYSMGSYQYVLGNSDLRVSLCTDRCGRDT 292
           PVRLGKFR++ DG    AGGETSSSNLDARRCYSMGS+QYV+G+S LRV+L  ++   D 
Sbjct: 265 PVRLGKFRKVADGSGETAGGETSSSNLDARRCYSMGSFQYVVGDSILRVALNHEQQHPDG 324

Query: 293 KLSKGTENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLWSKKGKFSSSSD-AQMGMPPS 351
           K+ KG ENN N  ++ + E  + S + KG+S+SVSKIWLWSKKGKF SSSD  Q GM PS
Sbjct: 325 KIVKGIENNANPSINEETEGTRNSFVTKGDSYSVSKIWLWSKKGKFPSSSDNTQTGM-PS 383

Query: 352 LKMDLPWLGKTEE 364
           L +DLPW+G+ +E
Sbjct: 384 LNVDLPWMGRKQE 396

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449449200|ref|XP_004142353.1| PREDICTED: RING-H2 finger protein ATL46-like [Cucumis sativus] gi|449492685|ref|XP_004159071.1| PREDICTED: RING-H2 finger protein ATL46-like [Cucumis sativus]

 Score =  490 bits (1262), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 257/376 (68%), Positives = 301/376 (80%), Gaps = 16/376 (4%)

Query: 1   MSWIHHQMKQKDDLYTYPPPLSPSS-------FHRESTSP---SSSSSGTRISPAVLFII 50
           M+ I HQ+ Q D  ++YPPPL+ SS       +++E   P   S +SSGTRISPAVLFII
Sbjct: 1   MARIRHQIFQNDGFFSYPPPLAASSSTPFDGIYNKEPNPPAVPSPTSSGTRISPAVLFII 60

Query: 51  VILAVLFFISGLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDALQRQLQQLFHLHDS 110
           VILAVLFFISGLLHLLVRFL+KHPSSSAS+  +  R P E+S SDALQRQLQQLFHLHDS
Sbjct: 61  VILAVLFFISGLLHLLVRFLIKHPSSSASSQSN--RNP-ELSPSDALQRQLQQLFHLHDS 117

Query: 111 GLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL 170
           GLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFS+KD+LRLLPMCSHAFH+NCIDTWLL
Sbjct: 118 GLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSDKDQLRLLPMCSHAFHVNCIDTWLL 177

Query: 171 SNSTCPLCRDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQKTAEIEEIVVDKG 230
           SNSTCPLCR TLF PGFSIENPM+DFDD  EED      ++ L   QKT EI+E+V +KG
Sbjct: 178 SNSTCPLCRGTLFNPGFSIENPMYDFDDLGEEDECAGNADHRLPNCQKTMEIQEVVNEKG 237

Query: 231 VLPVRLGKFRRLNDGLAVEAG-GETSSSNLDARRCYSMGSYQYVLGNSDLRVSLCTDRC- 288
           V PVRLGKFRR++    VE   GETSSSNLDARRCYSMGSYQYV+ ++DLR++L   R  
Sbjct: 238 VFPVRLGKFRRMDAAEVVETEVGETSSSNLDARRCYSMGSYQYVVIDADLRIALSKARGE 297

Query: 289 GRDTKLSKGTENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLWSKKGKFSSSSDAQMGM 348
           G +T+ SK  E+N  SPV  D++ KK+S++AKGES+SVSKIWLWSKKGK+S S++  +GM
Sbjct: 298 GDNTQPSKEAESNSISPVQADLDGKKLSSVAKGESYSVSKIWLWSKKGKYSGSTEPHIGM 357

Query: 349 PPSLKMDL-PWLGKTE 363
           P SL  DL PWL +T+
Sbjct: 358 PSSLNTDLPPWLRQTQ 373

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055501|ref|XP_002298515.1| predicted protein [Populus trichocarpa] gi|222845773|gb|EEE83320.1| predicted protein [Populus trichocarpa]

 Score =  481 bits (1237), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 248/317 (78%), Positives = 272/317 (85%), Gaps = 6/317 (1%)

Query: 35  SSSSGTRISPAVLFIIVILAVLFFISGLLHLLVRFLVKHPSSSASNSQSNARYPTEISGS 94
           S  S + ISPAVLF+IVILAVLFFISGLLHLL+RFL+KHP+SSA+ SQSN RYP EISGS
Sbjct: 5   SPPSASLISPAVLFVIVILAVLFFISGLLHLLIRFLIKHPTSSAA-SQSN-RYP-EISGS 61

Query: 95  DALQRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLP 154
           DALQRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVG KEPFDC VCLCEFSEKDKLRLLP
Sbjct: 62  DALQRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGPKEPFDCPVCLCEFSEKDKLRLLP 121

Query: 155 MCSHAFHINCIDTWLLSNSTCPLCRDTLF-TPGFSIENPMFDFDDFREEDGGHVCGENGL 213
           MCSHAFHINCIDTWLLSNSTCPLCR TLF T GFS+ENPMFDFDD RE+D     G+   
Sbjct: 122 MCSHAFHINCIDTWLLSNSTCPLCRGTLFNTAGFSMENPMFDFDDLREDDECPGDGDIVF 181

Query: 214 TASQKTAEIEEIVVDKGVLPVRLGKFRRLNDGLAVEAGGETSSSNLDARRCYSMGSYQYV 273
             SQKT EIE  VV+KGVLPVRLGKFR+LN G+  EAGGETSSSNLDARRC+SMGSYQYV
Sbjct: 182 IPSQKTGEIEGTVVEKGVLPVRLGKFRKLNGGVG-EAGGETSSSNLDARRCFSMGSYQYV 240

Query: 274 LGNSDLRVSLCTDRCGRDTKLSKGTENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLW- 332
           LG++DLRV L  +R  RD K ++GTE   N  VDGD+E  KIS++++GESFSVSKIWLW 
Sbjct: 241 LGDTDLRVGLSNERQSRDIKPARGTEQKVNLSVDGDLEENKISSLSQGESFSVSKIWLWR 300

Query: 333 SKKGKFSSSSDAQMGMP 349
           +KKGKFSSSSDA MGMP
Sbjct: 301 NKKGKFSSSSDAPMGMP 317

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297805668|ref|XP_002870718.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297316554|gb|EFH46977.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  455 bits (1170), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 251/378 (66%), Positives = 287/378 (75%), Gaps = 33/378 (8%)

Query: 1   MSWIHHQMKQKDDLYTYPPPLSPSSFHRESTSPSSSSSGTRISPAVLFIIVILAVLFFIS 60
           MSW+  +++QKD  + YPPP          +     SSG RISPAVLFIIVILAVLFFIS
Sbjct: 1   MSWVRFKIEQKDGNFAYPPPFYKDPILSPPSP-PPPSSGNRISPAVLFIIVILAVLFFIS 59

Query: 61  GLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDALQRQLQQLFHLHDSGLDQAFIDAL 120
           GLLHLLVRFL+KHPS++AS S+SN R+P EIS SDALQRQLQQLFHL+DSGLDQAFIDAL
Sbjct: 60  GLLHLLVRFLIKHPSATAS-SRSN-RFP-EISTSDALQRQLQQLFHLNDSGLDQAFIDAL 116

Query: 121 PVFQYKEIV---------GLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS 171
           PVF YKEIV           +EPFDCAVCLCEFSEKDKLRLLPMCSHAFH+NCIDTWL S
Sbjct: 117 PVFHYKEIVGSGSVGGNGAAQEPFDCAVCLCEFSEKDKLRLLPMCSHAFHLNCIDTWLQS 176

Query: 172 NSTCPLCRDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQKTAEIEEIVVDKGV 231
           NSTCPLCR TLF+PGFS+ENPMFDFDD RE++ G    ENG   SQKT EI+EIVV+KGV
Sbjct: 177 NSTCPLCRGTLFSPGFSMENPMFDFDDIREDEEG--VTENG---SQKTMEIQEIVVEKGV 231

Query: 232 LPVRLGKFRRLND-----GLAVEAGGETSSSNLDARRCYSMGSYQYVLGNSDLRVSLCTD 286
           LPVRLGKF+RL++     G  V AGGETSSSNLDARRC+SMGSYQY+LGNS+L+V    D
Sbjct: 232 LPVRLGKFKRLDNVGNGQGQDVVAGGETSSSNLDARRCFSMGSYQYILGNSELKVPFAND 291

Query: 287 RCGRDTKLSKGTENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLWSKKGKFSSSSDAQM 346
           R  R     K +E   NS  + +   KKI+++AKGESFSVSKIWLW KK KF  SSDAQ 
Sbjct: 292 RLPRLKPQDKESEQTGNSSSEDN---KKINSVAKGESFSVSKIWLWPKKDKF--SSDAQR 346

Query: 347 GMP-PSLKMD----LPWL 359
            +P  SL +D    LPW+
Sbjct: 347 RLPSSSLNVDDLPKLPWM 364

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15242616|ref|NP_198841.1| RING-H2 finger protein ATL46 [Arabidopsis thaliana] gi|68565290|sp|Q9FL07.1|ATL46_ARATH RecName: Full=RING-H2 finger protein ATL46 gi|10177512|dbj|BAB10906.1| RING zinc finger protein-like [Arabidopsis thaliana] gi|51970768|dbj|BAD44076.1| RING finger -like protein [Arabidopsis thaliana] gi|332007142|gb|AED94525.1| RING-H2 finger protein ATL46 [Arabidopsis thaliana]

 Score =  454 bits (1169), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 251/379 (66%), Positives = 286/379 (75%), Gaps = 34/379 (8%)

Query: 1   MSWIHHQMKQKDDLYTYPPPLSPSSFHRESTSPSSSSSGTRISPAVLFIIVILAVLFFIS 60
           MSW+   ++QKD  + YPPP          +     SSG RISPAVLF+IVILAVLFFIS
Sbjct: 1   MSWVRFTIEQKDGNFAYPPPFYKDPILSPPSP-PPPSSGNRISPAVLFVIVILAVLFFIS 59

Query: 61  GLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDALQRQLQQLFHLHDSGLDQAFIDAL 120
           GLLHLLVRFL+KHPS++AS S+SN R+P EIS SDALQRQLQQLFHL+DSGLDQAFIDAL
Sbjct: 60  GLLHLLVRFLIKHPSATAS-SRSN-RFP-EISTSDALQRQLQQLFHLNDSGLDQAFIDAL 116

Query: 121 PVFQYKEIVGL----------KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL 170
           PVF YKEIVG           +EPFDCAVCLCEFSEKDKLRLLPMCSHAFH+NCIDTWL 
Sbjct: 117 PVFHYKEIVGSAGGGGGNGAAQEPFDCAVCLCEFSEKDKLRLLPMCSHAFHLNCIDTWLQ 176

Query: 171 SNSTCPLCRDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQKTAEIEEIVVDKG 230
           SNSTCPLCR TLF+PGFS+ENPMFDFDD RE++ G    ENG   SQKT EI+EIVV+KG
Sbjct: 177 SNSTCPLCRGTLFSPGFSMENPMFDFDDIREDEEG--VTENG---SQKTMEIQEIVVEKG 231

Query: 231 VLPVRLGKFRRLND-----GLAVEAGGETSSSNLDARRCYSMGSYQYVLGNSDLRVSLCT 285
           VLPVRLGKF+RL++     G  V AGGETSSSNLDARRC+SMGSYQY+LGNS+L+V    
Sbjct: 232 VLPVRLGKFKRLDNVGNGQGQDVVAGGETSSSNLDARRCFSMGSYQYILGNSELKVPFAN 291

Query: 286 DRCGRDTKLSKGTENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLWSKKGKFSSSSDAQ 345
           DR  R     K +E   NS  + +   KKI+ +AKGESFSVSKIWLW KK KF  SSDAQ
Sbjct: 292 DRLPRLKPQDKESEQTGNSSSEDN---KKINTVAKGESFSVSKIWLWPKKDKF--SSDAQ 346

Query: 346 MGMP-PSLKMD----LPWL 359
             +P  SL +D    LPW+
Sbjct: 347 RRLPSSSLNVDDLPKLPWM 365

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356550006|ref|XP_003543381.1| PREDICTED: RING-H2 finger protein ATL46-like [Glycine max]

 Score =  451 bits (1159), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 252/394 (63%), Positives = 293/394 (74%), Gaps = 35/394 (8%)

Query: 1   MSWIHHQMKQKDDLYTYPPPLSP-------------------SSFHRESTSPSSSSS--- 38
           M W+ HQ++QKD   +Y PPL                     ++FH+ES+ PSS+     
Sbjct: 19  MVWVKHQIQQKDGYLSYSPPLLSSSSSSSSSSSSSSPPYPLGATFHKESSLPSSTPPPPP 78

Query: 39  -GTRISPAVLFIIVILAVLFFISGLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDAL 97
            GTRISPAVLFIIV+LAVLFFISGLLHLL+RFL+KHPSS+++ S  +     E+S SDAL
Sbjct: 79  SGTRISPAVLFIIVVLAVLFFISGLLHLLIRFLIKHPSSASAQSNRHQ----ELSTSDAL 134

Query: 98  QRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCS 157
           QRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCS
Sbjct: 135 QRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCS 194

Query: 158 HAFHINCIDTWLLSNSTCPLCRDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQ 217
           HAFHI+CIDTWLLSNSTCPLCR TL T GFSIENP+FDFDD RE++G    GENG    Q
Sbjct: 195 HAFHISCIDTWLLSNSTCPLCRGTLLTQGFSIENPIFDFDDLREDEGCPCNGENGFNTRQ 254

Query: 218 KT-AEIEEIVVDKGVLPVRLGKFRRLN-DGLAVEAGGETSSSNLDARRCYSMGSYQYVLG 275
           KT    E +  +KGV PVRLGKF++L+  G      GETSSSNLDARRCYSMGSYQYV+G
Sbjct: 255 KTVVVEESVEKEKGVFPVRLGKFKKLSVKGGGESEVGETSSSNLDARRCYSMGSYQYVVG 314

Query: 276 NSDLRVSLCTDRCGRD--TKLSKGTE--NNRNSPVDGDVEAKKISNMAKGESFSVSKIWL 331
           NSDLRV+L  D  G+   T+L+KG E  + + S  +GDVEAKKIS+++KG+SFSVSKIWL
Sbjct: 315 NSDLRVTLNHDEIGKGQVTRLTKGMELDDGKVSVEEGDVEAKKISSVSKGDSFSVSKIWL 374

Query: 332 WSKKGKFSSSSDAQMG--MPPSLKMDLPWLGKTE 363
           W KKGK  +S D Q G  MP  L  D P + + E
Sbjct: 375 WPKKGKLPTSLDGQFGRPMPSYLNTDFPRMREPE 408

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|209171162|gb|ACI42847.1| RING finger protein [Glycine max]

 Score =  449 bits (1154), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 251/394 (63%), Positives = 292/394 (74%), Gaps = 35/394 (8%)

Query: 1   MSWIHHQMKQKDDLYTYPPPLSP-------------------SSFHRESTSPSSSSS--- 38
           M W+ HQ++QKD   +Y PPL                     ++FH+ES+ PSS+     
Sbjct: 1   MVWVKHQIQQKDGYLSYSPPLLSSSSSSSSSSSSSSPPYPLGATFHKESSLPSSTPPPPP 60

Query: 39  -GTRISPAVLFIIVILAVLFFISGLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDAL 97
            GTRISPAVLFIIV+LAVLFFISGLLHLL+RFL+KHPSS+++ S  +     E+S SDAL
Sbjct: 61  SGTRISPAVLFIIVVLAVLFFISGLLHLLIRFLIKHPSSASAQSNRHQ----ELSTSDAL 116

Query: 98  QRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCS 157
           QRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCS
Sbjct: 117 QRQLQQLFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCS 176

Query: 158 HAFHINCIDTWLLSNSTCPLCRDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQ 217
           HAFHI+CIDTWLLSNSTCPLCR TL T GFSIENP+FDFDD RE++G    GENG    Q
Sbjct: 177 HAFHISCIDTWLLSNSTCPLCRGTLLTQGFSIENPIFDFDDLREDEGCPCNGENGFNTRQ 236

Query: 218 KT-AEIEEIVVDKGVLPVRLGKFRRLN-DGLAVEAGGETSSSNLDARRCYSMGSYQYVLG 275
           KT    E +  +KGV PVRLGKF++L+  G      GETSSSNLDARRCYSMGSYQYV+G
Sbjct: 237 KTVVVEESVEKEKGVFPVRLGKFKKLSVKGGGESEVGETSSSNLDARRCYSMGSYQYVVG 296

Query: 276 NSDLRVSLCTDRCGRD--TKLSKGTE--NNRNSPVDGDVEAKKISNMAKGESFSVSKIWL 331
           NSDLRV+L  D  G+   T+L+KG E  + + S  +GDVEAKKIS+++KG+SFSVSKIWL
Sbjct: 297 NSDLRVTLNHDEIGKGQVTRLTKGMELDDGKVSVEEGDVEAKKISSVSKGDSFSVSKIWL 356

Query: 332 WSKKGKFSSSSDAQMG--MPPSLKMDLPWLGKTE 363
           W KKGK  +S D Q G  MP  L    P + + E
Sbjct: 357 WPKKGKLPTSLDGQFGRPMPSYLNTGFPRMREPE 390

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356571515|ref|XP_003553922.1| PREDICTED: RING-H2 finger protein ATL46-like isoform 1 [Glycine max] gi|356571517|ref|XP_003553923.1| PREDICTED: RING-H2 finger protein ATL46-like isoform 2 [Glycine max]

 Score =  440 bits (1131), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 252/387 (65%), Positives = 294/387 (75%), Gaps = 27/387 (6%)

Query: 1   MSWIHHQMKQKDDLYTYPPPLSP-----------SSFHRESTSPSSSSS------GTRIS 43
           M+W+ HQ++QKD   +Y PPL             ++FH++S+ PSS+        GTRIS
Sbjct: 1   MAWVKHQIRQKDGYLSYSPPLLSSSFSSPPYPLGATFHKDSSLPSSTPPPPPPSSGTRIS 60

Query: 44  PAVLFIIVILAVLFFISGLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDALQRQLQQ 103
           PAVLFIIV+LAVLFFISGLLHLLVRFL+KHPSS+++  QSN R+  E+S SDALQRQLQQ
Sbjct: 61  PAVLFIIVVLAVLFFISGLLHLLVRFLIKHPSSASA--QSNNRH-QELSTSDALQRQLQQ 117

Query: 104 LFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHIN 163
           LFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHI+
Sbjct: 118 LFHLHDSGLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHIS 177

Query: 164 CIDTWLLSNSTCPLCRDTLFTPGFSIENPMFDFDDFREEDGGHVCGENGLTASQKT-AEI 222
           CIDTWLLSNSTCPLCR TL T GFS+ENP+FDFDD RE++     GENG    QKT    
Sbjct: 178 CIDTWLLSNSTCPLCRGTLLTQGFSVENPIFDFDDLREDEMCPWNGENGFNTRQKTVVVE 237

Query: 223 EEIVVDKGVLPVRLGKFRRL--NDGLAVEAGGETSSSNLDARRCYSMGSYQYVLGNSDLR 280
           E +  +KGV PVRLGKF++L   +G      GETSSSNLDARRC+SMGSYQYV+GNSDLR
Sbjct: 238 ESVEKEKGVFPVRLGKFKKLSSVEGGGESEVGETSSSNLDARRCFSMGSYQYVVGNSDLR 297

Query: 281 VSLCTDRC--GRDTKLSKGTENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLWSKKGKF 338
           V+L  D    G+ T+L+KG E +       DVE KKIS+++KG+SFSVSKIWLW KKGK 
Sbjct: 298 VALNHDEISKGQVTRLNKGMELDDGKLSVEDVEGKKISSVSKGDSFSVSKIWLWPKKGKL 357

Query: 339 SSSSDAQMGMP-PS-LKMDLPWLGKTE 363
            +S D Q+GMP PS L  D P +  TE
Sbjct: 358 PTSLDGQIGMPMPSFLNTDFPRMRDTE 384

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	365
TAIR|locus:2173772	376	AT5G40250 [Arabidopsis thalian	0.786	0.763	0.618	7.9e-93
TAIR|locus:2199902	369	AT1G23980 [Arabidopsis thalian	0.731	0.723	0.520	2.2e-66
TAIR|locus:2118666	472	AT4G30400 [Arabidopsis thalian	0.394	0.305	0.506	5.3e-47
TAIR|locus:2054049	423	MEE16 "maternal effect embryo	0.326	0.281	0.553	1.1e-44
TAIR|locus:2097890	349	AT3G48030 "AT3G48030" [Arabido	0.438	0.458	0.465	8.5e-33
TAIR|locus:2172550	210	AT5G57750 [Arabidopsis thalian	0.380	0.661	0.445	3.5e-27
TAIR|locus:2081907	334	ATL4 "TOXICOS EN LEVADURA 4" [	0.243	0.266	0.448	3e-22
TAIR|locus:2122358	302	AT4G09110 [Arabidopsis thalian	0.312	0.377	0.398	3.5e-20
TAIR|locus:2096444	356	AT3G03550 [Arabidopsis thalian	0.202	0.207	0.540	4.4e-20
TAIR|locus:2151421	362	AT5G17600 [Arabidopsis thalian	0.380	0.383	0.375	5.2e-20

TAIR|locus:2173772 AT5G40250 [Arabidopsis thaliana (taxid:3702)]

 Score = 899 (321.5 bits), Expect = 7.9e-93, Sum P(2) = 7.9e-93
 Identities = 198/320 (61%), Positives = 223/320 (69%)

Query:    60 SGLLHLLVRFLVKHPXXXXXXXXXXXRYPTEISGSDAXXXXXXXXXXXXDSGLDQAFIDA 119
             SGLLHLLVRFL+KHP           R+P EIS SDA            DSGLDQAFIDA
Sbjct:    59 SGLLHLLVRFLIKHPSATASSRSN--RFP-EISTSDALQRQLQQLFHLNDSGLDQAFIDA 115

Query:   120 LPVFQYKEIVG----------LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWL 169
             LPVF YKEIVG           +EPFDCAVCLCEFSEKDKLRLLPMCSHAFH+NCIDTWL
Sbjct:   116 LPVFHYKEIVGSAGGGGGNGAAQEPFDCAVCLCEFSEKDKLRLLPMCSHAFHLNCIDTWL 175

Query:   170 LSNSTCPLCRDTLFTPGFSIENPMXXXXXXREEDGGHVCGENGLTASQKTAEIEEIVVDK 229
              SNSTCPLCR TLF+PGFS+ENPM      RE++ G    ENG   SQKT EI+EIVV+K
Sbjct:   176 QSNSTCPLCRGTLFSPGFSMENPMFDFDDIREDEEGVT--ENG---SQKTMEIQEIVVEK 230

Query:   230 GVLPVRLGKFRRLND-----GLAVEAGGETSSSNLDARRCYSMGSYQYVLGNSDLRVSLC 284
             GVLPVRLGKF+RL++     G  V AGGETSSSNLDARRC+SMGSYQY+LGNS+L+V   
Sbjct:   231 GVLPVRLGKFKRLDNVGNGQGQDVVAGGETSSSNLDARRCFSMGSYQYILGNSELKVPFA 290

Query:   285 TDRCGRDTKLSKGTENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLWSKKGKFSSSSDA 344
              DR  R     K +E   NS  + +   KKI+ +AKGESFSVSKIWLW KK KFSS  DA
Sbjct:   291 NDRLPRLKPQDKESEQTGNSSSEDN---KKINTVAKGESFSVSKIWLWPKKDKFSS--DA 345

Query:   345 QMGMPPS-LKMD----LPWL 359
             Q  +P S L +D    LPW+
Sbjct:   346 QRRLPSSSLNVDDLPKLPWM 365

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2199902 AT1G23980 [Arabidopsis thaliana (taxid:3702)]

 Score = 675 (242.7 bits), Expect = 2.2e-66, P = 2.2e-66
 Identities = 152/292 (52%), Positives = 182/292 (62%)

Query:    62 LLHLLVRFLVKHPXXXXXXXXXXXRYPTEISGSDAXXXXXXXXXXXXDSGLDQAFIDALP 121
             +LHLLVR+ +K                 E S SD             DSGLDQA IDALP
Sbjct:    69 ILHLLVRYYLKKKRSNLSSSPNESNQNPEFSDSDTYQRQLQQLFHLHDSGLDQALIDALP 128

Query:   122 VFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDT 181
             VF YKEI G KEPFDCAVCLCEFSE DKLRLLP CSHAFHI+CIDTWLLSNSTCPLCR T
Sbjct:   129 VFLYKEIKGTKEPFDCAVCLCEFSEDDKLRLLPNCSHAFHIDCIDTWLLSNSTCPLCRGT 188

Query:   182 LFTPGFSIENPMXXXXXXREEDGGHVCGENGLTASQKTAEIEEIVVDKGVLPVRLGKFRR 241
             LF+ G   E P         +DGG   G   ++  QK AE E   + K V  VRLGKFR 
Sbjct:   189 LFSLGHQFEYPDFNFGFFAGDDGG---GGVRVSPVQKPAENE---IGKRVFSVRLGKFRS 242

Query:   242 ---LNDG-LAVEAGGETSSSNLDARRCYSMGSYQYVLGNSDLRVSLCTDRCGRDTKLSKG 297
                +N+G + V  GGETSSS+LD RRC+SMGSYQY++  SDL V+LC +        ++G
Sbjct:   243 SNIVNNGEVVVGGGGETSSSSLDNRRCFSMGSYQYIVAESDLVVALCPN--------NEG 294

Query:   298 TENNRNSPVDGDVEAKKISNMAKGESFSVSKIWLWS-KKGKFSSSSDAQMGM 348
              +NN+      DVE KKI+  +KGESFSVSKIW WS K+ KF ++  ++  +
Sbjct:   295 LKNNK------DVEGKKINMRSKGESFSVSKIWQWSNKRSKFPNNHPSETNL 340

