Citrus Sinensis ID: 044813

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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--
Protein Sequence
LGGDGNGGGGSSVPVKFPFQIINNLESLNPRCRYPRFELLCSRNKTILMLPRSGLFAVRNIDYNLQTLDINDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSSNHVPEHHRTVACLSTENYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGLEDDIRLSWSDPHCAPCEYRGEVCKFTNDDTSLVVGCSNSGKESVKYDAIIIGIGFGTPGALFIIALGCYLCSKVWTHDPQRHRRRQPTTELSTSTVVASLDKPTIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSPFV
Secondary Structure (PSIPRED)
ccccccccccccccEEEcEEEccccccccccccccccEEEEccccEEEEcccccEEEEEEEEccccEEEEEccccccHHHHccccccccccccccccccEEEEEccccccccccccccccccccccccccEEEEEEcccccccccccccccccccEEccEEEccccccccccccccEEEEcccccccccccccccEEEcccccccccccccccccccccccEEEccccccccccEEEEEEEEEcccccccccccccccccccccccccccccccHHccccccEEEEEccccccccccccccEEccccccccEEccccccccccccccHHHHHcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccEEEEEcEEEcccccccccccccccEEEEEccccEEEEcccccEEEEEEEEcccEEEEEEcccccHHHHHHHHccccccccccEEEEEEEEEEcccccccccccccccccccccccccEEEEEEccHHHHHccccccccccccHEEEEEEEccccccccccccccEEEEEccccccHHHHccccccccccccEEEEcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHccEEEEEcccccccccccEEEEEEccccccccEEEcccccccccHHHHHHHHHHcccccccccccccccccc
Coil and Loop (DISEMBL)
lggdgnggggssvpvkfpFQIINNleslnprcryprfelLCSRnktilmlprsglfavrnidynlqtldindplnclpkrfldnfsledspfeqkiygnftflncsssssssnhvpehhrtvaclstenytvlavpsrfynetklpmlpvpssceviradvmvpvsggywngleddirlswsdphcapceyrgevckftnddtslvvgcsnsgkesvkydAIIIGIGFGTPGALFIIALGCYLCskvwthdpqrhrrrqpttelstSTVVasldkptiesypktivgvsgrqpkpndntcpiclsrykpkqtlrtipkcnhyFHAYCIDKwlrmnascpvcrkrlrfkspfv
Flexible Loop (DISEMBL)
lggdgnggggssvpVKFPFQIINNLESLNPRCRYPRFELLCSRNKTILMLPRSGLFAVRNIDYNLQTLDINDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSSNHVPEHHRTVACLSTENYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGLEDDIRLSWSDPHCAPCEYRGEVCKFTNDDTSLVVGCSNSGKESVKYDAIIIGIGFGTPGALFIIALGCYLCSKVWTHDPqrhrrrqpttelststvvasldkptiesypktivgvsgrqpkpndntcpicLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCrkrlrfkspfv
Low Complexity Region (SEG)
LggdgnggggSSVPVKFPFQIINNLESLNPRCRYPRFELLCSRNKTILMLPRSGLFAVRNIDYNLQTLDINDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCsssssssNHVPEHHRTVACLSTENYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGLEDDIRLSWSDPHCAPCEYRGEVCKFTNDDTSLVVGCSNSGKESVKYDAIIIGIGFGTPGALFIIALGCYLCSKVWTHDPQRHRRRQPTTELSTSTVVASLDKPTIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSPFV
Disordered region (IsUnstruct)
*************PVKFPFQIINNLESLNPRCRYPRFELLCSRNKTILMLPRSGLFAVRNIDYNLQTLDINDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNC*************HRTVACLSTENYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGLEDDIRLSWSDPHCAPCEYRGEVCKFTNDDTSLVVGCSNSGKESVKYDAIIIGIGFGTPGALFIIALGCYLCSKVWTH**********************************IV************TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR******
Disordered Region (DISOPRED)
***********SVPVKFPFQIINNLESLNPRCRYPRFELLCSRNKTILMLPRSGLFAVRNIDYNLQTLDINDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSSNHVPEHHRTVACLSTENYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGLEDDIRLSWSDPHCAPCEYRGEVCKF**********CSNSGKESVKYDAIIIGIGFGTPGALFIIALGCYLCSKVWTHDPQRHRRRQPTTELS******SLDKPTIESYPKTIVGVSG****PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR******
Disordered Region (DISEMBL)
**********SSVPVKFPFQIINNLESLNPRCRYPRFELLCSRNKTILMLPRSGLFAVRNIDYNLQTLDINDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNC*************HRTVACLSTENYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGLEDDIRLSWSDPHCAPCEYRGEVCKFTNDDTSLVVGCSNSGKESVKYDAIIIGIGFGTPGALFIIALGCYLCSKVWTH******************VVASLDKPTIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSPFV
Disordered Region (DISPRO)
*****NGGGGSSVPVKFPFQIINNLESLNPRCRYPRFELLCSRNKTILMLPRSGLFAVRNIDYNLQTLDINDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSSNHVPEHHRTVACLSTENYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGLEDDIRLSWSDPHCAPCEYRGEVCKFTNDDTSLVVGCSNSGKESVKYDAIIIGIGFGTPGALFIIALGCYLCSKVWTHDPQR****************ASLDKPTIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
LGGDGNGGGGSSVPVKFPFQIINNLESLNPRCRYPRFELLCSRNKTILMLPRSGLFAVRNIDYNLQTLDINDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSSNHVPEHHRTVACLSTENYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGLEDDIRLSWSDPHCAPCEYRGEVCKFTNDDTSLVVGCSNSGKESVKYDAIIIGIGFGTPGALFIIALGCYLCSKVWTHDPQRHRRRQPTTELSTSTVVASLDKPTIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSPFV
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	352	2.2.26 [Sep-21-2011]
P0CH02	362	Putative RING-H2 finger p	no	no	0.857	0.834	0.339	6e-42
P0CH01	372	Putative RING-H2 finger p	no	no	0.923	0.873	0.329	6e-40
Q9SKK8	377	RING-H2 finger protein AT	no	no	0.880	0.822	0.342	3e-37
P0CH03	366	Putative RING-H2 finger p	no	no	0.846	0.814	0.314	2e-33
Q9C7E9	299	RING-H2 finger protein AT	no	no	0.789	0.929	0.316	5e-31
Q9FL42	159	Putative RING-H2 finger p	no	no	0.323	0.716	0.374	2e-19
O82353	214	RING-H2 finger protein AT	no	no	0.227	0.373	0.453	2e-15
Q9M313	212	RING-H2 finger protein AT	no	no	0.221	0.367	0.425	9e-15
Q8RX29	217	RING-H2 finger protein AT	no	no	0.193	0.313	0.528	6e-13
Q8LGA5	368	E3 ubiquitin-protein liga	no	no	0.247	0.236	0.375	2e-12