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2118666 AT4G30400 [Arabidopsis thaliana (taxid:3702)]

 Score = 356 (130.4 bits), Expect = 5.3e-47, Sum P(2) = 5.3e-47
 Identities = 78/154 (50%), Positives = 91/154 (59%)

Query:    60 SGLLHLLVRFLVKHPXXXXXXXXXXXRYPTEISGSDAXXXXXXXXXXXXDSGLDQAFIDA 119
             SGLLHLLVRFL+  P              T + G               DSG+DQ+FID 
Sbjct:    65 SGLLHLLVRFLLT-PSSRDREDYFDN--VTALQGQ------LQQLFHLHDSGVDQSFIDT 115

Query:   120 LPVFQYKEIVGLKE-PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLC 178
             LPVF YK I+GLK  PFDCAVCLCEF  +DKLRLLP CSHAFH++CIDTWLLS+STCPLC
Sbjct:   116 LPVFHYKSIIGLKNYPFDCAVCLCEFETEDKLRLLPKCSHAFHMDCIDTWLLSHSTCPLC 175

Query:   179 RDTLFTPGFSIENPMXXXXXXREEDGGHVCGENG 212
             R +L +   S ++P        E    H   E G
Sbjct:   176 RSSLLSDLSSHQDPRSSFLLVLESASDHSSREIG 209

GO:0005634 "nucleus" evidence=ISM

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

GO:0080167 "response to karrikin" evidence=IEP

TAIR|locus:2054049 MEE16 "maternal effect embryo arrest 16" [Arabidopsis thaliana (taxid:3702)]

 Score = 338 (124.0 bits), Expect = 1.1e-44, Sum P(2) = 1.1e-44
 Identities = 72/130 (55%), Positives = 82/130 (63%)

Query:    60 SGLLHLLVRFLVKHPXXXXXXXXXXXRYPTEISGSDAXXXXXXXXXXXXDSGLDQAFIDA 119
             SGLLH+LV+FL+  P              T + G               DSG+DQ+ ID 
Sbjct:    57 SGLLHILVKFLLT-PSRESREDYFDN--VTALQGQ------LQQLFNLHDSGVDQSLIDT 107

Query:   120 LPVFQYKEIVGLK-EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLC 178
             LPVF YK IVGLK  PFDC VCLCEF  +DKLRLLP CSHAFH+ CIDTWLLS+STCPLC
Sbjct:   108 LPVFHYKSIVGLKISPFDCPVCLCEFETEDKLRLLPKCSHAFHVECIDTWLLSHSTCPLC 167

Query:   179 RDTLFTPGFS 188
             R  L + GFS
Sbjct:   168 RSNLLS-GFS 176

GO:0005634 "nucleus" evidence=ISM

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

GO:0009793 "embryo development ending in seed dormancy" evidence=IMP

TAIR|locus:2097890 AT3G48030 "AT3G48030" [Arabidopsis thaliana (taxid:3702)]

 Score = 358 (131.1 bits), Expect = 8.5e-33, P = 8.5e-33
 Identities = 82/176 (46%), Positives = 105/176 (59%)

Query:   109 DSGLDQAFIDALPVFQYKEI-VGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDT 167
             DSGLDQ  IDALPVF Y  + + L++PFDCAVCL EFS+ DKLRLLP+CSHAFH++CIDT
Sbjct:   178 DSGLDQTAIDALPVFLYGNVTISLEQPFDCAVCLNEFSDTDKLRLLPVCSHAFHLHCIDT 237

Query:   168 WLLSNSTCPLCRDTLFTPGFSIENPMXXXXXXREEDGGHVCGENGLTASQKTAEIEEIVV 227
             WLLSNSTCPLCR +L T      +             GH   ++G  AS          +
Sbjct:   238 WLLSNSTCPLCRRSLSTSNVCYNHSETLVAPL----SGHQQVDDG-KAS----------L 282

Query:   228 DKGVLPVRLGKFRRLNDGLAVEAGGETSSSNLDARRCYSMGSYQYVLGNSDLRVSL 283
              K V  VRLG+F+  N+  +     +        RRCYSMG+ QY++ + D  V+L
Sbjct:   283 AKRVFSVRLGRFKSTNESQSQRHDVKDEIGVRMPRRCYSMGTQQYLVCDQDFVVAL 338

GO:0001666 "response to hypoxia" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2172550 AT5G57750 [Arabidopsis thaliana (taxid:3702)]

 Score = 305 (112.4 bits), Expect = 3.5e-27, P = 3.5e-27
 Identities = 65/146 (44%), Positives = 82/146 (56%)

Query:    60 SGLLHLLVRFLVKHPXXXXXXXXXXXRYPTEISGSDAXXXXXXXXXXXXDSGLDQAFIDA 119
             + L+HLLV+FL + P            Y      S A            D+ +DQ+FIDA
Sbjct:    50 AALIHLLVKFLHR-PQTRLDDA-----YDGITESSTALQGRYQTRFNLHDAEIDQSFIDA 103

Query:   120 LPVFQYKEIVGLKEPF-DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLC 178
             LP+  YK ++GL+    DCAVCL EF+ +D+LRLLP CSHAFH+ CIDTWLL+NSTCPLC
Sbjct:   104 LPLLHYKTMIGLRHDLSDCAVCLREFTAEDELRLLPKCSHAFHVECIDTWLLTNSTCPLC 163

Query:   179 RDTLFTPGFSIENPMXXXXXXREEDG 204
             RD L   G +            E DG
Sbjct:   164 RDNLLLLGLTGTASSSTIVLVHESDG 189

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

TAIR|locus:2081907 ATL4 "TOXICOS EN LEVADURA 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 221 (82.9 bits), Expect = 3.0e-22, Sum P(2) = 3.0e-22
 Identities = 44/98 (44%), Positives = 58/98 (59%)

Query:   117 IDALPVFQYKEIVGLKEPF---DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS 173
             +D+LP+F++  +          DCAVCL +F  +D+LRLLP+C HAFH +CID WL+SN 
Sbjct:    94 LDSLPIFKFSSVTRRSSSMNSGDCAVCLSKFEPEDQLRLLPLCCHAFHADCIDIWLVSNQ 153

Query:   174 TCPLCRDTLFTPGFSIENPMXXXXXXREEDGGHVCGEN 211
             TCPLCR  LF    S  + M         +GG   GEN
Sbjct:   154 TCPLCRSPLFA---SESDLMKSLAVVGSNNGG---GEN 185

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

TAIR|locus:2122358 AT4G09110 [Arabidopsis thaliana (taxid:3702)]

 Score = 239 (89.2 bits), Expect = 3.5e-20, P = 3.5e-20
 Identities = 47/118 (39%), Positives = 65/118 (55%)

Query:   111 GLDQAFIDALPVFQYKEIVGLK---EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDT 167
             GL++  +++ P+F Y E+ GLK      +CA+CL EF +K+ LR +P CSH FH NCID 
Sbjct:    94 GLEKELVESFPIFLYSEVKGLKIGKGGVECAICLSEFVDKETLRWMPPCSHTFHANCIDV 153

Query:   168 WLLSNSTCPLCRDTL-FTPGFSIENPMXXXXXXREEDGGHVCGENGLTASQKTAEIEE 224
             WL S STCP CR  L   PG S   P+       E+   H   + G    + T ++ E
Sbjct:   154 WLSSQSTCPACRANLSLKPGESYPYPITDLETGNEQRDEHSLLQLGTNLDRFTLQLPE 211

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

GO:0010043 "response to zinc ion" evidence=RCA

TAIR|locus:2096444 AT3G03550 [Arabidopsis thaliana (taxid:3702)]

 Score = 238 (88.8 bits), Expect = 4.4e-20, P = 4.4e-20
 Identities = 40/74 (54%), Positives = 55/74 (74%)

Query:   111 GLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL 170
             GLD++ I ++ V++Y+++ G  E  DC+VCL EF E + LRLLP C+HAFH+ CIDTWL 
Sbjct:   133 GLDESLIKSITVYKYRKMDGFVESSDCSVCLSEFQENESLRLLPKCNHAFHVPCIDTWLK 192

Query:   171 SNSTCPLCRDTLFT 184
             S+S CPLCR  + T
Sbjct:   193 SHSNCPLCRAFIVT 206

GO:0005634 "nucleus" evidence=ISM

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

GO:0080167 "response to karrikin" evidence=IEP

TAIR|locus:2151421 AT5G17600 [Arabidopsis thaliana (taxid:3702)]

 Score = 238 (88.8 bits), Expect = 5.2e-20, P = 5.2e-20
 Identities = 57/152 (37%), Positives = 79/152 (51%)

Query:   111 GLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL 170
             GL+++ I ++ V++YK   G  +  DC+VCL EF E + LRLLP C+HAFH+ CIDTWL 
Sbjct:   116 GLNESMIKSITVYKYKSGDGFVDGSDCSVCLSEFEENESLRLLPKCNHAFHLPCIDTWLK 175

Query:   171 SNSTCPLCRDTLFTPGFSIENPMXXXXXXREEDGGHVCGENGLTASQKTAEIEEIVVDKG 230
             S+S CPLCR   F  G  + NP              V   N   ++ +T  + EI ++  
Sbjct:   176 SHSNCPLCR--AFVTG--VNNPTASVG-----QNVSVVVANQSNSAHQTGSVSEINLNLA 226

Query:   231 VLPVRLGKFRRLNDGLAVEAGGETSSSNLDAR 262
                 + G F    D + V    E  S N DAR
Sbjct:   227 GYESQTGDF----DSVVVIEDLEIGSRNSDAR 254

GO:0005634 "nucleus" evidence=ISM

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

---

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)
Q9FL07	ATL46_ARATH	No assigned EC number	0.6622	0.9452	0.9175	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	LOW CONFIDENCE prediction!

---

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	365
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	6e-16
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	9e-12
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	5e-10
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	6e-09
smart00184	40	smart00184, RING, Ring finger	2e-08
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	2e-08
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	3e-08
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	9e-08
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	2e-05
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	6e-05
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	3e-04
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	0.001

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

 Score = 70.9 bits (174), Expect = 6e-16
 Identities = 22/45 (48%), Positives = 31/45 (68%), Gaps = 1/45 (2%)

Query: 135 FDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
            +C +CL EF   +++ +LP C H FH  C+D WL S++TCPLCR
Sbjct: 1   DECPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCR 44

Length = 46

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

 Score = 59.0 bits (143), Expect = 9e-12
 Identities = 22/48 (45%), Positives = 28/48 (58%), Gaps = 4/48 (8%)

Query: 136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTL 182
           +C +CL EF E     +L  C H F  +CID WL S  +TCPLCR  +
Sbjct: 1   ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

>gnl|CDD|221705 pfam12678, zf-rbx1, RING-H2 zinc finger

 Score = 55.1 bits (133), Expect = 5e-10
 Identities = 20/53 (37%), Positives = 26/53 (49%), Gaps = 9/53 (16%)

Query: 136 DCAVCLCEFSE---------KDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
            CA+C   F            D   +   C HAFH++CI  WL + +TCPLCR
Sbjct: 21  VCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

There are 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding. The protein, of which this domain is the conserved region, participates in diverse functions relevant to chromosome metabolism and cell cycle control. Length = 73

>gnl|CDD|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 56.5 bits (136), Expect = 6e-09
 Identities = 24/51 (47%), Positives = 34/51 (66%), Gaps = 2/51 (3%)

Query: 136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS-TCPLCRDTLFTP 185
           +CA+C+  F + D+LR+LP C H FH+ C+D WLL  S  CP+CR  +  P
Sbjct: 325 ECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPPP 374

Length = 374

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

 Score = 49.4 bits (118), Expect = 2e-08
 Identities = 19/43 (44%), Positives = 26/43 (60%), Gaps = 4/43 (9%)

Query: 137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-NSTCPLC 178
           C +CL E+ +     +LP C H F  +CI  WL S N+TCP+C
Sbjct: 1   CPICLEEYLKD--PVILP-CGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 49.4 bits (118), Expect = 2e-08
 Identities = 21/43 (48%), Positives = 26/43 (60%), Gaps = 4/43 (9%)

Query: 137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS-TCPLC 178
           C +CL E   KD + +LP C H F   CI +WL S + TCPLC
Sbjct: 1   CPICLEEP--KDPVTILP-CGHLFCSKCILSWLESGNVTCPLC 40

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

>gnl|CDD|222944 PHA02929, PHA02929, N1R/p28-like protein; Provisional

 Score = 53.2 bits (128), Expect = 3e-08
 Identities = 19/66 (28%), Positives = 35/66 (53%), Gaps = 4/66 (6%)

Query: 122 VFQYKEIVGLKEPFDCAVCLCEFSEKDK----LRLLPMCSHAFHINCIDTWLLSNSTCPL 177
           + +Y+++    +  +CA+C+ +  +K+       +L  C+H F I CID W    +TCP+
Sbjct: 162 LSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPV 221

Query: 178 CRDTLF 183
           CR    
Sbjct: 222 CRTPFI 227

Length = 238

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

 Score = 47.5 bits (113), Expect = 9e-08
 Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 3/47 (6%)

Query: 133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
           E  +C +CL     +D + L P C H F   CI  +L   S CP+CR
Sbjct: 1   EELECPICLDLL--RDPVVLTP-CGHVFCRECILRYLKKKSKCPICR 44

Length = 45

>gnl|CDD|227521 COG5194, APC11, Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

 Score = 42.5 bits (100), Expect = 2e-05
 Identities = 14/26 (53%), Positives = 17/26 (65%)

Query: 156 CSHAFHINCIDTWLLSNSTCPLCRDT 181
           C+HAFH +CI  WL +   CPL R T
Sbjct: 54  CNHAFHDHCIYRWLDTKGVCPLDRQT 79

Length = 88

>gnl|CDD|193335 pfam12861, zf-Apc11, Anaphase-promoting complex subunit 11 RING-H2 finger

 Score = 40.9 bits (96), Expect = 6e-05
 Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 3/54 (5%)

Query: 134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNST---CPLCRDTLFT 184
            FD     C+F   D   +   C H FH++CI  WL + ++   CP+CR T   
Sbjct: 30  SFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCRQTFVF 83

Apc11 is one of the subunits of the anaphase-promoting complex or cyclosome. The APC subunits are cullin family proteins with ubiquitin ligase activity. Polyubiquitination marks proteins for degradation by the 26S proteasome and is carried out by a cascade of enzymes that includes ubiquitin-activating enzymes (E1s), ubiquitin-conjugating enzymes (E2s), and ubiquitin ligases (E3s). Apc11 acts as an E3 enzyme and is responsible for recruiting E2s to the APC and for mediating the subsequent transfer of ubiquitin to APC substrates in vivo. In Saccharomyces cerevisiae this RING-H2 finger protein defines the minimal ubiquitin ligase activity of the APC, and the integrity of the RING-H2 finger is essential for budding yeast cell viability. Length = 85

>gnl|CDD|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 42.3 bits (99), Expect = 3e-04
 Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 11/78 (14%)

Query: 110  SGLDQAFIDALPVFQ---YKEIVGLKEPFDCAVCLCEFSEKDKL---RLLPMCSHAFHIN 163
               + +F+D L +++    ++  G +E   CA+C       D+    +    C + FH  
Sbjct: 1445 IKKNGSFMDLLGLWKKNIDEKFSGHEE---CAICYSVLDMVDRSLPSKRCATCKNKFHTR 1501

Query: 164  CIDTWLLS--NSTCPLCR 179
            C+  W  S   S CPLCR
Sbjct: 1502 CLYKWFASSARSNCPLCR 1519

Length = 1525

>gnl|CDD|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

 Score = 40.3 bits (94), Expect = 0.001
 Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 11/53 (20%)

Query: 137 CAVCLCEFSEKD----------KLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
           C +C+ E    D            + LP C H  H++C+  WL    TCP+CR
Sbjct: 290 CTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICR 341

Length = 491

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	365
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.7
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.42
PHA02929	238	N1R/p28-like protein; Provisional	99.32
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.17
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.11
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.1
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.84
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.83
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.82
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.81
PHA02926	242	zinc finger-like protein; Provisional	98.75
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.71
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.71
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.68
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.66
PF14634	44	zf-RING_5: zinc-RING finger domain	98.55
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.54
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.53
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.51
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.48
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.45
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.43
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.35
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.27
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.22
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.19
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.19
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.07
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.05
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.0
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.98
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.97
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	97.96
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.95
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.95
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	97.89
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.88
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.88
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.82
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.77
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.64
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.56
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.53
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.48
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.48
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	97.4
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.32
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.24
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.21
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.1
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	96.94
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	96.92
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.76
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	96.71
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.56
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.45
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.35
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.34
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.28
COG5152	259	Uncharacterized conserved protein, contains RING a	95.8
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	95.79
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	95.7
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.52
KOG2660	331	consensus Locus-specific chromosome binding protei	95.51
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	95.51
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	95.38
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	95.22
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.05
KOG3039	303	consensus Uncharacterized conserved protein [Funct	95.0
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	94.85
PHA03096	284	p28-like protein; Provisional	94.63
PHA02862	156	5L protein; Provisional	94.34
KOG4739	233	consensus Uncharacterized protein involved in syna	94.31
COG5222	427	Uncharacterized conserved protein, contains RING Z	94.29
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.2
PF04641	260	Rtf2: Rtf2 RING-finger	93.83
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	93.68
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	93.61
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	93.41
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.14
PHA02825	162	LAP/PHD finger-like protein; Provisional	93.05
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	92.29
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	92.18
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	92.01
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	90.72
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	90.42
KOG1001	674	consensus Helicase-like transcription factor HLTF/	90.32
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	90.23
COG5236	493	Uncharacterized conserved protein, contains RING Z	89.87
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	89.85
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	89.85
KOG1940	276	consensus Zn-finger protein [General function pred	87.43
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	86.83
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	86.67
KOG0298	1394	consensus DEAD box-containing helicase-like transc	86.33
PF01708	91	Gemini_mov: Geminivirus putative movement protein	86.21
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	84.85
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	84.58
COG5175	480	MOT2 Transcriptional repressor [Transcription]	83.88
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	83.6
PF02439	38	Adeno_E3_CR2: Adenovirus E3 region protein CR2; In	83.24
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	82.97
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	82.07
KOG3002	299	consensus Zn finger protein [General function pred	81.9
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	80.05

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

Probab=99.70  E-value=1.6e-17  Score=163.61  Aligned_cols=74  Identities=41%  Similarity=0.871  Sum_probs=64.7

Q ss_pred             CCCHHHHhhCCceeeeeccCCCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCC-CCcccccccCC
Q 039247          111 GLDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNST-CPLCRDTLFTP  185 (365)
Q Consensus       111 gl~~~~i~~LP~~~y~~~~~~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~s-CPlCR~~l~~~  185 (365)
                      .+.+..+.++|...|.+..+......|+||+|+|+++|++|+|| |+|.||..||++||.++.+ ||+|++++...
T Consensus       206 r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~  280 (348)
T KOG4628|consen  206 RLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTD  280 (348)
T ss_pred             hhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCC
Confidence            35678899999999998765555579999999999999999999 9999999999999998855 99999977543

>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=99.42  E-value=3.9e-14  Score=100.03  Aligned_cols=43  Identities=49%  Similarity=1.256  Sum_probs=40.4

Q ss_pred             cCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCccc
Q 039247          136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR  179 (365)
Q Consensus       136 ~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR  179 (365)
                      +|+||+++|.+++.+..++ |+|.||.+||..|++.+.+||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence            6999999999999999999 999999999999999999999997

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.32  E-value=1.9e-12  Score=122.55  Aligned_cols=75  Identities=27%  Similarity=0.701  Sum_probs=59.3

Q ss_pred             CCCCCHHHHhhCCceeee--eccCCCCCCcCccccCcccCCC----ceeecCCCCCccchhhHHHHHhcCCCCCcccccc
Q 039247          109 DSGLDQAFIDALPVFQYK--EIVGLKEPFDCAVCLCEFSEKD----KLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL  182 (365)
Q Consensus       109 ~~gl~~~~i~~LP~~~y~--~~~~~~~~~~CaICl~~f~~~~----~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l  182 (365)
                      ..+..+.+++.+|.+...  ...+.....+|+||++.+...+    .+.+++.|+|.||..||..|+..+.+||+||.++
T Consensus       147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~  226 (238)
T PHA02929        147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF  226 (238)
T ss_pred             hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence            466789999999998643  3333445679999999987643    1345555999999999999999999999999987


Q ss_pred             c
Q 039247          183 F  183 (365)
Q Consensus       183 ~  183 (365)
                      .
T Consensus       227 ~  227 (238)
T PHA02929        227 I  227 (238)
T ss_pred             e
Confidence            5

>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=99.17  E-value=1.6e-11  Score=96.37  Aligned_cols=45  Identities=42%  Similarity=0.997  Sum_probs=35.5

Q ss_pred             CCcCccccCcccCC----------CceeecCCCCCccchhhHHHHHhcCCCCCccc
Q 039247          134 PFDCAVCLCEFSEK----------DKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR  179 (365)
Q Consensus       134 ~~~CaICl~~f~~~----------~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR  179 (365)
                      +..|+||++.|.+.          -.+...+ |+|.||..||..||..+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence            45699999999422          2334445 999999999999999999999998

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 ....

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

Probab=99.11  E-value=2.8e-11  Score=116.63  Aligned_cols=51  Identities=43%  Similarity=1.214  Sum_probs=46.0

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc-CCCCCcccccccC
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTLFT  184 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l~~  184 (365)
                      ..-+|+|||+.|-.+|++++|| |.|.||..||+.|+.. ...||+||.+++.
T Consensus       322 ~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            3468999999999999999999 9999999999999995 4579999999864

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

Probab=99.10  E-value=7.2e-11  Score=116.36  Aligned_cols=68  Identities=26%  Similarity=0.728  Sum_probs=50.9

Q ss_pred             HHHHhhCCceeeeeccCCCCCCcCccccCc-ccCC---------CceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          114 QAFIDALPVFQYKEIVGLKEPFDCAVCLCE-FSEK---------DKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       114 ~~~i~~LP~~~y~~~~~~~~~~~CaICl~~-f~~~---------~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      ++.-+.+|+..-.+.  ..++..|.||+++ |+++         .+...|| |||+||.+|+..|++++++||.||.++.
T Consensus       269 kdl~~~~~t~t~eql--~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         269 KDLNAMYPTATEEQL--TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             hHHHhhcchhhhhhh--cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccc
Confidence            344444554443332  3456789999999 5554         2456788 9999999999999999999999999964


Q ss_pred             C
Q 039247          184 T  184 (365)
Q Consensus       184 ~  184 (365)
                      -
T Consensus       346 f  346 (491)
T COG5243         346 F  346 (491)
T ss_pred             c
Confidence            3

>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=98.84  E-value=2.4e-09  Score=73.53  Aligned_cols=44  Identities=52%  Similarity=1.272  Sum_probs=36.6

Q ss_pred             cCccccCcccCCCceeecCCCCCccchhhHHHHHhc-CCCCCcccccc
Q 039247          136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTL  182 (365)
Q Consensus       136 ~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l  182 (365)
                      +|+||++.+  .+.+.+.+ |+|.||..|+..|+.. +..||+||..+
T Consensus         1 ~C~iC~~~~--~~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF--REPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh--hCceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            599999998  33455555 9999999999999997 77899999764

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

Probab=98.83  E-value=2.3e-09  Score=86.32  Aligned_cols=52  Identities=33%  Similarity=0.757  Sum_probs=39.9

Q ss_pred             CCCCcCccccCcccC--------CC-ceeecCCCCCccchhhHHHHHhc---CCCCCccccccc
Q 039247          132 KEPFDCAVCLCEFSE--------KD-KLRLLPMCSHAFHINCIDTWLLS---NSTCPLCRDTLF  183 (365)
Q Consensus       132 ~~~~~CaICl~~f~~--------~~-~v~~lp~C~H~FH~~CI~~Wl~~---~~sCPlCR~~l~  183 (365)
                      .++..|.||+..|..        ++ -..++..|+|.||..||.+||..   +..||+||++..
T Consensus        19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            346789999999872        22 23344569999999999999986   357999999764

>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=98.82  E-value=2.1e-09  Score=77.92  Aligned_cols=46  Identities=30%  Similarity=0.813  Sum_probs=39.4

Q ss_pred             CCcCccccCcccCCCceeecCCCCCc-cchhhHHHHHhcCCCCCccccccc
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHA-FHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      +..|.||++....   +.++| |||. |+..|+..|+.....||+||+++.
T Consensus         2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            4579999999665   77888 9999 999999999999999999999874

...

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.81  E-value=3.2e-09  Score=97.50  Aligned_cols=51  Identities=27%  Similarity=0.757  Sum_probs=41.3

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc----------------CCCCCcccccccCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS----------------NSTCPLCRDTLFTP  185 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~----------------~~sCPlCR~~l~~~  185 (365)
                      ..+..+|+||++.+.+   ..+++ |||+||..||..|+..                ...||+||..+...
T Consensus        15 ~~~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~   81 (193)
T PLN03208         15 SGGDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA   81 (193)
T ss_pred             CCCccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence            3466899999999865   55677 9999999999999852                24799999988543

>PHA02926 zinc finger-like protein; Provisional

Probab=98.75  E-value=3.4e-09  Score=98.76  Aligned_cols=54  Identities=28%  Similarity=0.744  Sum_probs=41.5

Q ss_pred             CCCCCCcCccccCcccC-----CCceeecCCCCCccchhhHHHHHhcC------CCCCccccccc
Q 039247          130 GLKEPFDCAVCLCEFSE-----KDKLRLLPMCSHAFHINCIDTWLLSN------STCPLCRDTLF  183 (365)
Q Consensus       130 ~~~~~~~CaICl~~f~~-----~~~v~~lp~C~H~FH~~CI~~Wl~~~------~sCPlCR~~l~  183 (365)
                      ....+.+|+||++..-.     +....+|+.|+|.||..||..|...+      .+||+||..+.
T Consensus       166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            34556789999998643     22345677799999999999999753      35999999764

>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=98.71  E-value=7e-09  Score=71.44  Aligned_cols=39  Identities=38%  Similarity=1.080  Sum_probs=32.9

Q ss_pred             CccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcc
Q 039247          137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLC  178 (365)
Q Consensus       137 CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlC  178 (365)
                      |+||++.+.+  .+..++ |||.|+.+||..|++.+..||+|
T Consensus         1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence            8999999877  346677 99999999999999998899998

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

Probab=98.71  E-value=6.4e-09  Score=97.32  Aligned_cols=51  Identities=27%  Similarity=0.689  Sum_probs=41.2

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC---CCCcccccccCCC
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS---TCPLCRDTLFTPG  186 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~---sCPlCR~~l~~~~  186 (365)
                      ...++|.|||+.-++   .+++. |||+||..||.+||+.+.   .||+|++.+....
T Consensus        45 ~~~FdCNICLd~akd---PVvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~   98 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKD---PVVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT   98 (230)
T ss_pred             CCceeeeeeccccCC---CEEee-cccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence            456899999998444   55666 999999999999998654   5999999885543

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

Probab=98.68  E-value=9.1e-09  Score=98.95  Aligned_cols=48  Identities=33%  Similarity=0.803  Sum_probs=42.3

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTP  185 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~  185 (365)
                      ...|.+||+..+.   .-.+| |||+||..||..|+.....||+||..+...
T Consensus       239 ~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps  286 (293)
T KOG0317|consen  239 TRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQPS  286 (293)
T ss_pred             CCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence            3679999999766   66788 999999999999999999999999987544

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

Probab=98.66  E-value=7.4e-09  Score=108.96  Aligned_cols=51  Identities=35%  Similarity=0.887  Sum_probs=44.6

Q ss_pred             CCCcCccccCcccCCCc--eeecCCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          133 EPFDCAVCLCEFSEKDK--LRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~--v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      ....|+||++++.....  ...++ |+|+||..|+..|+++.++||+||..+..
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~  342 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYD  342 (543)
T ss_pred             cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence            35689999999998655  67888 99999999999999999999999995543

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.55  E-value=5.2e-08  Score=68.94  Aligned_cols=44  Identities=32%  Similarity=0.861  Sum_probs=38.1

Q ss_pred             cCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccc
Q 039247          136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRD  180 (365)
Q Consensus       136 ~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~  180 (365)
                      .|.||++.|.+....++++ |||+|+..||..+......||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            4999999996666778887 9999999999999866678999984

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

Probab=98.54  E-value=3.6e-08  Score=89.03  Aligned_cols=52  Identities=31%  Similarity=0.740  Sum_probs=42.4

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCC
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTP  185 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~  185 (365)
                      ...+-|+|||+.+...  +.+-.+|||+||..||...+.....||+||..|...
T Consensus       129 ~~~~~CPiCl~~~sek--~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEK--VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK  180 (187)
T ss_pred             ccccCCCceecchhhc--cccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence            3457799999998873  434345999999999999999999999999866543

>smart00184 RING Ring finger

Probab=98.53  E-value=6.9e-08  Score=63.89  Aligned_cols=38  Identities=47%  Similarity=1.211  Sum_probs=32.4

Q ss_pred             CccccCcccCCCceeecCCCCCccchhhHHHHHh-cCCCCCcc
Q 039247          137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL-SNSTCPLC  178 (365)
Q Consensus       137 CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~sCPlC  178 (365)
                      |+||++..   ..+..++ |+|.||..|+..|+. .+..||+|
T Consensus         1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence            88999883   3477788 999999999999998 56679988

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)

>smart00504 Ubox Modified RING finger domain

Probab=98.51  E-value=9.6e-08  Score=71.54  Aligned_cols=46  Identities=28%  Similarity=0.582  Sum_probs=40.2

Q ss_pred             CcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          135 FDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       135 ~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      ..|+||++.+.+   ..+++ |||+|+..||..|+..+.+||+|+.++..
T Consensus         2 ~~Cpi~~~~~~~---Pv~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~   47 (63)
T smart00504        2 FLCPISLEVMKD---PVILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTH   47 (63)
T ss_pred             cCCcCCCCcCCC---CEECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence            469999999887   45677 99999999999999998999999988743

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

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

Probab=98.48  E-value=9.5e-08  Score=67.24  Aligned_cols=38  Identities=34%  Similarity=0.892  Sum_probs=29.9

Q ss_pred             CccccCcccCCCceeecCCCCCccchhhHHHHHhcC----CCCCcc
Q 039247          137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN----STCPLC  178 (365)
Q Consensus       137 CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~----~sCPlC  178 (365)
                      |+||++.|.+   ...|+ |||.|+..||..|....    ..||.|
T Consensus         1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999998   77888 99999999999999754    369988

>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=98.45  E-value=1.1e-07  Score=65.64  Aligned_cols=39  Identities=44%  Similarity=1.197  Sum_probs=33.0

Q ss_pred             CccccCcccCCCceeecCCCCCccchhhHHHHHh--cCCCCCcc
Q 039247          137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL--SNSTCPLC  178 (365)
Q Consensus       137 CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~--~~~sCPlC  178 (365)
                      |+||++.+...  +.+++ |+|.||..||..|+.  ....||+|
T Consensus         1 C~iC~~~~~~~--~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLP-CGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE--EEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC--CEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998773  34677 999999999999999  45579998

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 ....

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.43  E-value=1.4e-07  Score=95.55  Aligned_cols=52  Identities=33%  Similarity=0.623  Sum_probs=44.0

Q ss_pred             CCCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCC
Q 039247          130 GLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTP  185 (365)
Q Consensus       130 ~~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~  185 (365)
                      .+.....|+||++.|..   ..+++ |+|.||..||..|+.....||+||..+...
T Consensus        22 ~Le~~l~C~IC~d~~~~---Pvitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        22 PLDTSLRCHICKDFFDV---PVLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQES   73 (397)
T ss_pred             ccccccCCCcCchhhhC---ccCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence            34566799999999876   44677 999999999999999888999999987644

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

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

Probab=98.35  E-value=2.7e-07  Score=73.12  Aligned_cols=48  Identities=35%  Similarity=0.763  Sum_probs=34.6

Q ss_pred             CccccCcccCCCce-eecCCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          137 CAVCLCEFSEKDKL-RLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       137 CaICl~~f~~~~~v-~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      |+-|...+.++++. ...-.|+|.||..||.+||..+..||+||++...
T Consensus        34 C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~   82 (88)
T COG5194          34 CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL   82 (88)
T ss_pred             CcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence            33343333344432 3334599999999999999999999999998743

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

Probab=98.27  E-value=1.5e-07  Score=74.04  Aligned_cols=51  Identities=35%  Similarity=0.778  Sum_probs=38.0

Q ss_pred             CCCcCccccCcccC---------CCceeecCCCCCccchhhHHHHHhcC---CCCCccccccc
Q 039247          133 EPFDCAVCLCEFSE---------KDKLRLLPMCSHAFHINCIDTWLLSN---STCPLCRDTLF  183 (365)
Q Consensus       133 ~~~~CaICl~~f~~---------~~~v~~lp~C~H~FH~~CI~~Wl~~~---~sCPlCR~~l~  183 (365)
                      ....|-||...|..         +|-..++-.|.|.||..||.+|+...   ..||+||++..
T Consensus        19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            34489999988862         22233444699999999999999754   45999999764

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

Probab=98.22  E-value=4.2e-07  Score=92.80  Aligned_cols=51  Identities=31%  Similarity=0.826  Sum_probs=39.4

Q ss_pred             CCCcCccccCcccCCC--------------ceeecCCCCCccchhhHHHHHhc-CCCCCcccccccC
Q 039247          133 EPFDCAVCLCEFSEKD--------------KLRLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTLFT  184 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~--------------~v~~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l~~  184 (365)
                      ...+|+||+..+.--.              ...++| |.|+||..|+..|+.. +--||+||.+|+.
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            4568999999875210              123457 9999999999999994 4589999999863

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

Probab=98.19  E-value=2.7e-07  Score=99.81  Aligned_cols=70  Identities=27%  Similarity=0.642  Sum_probs=48.4

Q ss_pred             HHHHhhCCceeeeeccCCCCCCcCccccCcccCCC-c--eeecCCCCCccchhhHHHHHhc--CCCCCccccccc
Q 039247          114 QAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKD-K--LRLLPMCSHAFHINCIDTWLLS--NSTCPLCRDTLF  183 (365)
Q Consensus       114 ~~~i~~LP~~~y~~~~~~~~~~~CaICl~~f~~~~-~--v~~lp~C~H~FH~~CI~~Wl~~--~~sCPlCR~~l~  183 (365)
                      -++.+.|-.++.+-.....+..+||||+..+..-| .  -...++|.|.||..|+.+|+.+  +.+||+||.++.
T Consensus      1449 gs~~D~l~l~kkNi~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1449 GSFMDLLGLWKKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             chHHHHHHHHHhhhhhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            34455554444433334456779999998877322 1  2334569999999999999986  457999998764

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

Probab=98.19  E-value=3.8e-07  Score=87.14  Aligned_cols=52  Identities=31%  Similarity=0.662  Sum_probs=42.8

Q ss_pred             CCCCcCccccCcccCCC-------ceeecCCCCCccchhhHHHHHh--cCCCCCcccccccC
Q 039247          132 KEPFDCAVCLCEFSEKD-------KLRLLPMCSHAFHINCIDTWLL--SNSTCPLCRDTLFT  184 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~-------~v~~lp~C~H~FH~~CI~~Wl~--~~~sCPlCR~~l~~  184 (365)
                      .++..|+||-..+....       +...|. |+|+||..||..|..  +.++||.|+..+..
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence            45678999999887654       566787 999999999999986  67899999887643

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

Probab=98.07  E-value=1.6e-06  Score=82.80  Aligned_cols=48  Identities=31%  Similarity=0.832  Sum_probs=40.4

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHH-HHhcCCC-CCcccccccCC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDT-WLLSNST-CPLCRDTLFTP  185 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~-Wl~~~~s-CPlCR~~l~~~  185 (365)
                      ++.|+||++....   .-.++ |||+||..||.. |-.++.- ||+||+-....
T Consensus       215 d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk  264 (271)
T COG5574         215 DYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK  264 (271)
T ss_pred             ccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence            5789999999666   66777 999999999999 9877765 99999977544

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

Probab=98.05  E-value=9e-07  Score=86.95  Aligned_cols=51  Identities=29%  Similarity=0.679  Sum_probs=44.3

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCCC
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPG  186 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~~  186 (365)
                      ..-..|-||.+.|..   ..++| |+|.||.-||...|..+..||+|+.++.+..
T Consensus        21 D~lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~   71 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESD   71 (442)
T ss_pred             HHHHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccchhh
Confidence            344579999999988   67788 9999999999999999999999999875543

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

Probab=98.00  E-value=4.3e-06  Score=60.80  Aligned_cols=42  Identities=24%  Similarity=0.775  Sum_probs=32.6

Q ss_pred             cCccccCcccCCCceeecCCCC-----CccchhhHHHHHhcC--CCCCccc
Q 039247          136 DCAVCLCEFSEKDKLRLLPMCS-----HAFHINCIDTWLLSN--STCPLCR  179 (365)
Q Consensus       136 ~CaICl~~f~~~~~v~~lp~C~-----H~FH~~CI~~Wl~~~--~sCPlCR  179 (365)
                      .|-||++ +..++...+.| |.     |.+|..|+..|+...  .+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899999 33444555778 85     899999999999754  4799995

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

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

Probab=97.98  E-value=2.8e-06  Score=86.18  Aligned_cols=50  Identities=34%  Similarity=0.804  Sum_probs=40.2

Q ss_pred             CCCCCcCccccCcccCCC-ceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          131 LKEPFDCAVCLCEFSEKD-KLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      ..+..+|+|||+.+.+.- .++... |.|.||..|+..|  ...+||+||.-..
T Consensus       172 ~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~  222 (493)
T KOG0804|consen  172 LTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS  222 (493)
T ss_pred             cccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence            456678999999998754 344445 9999999999999  6678999998554

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

Probab=97.97  E-value=2.8e-06  Score=82.11  Aligned_cols=51  Identities=31%  Similarity=0.694  Sum_probs=42.7

Q ss_pred             CCCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          130 GLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       130 ~~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      ++..-..|-||-+.|..   ..+++ |||.||.-||...|..+..||+||.+...
T Consensus        21 ~LDs~lrC~IC~~~i~i---p~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~e   71 (391)
T COG5432          21 GLDSMLRCRICDCRISI---PCETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCE   71 (391)
T ss_pred             cchhHHHhhhhhheeec---ceecc-cccchhHHHHHHHhcCCCCCccccccHHh
Confidence            34445679999999877   55666 99999999999999999999999997643

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

Probab=97.96  E-value=4e-06  Score=65.58  Aligned_cols=48  Identities=25%  Similarity=0.494  Sum_probs=37.9

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc-CCCCCcccccccCC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTLFTP  185 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l~~~  185 (365)
                      .+.|+||.+.|.+   ..+++ |||.|...||..|+.. +.+||+|+.++...
T Consensus         4 ~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    4 EFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSES   52 (73)
T ss_dssp             GGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred             ccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence            4689999999988   77788 9999999999999998 78999999887653

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 ....

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

Probab=97.95  E-value=4.3e-06  Score=86.11  Aligned_cols=50  Identities=28%  Similarity=0.589  Sum_probs=39.1

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC-----CCCCcccccccCCCC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN-----STCPLCRDTLFTPGF  187 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~-----~sCPlCR~~l~~~~~  187 (365)
                      ...|+|||+....   ...+. |||+||..||..++...     ..||+||..|...+.
T Consensus       186 ~~~CPICL~~~~~---p~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl  240 (513)
T KOG2164|consen  186 DMQCPICLEPPSV---PVRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDL  240 (513)
T ss_pred             CCcCCcccCCCCc---ccccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhccccce
Confidence            5689999998655   33444 99999999999988643     469999998876543

>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]

Probab=97.95  E-value=3.9e-06  Score=69.64  Aligned_cols=50  Identities=30%  Similarity=0.714  Sum_probs=36.9

Q ss_pred             CCcCccccCccc-------------CCCceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          134 PFDCAVCLCEFS-------------EKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       134 ~~~CaICl~~f~-------------~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      -+.|+||..-+-             .++-....-.|+|.||..||.+||+.++.||+|.++..
T Consensus        46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~  108 (114)
T KOG2930|consen   46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV  108 (114)
T ss_pred             echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence            457888765432             12223334469999999999999999999999988653

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

Probab=97.89  E-value=8.2e-06  Score=57.84  Aligned_cols=38  Identities=32%  Similarity=0.826  Sum_probs=22.6

Q ss_pred             CccccCcccC-CCceeecCCCCCccchhhHHHHHhcC----CCCC
Q 039247          137 CAVCLCEFSE-KDKLRLLPMCSHAFHINCIDTWLLSN----STCP  176 (365)
Q Consensus       137 CaICl~~f~~-~~~v~~lp~C~H~FH~~CI~~Wl~~~----~sCP  176 (365)
                      |+||++ |.. +....+|+ |||+|+.+||..++..+    ..||
T Consensus         1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 755 44567888 99999999999999854    2476

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

Probab=97.88  E-value=3.3e-06  Score=65.82  Aligned_cols=49  Identities=27%  Similarity=0.807  Sum_probs=23.9

Q ss_pred             CcCccccCcccCCC-c-eeec--CCCCCccchhhHHHHHhc----C----C---CCCccccccc
Q 039247          135 FDCAVCLCEFSEKD-K-LRLL--PMCSHAFHINCIDTWLLS----N----S---TCPLCRDTLF  183 (365)
Q Consensus       135 ~~CaICl~~f~~~~-~-v~~l--p~C~H~FH~~CI~~Wl~~----~----~---sCPlCR~~l~  183 (365)
                      .+|.||++.+..++ . ..+.  +.|++.||..||..||+.    +    .   .||.|+.+|.
T Consensus         3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            57999999876332 2 2233  269999999999999973    1    1   3999999874

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

Probab=97.88  E-value=3.9e-06  Score=83.82  Aligned_cols=45  Identities=29%  Similarity=0.863  Sum_probs=34.6

Q ss_pred             CcCccccCcccC-CCceeecCCCCCccchhhHHHHHhc---CCCCCcccc
Q 039247          135 FDCAVCLCEFSE-KDKLRLLPMCSHAFHINCIDTWLLS---NSTCPLCRD  180 (365)
Q Consensus       135 ~~CaICl~~f~~-~~~v~~lp~C~H~FH~~CI~~Wl~~---~~sCPlCR~  180 (365)
                      ..|.|| .+|.+ ...+.-...|||+||..|+..|+..   +.+||.|+-
T Consensus         5 A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~i   53 (465)
T KOG0827|consen    5 AECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQI   53 (465)
T ss_pred             ceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceee
Confidence            479999 55555 3445445569999999999999985   357999993

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.82  E-value=1.5e-05  Score=78.32  Aligned_cols=52  Identities=23%  Similarity=0.515  Sum_probs=38.1

Q ss_pred             CCcCccccCc--ccCCCceeecCCCCCccchhhHHHHHhc-CCCCCcccccccCCC
Q 039247          134 PFDCAVCLCE--FSEKDKLRLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTLFTPG  186 (365)
Q Consensus       134 ~~~CaICl~~--f~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l~~~~  186 (365)
                      +..|++|...  +.+.-++.+.+ |||.||..||+..+.. ...||.|+.++....
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            3579999995  33333344445 9999999999996654 457999999886544

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).

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

Probab=97.77  E-value=1e-05  Score=74.84  Aligned_cols=44  Identities=39%  Similarity=0.898  Sum_probs=38.5

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR  179 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR  179 (365)
                      .+...|+||++.|...   .+++ |+|.||..||..++.....||.||
T Consensus        11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr   54 (386)
T KOG2177|consen   11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR   54 (386)
T ss_pred             cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence            4567899999999985   7788 999999999999988555799999

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

Probab=97.64  E-value=5.7e-06  Score=81.85  Aligned_cols=61  Identities=30%  Similarity=0.553  Sum_probs=47.4

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc-CCCCCcccccccCCCCCCCCCCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTLFTPGFSIENPMF  194 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l~~~~~~~~~~~~  194 (365)
                      ...+..|+|||+-+..   .+.++.|.|.||.+||..-++. +..||.||..+...-....+|.+
T Consensus        40 ~~~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp~f  101 (381)
T KOG0311|consen   40 FDIQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDPNF  101 (381)
T ss_pred             hhhhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCccH
Confidence            3456789999999877   5566679999999999999985 66899999998765444444444

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

Probab=97.56  E-value=4.1e-05  Score=75.98  Aligned_cols=47  Identities=28%  Similarity=0.769  Sum_probs=40.4

Q ss_pred             CCcCccccCcccCCCceeecCCCCC-ccchhhHHHHHhcCCCCCcccccccC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSH-AFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H-~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      ..+|.||+.+-.+   ..+|| |.| -.|..|.+...-+++.||+||+++..
T Consensus       290 gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  290 GKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE  337 (349)
T ss_pred             CCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence            4689999999776   78999 999 47899999977788999999998854

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

Probab=97.53  E-value=4.2e-05  Score=76.43  Aligned_cols=52  Identities=33%  Similarity=0.894  Sum_probs=40.3

Q ss_pred             CCCCcCccccCcccCCC----ceeecCCCCCccchhhHHHHHh--c-----CCCCCccccccc
Q 039247          132 KEPFDCAVCLCEFSEKD----KLRLLPMCSHAFHINCIDTWLL--S-----NSTCPLCRDTLF  183 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~----~v~~lp~C~H~FH~~CI~~Wl~--~-----~~sCPlCR~~l~  183 (365)
                      ..+..|.||++..-...    ...++|+|.|.||..||..|-.  +     ...||.||....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            34568999999876532    2356788999999999999984  3     367999998763

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

Probab=97.48  E-value=5.1e-05  Score=73.82  Aligned_cols=52  Identities=25%  Similarity=0.756  Sum_probs=43.1

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc-----------------------CCCCCcccccccCC
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-----------------------NSTCPLCRDTLFTP  185 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~-----------------------~~sCPlCR~~l~~~  185 (365)
                      ...+|.|||.-|...+...+++ |-|.||..|+.++|..                       ...||+||-.|...
T Consensus       114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e  188 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE  188 (368)
T ss_pred             CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence            3468999999999999999998 9999999999887721                       23599999988543

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

Probab=97.48  E-value=5.4e-05  Score=76.07  Aligned_cols=49  Identities=27%  Similarity=0.715  Sum_probs=40.7

Q ss_pred             cCccccCcccCCCceeecCCCCCccchhhHHHHHhc--CCCCCcccccccCCCCC
Q 039247          136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS--NSTCPLCRDTLFTPGFS  188 (365)
Q Consensus       136 ~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~--~~sCPlCR~~l~~~~~~  188 (365)
                      .|-||-+.   ++.|++-| |||..|..|+..|-.+  .++||.||.+|......
T Consensus       371 LCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~v  421 (563)
T KOG1785|consen  371 LCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPV  421 (563)
T ss_pred             HHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEeccccce
Confidence            59999887   45588999 9999999999999754  57899999999665443

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

Probab=97.40  E-value=2e-05  Score=78.22  Aligned_cols=45  Identities=31%  Similarity=0.647  Sum_probs=34.3

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      ..+..|.||+++..+   ...+| |||+-|  |+..- +....||+||+.+-
T Consensus       303 ~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  303 PQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             CCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            345689999999777   77888 999866  77664 33445999999773

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

Probab=97.32  E-value=4.2e-05  Score=81.98  Aligned_cols=48  Identities=23%  Similarity=0.479  Sum_probs=40.0

Q ss_pred             CcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          135 FDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       135 ~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      ..|++|+..|.+....-..+ |+|.||..||+.|-+...+||+||..+.
T Consensus       124 ~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~  171 (1134)
T KOG0825|consen  124 NQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFG  171 (1134)
T ss_pred             hhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhh
Confidence            46888888887765554555 9999999999999999999999998763

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

Probab=97.24  E-value=0.00016  Score=73.69  Aligned_cols=51  Identities=35%  Similarity=0.878  Sum_probs=44.0

Q ss_pred             CCCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          130 GLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       130 ~~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      ....+++|.||+..+.+   ...+| |||.||..||++-+.....||.||.++..
T Consensus        80 ~~~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   80 EIRSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cccchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence            34667899999998887   66778 99999999999988777789999999864

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

Probab=97.21  E-value=0.00012  Score=56.05  Aligned_cols=47  Identities=28%  Similarity=0.674  Sum_probs=23.5

Q ss_pred             CcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCCC
Q 039247          135 FDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPG  186 (365)
Q Consensus       135 ~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~~  186 (365)
                      ..|++|.+-+..   ...+..|.|+|+..||..-+..  -||+|+.+.-..+
T Consensus         8 LrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD   54 (65)
T PF14835_consen    8 LRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQD   54 (65)
T ss_dssp             TS-SSS-S--SS----B---SSS--B-TTTGGGGTTT--B-SSS--B-S-SS
T ss_pred             cCCcHHHHHhcC---CceeccCccHHHHHHhHHhcCC--CCCCcCChHHHHH
Confidence            479999999877   4444569999999999875443  4999998765444

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

Probab=97.10  E-value=0.00017  Score=77.52  Aligned_cols=49  Identities=24%  Similarity=0.633  Sum_probs=38.1

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHh-cCCCCCcccccccCC
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL-SNSTCPLCRDTLFTP  185 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~sCPlCR~~l~~~  185 (365)
                      +-..|++|-..+.+   +.++ +|+|+||..||..-+. ++..||.|..++-..
T Consensus       642 ~~LkCs~Cn~R~Kd---~vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFgan  691 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKD---AVIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGAN  691 (698)
T ss_pred             hceeCCCccCchhh---HHHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence            34579999977665   4444 4999999999999987 566899998877443

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

Probab=96.94  E-value=0.00045  Score=69.78  Aligned_cols=48  Identities=29%  Similarity=0.771  Sum_probs=36.6

Q ss_pred             CCcCccccCcccC-CCceeecCCCCCccchhhHHHHHhcC--CCCCccccc
Q 039247          134 PFDCAVCLCEFSE-KDKLRLLPMCSHAFHINCIDTWLLSN--STCPLCRDT  181 (365)
Q Consensus       134 ~~~CaICl~~f~~-~~~v~~lp~C~H~FH~~CI~~Wl~~~--~sCPlCR~~  181 (365)
                      ...|+||++.+.- ++...+.+.|||.|-.+||+.||.+.  ..||.|...
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k   54 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK   54 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence            3579999999874 44444444599999999999999632  359999764

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

Probab=96.92  E-value=0.00041  Score=67.65  Aligned_cols=48  Identities=25%  Similarity=0.453  Sum_probs=37.8

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC-CCCCcccccccCC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN-STCPLCRDTLFTP  185 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~-~sCPlCR~~l~~~  185 (365)
                      ..+|+||+...--   ...|+ |+|.||..||..-.... .+|++||.++...
T Consensus         7 ~~eC~IC~nt~n~---Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~   55 (324)
T KOG0824|consen    7 KKECLICYNTGNC---PVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDST   55 (324)
T ss_pred             CCcceeeeccCCc---Ccccc-ccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence            3579999988443   45667 99999999998876654 5799999998643

>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.76  E-value=0.00038  Score=62.49  Aligned_cols=42  Identities=26%  Similarity=0.609  Sum_probs=33.4