>sp|P0CH02|AT21B_ARATH Putative RING-H2 finger protein ATL21B OS=Arabidopsis thaliana GN=ATL21B PE=3 SV=1

 Score =  171 bits (434), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 119/351 (33%), Positives = 167/351 (47%), Gaps = 49/351 (13%)

Query: 9   GGSSVPVKFPFQIINNLESLNPRCRYPRFELLCSR-NKTILMLPRSGLFAVRNIDYNLQT 67
           G   VP++FPF            C +P F LLC+  N T+L LP SG F V+ IDY  Q 
Sbjct: 40  GPLEVPIRFPF------------CDHPLFNLLCTNLNNTVLQLPMSGTFFVQYIDYRKQQ 87

Query: 68  LDINDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSSNHVPEHHRTVACLST 127
           + INDP NCL KR L  F++  SPF  +    +TFL C +       +P  + ++ CLS 
Sbjct: 88  IYINDPENCLAKRLL-TFNISGSPFSPRFDTLYTFLTCPNELV----LPSWYPSIPCLSN 142

Query: 128 ENYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNG-----LEDDIRLSWS 182
              +  A  +    E+ LP      SC++++  + VP    +        L   + L W+
Sbjct: 143 STSSFFATSNFALAESMLP------SCQIVK-RIYVPADSPFAETRFSSYLNQSLLLEWN 195

Query: 183 DPHCAPCEYRGEVCKFTNDDTSLV--VGCSNSGKESVKYDAIIIGIGFGTPGALFIIALG 240
            P+C  CE     C F N  +  V   G   SG  S    A++I +       LF+    
Sbjct: 196 SPNCRGCEIDYLRCGFKNKASPEVKCFGAKKSGHLSRAVVAVLICLSIIGAVILFVT--- 252

Query: 241 CYLCSKVWTHDPQRHRRRQPTTELSTSTVVAS---------LDKPTIESYPKTIVGVSGR 291
              C  +  H+  R  RR      + +TV+           LD+ TIE Y    +G S R
Sbjct: 253 ---CIAIRIHNTPR--RRHWAVPAAAATVMQQPREVMATRGLDQSTIEKYKTMELGESRR 307

Query: 292 QPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
            P  N   CPICLS Y  K+T+R IP+C+H FHA CID WL+++ SCP+CR
Sbjct: 308 PPGTNGIVCPICLSEYVSKETVRFIPECDHCFHAKCIDVWLKIHGSCPLCR 358

Arabidopsis thaliana (taxid: 3702)

>sp|P0CH01|AT21A_ARATH Putative RING-H2 finger protein ATL21A OS=Arabidopsis thaliana GN=ATL21A PE=3 SV=1

 Score =  165 bits (417), Expect = 6e-40,   Method: Compositional matrix adjust.
 Identities = 112/340 (32%), Positives = 167/340 (49%), Gaps = 15/340 (4%)

Query: 9   GGSSVPVKFPFQIINNLESLNPRCRYPRFELLCSRN-KTILMLPRSGLFAVRNIDYNLQT 67
           G   V V+FPF +++    L   C +  F L C+ + KT L LP SG F VR IDY  Q 
Sbjct: 32  GRDDVHVRFPFWLLSKQPEL---CGHAGFNLQCTASPKTALKLPNSGTFLVREIDYLSQQ 88