Q ss_pred             CceeeeeccCCCCCCcCccccCcccCCCceeecCCCCCccchh
Q 039247          121 PVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHIN  163 (365)
Q Consensus       121 P~~~y~~~~~~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~  163 (365)
                      |.+.|++..-.++..+|.||||+++.++.+..|| |-.+||+.
T Consensus       164 PrlsYNdDVL~ddkGECvICLEdL~~GdtIARLP-CLCIYHK~  205 (205)
T KOG0801|consen  164 PRLSYNDDVLKDDKGECVICLEDLEAGDTIARLP-CLCIYHKQ  205 (205)
T ss_pred             cccccccchhcccCCcEEEEhhhccCCCceeccc-eEEEeecC
Confidence            4555555443456678999999999999999999 99999963

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

Probab=96.71  E-value=0.00047  Score=51.27  Aligned_cols=45  Identities=22%  Similarity=0.535  Sum_probs=31.8

Q ss_pred             CcCccccCcccCCCceeecCCCCCc-cchhhHHHHHh-cCCCCCccccccc
Q 039247          135 FDCAVCLCEFSEKDKLRLLPMCSHA-FHINCIDTWLL-SNSTCPLCRDTLF  183 (365)
Q Consensus       135 ~~CaICl~~f~~~~~v~~lp~C~H~-FH~~CI~~Wl~-~~~sCPlCR~~l~  183 (365)
                      .+|.||++.--  |.+..  .|||. .|.+|-.+-++ .+..||+||+++.
T Consensus         8 dECTICye~pv--dsVlY--tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    8 DECTICYEHPV--DSVLY--TCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             cceeeeccCcc--hHHHH--HcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            68999998733  33433  39995 56777555444 6789999999873

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

Probab=96.56  E-value=0.0014  Score=66.86  Aligned_cols=51  Identities=25%  Similarity=0.700  Sum_probs=42.1

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCC
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTP  185 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~  185 (365)
                      .++..|++|...+.+.  +..+. |||.||..|+..|+..+..||.|+..+...
T Consensus        19 ~~~l~C~~C~~vl~~p--~~~~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~   69 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDP--VQTTT-CGHRFCAGCLLESLSNHQKCPVCRQELTQA   69 (391)
T ss_pred             cccccCccccccccCC--CCCCC-CCCcccccccchhhccCcCCcccccccchh
Confidence            5567899999998873  22234 999999999999999999999999887544

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

Probab=96.45  E-value=0.0031  Score=47.34  Aligned_cols=42  Identities=24%  Similarity=0.626  Sum_probs=27.4

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC--CCCCc
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN--STCPL  177 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~--~sCPl  177 (365)
                      -...|+|.+..|++  .++-. .|+|+|-.+.|..|+..+  ..||+
T Consensus        10 ~~~~CPiT~~~~~~--PV~s~-~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFED--PVKSK-KCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SS--EEEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhC--CcCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence            35689999999887  34444 499999999999999543  35998

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

Probab=96.35  E-value=0.0017  Score=65.40  Aligned_cols=45  Identities=38%  Similarity=0.939  Sum_probs=37.4

Q ss_pred             CcCccccCcccC-CCceeecCCCCCccchhhHHHHHhcCC--CCCcccc
Q 039247          135 FDCAVCLCEFSE-KDKLRLLPMCSHAFHINCIDTWLLSNS--TCPLCRD  180 (365)
Q Consensus       135 ~~CaICl~~f~~-~~~v~~lp~C~H~FH~~CI~~Wl~~~~--sCPlCR~  180 (365)
                      ..|-.|-+.+-- ++.+.-|| |.|+||..|+...|.++.  +||.||.
T Consensus       366 L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  366 LYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            469999888764 45677889 999999999999998764  6999994

>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.34  E-value=0.0025  Score=60.12  Aligned_cols=51  Identities=29%  Similarity=0.750  Sum_probs=43.1

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc--------CCCCCcccccccCCC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS--------NSTCPLCRDTLFTPG  186 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~--------~~sCPlCR~~l~~~~  186 (365)
                      ...|..|-..+..+|.+|+.  |-|+||.+|++.|...        .-.||.|-.+|+...
T Consensus        50 ~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~  108 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI  108 (299)
T ss_pred             CCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence            45799999999999999875  9999999999999864        234999999998654

>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=96.28  E-value=0.0013  Score=57.48  Aligned_cols=38  Identities=16%  Similarity=0.518  Sum_probs=31.6

Q ss_pred             CCcCccccCcccCCCceeecCCCC------CccchhhHHHHHhcC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCS------HAFHINCIDTWLLSN  172 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~------H~FH~~CI~~Wl~~~  172 (365)
                      ..+|+||++.+..++.++.++ |+      |.||.+|+.+|-+.+
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~~   69 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRER   69 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhhc
Confidence            458999999999977777777 76      999999999995433

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.

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

Probab=95.80  E-value=0.0034  Score=58.20  Aligned_cols=46  Identities=22%  Similarity=0.621  Sum_probs=39.7

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      ++.|-||..+|+.   .+++. |||.||..|...=++....|-+|.....
T Consensus       196 PF~C~iCKkdy~s---pvvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t~  241 (259)
T COG5152         196 PFLCGICKKDYES---PVVTE-CGHSFCSLCAIRKYQKGDECGVCGKATY  241 (259)
T ss_pred             ceeehhchhhccc---hhhhh-cchhHHHHHHHHHhccCCcceecchhhc
Confidence            5689999999988   55665 9999999999999999999999987553

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

Probab=95.79  E-value=0.0057  Score=69.67  Aligned_cols=52  Identities=27%  Similarity=0.629  Sum_probs=40.5

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC----------CCCCcccccccC
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN----------STCPLCRDTLFT  184 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~----------~sCPlCR~~l~~  184 (365)
                      ..++.|.||+.+--.....+.|. |+|+||.+|...-|+++          -+||+|..+|..
T Consensus      3484 D~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             ccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            34567999998877767777887 99999999997766542          259999998753

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

Probab=95.70  E-value=0.0081  Score=58.13  Aligned_cols=49  Identities=29%  Similarity=0.520  Sum_probs=36.5

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC--CCCCccccccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN--STCPLCRDTLF  183 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~--~sCPlCR~~l~  183 (365)
                      ....+|++|-+.  +.......+ |+|+||.-||..-+...  .+||.|-.+..
T Consensus       237 t~~~~C~~Cg~~--PtiP~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  237 TSDTECPVCGEP--PTIPHVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cCCceeeccCCC--CCCCeeecc-ccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            345789999876  323344555 99999999999977644  68999977654

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

Probab=95.52  E-value=0.0052  Score=64.06  Aligned_cols=51  Identities=29%  Similarity=0.568  Sum_probs=39.4

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc-----CCCCCcccccccCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-----NSTCPLCRDTLFTP  185 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~-----~~sCPlCR~~l~~~  185 (365)
                      .++..+|-+|-+.-++   ..+.. |.|.||..||..+...     +.+||.|...|..+
T Consensus       533 nk~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  533 NKGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID  588 (791)
T ss_pred             ccCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence            3556789999887444   55666 9999999999888753     46899998877544

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

Probab=95.51  E-value=0.0032  Score=62.18  Aligned_cols=49  Identities=24%  Similarity=0.601  Sum_probs=40.4

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccc
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL  182 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l  182 (365)
                      ......|.+|-..|-+...+.   -|-|.||..||...|....+||+|...+
T Consensus        12 ~n~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~i   60 (331)
T KOG2660|consen   12 LNPHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVI   60 (331)
T ss_pred             cccceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceec
Confidence            345568999998888744333   3999999999999999999999998765

>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]

Probab=95.51  E-value=0.0067  Score=66.21  Aligned_cols=51  Identities=27%  Similarity=0.760  Sum_probs=41.1

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC-------CCCCcccccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN-------STCPLCRDTL  182 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~-------~sCPlCR~~l  182 (365)
                      .+..+|.||++.+...+.+.-...|-|+||..||..|.++.       -.||.|....
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~  246 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS  246 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence            45678999999999887776666688999999999999752       1499998533

>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=95.38  E-value=0.0064  Score=49.68  Aligned_cols=33  Identities=30%  Similarity=0.768  Sum_probs=27.1

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHH
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCID  166 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~  166 (365)
                      .+...|++|-..+.. ....+.| |||+||..|+.
T Consensus        76 ~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence            445679999999987 4566778 99999999975

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 [].

>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A

Probab=95.22  E-value=0.012  Score=42.33  Aligned_cols=40  Identities=30%  Similarity=0.897  Sum_probs=26.9

Q ss_pred             CccccCcccCCCceeecCCCC-----CccchhhHHHHHhc--CCCCCcc
Q 039247          137 CAVCLCEFSEKDKLRLLPMCS-----HAFHINCIDTWLLS--NSTCPLC  178 (365)
Q Consensus       137 CaICl~~f~~~~~v~~lp~C~-----H~FH~~CI~~Wl~~--~~sCPlC  178 (365)
                      |-||++.-.+++ ..+.| |.     -..|..|+..|+..  +.+|++|
T Consensus         1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            678998877655 33456 65     37899999999984  4569887

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

Probab=95.05  E-value=0.023  Score=57.87  Aligned_cols=46  Identities=30%  Similarity=0.750  Sum_probs=37.7

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC--------CCCCcccc
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN--------STCPLCRD  180 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~--------~sCPlCR~  180 (365)
                      .++|.||+++..-......+| |+|+||..|+..++..+        -.||-|.-
T Consensus       184 lf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             cccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            468999999988878888999 99999999999998642        24776654

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.00  E-value=0.019  Score=54.94  Aligned_cols=53  Identities=13%  Similarity=0.273  Sum_probs=47.0

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCCC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPG  186 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~~  186 (365)
                      .+.|+||.+.+...-.+.+|..|||+|+.+|+...+.....||+|-.++...+
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd  273 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD  273 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence            36799999999998888888889999999999999999999999988886654

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

Probab=94.85  E-value=0.011  Score=57.80  Aligned_cols=46  Identities=24%  Similarity=0.514  Sum_probs=39.4

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      ++.|-||...|..   .+++. |+|.||..|-..-++....|.+|-+.+.
T Consensus       241 Pf~c~icr~~f~~---pVvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t~  286 (313)
T KOG1813|consen  241 PFKCFICRKYFYR---PVVTK-CGHYFCEVCALKPYQKGEKCYVCSQQTH  286 (313)
T ss_pred             Ccccccccccccc---chhhc-CCceeehhhhccccccCCcceecccccc
Confidence            4669999999988   55555 9999999999998889999999987653

>PHA03096 p28-like protein; Provisional

Probab=94.63  E-value=0.015  Score=56.96  Aligned_cols=46  Identities=30%  Similarity=0.593  Sum_probs=34.1

Q ss_pred             CcCccccCcccCC----CceeecCCCCCccchhhHHHHHhcC---CCCCcccc
Q 039247          135 FDCAVCLCEFSEK----DKLRLLPMCSHAFHINCIDTWLLSN---STCPLCRD  180 (365)
Q Consensus       135 ~~CaICl~~f~~~----~~v~~lp~C~H~FH~~CI~~Wl~~~---~sCPlCR~  180 (365)
                      -.|.||++.....    ..-.+|+.|.|.||..||..|....   .+||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            4799999987653    2345788999999999999998642   34555544

>PHA02862 5L protein; Provisional

Probab=94.34  E-value=0.032  Score=49.41  Aligned_cols=44  Identities=25%  Similarity=0.592  Sum_probs=33.1

Q ss_pred             CcCccccCcccCCCceeecCCCC-----CccchhhHHHHHhc--CCCCCccccccc
Q 039247          135 FDCAVCLCEFSEKDKLRLLPMCS-----HAFHINCIDTWLLS--NSTCPLCRDTLF  183 (365)
Q Consensus       135 ~~CaICl~~f~~~~~v~~lp~C~-----H~FH~~CI~~Wl~~--~~sCPlCR~~l~  183 (365)
                      ..|=||+++-.+  .+  -| |.     ..-|..|+.+|+..  +..|++|+.++.
T Consensus         3 diCWIC~~~~~e--~~--~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~   53 (156)
T PHA02862          3 DICWICNDVCDE--RN--NF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN   53 (156)
T ss_pred             CEEEEecCcCCC--Cc--cc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence            469999998433  22  34 54     57899999999974  446999999874

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

Probab=94.31  E-value=0.017  Score=54.88  Aligned_cols=47  Identities=26%  Similarity=0.643  Sum_probs=34.4

Q ss_pred             cCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC-CCCcccccccCCCC
Q 039247          136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS-TCPLCRDTLFTPGF  187 (365)
Q Consensus       136 ~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~-sCPlCR~~l~~~~~  187 (365)
                      .|..|..-- ..+...++. |+|+||..|...-   +. .||+|+.++.....
T Consensus         5 hCn~C~~~~-~~~~f~LTa-C~HvfC~~C~k~~---~~~~C~lCkk~ir~i~l   52 (233)
T KOG4739|consen    5 HCNKCFRFP-SQDPFFLTA-CRHVFCEPCLKAS---SPDVCPLCKKSIRIIQL   52 (233)
T ss_pred             EeccccccC-CCCceeeee-chhhhhhhhcccC---Cccccccccceeeeeec
Confidence            477776443 367777776 9999999997652   33 89999999755443

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

Probab=94.29  E-value=0.023  Score=55.73  Aligned_cols=43  Identities=37%  Similarity=0.845  Sum_probs=34.7

Q ss_pred             CcCccccCcccCCCceeecCCCCCccchhhHHHHHh-cCCCCCcccc
Q 039247          135 FDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL-SNSTCPLCRD  180 (365)
Q Consensus       135 ~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~sCPlCR~  180 (365)
                      ..|+.|...+..   ...+|.|+|.||.+||...|. +...||.|..
T Consensus       275 LkCplc~~Llrn---p~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRN---PMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhC---cccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            569999888766   334466999999999998876 5678999966

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

Probab=94.20  E-value=0.11  Score=51.52  Aligned_cols=47  Identities=21%  Similarity=0.468  Sum_probs=36.8

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccc
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL  182 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l  182 (365)
                      ....|+||+....++   .++..-|.+||..||...+..+..||+=..+.
T Consensus       299 ~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  299 DREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             ccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            345799999987663   23333699999999999999999999865554

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.83  E-value=0.062  Score=51.81  Aligned_cols=54  Identities=24%  Similarity=0.479  Sum_probs=42.2

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCCC
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPG  186 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~~  186 (365)
                      ...+.|+|+..+|........+-.|||+|...||..- .....||+|-.++...+
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D  164 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED  164 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence            4567899999999766566566559999999999996 23567999988876544

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

Probab=93.68  E-value=0.0024  Score=64.33  Aligned_cols=53  Identities=26%  Similarity=0.647  Sum_probs=45.0

Q ss_pred             CcCccccCcccCC-CceeecCCCCCccchhhHHHHHhcCCCCCcccccccCCCCC
Q 039247          135 FDCAVCLCEFSEK-DKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFS  188 (365)
Q Consensus       135 ~~CaICl~~f~~~-~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~~~~  188 (365)
                      ..|+||...+... +++..+- |||++|..||..||....-||.|++.+....+.
T Consensus       197 ~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~~e  250 (465)
T KOG0827|consen  197 GSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKNGFE  250 (465)
T ss_pred             hhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhhhHH
Confidence            4699999998876 6676676 999999999999999988899999998655443

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

Probab=93.61  E-value=0.058  Score=54.06  Aligned_cols=49  Identities=27%  Similarity=0.577  Sum_probs=41.3

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      .++..|+||...-   ......| |+|.=|..||.+.|...+.|=.|+..+..
T Consensus       420 sEd~lCpICyA~p---i~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  420 SEDNLCPICYAGP---INAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             cccccCcceeccc---chhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            4667899998762   2355677 99999999999999999999999998864

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

Probab=93.41  E-value=0.072  Score=38.74  Aligned_cols=45  Identities=27%  Similarity=0.592  Sum_probs=21.5

Q ss_pred             CccccCcccCCC-ceeecCCCCCccchhhHHHHHh-cCCCCCcccccc
Q 039247          137 CAVCLCEFSEKD-KLRLLPMCSHAFHINCIDTWLL-SNSTCPLCRDTL  182 (365)
Q Consensus       137 CaICl~~f~~~~-~v~~lp~C~H~FH~~CI~~Wl~-~~~sCPlCR~~l  182 (365)
                      |++|.+++...+ .+.--+ |++.++..|...-+. .+..||-||.+.
T Consensus         1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            789999984433 233333 889888888887765 366799999864

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

Probab=93.14  E-value=0.046  Score=59.97  Aligned_cols=42  Identities=24%  Similarity=0.694  Sum_probs=31.1

Q ss_pred             CcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccc
Q 039247          135 FDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL  182 (365)
Q Consensus       135 ~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l  182 (365)
                      ..|..|--.++-  ...-.. |+|.||.+|+.   .....||-|+.++
T Consensus       841 skCs~C~~~Ldl--P~VhF~-CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  841 SKCSACEGTLDL--PFVHFL-CGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeecccCCcccc--ceeeee-cccHHHHHhhc---cCcccCCccchhh
Confidence            469999777654  233344 99999999998   4556799998743

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=93.05  E-value=0.085  Score=47.45  Aligned_cols=47  Identities=19%  Similarity=0.574  Sum_probs=34.1

Q ss_pred             CCCcCccccCcccCCCceeecCCCC--C---ccchhhHHHHHhcC--CCCCcccccccC
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCS--H---AFHINCIDTWLLSN--STCPLCRDTLFT  184 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~--H---~FH~~CI~~Wl~~~--~sCPlCR~~l~~  184 (365)
                      ....|=||.++-.+  .  .-| |.  .   .-|..|+..|+...  .+|++|+.++..
T Consensus         7 ~~~~CRIC~~~~~~--~--~~P-C~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i   60 (162)
T PHA02825          7 MDKCCWICKDEYDV--V--TNY-CNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI   60 (162)
T ss_pred             CCCeeEecCCCCCC--c--cCC-cccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence            45689999988432  2  234 54  4   56999999999854  469999998743

>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=92.29  E-value=0.074  Score=48.75  Aligned_cols=28  Identities=36%  Similarity=1.045  Sum_probs=23.3

Q ss_pred             CCCccchhhHHHHHhc----CC-------CCCccccccc
Q 039247          156 CSHAFHINCIDTWLLS----NS-------TCPLCRDTLF  183 (365)
Q Consensus       156 C~H~FH~~CI~~Wl~~----~~-------sCPlCR~~l~  183 (365)
                      ||.-||.-|+..||+.    ++       .||.|-.++.
T Consensus       190 CgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia  228 (234)
T KOG3268|consen  190 CGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA  228 (234)
T ss_pred             cCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence            9999999999999974    11       4999988774

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

Probab=92.18  E-value=0.09  Score=37.17  Aligned_cols=41  Identities=22%  Similarity=0.605  Sum_probs=22.8

Q ss_pred             CccccCcccCCCceeecCCCCCccchhhHHHHHhcCC--CCCcc
Q 039247          137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS--TCPLC  178 (365)
Q Consensus       137 CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~--sCPlC  178 (365)
                      |.+|.+..-.+..-... .|+=.+|..|+..+++.+.  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            66777765555433322 3888999999999998765  69988

; PDB: 3NW0_A 2CT0_A.

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

Probab=92.01  E-value=0.1  Score=50.65  Aligned_cols=47  Identities=34%  Similarity=0.793  Sum_probs=37.8

Q ss_pred             CcCccccCcccCCCc---eeecCCCCCccchhhHHHHHhcC-CCCCcccccc
Q 039247          135 FDCAVCLCEFSEKDK---LRLLPMCSHAFHINCIDTWLLSN-STCPLCRDTL  182 (365)
Q Consensus       135 ~~CaICl~~f~~~~~---v~~lp~C~H~FH~~CI~~Wl~~~-~sCPlCR~~l  182 (365)
                      ..|-||-++|+..+.   .++|. |||.|+..|+..-+... ..||.||.+.
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence            479999999997642   45665 99999999998876644 3699999985

>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans

Probab=90.72  E-value=0.34  Score=49.05  Aligned_cols=30  Identities=27%  Similarity=0.888  Sum_probs=22.6

Q ss_pred             CCCccchhhHHHHHhc-------------CCCCCcccccccCC
Q 039247          156 CSHAFHINCIDTWLLS-------------NSTCPLCRDTLFTP  185 (365)
Q Consensus       156 C~H~FH~~CI~~Wl~~-------------~~sCPlCR~~l~~~  185 (365)
                      |.-.+|.+|+.+|+.+             +-+||+||+.+...
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCil  353 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCIL  353 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceee
Confidence            4456789999999854             23599999987643

They are purported to be transmembrane protein-precursors but their function is unknown.

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=90.42  E-value=0.15  Score=38.09  Aligned_cols=43  Identities=28%  Similarity=0.581  Sum_probs=30.6

Q ss_pred             cCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       136 ~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      .|..|...   +.+-.++| |+|+.+..|.+.+  +-+-||+|..++..
T Consensus         9 ~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~   51 (55)
T PF14447_consen    9 PCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEF   51 (55)
T ss_pred             eEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccC
Confidence            35555443   23345678 9999999998875  55679999988754

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

Probab=90.32  E-value=0.12  Score=56.35  Aligned_cols=47  Identities=28%  Similarity=0.711  Sum_probs=36.6

Q ss_pred             CcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC--CCCCcccccccCCC
Q 039247          135 FDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN--STCPLCRDTLFTPG  186 (365)
Q Consensus       135 ~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~--~sCPlCR~~l~~~~  186 (365)
                      ..|.||++    .+...+++ |+|.||.+|+..-+...  ..||.||..+....
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~  503 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK  503 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence            78999999    33466667 99999999998877643  25999999875543

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

Probab=90.23  E-value=0.063  Score=52.57  Aligned_cols=42  Identities=26%  Similarity=0.639  Sum_probs=30.5

Q ss_pred             CCcCccccCcccCCCceeecCCCCCc-cchhhHHHHHhcCCCCCccccccc
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHA-FHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      ...|+||++.-.+   ...|+ |||. -|..|-..    -+.||+||+-+.
T Consensus       300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkr----m~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKR----MNECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCcc---eEEee-cCcEEeehhhccc----cccCchHHHHHH
Confidence            4579999998555   77888 9995 45566433    237999998663

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

Probab=89.87  E-value=0.25  Score=49.63  Aligned_cols=47  Identities=28%  Similarity=0.632  Sum_probs=36.9

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHH--HHhcCCCCCcccccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDT--WLLSNSTCPLCRDTL  182 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~--Wl~~~~sCPlCR~~l  182 (365)
                      .+...|.||-+.+.-   .-++| |+|..|..|-.+  .|-....||+||...
T Consensus        59 Een~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          59 EENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             cccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            445679999887554   66888 999999999755  345678999999865

>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function

Probab=89.85  E-value=0.3  Score=43.99  Aligned_cols=35  Identities=29%  Similarity=0.611  Sum_probs=21.8

Q ss_pred             CCcCccccCcccCCCceeecC----------CCC-CccchhhHHHHHh
Q 039247          134 PFDCAVCLCEFSEKDKLRLLP----------MCS-HAFHINCIDTWLL  170 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp----------~C~-H~FH~~CI~~Wl~  170 (365)
                      +..|+|||+--.+.  |.++-          .|+ -.-|..|+++.-+
T Consensus         2 d~~CpICme~PHNA--VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    2 DVTCPICMEHPHNA--VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CccCceeccCCCce--EEEEeccccCCccccccCCccchhHHHHHHHH
Confidence            45799999885442  22211          144 3458999999753

The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.

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

Probab=89.85  E-value=0.15  Score=50.46  Aligned_cols=42  Identities=36%  Similarity=0.822  Sum_probs=29.3

Q ss_pred             cCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccc
Q 039247          136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL  182 (365)
Q Consensus       136 ~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l  182 (365)
                      .|--|-  |-....-|+.| |.|+||.+|-..  ...+.||+|-..+
T Consensus        92 fCd~Cd--~PI~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   92 FCDRCD--FPIAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             eecccC--Ccceeeecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence            476673  33333446788 999999999654  3456899997765

>KOG1940 consensus Zn-finger protein [General function prediction only]

Probab=87.43  E-value=0.33  Score=47.44  Aligned_cols=45  Identities=27%  Similarity=0.707  Sum_probs=37.7

Q ss_pred             CcCccccCcccCCC-ceeecCCCCCccchhhHHHHHhcCCCCCcccc
Q 039247          135 FDCAVCLCEFSEKD-KLRLLPMCSHAFHINCIDTWLLSNSTCPLCRD  180 (365)
Q Consensus       135 ~~CaICl~~f~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~  180 (365)
                      ..|+||.+.+-... .+..++ |||..|..|+..-...+-+||+|..
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence            45999998877654 355676 9999999999999888889999988

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=86.83  E-value=0.81  Score=34.12  Aligned_cols=34  Identities=26%  Similarity=0.727  Sum_probs=29.6

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHH
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDT  167 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~  167 (365)
                      ...|.+|-+.|.+++.+.+.|.|+-.+|..|-+.
T Consensus         5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            3579999999998888888999999999999544

>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.67  E-value=0.29  Score=54.18  Aligned_cols=36  Identities=25%  Similarity=0.593  Sum_probs=28.6

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHH
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWL  169 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl  169 (365)
                      ..+..|.+|...+... .-.+.| |||.||.+||..-.
T Consensus       815 ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV  850 (911)
T ss_pred             cCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence            3456899999888764 456777 99999999997764

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

Probab=86.33  E-value=0.2  Score=57.35  Aligned_cols=47  Identities=28%  Similarity=0.764  Sum_probs=38.1

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCccccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDT  181 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~  181 (365)
                      .+...|.||++.+.....+.   .|+|.+|..|+..|+..+..||.|...
T Consensus      1151 ~~~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred             hcccchHHHHHHHHhcCCee---eechhHhhhHHHHHHHHhccCcchhhh
Confidence            44568999999987533232   299999999999999999999999853

>PF01708 Gemini_mov: Geminivirus putative movement protein ; InterPro: IPR002621 This family consists of putative movement proteins from Maize streak virus and Wheat dwarf virus []

Probab=86.21  E-value=1.4  Score=36.16  Aligned_cols=37  Identities=24%  Similarity=0.162  Sum_probs=26.0

Q ss_pred             CCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039247           35 SSSSGTRISPAVLFIIVILAVLFFISGLLHLLVRFLV   71 (365)
Q Consensus        35 ss~s~~~isp~iliIIvILavv~~i~~ll~llvr~l~   71 (365)
                      .+++....+..+.++|++++++.+++++..++.|-++
T Consensus        27 p~ss~~~ws~vv~v~i~~lvaVg~~YL~y~~fLkDlI   63 (91)
T PF01708_consen   27 PSSSGLPWSRVVEVAIFTLVAVGCLYLAYTWFLKDLI   63 (91)
T ss_pred             CCCCCCcceeEeeeeehHHHHHHHHHHHHHHHHHHHh
Confidence            3456677888877777777777777777777766543

; GO: 0046740 spread of virus in host, cell to cell, 0016021 integral to membrane

>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=84.85  E-value=0.42  Score=34.75  Aligned_cols=43  Identities=33%  Similarity=0.736  Sum_probs=25.2

Q ss_pred             cCccccCcccCCCceeecCCCC-CccchhhHHHHHhcCCCCCcccccccC
Q 039247          136 DCAVCLCEFSEKDKLRLLPMCS-HAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       136 ~CaICl~~f~~~~~v~~lp~C~-H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      .|--|+-+...   ++  . |. |..+..|+..-|.....||+|..++++
T Consensus         4 nCKsCWf~~k~---Li--~-C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt   47 (50)
T PF03854_consen    4 NCKSCWFANKG---LI--K-CSDHYLCLNCLTLMLSRSDRCPICGKPLPT   47 (50)
T ss_dssp             ---SS-S--SS---EE--E--SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred             cChhhhhcCCC---ee--e-ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence            46667655333   33  2 65 999999999998899999999998875

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 RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.

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

Probab=84.58  E-value=0.29  Score=52.58  Aligned_cols=43  Identities=23%  Similarity=0.566  Sum_probs=32.3

Q ss_pred             CcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccc
Q 039247          135 FDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRD  180 (365)
Q Consensus       135 ~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~  180 (365)
                      ..|.||+..|-.....-+.+.|||..|..|+..-  -+.+|| |..
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~   54 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR   54 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence            4699999998876544444459999999999874  567898 543

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=83.88  E-value=0.76  Score=46.11  Aligned_cols=51  Identities=25%  Similarity=0.449  Sum_probs=35.7

Q ss_pred             CCCcCccccCcccCCCcee-ecCCCCCccchhhHHHHHh-cCCCCCcccccccC
Q 039247          133 EPFDCAVCLCEFSEKDKLR-LLPMCSHAFHINCIDTWLL-SNSTCPLCRDTLFT  184 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~-~lp~C~H~FH~~CI~~Wl~-~~~sCPlCR~~l~~  184 (365)
                      +++.|+.|++++...|+-. -.| ||...|.-|-..--+ -+..||-||+-+..
T Consensus        13 eed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~d   65 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDD   65 (480)
T ss_pred             ccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence            3445999999998876543 345 998888888554322 24579999996643

>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]

Probab=83.60  E-value=0.6  Score=51.11  Aligned_cols=23  Identities=30%  Similarity=0.909  Sum_probs=21.3

Q ss_pred             CCCCccchhhHHHHHhcCCCCCc
Q 039247          155 MCSHAFHINCIDTWLLSNSTCPL  177 (365)
Q Consensus       155 ~C~H~FH~~CI~~Wl~~~~sCPl  177 (365)
                      .|+|+.|..|...|++....||.
T Consensus      1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             cccccccHHHHHHHHhcCCcCCC
Confidence            49999999999999999999984

>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []

Probab=83.24  E-value=2.9  Score=28.99  Aligned_cols=29  Identities=21%  Similarity=0.101  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Q 039247           46 VLFIIVILAVLFFISGLLHLLVRFLVKHP   74 (365)
Q Consensus        46 iliIIvILavv~~i~~ll~llvr~l~rrr   74 (365)
                      ++-||+.+++.+.++.+..++.-|+.|++
T Consensus         5 ~IaIIv~V~vg~~iiii~~~~YaCcykk~   33 (38)
T PF02439_consen    5 TIAIIVAVVVGMAIIIICMFYYACCYKKH   33 (38)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence            33344444444444444444444444443

This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.

>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=82.97  E-value=0.59  Score=43.85  Aligned_cols=39  Identities=31%  Similarity=0.715  Sum_probs=28.8

Q ss_pred             CccccCcccCCCceeecCCCCC-ccchhhHHHHHhcCCCCCccccccc
Q 039247          137 CAVCLCEFSEKDKLRLLPMCSH-AFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       137 CaICl~~f~~~~~v~~lp~C~H-~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      |-.|.+.   +..|.++| |.| .+|..|=..    -..||+|+....
T Consensus       161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKT  200 (207)
T ss_pred             ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence            8788776   55588999 997 677788543    345999988654

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

Probab=82.07  E-value=1  Score=45.94  Aligned_cols=45  Identities=24%  Similarity=0.527  Sum_probs=37.7

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC---CCCcc
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS---TCPLC  178 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~---sCPlC  178 (365)
                      .-+.|+|=.+.-.++..+..|. |||+...+-|.+-.....   -||.|
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYC  380 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYC  380 (394)
T ss_pred             ceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCC
Confidence            3468999888888888888888 999999999999766544   49999

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

Probab=81.90  E-value=0.9  Score=45.00  Aligned_cols=45  Identities=24%  Similarity=0.496  Sum_probs=31.5

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      +-.+|+||.+.+.+.  +...+ =||+-|..|=.   +....||.||.++.
T Consensus        47 ~lleCPvC~~~l~~P--i~QC~-nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   47 DLLDCPVCFNPLSPP--IFQCD-NGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             hhccCchhhccCccc--ceecC-CCcEehhhhhh---hhcccCCccccccc
Confidence            346899999998873  22222 35777777743   45778999999885

>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]

Probab=80.05  E-value=1.2  Score=49.12  Aligned_cols=53  Identities=23%  Similarity=0.499  Sum_probs=38.8

Q ss_pred             CCCCcCccccCcccCCCceeecCCCC---CccchhhHHHHHhcC--CCCCcccccccC
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCS---HAFHINCIDTWLLSN--STCPLCRDTLFT  184 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~---H~FH~~CI~~Wl~~~--~sCPlCR~~l~~  184 (365)
                      .+...|-||..+=.+++++---.+|.   -..|.+|+..|+.-.  ..|-+|+.++.-
T Consensus        10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~F   67 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKF   67 (1175)
T ss_pred             ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeee
Confidence            44578999999977777664322343   467999999999843  359999998743

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	365
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		2e-11
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		5e-10
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		5e-07
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		5e-05
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		6e-05
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		7e-05

>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5 Length = 55

Iteration: 1
 Score = 66.6 bits (161), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 26/47 (55%), Positives = 33/47 (70%)
Query: 136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL 182
           +CAVCL E  + ++ R LP C H FH  C+D WL S+STCPLCR T+
Sbjct: 7   ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein 38 Length = 75

Iteration: 1
 Score = 62.0 bits (149), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 26/60 (43%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 120 LPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
           LP +++       E   C VC+C+F  +  LR+LP C+H FH  C+D WL +N TCP+CR
Sbjct: 9   LPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67

>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain Length = 69

Iteration: 1
 Score = 52.0 bits (123), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 20/43 (46%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
           C +CL    E + +R LP C H FH  C+D WL++N  CP+CR
Sbjct: 17  CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58

>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger Protein 24 Length = 74

Iteration: 1
 Score = 45.4 bits (106), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLC 178
           CAVCL +F  +D+L + P C HAFH  C+  WL     CPLC
Sbjct: 18  CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58

>pdb|2L0B|A Chain A, Solution Nmr Structure Of Zinc Finger Domain Of E3 Ubiquitin-Protein Ligase Praja-1 From Homo Sapiens, Northeast Structural Genomics Consortium (Nesg) Target Hr4710b Length = 91

Iteration: 1
 Score = 45.1 bits (105), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 27/70 (38%), Positives = 36/70 (51%), Gaps = 3/70 (4%)
Query: 117 IDALPVFQYKEIVG-LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTC 175
           IDALP     E  G + +   C +C  E+ + D    LP C H FH  C+  WL  + TC
Sbjct: 22  IDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTC 80
Query: 176 PLCRDTLFTP 185
           P+CR  +F P
Sbjct: 81  PVCR-CMFPP 89

>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring Finger) Domain Of Ring Finger Protein 126 Length = 78

Iteration: 1
 Score = 44.7 bits (104), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 19/48 (39%), Positives = 31/48 (64%), Gaps = 1/48 (2%)
Query: 135 FDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL 182
            +C VC  +++  + +R LP C+H FH +CI  WL  + +CP+CR +L
Sbjct: 16  LECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL 62

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	365
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	4e-33
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	1e-29
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	3e-29
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	5e-23
2ect_A	78	Ring finger protein 126; metal binding protein, st	2e-21
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	2e-21
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-18
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-17
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	9e-17
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	4e-15
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	5e-13
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-12
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-12
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	2e-11
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-11
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	6e-11
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-09
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	1e-08
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	4e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	5e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-04
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	2e-07
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	2e-07
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	5e-07
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	6e-07
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	2e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	9e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	1e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	2e-05
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	3e-05
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	3e-05
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	3e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	9e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	1e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-04
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	2e-04
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	3e-04
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	4e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	4e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	6e-04
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	8e-04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	9e-04

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 75

 Score =  117 bits (295), Expect = 4e-33
 Identities = 26/66 (39%), Positives = 37/66 (56%), Gaps = 1/66 (1%)

Query: 114 QAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS 173
                 LP +++       E   C VC+C+F  +  LR+LP C+H FH  C+D WL +N 
Sbjct: 3   SGSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANR 61

Query: 174 TCPLCR 179
           TCP+CR
Sbjct: 62  TCPICR 67

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1 Length = 55

 Score =  107 bits (269), Expect = 1e-29
 Identities = 26/53 (49%), Positives = 35/53 (66%)

Query: 130 GLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL 182
            + +  +CAVCL E  + ++ R LP C H FH  C+D WL S+STCPLCR T+
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens} Length = 91

 Score =  107 bits (269), Expect = 3e-29
 Identities = 26/91 (28%), Positives = 38/91 (41%), Gaps = 7/91 (7%)

Query: 101 LQQLFHLHDS-----GLDQAFIDALPVFQY-KEIVGLKEPFDCAVCLCEFSEKDKLRLLP 154
           +    H H          +  IDALP     ++   + +   C +C  E+ + D    LP
Sbjct: 1   MGHHHHHHSHMVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP 60

Query: 155 MCSHAFHINCIDTWLLSNSTCPLCRDTLFTP 185
            C H FH  C+  WL  + TCP+CR     P
Sbjct: 61  -CHHYFHKPCVSIWLQKSGTCPVCRCMFPPP 90

>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} Length = 69

 Score = 90.1 bits (224), Expect = 5e-23
 Identities = 20/44 (45%), Positives = 27/44 (61%), Gaps = 1/44 (2%)

Query: 136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
            C +CL    E + +R LP C H FH  C+D WL++N  CP+CR
Sbjct: 16  KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 78

 Score = 85.9 bits (213), Expect = 2e-21
 Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 1/62 (1%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSIE 190
           +    +C VC  +++  + +R LP C+H FH +CI  WL  + +CP+CR +L     +  
Sbjct: 12  VGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATN 70

Query: 191 NP 192
            P
Sbjct: 71  PP 72

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 74

 Score = 85.6 bits (212), Expect = 2e-21
 Identities = 21/51 (41%), Positives = 27/51 (52%), Gaps = 1/51 (1%)

Query: 136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPG 186
            CAVCL +F  +D+L + P C HAFH  C+  WL     CPLC   +    
Sbjct: 17  LCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA 66

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81

 Score = 78.0 bits (192), Expect = 2e-18
 Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 2/50 (4%)

Query: 132 KEPFD--CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
           +      C  C  E  ++D + +   C+H+FH  C+  W+  N+ CPLC+
Sbjct: 22  RVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

>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 Length = 55

 Score = 75.4 bits (186), Expect = 1e-17
 Identities = 12/48 (25%), Positives = 17/48 (35%)

Query: 136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF 183
            C +CL +      +  +  C H  H  C +  L     CPLC     
Sbjct: 7   GCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS 54

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 70

 Score = 73.2 bits (180), Expect = 9e-17
 Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 5/52 (9%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL 182
           L +  +C +C+    +     +LP C+H+F   CID W   +  CP+CR  +
Sbjct: 12  LTDEEECCICM----DGRADLILP-CAHSFCQKCIDKWSDRHRNCPICRLQM 58

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

 Score = 68.2 bits (167), Expect = 4e-15
 Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 3/43 (6%)

Query: 137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
           C +CL +    +    LP C HAF   CI  W+  N TCPLC+
Sbjct: 8   CPICLEDP--SNYSMALP-CLHAFCYVCITRWIRQNPTCPLCK 47

>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 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A Length = 106

 Score = 64.1 bits (155), Expect = 5e-13
 Identities = 13/46 (28%), Positives = 21/46 (45%)

Query: 134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
             +C       + ++      +C+HAFH +CI  WL +   CPL  
Sbjct: 51  CIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96

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

 Score = 61.1 bits (148), Expect = 2e-12
 Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 3/51 (5%)

Query: 135 FDCAVCLCEFSEKDKLRLLPM---CSHAFHINCIDTWLLSNSTCPLCRDTL 182
             C +C+  +SE  +   L +   C H F   C+   L + +TCP CR  +
Sbjct: 16  VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus} Length = 117

 Score = 62.2 bits (150), Expect = 2e-12
 Identities = 13/46 (28%), Positives = 21/46 (45%)

Query: 134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
             +C       + ++      +C+HAFH +CI  WL +   CPL  
Sbjct: 62  CIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

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

 Score = 58.7 bits (142), Expect = 2e-11
 Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 4/53 (7%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL-SNSTCPLCRDTL 182
           + E F C +C+ +  +    RL P CS     +CI  WL    + CP CR  L
Sbjct: 19  IAEVFRCFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68

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

 Score = 57.5 bits (139), Expect = 3e-11
 Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 3/53 (5%)

Query: 133 EPFDCAVCLCEFSEKDKLRLLPM---CSHAFHINCIDTWLLSNSTCPLCRDTL 182
               C +C+  +SE  +   L +   C H F   C+   L + +TCP CR  +
Sbjct: 2   AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54

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

 Score = 56.8 bits (137), Expect = 6e-11
 Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 3/51 (5%)

Query: 135 FDCAVCLCEFSEKDKLRLLPM---CSHAFHINCIDTWLLSNSTCPLCRDTL 182
             C +C+  +SE  +   L +   C H F   C+   L + +TCP CR  +
Sbjct: 11  VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61

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

 Score = 52.4 bits (126), Expect = 2e-09
 Identities = 11/53 (20%), Positives = 19/53 (35%), Gaps = 3/53 (5%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF 183
           L     C++C     +      +  C H F  +CI      ++ CP C   + 
Sbjct: 12  LTPYILCSICKGYLIDA---TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVH 61

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

 Score = 50.6 bits (121), Expect = 1e-08
 Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 4/48 (8%)

Query: 132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
           + PF C +C   F      +    C H F  +C      +   C +C 
Sbjct: 13  EIPFRCFICRQAFQNPVVTK----CRHYFCESCALEHFRATPRCYICD 56

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

 Score = 50.2 bits (120), Expect = 1e-08
 Identities = 15/62 (24%), Positives = 18/62 (29%), Gaps = 5/62 (8%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSIE 190
                +CA+CL        L     C H F   C+         C LCR       F   
Sbjct: 12  SLTVPECAICLQTCVHPVSLP----CKHVFCYLCVKGASWLGKRCALCR-QEIPEDFLDS 66

Query: 191 NP 192
            P
Sbjct: 67  GP 68

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

 Score = 49.2 bits (117), Expect = 4e-08
 Identities = 10/47 (21%), Positives = 15/47 (31%), Gaps = 5/47 (10%)

Query: 136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS--NSTCPLCRD 180
            C +C     +         C    H+ C+  +  S     CP C D
Sbjct: 17  ICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPRCPHCND 60

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

 Score = 50.6 bits (120), Expect = 5e-08
 Identities = 17/87 (19%), Positives = 28/87 (32%), Gaps = 10/87 (11%)

Query: 132 KEPFDCAVCLCEFSEKDKLRLLPM---CSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFS 188
                C +C+  +SE  +   L +   C H F   C+   L + +TCP CR  +    + 
Sbjct: 5   SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH 64

Query: 189 IENPMFD-------FDDFREEDGGHVC 208
                          D + E       
Sbjct: 65  PIYIGSGTVSCPICMDGYSEIVQNGRL 91

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

 Score = 39.8 bits (92), Expect = 2e-04
 Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 3/53 (5%)

Query: 133 EPFDCAVCLCEFSEKDKLRLLPM---CSHAFHINCIDTWLLSNSTCPLCRDTL 182
               C +C+  +SE  +   L +   C H F   C+   L + +TCP CR  +
Sbjct: 71  GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster} Length = 381

 Score = 51.4 bits (122), Expect = 2e-07
 Identities = 13/68 (19%), Positives = 22/68 (32%), Gaps = 15/68 (22%)

Query: 133 EPFDCAVCLCEFSEKDKLRLL----PMCSHAFHINCIDTWLLSNS-----------TCPL 177
           E   C +C     +  ++ L+      C    H  C++ W  +              CP 
Sbjct: 307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPF 366

Query: 178 CRDTLFTP 185
           C+  L T 
Sbjct: 367 CKAKLSTS 374

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

 Score = 47.9 bits (114), Expect = 2e-07
 Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 3/49 (6%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
           L     C +C   F   D   ++  C H+F   CI  +L ++  CP+C 
Sbjct: 12  LNPHLMCVLCGGYF--IDATTIIE-CLHSFCKTCIVRYLETSKYCPICD 57

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

 Score = 48.5 bits (115), Expect = 3e-07
 Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 4/59 (6%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSI 189
           L+    C +C   F E      L  C+H+F   CI+ W+     CP+CR  + +  +S+
Sbjct: 61  LENELQCIICSEYFIEA---VTLN-CAHSFCSYCINEWMKRKIECPICRKDIKSKTYSL 115

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

 Score = 46.7 bits (111), Expect = 5e-07
 Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 3/55 (5%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTP 185
           + +   C +C   F+      ++P CSH +   CI  +L   + CP C  T+  P
Sbjct: 19  IDDLLRCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEP 70

>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 Length = 114

 Score = 46.8 bits (110), Expect = 6e-07
 Identities = 14/63 (22%), Positives = 24/63 (38%), Gaps = 19/63 (30%)

Query: 136 DCAVCLCEFSEK--------------DKLRLLPMCSHAFHINCIDTWLLSNS-----TCP 176
           DC +C+ + +                  +  L  CSHAFH+ C+     + +      CP
Sbjct: 27  DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 177 LCR 179
            C+
Sbjct: 87  SCK 89

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

 Score = 44.7 bits (106), Expect = 2e-06
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 5/53 (9%)

Query: 131 LKEPFDCAVCLCEFSEKDKL-RLLPMCSHAFHINCIDTWLLSNS---TCPLCR 179
           L+E  +C +C+  F+E+    +LL  C H     C++  L S+     CP C 
Sbjct: 12  LREVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCS 63

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

 Score = 42.4 bits (100), Expect = 9e-06
 Identities = 14/57 (24%), Positives = 26/57 (45%), Gaps = 5/57 (8%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS--TCPLCRDTLFTP 185
           + +   C +C    ++     ++P C +++   CI T LL +   TCP C     +P
Sbjct: 12  IPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSP 65

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

 Score = 45.1 bits (106), Expect = 1e-05
 Identities = 20/132 (15%), Positives = 38/132 (28%), Gaps = 11/132 (8%)

Query: 56  LFFISGLLHLLVRFLVKHPSSSASNSQSNARYPTEISGSDALQRQLQQLFHLHDSGLDQA 115
           L      L L++       SS+   +  +     ++   +A ++ LQ+          + 
Sbjct: 98  LDLFRKALELIIDSETGFASSTNILNLVDQLKGKKMRKKEA-EQVLQKFVQNKWLIEKEG 156

Query: 116 FIDALP-----VFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL 170
                      + QY           C +C     +         C    H+ C+  +  
Sbjct: 157 EFTLHGRAILEMEQYIRETYPDAVKICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQ 213

Query: 171 S--NSTCPLCRD 180
           S     CP C D
Sbjct: 214 SNAEPRCPHCND 225

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

 Score = 42.1 bits (99), Expect = 2e-05
 Identities = 14/57 (24%), Positives = 26/57 (45%), Gaps = 5/57 (8%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN--STCPLCRDTLFTP 185
           + +   C +C    ++     ++P C +++   CI T LL +   TCP C     +P
Sbjct: 10  IPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSP 63

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

 Score = 44.8 bits (105), Expect = 3e-05
 Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 5/48 (10%)

Query: 133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS-TCPLCR 179
               C +C     +   +++ P C H    +C+ +W  S    CP CR
Sbjct: 331 TFQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCR 374

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

 Score = 42.3 bits (99), Expect = 3e-05
 Identities = 14/56 (25%), Positives = 21/56 (37%), Gaps = 11/56 (19%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPM---CSHAFHINCIDTWLLSNS-TCPLCRDTL 182
           ++E F C  C             P+   C H    +C+D    +   +CP CR  L
Sbjct: 49  VEETFQCICCQELVFR-------PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDL 97

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

 Score = 40.5 bits (95), Expect = 3e-05
 Identities = 11/64 (17%), Positives = 23/64 (35%), Gaps = 11/64 (17%)

Query: 124 QYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPM---CSHAFHINCIDTWLLS-NSTCPLCR 179
               +  +++ + C  C             P    C H F  +C+   L S +  C  C+
Sbjct: 5   SSGFVKTVEDKYKCEKCHLVLCS-------PKQTECGHRFCESCMAALLSSSSPKCTACQ 57

Query: 180 DTLF 183
           +++ 
Sbjct: 58  ESIV 61

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

 Score = 40.7 bits (95), Expect = 9e-05
 Identities = 13/68 (19%), Positives = 22/68 (32%), Gaps = 5/68 (7%)

Query: 126 KEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCI-DTWLLSNSTCPLCRDTLFT 184
           K+ +       C +C+    E   L     C+H     C   T   ++  CP CR  + +
Sbjct: 7   KDAIPSLSECQCGICMEILVEPVTLP----CNHTLCKPCFQSTVEKASLCCPFCRRRVSS 62

Query: 185 PGFSIENP 192
                   
Sbjct: 63  WTRYHTRR 70

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

 Score = 39.7 bits (92), Expect = 1e-04
 Identities = 11/49 (22%), Positives = 17/49 (34%), Gaps = 1/49 (2%)

Query: 132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-NSTCPLCR 179
           ++P +C +C+      D       C +     C        N  CP CR
Sbjct: 9   EDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 57

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

 Score = 39.9 bits (93), Expect = 1e-04
 Identities = 16/68 (23%), Positives = 22/68 (32%), Gaps = 11/68 (16%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPM---CSHAFHINCIDTWL-LSNSTCPLCRDTLFTPG 186
             +   C +C    ++       P+   C H F   CI   L +  S CP CR   F   
Sbjct: 20  FVKSISCQICEHILAD-------PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD 72

Query: 187 FSIENPMF 194
                  F
Sbjct: 73  LESPVKSF 80

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

 Score = 39.8 bits (93), Expect = 2e-04
 Identities = 13/72 (18%), Positives = 27/72 (37%), Gaps = 11/72 (15%)

Query: 117 IDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPM---CSHAFHINCIDTWLL-SN 172
           ++ +  +  +    L+  ++C +CL    E        +   C H F   CI   +  + 
Sbjct: 1   MEEIQGYDVEFDPPLESKYECPICLMALRE-------AVQTPCGHRFCKACIIKSIRDAG 53

Query: 173 STCPLCRDTLFT 184
             CP+  + L  
Sbjct: 54  HKCPVDNEILLE 65

>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 = 38.3 bits (89), Expect = 3e-04
 Identities = 8/40 (20%), Positives = 15/40 (37%), Gaps = 1/40 (2%)

Query: 130 GLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWL 169
           G      C +CL E+  +    +   C   F   C+  ++
Sbjct: 1   GSSGSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYV 39

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 80

 Score = 38.0 bits (88), Expect = 4e-04
 Identities = 16/64 (25%), Positives = 25/64 (39%), Gaps = 10/64 (15%)

Query: 137 CAVCLCEFSEKDKLRLLPMCS---HAFHINCIDTWLLS--NSTCPLCRDTLFTPGFSIEN 191
           C +C CE  ++  L     C+   H  H  C+  W+ S     C LC+       F +E 
Sbjct: 18  CRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYE-----FIMET 72

Query: 192 PMFD 195
            +  
Sbjct: 73  KLSG 76

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

 Score = 39.2 bits (91), Expect = 4e-04
 Identities = 15/69 (21%), Positives = 24/69 (34%), Gaps = 11/69 (15%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPM---CSHAFHINCIDTWLLSNS-TCPLCRDTLFTPG 186
           L++ F C  C     +       P+   C H    +C+     +   +CP CR  L    
Sbjct: 75  LEQSFMCVCCQELVYQ-------PVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNY 127

Query: 187 FSIENPMFD 195
             I N +  
Sbjct: 128 IMIPNEILQ 136

>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 Length = 117

 Score = 38.3 bits (89), Expect = 6e-04
 Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 5/49 (10%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
           L++   C+ C     E      L  C H F  NC+   +   + CP+C 
Sbjct: 19  LEKLLRCSRCTNILRE---PVCLGGCEHIFCSNCVSDCI--GTGCPVCY 62

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus} Length = 101

 Score = 37.5 bits (86), Expect = 8e-04
 Identities = 12/44 (27%), Positives = 17/44 (38%), Gaps = 2/44 (4%)

Query: 140 CLCEFSEKDKLRLLPMCSHAFHINCIDTWLL-SNSTCPLCRDTL 182
             C    K   R++P C H F  +C        +  CP C D +
Sbjct: 5   DKCGLPIKVYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPV 47

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

 Score = 38.8 bits (90), Expect = 9e-04
 Identities = 21/70 (30%), Positives = 25/70 (35%), Gaps = 12/70 (17%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPM----CSHAFHINCIDTWL-LSNSTCPLCRDTLFTP 185
           L     C +CL             M    C H F  +CI T L   N  CP CR  L + 
Sbjct: 51  LHSELMCPICLDMLKN-------TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK 103

Query: 186 GFSIENPMFD 195
                +P FD
Sbjct: 104 RSLRPDPNFD 113

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	365
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.63
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.6
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.49
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.44
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.43
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.43
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.4
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.34
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.34
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.3
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.28
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.28
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.26
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.26
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.24
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.2
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.2
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.2
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.18
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.17
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.16
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.15
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.14
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.13
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.11
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.1
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.09
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.07
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.06
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.03
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.02
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.01
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.0
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.99
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.99
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.98
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.95
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.95
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.94
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.93
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.9
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.86
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.85
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.82
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.81
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.81
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.81
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.8
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.75
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.74
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.74
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.72
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.7
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.69
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.63
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.61
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.6
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.59
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.55
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.54
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.45
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.41
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.4
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.37
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.37
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.27
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.18
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.15
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.05
3nw0_A	238	Non-structural maintenance of chromosomes element	97.75
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.74
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.59
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	92.58
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	90.27
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	87.95
1we9_A	64	PHD finger family protein; structural genomics, PH	86.85
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	85.92
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	85.66
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	85.23
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	84.69
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	82.4
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	81.82
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	80.84

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

Probab=99.63  E-value=2.3e-16  Score=126.50  Aligned_cols=76  Identities=33%  Similarity=0.689  Sum_probs=66.9

Q ss_pred             cCCCCCHHHHhhCCceeeeeccC-CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          108 HDSGLDQAFIDALPVFQYKEIVG-LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       108 ~~~gl~~~~i~~LP~~~y~~~~~-~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      ...+++++.|+.||.+.+..... ..+...|+||++.|..++.++.++ |+|.||..||..|+..+.+||+||..+..
T Consensus        13 ~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           13 ANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             CCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             CCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            35789999999999999876543 345678999999999999999999 99999999999999999999999998754

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

Probab=99.60  E-value=2.7e-16  Score=121.08  Aligned_cols=69  Identities=38%  Similarity=0.902  Sum_probs=61.0

Q ss_pred             HHHhhCCceeeeeccCCCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          115 AFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       115 ~~i~~LP~~~y~~~~~~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      +.++.||.+.|+......+...|+||++.|...+.++.++ |+|.||..||..|+..+.+||+||+++..
T Consensus         4 ~~i~~lp~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~   72 (75)
T 1x4j_A            4 GSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGP   72 (75)
T ss_dssp             CCCSSCCCEEBCSSSCSSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCC
T ss_pred             hhHhhCCcEEecCccccCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCC
Confidence            3467899999987666667789999999999988899999 99999999999999999999999998854

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

Probab=99.49  E-value=1.9e-14  Score=103.91  Aligned_cols=52  Identities=50%  Similarity=1.128  Sum_probs=47.0

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      .+..+|+||++.|..++.+..++.|+|.||..||..|+..+.+||+||.++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            4556899999999998888888779999999999999999999999999874

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

Probab=99.44  E-value=6.2e-14  Score=107.26  Aligned_cols=54  Identities=41%  Similarity=0.882  Sum_probs=48.5

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTP  185 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~  185 (365)
                      ..+...|+||++.|...+.+.+++ |+|.||..||..|+..+.+||+||.++...
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           12 LNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             CCCSCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             CCCCCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            455678999999999988888898 999999999999999999999999988643

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

Probab=99.43  E-value=1.1e-13  Score=106.86  Aligned_cols=55  Identities=35%  Similarity=0.901  Sum_probs=49.0

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPG  186 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~~  186 (365)
                      ..+...|+||++.|...+.+++++ |+|.||..||..|+..+.+||+||..+....
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN   66 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCSC
T ss_pred             CCCCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCcc
Confidence            345678999999999888888898 9999999999999999999999999986654

>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=99.43  E-value=1.1e-13  Score=104.52  Aligned_cols=54  Identities=37%  Similarity=0.923  Sum_probs=48.1

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTP  185 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~  185 (365)
                      ..+...|+||++.|..++.++.++ |+|.||..||..|+..+.+||+||..+...
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            345678999999999888888998 999999999999999999999999988653

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

Probab=99.40  E-value=1e-13  Score=108.85  Aligned_cols=52  Identities=31%  Similarity=0.781  Sum_probs=42.8

Q ss_pred             CCCcCccccCcccC-----------CCceeecCCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          133 EPFDCAVCLCEFSE-----------KDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       133 ~~~~CaICl~~f~~-----------~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      +...|+||++.|..           ++.++.++.|+|.||..||..||..+.+||+||+++..
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            34578888888854           45566666699999999999999999999999998753

>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=99.34  E-value=6.8e-13  Score=95.46  Aligned_cols=51  Identities=27%  Similarity=0.680  Sum_probs=43.5

Q ss_pred             CCCCcCccccCcccCCC-ceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          132 KEPFDCAVCLCEFSEKD-KLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      .+...|+||++.|.+.+ .+.+++ |+|.||..||..|+..+.+||+||.++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLP-CGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECT-TSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecC-CCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            34568999999997644 466777 9999999999999999999999999764

>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=99.34  E-value=1e-12  Score=108.44  Aligned_cols=52  Identities=29%  Similarity=0.595  Sum_probs=41.5

Q ss_pred             CCCcCccccCcccCCC---------------ceeecCCCCCccchhhHHHHH-----hcCCCCCcccccccCC
Q 039247          133 EPFDCAVCLCEFSEKD---------------KLRLLPMCSHAFHINCIDTWL-----LSNSTCPLCRDTLFTP  185 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~---------------~v~~lp~C~H~FH~~CI~~Wl-----~~~~sCPlCR~~l~~~  185 (365)
                      .+.+|+||++.|....               .+++++ |+|+||..||..|+     ..+.+||+||..+...
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            3468999999997643               234667 99999999999999     4567899999987543

>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=99.30  E-value=1.5e-12  Score=107.81  Aligned_cols=49  Identities=31%  Similarity=0.676  Sum_probs=42.0

Q ss_pred             CCCcCccccCcccCCC---------------ceeecCCCCCccchhhHHHHHhcCCCCCcccccc
Q 039247          133 EPFDCAVCLCEFSEKD---------------KLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL  182 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~---------------~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l  182 (365)
                      ++..|+||++.|...-               .++.++ |+|.||..||+.||..+.+||+||+++
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~   99 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREW   99 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCcc
Confidence            5678999999998541               255666 999999999999999999999999985

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

Probab=99.28  E-value=1.3e-12  Score=98.72  Aligned_cols=54  Identities=26%  Similarity=0.618  Sum_probs=45.3

Q ss_pred             CCCCcCccccCcccCC----CceeecCCCCCccchhhHHHHHhcCCCCCcccccccCCC
Q 039247          132 KEPFDCAVCLCEFSEK----DKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPG  186 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~----~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~~  186 (365)
                      .+...|+||++.|...    +.+..++ |||.||..||..|+..+.+||+||.++....
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR   65 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCCCS
T ss_pred             CCCCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccChhh
Confidence            4567899999998763    4446777 9999999999999999999999999886543

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

Probab=99.28  E-value=1.7e-12  Score=97.13  Aligned_cols=52  Identities=27%  Similarity=0.639  Sum_probs=44.0

Q ss_pred             CCCCCcCccccCcccCC----CceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          131 LKEPFDCAVCLCEFSEK----DKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~----~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      ..+...|+||++.|...    ..+.+++ |+|.||..||..|+..+.+||+||.++.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   67 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKIN   67 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccC
Confidence            34567899999999863    3346677 9999999999999999999999999874

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

Probab=99.26  E-value=1.8e-12  Score=95.61  Aligned_cols=52  Identities=27%  Similarity=0.637  Sum_probs=44.1

Q ss_pred             CCCcCccccCcccCC----CceeecCCCCCccchhhHHHHHhcCCCCCcccccccCC
Q 039247          133 EPFDCAVCLCEFSEK----DKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTP  185 (365)
Q Consensus       133 ~~~~CaICl~~f~~~----~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~  185 (365)
                      +...|+||++.|...    +.+..++ |||.||..||..|+..+.+||+||.++...
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   57 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK   57 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEET-TSCEEEHHHHHHHHHHCSBCTTTCCBCTTT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCC-CCCchhHHHHHHHHHcCCCCCCCCccCCcc
Confidence            356899999999763    3446777 999999999999999999999999988654

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

Probab=99.26  E-value=1.7e-12  Score=98.10  Aligned_cols=52  Identities=31%  Similarity=0.837  Sum_probs=44.7

Q ss_pred             CCCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCCC
Q 039247          130 GLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPG  186 (365)
Q Consensus       130 ~~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~~  186 (365)
                      ...+...|+||++.+..    ..++ |+|.||..||..|+..+.+||+||.++....
T Consensus        11 ~~~~~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           11 QLTDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             cCCCCCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            34566789999999876    5677 9999999999999999999999999886543

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

Probab=99.24  E-value=6.8e-12  Score=98.33  Aligned_cols=54  Identities=30%  Similarity=0.765  Sum_probs=45.9

Q ss_pred             CCCCCcCccccCcccCCCc-eeecCCCCCccchhhHHHHHhcC---CCCCcccccccCC
Q 039247          131 LKEPFDCAVCLCEFSEKDK-LRLLPMCSHAFHINCIDTWLLSN---STCPLCRDTLFTP  185 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~-v~~lp~C~H~FH~~CI~~Wl~~~---~sCPlCR~~l~~~  185 (365)
                      ..+...|+||++.|...+. ..+++ |||.||..||..|+..+   ..||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEECS-SSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             ccCCCCCccCCccccccCCCeEECC-CCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            4556789999999998765 66777 99999999999999876   7899999987554

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

Probab=99.20  E-value=6.1e-12  Score=95.65  Aligned_cols=49  Identities=29%  Similarity=0.585  Sum_probs=42.8

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      .+...|+||++.|..   ...++ |+|.||..||..|+..+.+||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           13 LTVPECAICLQTCVH---PVSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSCCBCSSSSSBCSS---EEEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCccCCcccCC---CEEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            455789999999866   56678 99999999999999999999999998753

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

Probab=99.20  E-value=9.2e-12  Score=94.92  Aligned_cols=53  Identities=21%  Similarity=0.501  Sum_probs=43.7

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPG  186 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~~  186 (365)
                      ..+...|+||++.|.+  .+.+++ |+|.||..||..|+..+.+||+||..+....
T Consensus        12 ~~~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   64 (72)
T 2djb_A           12 LTPYILCSICKGYLID--ATTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ   64 (72)
T ss_dssp             CCGGGSCTTTSSCCSS--CEECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSSC
T ss_pred             cCCCCCCCCCChHHHC--cCEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCccc
Confidence            4456789999999876  233346 9999999999999999999999999886543

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

Probab=99.20  E-value=9.3e-12  Score=98.12  Aligned_cols=52  Identities=29%  Similarity=0.784  Sum_probs=43.8

Q ss_pred             CCCCcCccccCcccCCCceeecCCCC-----CccchhhHHHHHhcC--CCCCcccccccCC
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCS-----HAFHINCIDTWLLSN--STCPLCRDTLFTP  185 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~-----H~FH~~CI~~Wl~~~--~sCPlCR~~l~~~  185 (365)
                      .+...|.||+++|.+++.+ ++| |+     |.||..||++||..+  .+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~   71 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIME   71 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCC
T ss_pred             CCCCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecC
Confidence            4456899999999887766 578 96     999999999999865  4899999988654

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

Probab=99.18  E-value=1e-11  Score=93.17  Aligned_cols=48  Identities=40%  Similarity=0.820  Sum_probs=42.0

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      +...|+||++.+.+  .+..++ |||.||..||..|+..+.+||+||.++.
T Consensus         4 ~~~~C~IC~~~~~~--~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   51 (68)
T 1chc_A            4 VAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCeeCCccccC--CcEecC-CCCeeHHHHHHHHHhCcCcCcCCChhhH
Confidence            45689999999865  356778 9999999999999999999999999875

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

Probab=99.17  E-value=1.8e-11  Score=94.04  Aligned_cols=53  Identities=26%  Similarity=0.694  Sum_probs=43.2

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC--CCCCcccccccCCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN--STCPLCRDTLFTPG  186 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~--~sCPlCR~~l~~~~  186 (365)
                      ..+...|+||++.|.+   ..+++.|||.||..||..|+..+  .+||+||.++...+
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2yur_A           12 IPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD   66 (74)
T ss_dssp             SCGGGSCSSSCCCCTT---CEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTT
T ss_pred             CCCCCCCcCCChHHhC---CeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcc
Confidence            3456789999999986   45566699999999999999865  68999999765443

>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=99.16  E-value=3.6e-12  Score=107.54  Aligned_cols=50  Identities=30%  Similarity=0.676  Sum_probs=1.0

Q ss_pred             CCCcCccccCcccCC-------------C--ceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          133 EPFDCAVCLCEFSEK-------------D--KLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       133 ~~~~CaICl~~f~~~-------------~--~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      +...|+||++.|...             +  .+..++ |+|.||..||+.||..+.+||+||+++.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~-C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CC----------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCC-cCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            456899999999752             2  222345 9999999999999999999999999863

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

Probab=99.15  E-value=3.3e-11  Score=91.44  Aligned_cols=51  Identities=27%  Similarity=0.614  Sum_probs=42.5

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHh---cCCCCCcccccccCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL---SNSTCPLCRDTLFTP  185 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~---~~~sCPlCR~~l~~~  185 (365)
                      ..+...|+||++.|.+   ..+++ |||.||..||..|+.   .+..||+||..+...
T Consensus        17 ~~~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   70 (73)
T 2ysl_A           17 LQEEVICPICLDILQK---PVTID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN   70 (73)
T ss_dssp             CCCCCBCTTTCSBCSS---EEECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCC
T ss_pred             CccCCEeccCCcccCC---eEEcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcc
Confidence            4566789999999886   55677 999999999999997   456899999988543

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

Probab=99.14  E-value=2.7e-11  Score=94.23  Aligned_cols=48  Identities=23%  Similarity=0.549  Sum_probs=42.2

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      .+...|+||++.|..   ..+++ |+|.||..||..|+....+||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQN---PVVTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCS---EEECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcC---eeEcc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            456789999999866   55677 9999999999999999999999999885

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

Probab=99.13  E-value=3.6e-11  Score=89.95  Aligned_cols=51  Identities=20%  Similarity=0.629  Sum_probs=41.9

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHh-cCCCCCcccccccCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL-SNSTCPLCRDTLFTP  185 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~sCPlCR~~l~~~  185 (365)
                      ..+...|+||++.+.+   ...++ |||.||..||..|+. .+..||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           12 VEDKYKCEKCHLVLCS---PKQTE-CGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCCCEECTTTCCEESS---CCCCS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             CCcCCCCCCCChHhcC---eeECC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            3456789999999876   34467 999999999999995 567899999988653

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

Probab=99.11  E-value=2.7e-11  Score=103.85  Aligned_cols=47  Identities=32%  Similarity=0.853  Sum_probs=41.9

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      ...|+||++.|.+   +.+++ |||.||..||..|+..+.+||+||.++..
T Consensus        53 ~~~C~iC~~~~~~---~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           53 ELQCIICSEYFIE---AVTLN-CAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HSBCTTTCSBCSS---EEEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             cCCCcccCcccCC---ceECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            4579999999976   66788 99999999999999999999999998853

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

Probab=99.10  E-value=1.1e-10  Score=90.35  Aligned_cols=52  Identities=29%  Similarity=0.650  Sum_probs=43.8

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc------CCCCCcccccccCCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS------NSTCPLCRDTLFTPG  186 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~------~~sCPlCR~~l~~~~  186 (365)
                      ..+...|+||++.|..   ...++ |+|.||..||..|+..      ...||+||..+....
T Consensus        16 ~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecv_A           16 VKEEVTCPICLELLTQ---PLSLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN   73 (85)
T ss_dssp             CCCCCCCTTTCSCCSS---CBCCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSS
T ss_pred             ccCCCCCCCCCcccCC---ceeCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHh
Confidence            4556789999999876   45677 9999999999999987      778999999886543

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

Probab=99.09  E-value=1e-10  Score=90.57  Aligned_cols=51  Identities=31%  Similarity=0.602  Sum_probs=43.2

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc------CCCCCcccccccCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS------NSTCPLCRDTLFTP  185 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~------~~sCPlCR~~l~~~  185 (365)
                      ..+...|+||++.|..   ..+++ |+|.||..||..|+..      ...||+||..+...
T Consensus        16 ~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           16 IKEEVTCPICLELLKE---PVSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             CCTTTSCTTTCSCCSS---CEECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             CccCCCCcCCChhhCc---ceeCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            4556789999999876   44677 9999999999999987      66899999988654

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

Probab=99.08  E-value=8.5e-11  Score=90.51  Aligned_cols=51  Identities=24%  Similarity=0.567  Sum_probs=43.5

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc-CCCCCcccccccCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTLFTP  185 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l~~~  185 (365)
                      ..+...|+||++.|.+   ..+++ |||.||..||..|+.. +.+||+||.++...
T Consensus         5 ~~~~~~C~IC~~~~~~---Pv~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (78)
T 1t1h_A            5 FPEYFRCPISLELMKD---PVIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             CSSSSSCTTTSCCCSS---EEEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             CcccCCCCCccccccC---CEEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCChh
Confidence            3556789999999876   55677 9999999999999987 77899999988643

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

Probab=99.07  E-value=1e-10  Score=91.04  Aligned_cols=49  Identities=22%  Similarity=0.566  Sum_probs=41.6

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC--CCCCcccccccC
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN--STCPLCRDTLFT  184 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~--~sCPlCR~~l~~  184 (365)
                      ...+|+||++.|.+++...   .|+|.||..||.+||+.+  .+||+||.++..
T Consensus        14 ~i~~C~IC~~~i~~g~~C~---~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSCBCSSSCCBCSSSEECS---SSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCCcCcchhhHcccCCccC---CCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            3468999999999765443   499999999999999987  789999998754

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

Probab=99.06  E-value=4.4e-11  Score=91.95  Aligned_cols=51  Identities=27%  Similarity=0.571  Sum_probs=43.0

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc-------CCCCCcccccccCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-------NSTCPLCRDTLFTP  185 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~-------~~sCPlCR~~l~~~  185 (365)
                      ..+...|+||++.|.+   ...++ |||.||..||..|+..       ...||+||..+...
T Consensus         9 ~~~~~~C~IC~~~~~~---p~~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~   66 (79)
T 2egp_A            9 VQEEVTCPICLELLTE---PLSLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFE   66 (79)
T ss_dssp             CCCCCEETTTTEECSS---CCCCS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSS
T ss_pred             cccCCCCcCCCcccCC---eeECC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHh
Confidence            4566789999999876   45577 9999999999999987       56899999988654

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

Probab=99.03  E-value=8.7e-11  Score=95.41  Aligned_cols=48  Identities=35%  Similarity=0.847  Sum_probs=41.2

Q ss_pred             CCCcCccccCcccCCCceee-cCCCCCccchhhHHHHHhcC-CCCCcccccccC
Q 039247          133 EPFDCAVCLCEFSEKDKLRL-LPMCSHAFHINCIDTWLLSN-STCPLCRDTLFT  184 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~-lp~C~H~FH~~CI~~Wl~~~-~sCPlCR~~l~~  184 (365)
                      +...|+||++.|..   ... ++ |||.||..||..|+..+ .+||+||.++..
T Consensus        21 ~~~~C~IC~~~~~~---p~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           21 EVFRCFICMEKLRD---ARLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             HHTBCTTTCSBCSS---EEECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCCccCCccccC---ccccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            34689999999976   445 77 99999999999999987 699999998854

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

Probab=99.02  E-value=2e-10  Score=84.96  Aligned_cols=44  Identities=32%  Similarity=0.696  Sum_probs=37.5

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHh---cCCCCCcc
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL---SNSTCPLC  178 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~---~~~sCPlC  178 (365)
                      ..+...|+||++.|.+   ..+++ |||.||..||..|+.   ....||+|
T Consensus        17 ~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQK---PVTID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSS---CEECT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchhCC---eEEeC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            4566789999999886   55677 999999999999998   45689998

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

Probab=99.01  E-value=1.1e-10  Score=97.39  Aligned_cols=54  Identities=26%  Similarity=0.618  Sum_probs=45.3

Q ss_pred             CCCCcCccccCcccCC----CceeecCCCCCccchhhHHHHHhcCCCCCcccccccCCC
Q 039247          132 KEPFDCAVCLCEFSEK----DKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPG  186 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~----~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~~  186 (365)
                      .+...|+||++.|.+.    +.+..++ |||.||..||..|+..+.+||+||..+....
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR   62 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTTTC
T ss_pred             CCCCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCcccc
Confidence            3457899999999763    3446777 9999999999999999999999999886543

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

Probab=99.00  E-value=2e-10  Score=92.58  Aligned_cols=48  Identities=27%  Similarity=0.684  Sum_probs=41.2

Q ss_pred             CCCcCccccCcccCCCceeec-CCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          133 EPFDCAVCLCEFSEKDKLRLL-PMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~l-p~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      +...|+||++.|.+   ...+ + |||.||..||..|+..+.+||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~---p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           21 DLLRCGICFEYFNI---AMIIPQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HHTBCTTTCSBCSS---EEECTT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCCcccCChhhCC---cCEECC-CCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            34689999999886   4444 6 99999999999999999999999998754

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

Probab=98.99  E-value=3e-10  Score=82.18  Aligned_cols=44  Identities=34%  Similarity=0.850  Sum_probs=36.6

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHh---cCCCCCcc
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL---SNSTCPLC  178 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~---~~~sCPlC  178 (365)
                      ..+...|+||++.|.+   ..+++ |+|.||..||..|+.   .+.+||+|
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           12 LQVEASCSVCLEYLKE---PVIIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCCCCBCSSSCCBCSS---CCCCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cccCCCCccCCcccCc---cEeCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            3456789999999877   45577 999999999999954   56789998

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

Probab=98.99  E-value=3.2e-10  Score=84.47  Aligned_cols=53  Identities=19%  Similarity=0.527  Sum_probs=41.3

Q ss_pred             CCCcCccccC-cccCCCce-eecCCCCCccchhhHHHHHhc-CCCCCcccccccCCC
Q 039247          133 EPFDCAVCLC-EFSEKDKL-RLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTLFTPG  186 (365)
Q Consensus       133 ~~~~CaICl~-~f~~~~~v-~~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l~~~~  186 (365)
                      +...|+||++ .|...... .+++ |||.||..||..|+.. ...||+||..+...+
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   57 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCcccccc
Confidence            3468999999 77665443 3466 9999999999999765 457999999886543

>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=98.98  E-value=2.1e-10  Score=93.92  Aligned_cols=50  Identities=24%  Similarity=0.640  Sum_probs=42.2

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      .+...|+||++.|.+  .+.+++ |||.||..||..|+..+.+||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           13 NPHLMCVLCGGYFID--ATTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHK   62 (108)
T ss_dssp             GGGTBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCS
T ss_pred             CCcCCCccCChHHhC--cCEeCC-CCChhhHHHHHHHHHhCCcCcCCCccccc
Confidence            445789999999876  333347 99999999999999999999999998864

>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=98.95  E-value=4.9e-10  Score=93.98  Aligned_cols=48  Identities=27%  Similarity=0.548  Sum_probs=41.2

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC-CCCcccccccC
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS-TCPLCRDTLFT  184 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~-sCPlCR~~l~~  184 (365)
                      +...|+||++.|..   ...++ |||.||..||..|+..+. +||+||.++..
T Consensus        51 ~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFR---PITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSS---EEECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcC---cEEee-CCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            44689999999986   56677 999999999999998554 89999998865

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

Probab=98.95  E-value=2.5e-10  Score=95.30  Aligned_cols=53  Identities=26%  Similarity=0.636  Sum_probs=44.3

Q ss_pred             CCCCcCccccCcccCC----CceeecCCCCCccchhhHHHHHhcCCCCCcccccccCC
Q 039247          132 KEPFDCAVCLCEFSEK----DKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTP  185 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~----~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~  185 (365)
                      .+...|+||++.|...    ..+..++ |||.||..||+.|+..+.+||+||.++...
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  126 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHK  126 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEET-TSBEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCC-CCChhhHHHHHHHHHcCCCCCCCCCcCChh
Confidence            4567899999998762    2335666 999999999999999999999999988654

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

Probab=98.94  E-value=4.1e-10  Score=89.29  Aligned_cols=50  Identities=26%  Similarity=0.675  Sum_probs=41.5

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC--CCCCccccccc
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN--STCPLCRDTLF  183 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~--~sCPlCR~~l~  183 (365)
                      ..+...|+||++.|.+   ...++.|||.||..||..|+..+  ..||+||.++.
T Consensus        10 ~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           10 IPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCTTTEETTTTEECSS---CEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CCcCCCCCCCChhhcC---ceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            4566789999999886   45666699999999999999754  58999999873

>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=98.93  E-value=7.6e-10  Score=90.48  Aligned_cols=48  Identities=27%  Similarity=0.636  Sum_probs=40.3

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC---CCCcccccccCC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS---TCPLCRDTLFTP  185 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~---sCPlCR~~l~~~  185 (365)
                      ...|+||++.|..   ...++ |||.||..||..|+..+.   +||+||.++...
T Consensus        21 ~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (112)
T 1jm7_A           21 ILECPICLELIKE---PVSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (112)
T ss_dssp             HTSCSSSCCCCSS---CCBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             CCCCcccChhhcC---eEECC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHh
Confidence            3579999999876   44577 999999999999998654   899999988654

>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=98.90  E-value=6.4e-10  Score=97.70  Aligned_cols=49  Identities=35%  Similarity=0.722  Sum_probs=40.7

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc-CCCCCcccccccC
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTLFT  184 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l~~  184 (365)
                      +...|+||++.|.+  .+.+++ |||.||..||..|+.. +..||+||..+..
T Consensus        53 ~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           53 SELMCPICLDMLKN--TMTTKE-CLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCcccChHhhC--cCEeCC-CCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            34589999999886  344446 9999999999999997 7789999998853

>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=98.86  E-value=8.1e-10  Score=92.05  Aligned_cols=50  Identities=28%  Similarity=0.703  Sum_probs=42.2

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC-CCCcccccccC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS-TCPLCRDTLFT  184 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~-sCPlCR~~l~~  184 (365)
                      ..+...|+||++.|..   ...++ |||.||..||..|+.... +||+||.++..
T Consensus        15 ~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           15 LESKYECPICLMALRE---AVQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             CCGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCcCChhhcC---eEECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            3456789999999876   45677 999999999999998765 89999998754

>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=98.85  E-value=1.3e-09  Score=95.09  Aligned_cols=49  Identities=22%  Similarity=0.503  Sum_probs=41.9

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC-CCCcccccccCC
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS-TCPLCRDTLFTP  185 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~-sCPlCR~~l~~~  185 (365)
                      +...|+||++.|.+   ..+++ |||.||..||..|+.... +||+||..+...
T Consensus        77 ~~~~C~IC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQ---PVTTE-CFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSS---EEECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             cCCEeecCChhhcC---CEEcC-CCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            45689999999876   55678 999999999999999765 899999988654

>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=98.82  E-value=7.2e-10  Score=91.63  Aligned_cols=48  Identities=25%  Similarity=0.673  Sum_probs=40.7

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc-CCCCCcccccccC
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTLFT  184 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l~~  184 (365)
                      +...|+||++.|..   ...++ |||.||..||..|+.. +..||+||..+..
T Consensus        14 ~~~~C~iC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           14 SECQCGICMEILVE---PVTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHBCTTTCSBCSS---CEECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCccCCcccCc---eeEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            34679999999876   55677 9999999999999986 5689999998853

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

Probab=98.81  E-value=2.5e-09  Score=84.64  Aligned_cols=50  Identities=20%  Similarity=0.211  Sum_probs=44.5

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      ..+.+.|+||++.|.+   ..+++ |||.|+..||..|+..+.+||+||.++..
T Consensus        11 ~p~~~~CpI~~~~m~d---PV~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   60 (85)
T 2kr4_A           11 APDEFRDPLMDTLMTD---PVRLP-SGTVMDRSIILRHLLNSPTDPFNRQMLTE   60 (85)
T ss_dssp             CCTTTBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CchheECcccCchhcC---CeECC-CCCEECHHHHHHHHhcCCCCCCCcCCCCh
Confidence            3567899999999988   77788 99999999999999998999999998754

>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=98.81  E-value=2.7e-09  Score=87.16  Aligned_cols=51  Identities=22%  Similarity=0.224  Sum_probs=45.0

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTP  185 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~  185 (365)
                      ..+.+.|+||++.|.+   ..+++ |||.|+..||..|+..+.+||+||.++...
T Consensus        26 ~p~~~~CpI~~~~m~d---PV~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   76 (100)
T 2kre_A           26 APDEFRDPLMDTLMTD---PVRLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTES   76 (100)
T ss_dssp             CSTTTBCTTTCSBCSS---EEEET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCTT
T ss_pred             CcHhhCCcCccCcccC---CeECC-CCCEEchHHHHHHHHcCCCCCCCCCCCChh
Confidence            3557889999999988   77788 999999999999999889999999988643

>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=98.81  E-value=1.8e-09  Score=89.35  Aligned_cols=48  Identities=29%  Similarity=0.582  Sum_probs=41.1

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc-CCCCCcccccccCC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTLFTP  185 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l~~~  185 (365)
                      ...|+||++.|.+   ...++ |||.||..||..|+.. +.+||+||.++...
T Consensus        23 ~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (116)
T 1rmd_A           23 SISCQICEHILAD---PVETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (116)
T ss_dssp             HTBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCcHhcC---cEEcC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCHh
Confidence            4589999999876   55577 9999999999999987 67899999988643

>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=98.80  E-value=3.9e-09  Score=85.90  Aligned_cols=51  Identities=24%  Similarity=0.238  Sum_probs=44.7

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCC-CccchhhHHHHHhcCCCCCcccccccCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCS-HAFHINCIDTWLLSNSTCPLCRDTLFTP  185 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~-H~FH~~CI~~Wl~~~~sCPlCR~~l~~~  185 (365)
                      ..+.+.|+||++.|.+   ..+++ || |.|+..||..|+..+.+||+||.++...
T Consensus        19 ~p~~~~CpI~~~~m~d---PV~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~   70 (98)
T 1wgm_A           19 ACDEFLDPIMSTLMCD---PVVLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             CCTTTBCTTTCSBCSS---EEECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             CcHhcCCcCccccccC---CeECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCChh
Confidence            3457889999999988   66788 99 9999999999999989999999988643

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

Probab=98.75  E-value=1.2e-08  Score=79.72  Aligned_cols=56  Identities=20%  Similarity=0.401  Sum_probs=42.6

Q ss_pred             CCCCCcCccccCcccCCCcee-ecCCCCCccchhhHHHHHhc-CCCCCcccccccCCCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLR-LLPMCSHAFHINCIDTWLLS-NSTCPLCRDTLFTPGF  187 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~-~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l~~~~~  187 (365)
                      ..+...|+||++.+...+... -++ |||.||..|+..|+.. ...||+||.++.....
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSS
T ss_pred             cccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCCch
Confidence            456678999999986544332 234 9999999999998754 5679999999876543

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=98.74  E-value=3.2e-09  Score=79.60  Aligned_cols=47  Identities=19%  Similarity=0.437  Sum_probs=39.8

Q ss_pred             CCCcCccccCcccCCCceeec--CCCCCc-cchhhHHHHHhcCCCCCccccccc
Q 039247          133 EPFDCAVCLCEFSEKDKLRLL--PMCSHA-FHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~l--p~C~H~-FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      +...|.||++.+.+   ...+  | |||. |+..|+..|...+..||+||+++.
T Consensus         7 ~~~~C~IC~~~~~~---~~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            7 AIEPCVICQGRPKN---GCIVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGSCCTTTSSSCSC---EEEEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CcCCCCcCCCCCCC---EEEECCC-CCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            34579999998766   4444  8 9999 899999999998899999999874

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

Probab=98.74  E-value=4.4e-09  Score=104.94  Aligned_cols=48  Identities=23%  Similarity=0.677  Sum_probs=41.8

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHh-cCCCCCcccccccCC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL-SNSTCPLCRDTLFTP  185 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~sCPlCR~~l~~~  185 (365)
                      ...|+||++.+..   +..+| |||.||..||..|+. .+.+||+||.++...
T Consensus       332 ~~~C~ICle~~~~---pv~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSBCC---EEEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCCCC---eEEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            3689999999866   67788 999999999999999 678999999988543

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

Probab=98.72  E-value=5e-09  Score=76.31  Aligned_cols=47  Identities=26%  Similarity=0.616  Sum_probs=39.4

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCC
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTP  185 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~  185 (365)
                      .+...|+||++.|..   .++++ |+|.||..||..|   ...||+||..+..+
T Consensus         4 ~~~~~C~IC~~~~~~---p~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            4 FQFLRCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCCSSCSSSCSSCBC---CSCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             ccCCCceEeCCccCC---eEEcC-CCCcccHHHHccC---CCCCCcCCcEeecC
Confidence            456789999999986   56788 9999999999884   67899999987643

>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=98.70  E-value=4.3e-09  Score=87.48  Aligned_cols=46  Identities=26%  Similarity=0.644  Sum_probs=39.1

Q ss_pred             CCCcCccccCcccCCCceeec-CCCCCccchhhHHHHHhcCCCCCcccccccC
Q 039247          133 EPFDCAVCLCEFSEKDKLRLL-PMCSHAFHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~l-p~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      +...|+||++.|..   ...+ + |||.||..||..|+.  ..||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~---pv~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (117)
T 1jm7_B           21 KLLRCSRCTNILRE---PVCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (117)
T ss_dssp             HTTSCSSSCSCCSS---CBCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             hCCCCCCCChHhhC---ccEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCcc
Confidence            35689999999976   5556 6 999999999999987  789999998743

>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=98.69  E-value=3.7e-09  Score=91.36  Aligned_cols=50  Identities=20%  Similarity=0.455  Sum_probs=41.9

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC-CCCcccccccC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS-TCPLCRDTLFT  184 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~-sCPlCR~~l~~  184 (365)
                      ..+...|+||++.|.+   ...++ |||.||..||..|+.... +||+||.++..
T Consensus        28 l~~~~~C~IC~~~~~~---pv~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           28 LEAKYLCSACRNVLRR---PFQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             CCGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             CCcCcCCCCCChhhcC---cEECC-CCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            3456789999999987   45577 999999999999998665 89999998743

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster}

Probab=98.63  E-value=8.2e-09  Score=101.21  Aligned_cols=53  Identities=23%  Similarity=0.634  Sum_probs=41.2

Q ss_pred             CCCCcCccccCcccCCCcee----ecCCCCCccchhhHHHHHhcC-----------CCCCcccccccC
Q 039247          132 KEPFDCAVCLCEFSEKDKLR----LLPMCSHAFHINCIDTWLLSN-----------STCPLCRDTLFT  184 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~----~lp~C~H~FH~~CI~~Wl~~~-----------~sCPlCR~~l~~  184 (365)
                      ....+|+||++.+.++..+.    ..+.|+|.||..||.+||++.           .+||+||+++..
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            35678999999998843331    233599999999999999753           359999998864

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B*

Probab=98.61  E-value=1.2e-08  Score=76.21  Aligned_cols=46  Identities=15%  Similarity=0.459  Sum_probs=38.8

Q ss_pred             CCcCccccCcccCCCceeec--CCCCCc-cchhhHHHHHhcCCCCCccccccc
Q 039247          134 PFDCAVCLCEFSEKDKLRLL--PMCSHA-FHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~l--p~C~H~-FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      ...|.||++.+.+   ..++  | |||. |+..|+..|...+..||+||+++.
T Consensus         7 ~~~C~IC~~~~~~---~~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            7 LKPCSLCEKRPRD---GNIIHGR-TGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GSBCTTTSSSBSC---EEEEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CCCCcccCCcCCC---eEEEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            4579999998655   3344  8 9998 999999999988889999999874

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

Probab=98.60  E-value=1.3e-08  Score=78.13  Aligned_cols=42  Identities=21%  Similarity=0.645  Sum_probs=36.9

Q ss_pred             CCcCccccCcccCCCceeecCCCCCc-cchhhHHHHHhcCCCCCccccccc
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHA-FHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      ...|+||++.+.+   +..+| |||. ||..|+..|    ..||+||.++.
T Consensus        24 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~   66 (74)
T 4ic3_A           24 EKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEAV----DKCPMCYTVIT   66 (74)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCCBCCCHHHHTTC----SBCTTTCCBCS
T ss_pred             CCCCCCCCCCCCC---EEEcC-CCChhHHHHhhhcC----ccCCCcCcCcc
Confidence            3579999999776   67788 9999 999999998    88999999874

>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=98.59  E-value=2.3e-08  Score=93.23  Aligned_cols=50  Identities=14%  Similarity=0.165  Sum_probs=42.7

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC-CCCCcccccccC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN-STCPLCRDTLFT  184 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~-~sCPlCR~~l~~  184 (365)
                      ..+...|+||++.|.+   +.+++ |||.||..||..|+..+ .+||+||.++..
T Consensus       205 ~~~~~~c~i~~~~~~d---Pv~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          205 IPDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             CCSTTBCTTTCSBCSS---EEECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CCcccCCcCcCCHhcC---CeECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            3456789999999988   67788 99999999999999864 459999998854

>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=98.55  E-value=3.8e-08  Score=79.05  Aligned_cols=47  Identities=23%  Similarity=0.500  Sum_probs=39.5

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC------CCCCc--cccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN------STCPL--CRDT  181 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~------~sCPl--CR~~  181 (365)
                      .+.+.|+||++.|.+   ..+++.|||.|+..||..|+..+      .+||+  |+..
T Consensus         5 ~~~~~CPI~~~~~~d---PV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            5 SSGFTCPITKEEMKK---PVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SSCCBCTTTCSBCSS---EEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CcEeECcCcCchhcC---CEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            456789999999987   55664599999999999999864      48999  9876

>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=98.54  E-value=3e-08  Score=87.29  Aligned_cols=51  Identities=27%  Similarity=0.675  Sum_probs=42.5

Q ss_pred             CCCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC-CCCCcccccccC
Q 039247          130 GLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN-STCPLCRDTLFT  184 (365)
Q Consensus       130 ~~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~-~sCPlCR~~l~~  184 (365)
                      ...+...|+||++.|.+   ...++ |||.||..||..|+... .+||+||.++..
T Consensus        14 ~~~~~~~C~IC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           14 PLESKYECPICLMALRE---AVQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             CCCGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCCCCChhhcC---cEECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            34556789999999987   45677 99999999999999864 489999998754

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=98.45  E-value=1.1e-07  Score=70.82  Aligned_cols=48  Identities=25%  Similarity=0.621  Sum_probs=37.2

Q ss_pred             CCCCcCccccCcccCCCceeecCCCC--C---ccchhhHHHHHhc--CCCCCccccccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCS--H---AFHINCIDTWLLS--NSTCPLCRDTLF  183 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~--H---~FH~~CI~~Wl~~--~~sCPlCR~~l~  183 (365)
                      .+...|.||+++.  ++.+ ++| |.  |   .||..||.+|+..  +.+||+|+..+.
T Consensus         4 ~~~~~CrIC~~~~--~~~l-~~P-C~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEEL--GNER-FRA-CGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEEC--SCCC-CCS-CCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCC--CCce-ecC-cCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            4556899999983  3334 577 65  4   9999999999974  578999998774

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

Probab=98.41  E-value=1.1e-07  Score=73.03  Aligned_cols=42  Identities=21%  Similarity=0.634  Sum_probs=35.4

Q ss_pred             CcCccccCcccCCCceeecCCCCCc-cchhhHHHHHhcCCCCCcccccccC
Q 039247          135 FDCAVCLCEFSEKDKLRLLPMCSHA-FHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       135 ~~CaICl~~f~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      ..|+||++.+.+   +..+| |||. ||..|+..    ...||+||.++..
T Consensus        26 ~~C~IC~~~~~~---~~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           26 KLCKICMDRNIA---IVFVP-CGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HSCSSSCSSCCC---BCCSS-SCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCcCCCCCCC---EEEec-CCCHHHHHHHhhC----CCCCccCCceecC
Confidence            479999999766   66788 9999 99999965    4789999998854

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

Probab=98.40  E-value=1e-07  Score=85.85  Aligned_cols=50  Identities=14%  Similarity=0.155  Sum_probs=42.6

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC-CCCCcccccccC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN-STCPLCRDTLFT  184 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~-~sCPlCR~~l~~  184 (365)
                      ..+.+.|+||++.|.+   +.+++ |||.|+..||..|+..+ .+||+|+.++..
T Consensus       103 ip~~f~CPI~~elm~D---PV~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          103 IPDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             CCGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CcHhhcccCccccCCC---CeECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            3456789999999987   66778 99999999999999864 579999998754

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

Probab=98.37  E-value=1.4e-07  Score=75.33  Aligned_cols=48  Identities=21%  Similarity=0.585  Sum_probs=39.7

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc--------CCCCCc--cccc
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS--------NSTCPL--CRDT  181 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~--------~~sCPl--CR~~  181 (365)
                      +..+|+||++++...+.+.+.+ |+|.||..|+..++..        ...||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~-CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCC-CCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            4568999999998766666666 9999999999999863        236999  9987

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.37  E-value=2.5e-07  Score=70.23  Aligned_cols=45  Identities=31%  Similarity=0.727  Sum_probs=37.6

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCc-cchhhHHHHHhcCCCCCcccccccC
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHA-FHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      .+...|.||++.+.+   +..+| |+|. |+..|+..    ...||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVN---WVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CCSSCCSSSSSSCCC---CEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCCCcCcCCCC---EEEEC-CCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            345689999998765   77889 9999 99999984    5789999998854

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A

Probab=98.27  E-value=2.3e-07  Score=72.37  Aligned_cols=43  Identities=28%  Similarity=0.657  Sum_probs=36.6

Q ss_pred             CCcCccccCcccCCCceeecCCCCCc-cchhhHHHHHhcCCCCCcccccccC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHA-FHINCIDTWLLSNSTCPLCRDTLFT  184 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~sCPlCR~~l~~  184 (365)
                      ...|.||++.+.+   +..+| |||. |+..|+..|    ..||+||.++..
T Consensus        18 ~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   61 (79)
T 2yho_A           18 AMLCMVCCEEEIN---STFCP-CGHTVCCESCAAQL----QSCPVCRSRVEH   61 (79)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCBCCBCHHHHTTC----SBCTTTCCBCCE
T ss_pred             CCEeEEeCcccCc---EEEEC-CCCHHHHHHHHHhc----CcCCCCCchhhC
Confidence            3479999998766   77888 9999 999999987    399999998854

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A

Probab=98.18  E-value=5.4e-07  Score=67.11  Aligned_cols=49  Identities=14%  Similarity=0.203  Sum_probs=41.7

Q ss_pred             CcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCCC
Q 039247          135 FDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPG  186 (365)
Q Consensus       135 ~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~~  186 (365)
                      +.|+||++.|.+   ..+++.|||+|...||.+|+..+.+||+++.+|...+
T Consensus         4 ~~CpIs~~~m~d---PV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~   52 (61)
T 2bay_A            4 MLCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   52 (61)
T ss_dssp             CCCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             EEecCCCCCCCC---CEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhh
Confidence            579999999986   4566239999999999999998889999999886543

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.15  E-value=5e-07  Score=88.92  Aligned_cols=44  Identities=27%  Similarity=0.742  Sum_probs=38.4

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCc-cchhhHHHHHhcCCCCCccccccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHA-FHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      .+...|+||++.+..   +..+| |||. ||..|+..|    ..||+||.++.
T Consensus       293 ~~~~~C~IC~~~~~~---~v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~  337 (345)
T 3t6p_A          293 QEERTCKVCMDKEVS---VVFIP-CGHLVVCQECAPSL----RKCPICRGIIK  337 (345)
T ss_dssp             HTTCBCTTTSSSBCC---EEEET-TCCEEECTTTGGGC----SBCTTTCCBCC
T ss_pred             cCCCCCCccCCcCCc---eEEcC-CCChhHhHHHHhcC----CcCCCCCCCcc
Confidence            456789999999876   77788 9999 999999988    78999999874

>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=98.05  E-value=1.9e-06  Score=81.78  Aligned_cols=50  Identities=22%  Similarity=0.504  Sum_probs=40.5

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC--CCCCc--ccccccC
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN--STCPL--CRDTLFT  184 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~--~sCPl--CR~~l~~  184 (365)
                      .....|+||++.|.+  .|+.+. |||.|+..||..|+..+  .+||+  ||..+..
T Consensus       179 ~~el~CPIcl~~f~D--PVts~~-CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          179 KIELTCPITCKPYEA--PLISRK-CNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM  232 (267)
T ss_dssp             BCCSBCTTTSSBCSS--EEEESS-SCCEEEHHHHHHHSTTCSCEECSGGGCSCEECG
T ss_pred             ceeeECcCccCcccC--CeeeCC-CCCcccHHHHHHHHHhCCCCCCCcccccCcCch
Confidence            456789999999976  344445 99999999999999865  46999  9997754

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

Probab=97.75  E-value=2.2e-05  Score=73.44  Aligned_cols=50  Identities=22%  Similarity=0.535  Sum_probs=40.4

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC--CCCcccccccCC
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS--TCPLCRDTLFTP  185 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~--sCPlCR~~l~~~  185 (365)
                      ....|+||.+....+.   ..++|+|.||..|+..|++.+.  .||.|+.++...
T Consensus       179 ~i~~C~iC~~iv~~g~---~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQ---SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             TCCBCTTTCSBCSSCE---ECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCCcCcchhhHHhCCc---ccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            3568999999988753   2345999999999999998754  899999987544

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=97.74  E-value=1.7e-05  Score=64.74  Aligned_cols=45  Identities=27%  Similarity=0.568  Sum_probs=36.7

Q ss_pred             cCccccCcccCCCceeecCCCCCccchhhHHHHHh-cCCCCCccccccc
Q 039247          136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL-SNSTCPLCRDTLF  183 (365)
Q Consensus       136 ~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~sCPlCR~~l~  183 (365)
                      .|.+|--.+.  ...|+.| |+|+||.+|+..|.+ ..++||.|+.++.
T Consensus         3 fC~~C~~Pi~--iygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCS--EEEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             ecCccCCCeE--EEeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            4777855544  4678899 999999999999985 4678999999874

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=92.58  E-value=0.073  Score=39.91  Aligned_cols=45  Identities=27%  Similarity=0.425  Sum_probs=33.5

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC----CCCccccc
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS----TCPLCRDT  181 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~----sCPlCR~~  181 (365)
                      ....|.||.+.   ++ +..-..|...||..|++..|..-.    .||.|...
T Consensus        11 ~~~~C~vC~~~---~~-ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           11 PGARCGVCGDG---TD-VLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             TTCCCTTTSCC---TT-CEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCCcCCCCCC---Ce-EEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            34579999753   34 445556999999999998887644    59999764

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=90.27  E-value=0.14  Score=40.39  Aligned_cols=34  Identities=12%  Similarity=0.334  Sum_probs=25.1

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHH
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTW  168 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~W  168 (365)
                      ...|.||++.+.......-+. |+|.|+..|+..+
T Consensus         3 e~~C~~C~~~~~~~av~~C~~-C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVT-CEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETT-TTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCCCceEECCc-CChHHhHHHCHHH
Confidence            457999998754333333366 9999999999983

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=87.95  E-value=0.33  Score=35.47  Aligned_cols=46  Identities=26%  Similarity=0.650  Sum_probs=32.6

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC----CCCccccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS----TCPLCRDT  181 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~----sCPlCR~~  181 (365)
                      .+...|.||...   ++ +..-..|...||..|+..-+...+    .||.|+..
T Consensus         9 ~~~~~C~vC~~~---g~-ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            9 DHQDYCEVCQQG---GE-IILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             CCCSSCTTTSCC---SS-EEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCccCCCC---Cc-EEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            445679999863   33 444456999999999998654322    59999753

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=86.85  E-value=0.19  Score=36.79  Aligned_cols=49  Identities=18%  Similarity=0.455  Sum_probs=34.6

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHh-----cCCCCCcccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL-----SNSTCPLCRD  180 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~-----~~~sCPlCR~  180 (365)
                      .+...|+||...+.++...+..-.|..-||..|+.--..     ....||.|+.
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~   57 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcC
Confidence            355679999988765544444446999999999865322     2446999975

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=85.92  E-value=0.27  Score=35.99  Aligned_cols=47  Identities=26%  Similarity=0.510  Sum_probs=32.4

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC----CCCcccccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS----TCPLCRDTL  182 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~----sCPlCR~~l  182 (365)
                      .+...|.||...   ++ +..-..|...||..|+..-|....    .||.|+...
T Consensus         7 ~~~~~C~vC~~~---g~-ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            7 HHMEFCRVCKDG---GE-LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SSCSSCTTTCCC---SS-CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCCCcCCCCCCC---CC-EEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            345679999853   33 444445999999999986554322    599997643

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A

Probab=85.66  E-value=0.24  Score=43.64  Aligned_cols=45  Identities=31%  Similarity=0.590  Sum_probs=33.0

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC----CCCccccc
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS----TCPLCRDT  181 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~----sCPlCR~~  181 (365)
                      ++..|.||...   ++ +.....|...||..|+.+-|...+    .||.|+..
T Consensus         3 ~~~~C~~C~~~---g~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~   51 (184)
T 3o36_A            3 NEDWCAVCQNG---GE-LLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDL   51 (184)
T ss_dssp             SCSSCTTTCCC---SS-CEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCS
T ss_pred             CCCccccCCCC---Ce-eeecCCCCcccCccccCCCCCCCCCCCEECccccCc
Confidence            34679999854   44 445556999999999987766433    59999864

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=85.23  E-value=0.25  Score=44.53  Aligned_cols=47  Identities=36%  Similarity=0.593  Sum_probs=34.1

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC----CCCcccccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS----TCPLCRDTL  182 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~----sCPlCR~~l  182 (365)
                      .+...|.+|...   ++ +.....|...||..|+.+-|...+    .||.|+..-
T Consensus         5 ~~~~~C~~C~~~---g~-ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            5 PNEDWCAVCQNG---GD-LLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             SSCSSBTTTCCC---EE-EEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCCC---Cc-eEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            345679999754   33 555566999999999988766433    599998643

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=84.69  E-value=0.46  Score=33.10  Aligned_cols=44  Identities=34%  Similarity=0.726  Sum_probs=29.8

Q ss_pred             cCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC----CCCcccc
Q 039247          136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS----TCPLCRD  180 (365)
Q Consensus       136 ~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~----sCPlCR~  180 (365)
                      .|.||...-..+ .+..-..|...||..|+++=|...+    .||.|+.
T Consensus         2 ~C~vC~~~~~~~-~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDD-KLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCS-CCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCC-CEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            488998764333 3444456999999999976444322    4999965

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=82.40  E-value=1.4  Score=34.72  Aligned_cols=35  Identities=20%  Similarity=0.516  Sum_probs=23.6

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHH
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTW  168 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~W  168 (365)
                      ..+..|.||- .|..++... ...|+-+||..|+.+-
T Consensus        13 ~~D~~C~VC~-~~t~~~l~p-CRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           13 VNDEMCDVCE-VWTAESLFP-CRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTTC-CCCSSCCSS-CSSSSSCCCHHHHHHH
T ss_pred             CCCcccCccc-cccccceec-cccccccccHhhcccc
Confidence            3566899995 333333332 2349999999999985

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=81.82  E-value=0.63  Score=41.54  Aligned_cols=47  Identities=21%  Similarity=0.400  Sum_probs=34.2

Q ss_pred             CcCccccCcccCCCc---eeecCCCCCccchhhHHHH------Hh-----cCCCCCccccc
Q 039247          135 FDCAVCLCEFSEKDK---LRLLPMCSHAFHINCIDTW------LL-----SNSTCPLCRDT  181 (365)
Q Consensus       135 ~~CaICl~~f~~~~~---v~~lp~C~H~FH~~CI~~W------l~-----~~~sCPlCR~~  181 (365)
                      ..|+||...+.+++.   .+....|..-||..|+.--      +.     ..-.||.|+..
T Consensus         3 ~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~   63 (183)
T 3lqh_A            3 NFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTER   63 (183)
T ss_dssp             CBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCS
T ss_pred             CcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCC
Confidence            369999999988763   5555569999999998431      11     15689999774

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=80.84  E-value=0.28  Score=35.09  Aligned_cols=45  Identities=31%  Similarity=0.694  Sum_probs=31.2

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC----CCCcccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS----TCPLCRD  180 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~----sCPlCR~  180 (365)
                      .+...|.||...   ++ +..-..|...||..|+.+=|...+    .||.|+.
T Consensus         7 ~~~~~C~vC~~~---g~-ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            7 GHEDFCSVCRKS---GQ-LLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             SSCCSCSSSCCS---SC-CEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCccCCCC---Ce-EEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            445679999874   33 444456999999999986554332    4888854

---

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	365
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	7e-20
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	4e-13
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	2e-10
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	3e-10
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	4e-10
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	4e-10
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	4e-08
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	8e-08
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	7e-07
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	8e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-05
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	1e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	9e-05
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	0.002

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 79.9 bits (197), Expect = 7e-20
 Identities = 26/53 (49%), Positives = 35/53 (66%)

Query: 130 GLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL 182
            + +  +CAVCL E  + ++ R LP C H FH  C+D WL S+STCPLCR T+
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 61.5 bits (149), Expect = 4e-13
 Identities = 22/63 (34%), Positives = 32/63 (50%), Gaps = 4/63 (6%)

Query: 137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSIENPMFDF 196
           C +CL +    +    LP C HAF   CI  W+  N TCPLC+  + +   +IE+   +F
Sbjct: 8   CPICLEDP--SNYSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIESDS-EF 63

Query: 197 DDF 199
            D 
Sbjct: 64  GDQ 66

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.0 bits (129), Expect = 2e-10
 Identities = 15/68 (22%), Positives = 25/68 (36%), Gaps = 6/68 (8%)

Query: 133 EPFDCAVCLCEFSEKDKLRLLPM-CSHAFHINCIDTWLLSNS-TCPLCRDTLFTPGFSIE 190
           +   C  C         L+L+   C H    +C+D   +  +  CP C   L    F ++
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQ 61

Query: 191 NPMFDFDD 198
                F+D
Sbjct: 62  ----LFED 65

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.2 bits (130), Expect = 3e-10
 Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 6/58 (10%)

Query: 124 QYKEIVGLKEPFD-CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS-TCPLCR 179
           QY+    +   F  C +C     +   +++ P C H    +C+ +W  S    CP CR
Sbjct: 12  QYELYCEMGSTFQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCR 65

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

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]

 Score = 54.0 bits (129), Expect = 4e-10
 Identities = 15/58 (25%), Positives = 21/58 (36%), Gaps = 14/58 (24%)

Query: 136 DCAVCLCEFSEKDKLRLLPM--------------CSHAFHINCIDTWLLSNSTCPLCR 179
           +CA+C     +                       C+HAFH +CI  WL +   CPL  
Sbjct: 23  NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 80

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

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]

 Score = 52.8 bits (126), Expect = 4e-10
 Identities = 10/45 (22%), Positives = 14/45 (31%), Gaps = 1/45 (2%)

Query: 136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWL-LSNSTCPLCR 179
           +C +C+      D       C +     C        N  CP CR
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 46

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.2 bits (112), Expect = 4e-08
 Identities = 12/43 (27%), Positives = 17/43 (39%), Gaps = 7/43 (16%)

Query: 137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
           C  C  E       +LLP C H     C++        CP+C+
Sbjct: 9   CQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQ 44

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 46.4 bits (109), Expect = 8e-08
 Identities = 12/50 (24%), Positives = 17/50 (34%), Gaps = 6/50 (12%)

Query: 136 DCAVCLCEFSEKDKLRLLPM----CSHAFHINCIDTWLLSN--STCPLCR 179
           D  VC     E    R             H +C+ TWL  +  + C +C 
Sbjct: 5   DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICG 54

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.1 bits (106), Expect = 7e-07
 Identities = 14/60 (23%), Positives = 23/60 (38%), Gaps = 7/60 (11%)

Query: 126 KEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS---TCPLCRDTL 182
             I  +++  +C +CL    E         C H F   C+   L        CPLC++ +
Sbjct: 13  NVINAMQKILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDI 68

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

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]

 Score = 45.0 bits (105), Expect = 8e-07
 Identities = 16/77 (20%), Positives = 30/77 (38%), Gaps = 19/77 (24%)

Query: 122 VFQYKEIVGLKEPFDCAVCLCEFSE--------------KDKLRLLPMCSHAFHINCIDT 167
           + +Y E + +    DC +C+ + +                  +  L  CSHAFH+ C+  
Sbjct: 13  IRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLA 72

Query: 168 WLLS-----NSTCPLCR 179
              +     +  CP C+
Sbjct: 73  MYCNGNKDGSLQCPSCK 89

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.1 bits (96), Expect = 1e-05
 Identities = 14/54 (25%), Positives = 18/54 (33%), Gaps = 5/54 (9%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWL-LSNSTCPLCRDTLF 183
             +   C +C           +   C H F   CI   L +  S CP CR   F
Sbjct: 20  FVKSISCQICEHIL----ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCF 69

>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 = 41.2 bits (96), Expect = 1e-05
 Identities = 10/58 (17%), Positives = 19/58 (32%), Gaps = 9/58 (15%)

Query: 130 GLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWL--------LSNSTCPLCR 179
           G      C +CL E+  +    +   C   F   C+  ++         +  +CP   
Sbjct: 1   GSSGSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.0 bits (90), Expect = 9e-05
 Identities = 13/52 (25%), Positives = 20/52 (38%), Gaps = 5/52 (9%)

Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL 182
           L++   C+ C     E   L     C H F  NC+   +   + CP+C    
Sbjct: 19  LEKLLRCSRCTNILREPVCL---GGCEHIFCSNCVSDCI--GTGCPVCYTPA 65

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 34.0 bits (77), Expect = 0.002
 Identities = 6/46 (13%), Positives = 14/46 (30%), Gaps = 3/46 (6%)

Query: 137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL 182
           CA+              P     F  + ++ ++      P+  + L
Sbjct: 3   CAISGKVPRRPVLS---PKSRTIFEKSLLEQYVKDTGNDPITNEPL 45

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	365
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.62
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.35
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.34
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.33
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.3
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.26
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.24
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.14
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.99
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.99
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	98.99
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.86
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.81
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.78
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.77
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.7
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.31
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	92.33
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	87.94
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	84.51
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	83.96
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	83.7
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	82.56
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	81.47
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	80.91

>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=99.62  E-value=1e-16  Score=116.24  Aligned_cols=52  Identities=50%  Similarity=1.128  Sum_probs=47.2

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      .+..+|+||+++|..++.+..++.|+|.||..||..|+..+.+||+||++|.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            4556899999999999999888779999999999999999999999999874

>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=99.35  E-value=1.6e-13  Score=102.88  Aligned_cols=48  Identities=40%  Similarity=0.820  Sum_probs=41.7

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      ....|+||++.|..  .++.++ |+|.||..||..|++.+.+||+||.++.
T Consensus         4 ~~d~C~IC~~~~~~--~~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           4 VAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCccCCcCccC--CcEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            34579999999864  456677 9999999999999999999999999874

>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=99.34  E-value=1.7e-13  Score=97.80  Aligned_cols=48  Identities=19%  Similarity=0.414  Sum_probs=40.3

Q ss_pred             cCccccCcccCCCce-eecCCCCCccchhhHHHHHhcC-CCCCcccccccC
Q 039247          136 DCAVCLCEFSEKDKL-RLLPMCSHAFHINCIDTWLLSN-STCPLCRDTLFT  184 (365)
Q Consensus       136 ~CaICl~~f~~~~~v-~~lp~C~H~FH~~CI~~Wl~~~-~sCPlCR~~l~~  184 (365)
                      +|+||+++|..++.. ..++ |||.||..||..|+..+ ..||+||+++..
T Consensus         2 eCpICl~~~~~~~~~~~~~~-CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSS-SSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecC-CCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            799999999877654 4455 99999999999999864 469999998753

>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=99.33  E-value=3e-13  Score=106.28  Aligned_cols=50  Identities=30%  Similarity=0.636  Sum_probs=41.7

Q ss_pred             CCCcCccccCcccCCC---------------ceeecCCCCCccchhhHHHHHhcCCCCCccccccc
Q 039247          133 EPFDCAVCLCEFSEKD---------------KLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLF  183 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~---------------~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~  183 (365)
                      ...+|+||++.+....               .+..++ |+|+||..||..||+.+.+||+||+++.
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            4457999999887532               245666 9999999999999999999999999874

>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=99.30  E-value=9.1e-13  Score=107.54  Aligned_cols=53  Identities=28%  Similarity=0.570  Sum_probs=40.6

Q ss_pred             CCCCcCccccCcccC---------------CCceeecCCCCCccchhhHHHHHhcC-----CCCCcccccccCC
Q 039247          132 KEPFDCAVCLCEFSE---------------KDKLRLLPMCSHAFHINCIDTWLLSN-----STCPLCRDTLFTP  185 (365)
Q Consensus       132 ~~~~~CaICl~~f~~---------------~~~v~~lp~C~H~FH~~CI~~Wl~~~-----~sCPlCR~~l~~~  185 (365)
                      ..+.+|+||++.|..               ...+.+++ |+|+||..||..||...     .+||+||+.+...
T Consensus        23 ~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          23 APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             cccccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            345689999999854               22345666 99999999999999753     4799999877443

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.26  E-value=2.8e-12  Score=98.88  Aligned_cols=48  Identities=25%  Similarity=0.712  Sum_probs=41.2

Q ss_pred             CcCccccCcccCCCceeecCCCCCccchhhHHHHHhc-CCCCCcccccccCCC
Q 039247          135 FDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTLFTPG  186 (365)
Q Consensus       135 ~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l~~~~  186 (365)
                      ..|+||++.+..   +++++ |||.||..||..||.. +++||+||..|....
T Consensus        24 ~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          24 QLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TBCTTTSSSBCC---EECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCccCCCcCCC---eEEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            469999999776   77888 9999999999999985 568999999986543

>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=99.24  E-value=2.5e-12  Score=95.54  Aligned_cols=52  Identities=23%  Similarity=0.540  Sum_probs=40.4

Q ss_pred             CCCcCccccCcccCC-C-ceeecCCCCCccchhhHHHHHhc-CCCCCcccccccCC
Q 039247          133 EPFDCAVCLCEFSEK-D-KLRLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTLFTP  185 (365)
Q Consensus       133 ~~~~CaICl~~f~~~-~-~v~~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l~~~  185 (365)
                      ++..|+||++.+..+ + .+.+++ |||.||..||..|+.. +.+||+||.++...
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~   56 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCcccc
Confidence            456899999986433 3 344556 9999999999999975 45799999988543

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.14  E-value=4.8e-12  Score=91.30  Aligned_cols=48  Identities=15%  Similarity=0.196  Sum_probs=41.8

Q ss_pred             cCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCCC
Q 039247          136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPG  186 (365)
Q Consensus       136 ~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~~  186 (365)
                      .|+||++.|.+   ..+++.|||+||.+||.+||+++.+||+||.++...+
T Consensus         2 ~C~Ic~~~~~~---Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~d   49 (56)
T d2baya1           2 LCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   49 (56)
T ss_dssp             CCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             CCccCCchHHh---cCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHh
Confidence            59999999876   5566669999999999999999999999999886543

>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=98.99  E-value=1.6e-10  Score=92.69  Aligned_cols=47  Identities=30%  Similarity=0.683  Sum_probs=39.6

Q ss_pred             CcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC---CCCCcccccccCC
Q 039247          135 FDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN---STCPLCRDTLFTP  185 (365)
Q Consensus       135 ~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~---~sCPlCR~~l~~~  185 (365)
                      ..|+||++.|.+   ...++ |||.||..||..|+..+   ..||+||.++...
T Consensus        22 l~CpIC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (103)
T d1jm7a_          22 LECPICLELIKE---PVSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (103)
T ss_dssp             TSCSSSCCCCSS---CCBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             cCCCccCchhCC---eEEcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCChh
Confidence            479999999876   55677 99999999999999765   3799999988543

>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=98.99  E-value=6.6e-11  Score=85.49  Aligned_cols=45  Identities=27%  Similarity=0.655  Sum_probs=38.2

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTP  185 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~  185 (365)
                      ...|+||++.|.+   .+++| |||.||..||..|   +.+||+||+++...
T Consensus         6 ~l~C~IC~~~~~~---p~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T d1bora_           6 FLRCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CSSCSSSCSSCBC---CSCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             CCCCcccCcccCC---CEEec-CCCHHhHHHHHcC---CCcCcCCCCcccCC
Confidence            3589999999876   66788 9999999999876   66899999998643

>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=98.99  E-value=1e-10  Score=91.60  Aligned_cols=47  Identities=30%  Similarity=0.592  Sum_probs=40.4

Q ss_pred             CcCccccCcccCCCceeecCCCCCccchhhHHHHHhc-CCCCCcccccccCC
Q 039247          135 FDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTLFTP  185 (365)
Q Consensus       135 ~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l~~~  185 (365)
                      ..|+||++.|.+   +.+++ |||.||..||..|++. +..||+||.++...
T Consensus        24 l~C~IC~~~~~~---pv~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~   71 (86)
T d1rmda2          24 ISCQICEHILAD---PVETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (86)
T ss_dssp             TBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cCCccCCcchhc---ceecC-CCChhhHHHHHHHHhhCCCcCcccCCCCChh
Confidence            479999999876   67788 9999999999999975 45799999987543

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.86  E-value=5.6e-10  Score=81.06  Aligned_cols=52  Identities=21%  Similarity=0.401  Sum_probs=37.4

Q ss_pred             CCCCcCccccCcccCCCcee-ecCCCCCccchhhHHHHHh--cCCCCCccccccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLR-LLPMCSHAFHINCIDTWLL--SNSTCPLCRDTLF  183 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~-~lp~C~H~FH~~CI~~Wl~--~~~sCPlCR~~l~  183 (365)
                      .+...|.||++++....... ....|+|.||..||..|+.  .+.+||+||+++.
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            45568999999876532111 1112469999999999996  3568999999864

>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=98.81  E-value=8e-10  Score=87.48  Aligned_cols=47  Identities=26%  Similarity=0.624  Sum_probs=37.7

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCC
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTP  185 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~  185 (365)
                      ...|+||++.|..  .+.+.+ |||.||..||..|+.  ..||.||.++...
T Consensus        22 ~l~C~IC~~~~~~--pv~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~   68 (97)
T d1jm7b_          22 LLRCSRCTNILRE--PVCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWIQ   68 (97)
T ss_dssp             TTSCSSSCSCCSS--CBCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSCS
T ss_pred             cCCCccCCchhhc--CceeCC-CCCchhHHHHHHHHh--ccccccCCcCchh
Confidence            4579999999976  344446 999999999999984  4599999887543

>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=98.78  E-value=2.5e-09  Score=81.27  Aligned_cols=51  Identities=24%  Similarity=0.561  Sum_probs=43.1

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC-CCCCcccccccCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN-STCPLCRDTLFTP  185 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~-~sCPlCR~~l~~~  185 (365)
                      ..+.+.|+||++.|.+   ..+++ |||.|+..||..|+..+ ..||.|+.++...
T Consensus         5 iP~~l~CpIc~~~m~d---PV~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~   56 (78)
T d1t1ha_           5 FPEYFRCPISLELMKD---PVIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             CSSSSSCTTTSCCCSS---EEEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             CCccCCCcCcCchhhC---ceEcc-CCCcchHHHHHHHHHHCCCCCCcccccCCcc
Confidence            3456889999999988   56788 99999999999999865 5699999987543

>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=98.77  E-value=2e-09  Score=82.26  Aligned_cols=49  Identities=14%  Similarity=0.167  Sum_probs=42.0

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhc-CCCCCcccccccC
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS-NSTCPLCRDTLFT  184 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~sCPlCR~~l~~  184 (365)
                      .+...|+||++.|.+   ..+++ |||.|+..||..|+.. +.+||+||.++..
T Consensus         5 P~~l~CpIc~~l~~d---Pv~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           5 PDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             CSTTBCTTTCSBCSS---EEECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CccccCcCcCchhhh---hcccC-CcCeecHHHHHHHHhcCCccCCCccccccc
Confidence            467789999999988   56788 9999999999999975 4579999998753

>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=98.70  E-value=6.6e-09  Score=82.70  Aligned_cols=52  Identities=21%  Similarity=0.209  Sum_probs=44.4

Q ss_pred             CCCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCCCCCcccccccCC
Q 039247          131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTP  185 (365)
Q Consensus       131 ~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~sCPlCR~~l~~~  185 (365)
                      ..+.+.|+||++.|.+   ..+++.|+|.|+..||..||..+.+||+||.++...
T Consensus        19 ~P~~f~CPI~~~lm~d---PV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~   70 (98)
T d1wgma_          19 ACDEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             CCTTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             CcHHhCCcCchhHHHH---HHhcccccchhhHHHHHHHHHhcCCcccccccccch
Confidence            3457899999999998   778884556899999999999999999999988544

>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=98.31  E-value=9.1e-08  Score=74.56  Aligned_cols=47  Identities=19%  Similarity=0.477  Sum_probs=37.6

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC--------CCCCcccc
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN--------STCPLCRD  180 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~--------~sCPlCR~  180 (365)
                      ...+|+||++++..++.+..++ |+|.||.+|+..|+..+        ..||.|.-
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            4568999999998777777666 99999999999999631        24998643

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.33  E-value=0.029  Score=37.74  Aligned_cols=44  Identities=34%  Similarity=0.726  Sum_probs=31.8

Q ss_pred             cCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC----CCCcccc
Q 039247          136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS----TCPLCRD  180 (365)
Q Consensus       136 ~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~----sCPlCR~  180 (365)
                      .|.||...-..+ .+..-..|...||..|++.-+...+    .||.|+.
T Consensus         2 ~C~vC~~~~~~~-~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDD-KLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCS-CCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCC-CEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            588997664443 4445556999999999998765433    4999975

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.94  E-value=0.084  Score=36.83  Aligned_cols=47  Identities=26%  Similarity=0.484  Sum_probs=32.5

Q ss_pred             CCCCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcC----CCCCcccccc
Q 039247          132 KEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN----STCPLCRDTL  182 (365)
Q Consensus       132 ~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~----~sCPlCR~~l  182 (365)
                      .+...|.||.+.   ++ +..-..|.-.||..|+...+...    -.||.|+...
T Consensus         7 ~~~~~C~~C~~~---g~-lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           7 HHMEFCRVCKDG---GE-LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SSCSSCTTTCCC---SS-CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCcCCCcCCCCC---Ce-EEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            344579999753   44 44445699999999998666532    2599997643

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=84.51  E-value=0.25  Score=34.36  Aligned_cols=48  Identities=19%  Similarity=0.472  Sum_probs=34.9

Q ss_pred             CCCcCccccCcccCCCceeecCCCCCccchhhHHHHHh-----cCCCCCcccc
Q 039247          133 EPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLL-----SNSTCPLCRD  180 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~-----~~~sCPlCR~  180 (365)
                      ....|.||.....+++..+.-..|+..||..|+..=..     .+-.||.|+.
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~   57 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcC
Confidence            45689999988777666555667999999999863211     2346999975

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.96  E-value=0.45  Score=35.50  Aligned_cols=37  Identities=19%  Similarity=0.476  Sum_probs=26.9

Q ss_pred             CCCCCCcCccccCcccCCCceeecCCCCCccchhhHHHH
Q 039247          130 GLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTW  168 (365)
Q Consensus       130 ~~~~~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~W  168 (365)
                      ....+..|.|| +.|..++.. -...|+-+||..|+.+-
T Consensus        11 ~v~~D~mC~vC-~v~t~~~l~-pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          11 PVVNDEMCDVC-EVWTAESLF-PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCSCCCTTT-CCCCSSCCS-SCSSSSSCCCHHHHHHH
T ss_pred             CCCcCcccccc-Cccccccee-cceeecchhhHHHHHHh
Confidence            34566789999 677665544 22348999999999885

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.70  E-value=0.29  Score=34.87  Aligned_cols=45  Identities=29%  Similarity=0.565  Sum_probs=31.3

Q ss_pred             CCcCccccCcccCCCceeecCCCCCccchhhHHHHHhcCC----CCCcccccc
Q 039247          134 PFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNS----TCPLCRDTL  182 (365)
Q Consensus       134 ~~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~----sCPlCR~~l  182 (365)
                      ...|.||...   ++ +..-..|...||..|+.+.+...+    .||.|+...
T Consensus         7 c~~C~~C~~~---~~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   55 (70)
T d1fp0a1           7 ATICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   55 (70)
T ss_dssp             SSCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             CCCCCCCCCc---CE-EEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcC
Confidence            3457777643   44 445556999999999998876443    499996543

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=82.56  E-value=0.16  Score=37.01  Aligned_cols=48  Identities=23%  Similarity=0.432  Sum_probs=30.9

Q ss_pred             CCCcCccccCcccCCCceeec-CCCCCccchhhHHH----HHh-----cCCCCCccccc
Q 039247          133 EPFDCAVCLCEFSEKDKLRLL-PMCSHAFHINCIDT----WLL-----SNSTCPLCRDT  181 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~l-p~C~H~FH~~CI~~----Wl~-----~~~sCPlCR~~  181 (365)
                      +...| ||......+..+..- ..|..-||..|+.-    ...     ..-.||.|+..
T Consensus        15 ~~~~C-~C~~~~~~~~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~   72 (78)
T d1wewa_          15 IKVRC-VCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLT   72 (78)
T ss_dssp             CCCCC-SSCCCCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHC
T ss_pred             CccEe-ECCCccCCCcEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCc
Confidence            34568 899877655544432 14999999999842    111     12469999764

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.47  E-value=0.6  Score=33.84  Aligned_cols=46  Identities=20%  Similarity=0.472  Sum_probs=32.0

Q ss_pred             CcCccccCcccCCCceeecCCCCCccchhhHHH--HH-h--cCCCCCccccc
Q 039247          135 FDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDT--WL-L--SNSTCPLCRDT  181 (365)
Q Consensus       135 ~~CaICl~~f~~~~~v~~lp~C~H~FH~~CI~~--Wl-~--~~~sCPlCR~~  181 (365)
                      ..| ||...+..++..+.-..|.--||..|+..  .. .  .+-.||.|+..
T Consensus        13 v~C-iC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~   63 (79)
T d1wepa_          13 VYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAV   63 (79)
T ss_dssp             CCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTT
T ss_pred             eEe-ECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCC
Confidence            446 99987766655555667999999999942  11 1  23579999764

>d1wesa_ g.50.1.2 (A:) PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD Inhibitor of growth protein 2, Ing2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.91  E-value=0.41  Score=34.40  Aligned_cols=44  Identities=30%  Similarity=0.605  Sum_probs=25.6

Q ss_pred             CCCcCccccCcccCCCceeec-CCCCC-ccchhhHHHHHhcC----CCCCcccc
Q 039247          133 EPFDCAVCLCEFSEKDKLRLL-PMCSH-AFHINCIDTWLLSN----STCPLCRD  180 (365)
Q Consensus       133 ~~~~CaICl~~f~~~~~v~~l-p~C~H-~FH~~CI~~Wl~~~----~sCPlCR~  180 (365)
                      +...| ||..... ++.+... ..|.+ -||..|+.  |...    -.||.|+.
T Consensus        15 e~~~C-iC~~~~~-~~~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~   64 (71)
T d1wesa_          15 EPTYC-LCNQVSY-GEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRG   64 (71)
T ss_dssp             SCCCS-TTCCCCC-SSEECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSS
T ss_pred             CCCEE-EeCCCCC-CCEEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCcc
Confidence            34456 8987532 2333331 23544 69999985  3332    35999975