Query: 68  LDINDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSSNHVPEHHRTVACLST 127
           + + DP NCL ++ L  F +  SPF      ++TFL+C +  + S+       ++ CL  
Sbjct: 89  IRLYDPENCLARKLL-TFDISRSPFSALYLVSYTFLSCPNEVAKSSRF----DSIPCLGN 143

Query: 128 ENYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGLED-DIRLSWSDPHC 186
              + LA  S    ++ LP   +  + +V  +  ++     +   + D D+ L W  P C
Sbjct: 144 STTSFLATTSLDLAKSMLPSCQIVKTLDVPVSRRVIAKKSRFSTDVNDKDLWLKWDSPSC 203

Query: 187 APCEYRGEVCKFTNDDTSLVVGC---SNSGKESVKYDAIIIGIGFGTPGALFIIALGCYL 243
           + CE     C F   +TSL V C    NSG  +      II +    P  +F   +   +
Sbjct: 204 SDCERDFLRCGF-RSNTSLQVKCFPFENSGYNTEPQVLKIILLSIIGPLTIFATCIAVGV 262

Query: 244 CSKVWTHDPQRHRRRQPTTELSTSTVVASLDKPTIESYPKTIVGVSGRQPKPNDN-TCPI 302
           C+        +        + +   V   LD+  IESY KT +G S R P  ND+  CPI
Sbjct: 263 CTSERFASLIQRNVAIAALQPNEVIVTTGLDESIIESYKKTELGESRRLPGNNDDIVCPI 322

Query: 303 CLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
           CLS Y  K+T+R IP+C+H FH+ CID WL+++ SCP+CR
Sbjct: 323 CLSEYASKETVRCIPECDHCFHSECIDVWLKIHGSCPLCR 362

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SKK8|ATL22_ARATH RING-H2 finger protein ATL22 OS=Arabidopsis thaliana GN=ATL22 PE=2 SV=2

 Score =  155 bits (393), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 121/353 (34%), Positives = 168/353 (47%), Gaps = 43/353 (12%)

Query: 12  SVPVKFPFQIINNLESLNPR-CRYPRFELLCSRNK-TILMLPRSGLFAVRNIDYNLQTLD 69
           SV  +FPF +     S  P  C Y  F L+C  +  T L LP+S  F V+ IDY  Q + 
Sbjct: 38  SVVARFPFSLF----SYQPESCGYSGFNLICKDDANTTLKLPKSEPFLVKEIDYETQRIR 93

Query: 70  INDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSSNHVPEHHRTVACLSTEN 129
           +NDP NCL +R L NF    SPF      N+TFL C   +    ++    R + CL    
Sbjct: 94  LNDPENCLARRLL-NFDPSGSPFSFLRSRNYTFLICPKEA----NITASFRAIDCLGNTT 148

Query: 130 YTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVS-----GGYWNGLED-DIRLSWSD 183
            +   V  +F N     +  +PSSC + +  + +P S       Y +G    D+ L W  
Sbjct: 149 SSFFVV--QFEN-----LGSMPSSCHIFKI-LPLPFSWFVAYTTYPDGQNSRDMWLKWDS 200

Query: 184 PHCAPCEYR-GEVCKFTNDDTSLVV-------GCSNSGKESVKYDAIIIGIGFGTPGALF 235
           P C  CE R    C F N+ +  V        G  N+G + +K    I+ +    P    
Sbjct: 201 PDCRDCERRTNSRCGFKNNTSHQVECFSSVNPGLHNTGLQVLK----IMCLSLVGPLTAL 256

Query: 236 IIALGCYLCS--KVWTHDPQRHRRR---QPTTELSTSTVVASLDKPTIESYPKTIVGVSG 290
              +G  +CS  +V +   Q    R     T++ S       LD+ TIESY K  +G S 
Sbjct: 257 TFCVGLVMCSSERVSSQIQQAVVARLSGSVTSQPSNEVARIGLDESTIESYKKVELGESR 316

Query: 291 RQPK-PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
           R P   ND  CPICLS Y  K+T+R +P+C H FH  CID WL++++SCPVCR
Sbjct: 317 RLPTGSNDVVCPICLSEYATKETVRCLPECEHCFHTECIDAWLKLHSSCPVCR 369

Arabidopsis thaliana (taxid: 3702)

>sp|P0CH03|AT21C_ARATH Putative RING-H2 finger protein ATL21C OS=Arabidopsis thaliana GN=ATL21C PE=3 SV=1

 Score =  143 bits (361), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 113/359 (31%), Positives = 169/359 (47%), Gaps = 61/359 (16%)

Query: 9   GGSSVPVKFPFQIINNLESLNPRCRYPRFELLCSR-NKTILMLPRSGLFAVRNIDYNLQT 67
           G   VP++FPF            C + RF L C+  NKT+L LP SG F VR+IDY  Q 
Sbjct: 40  GPLEVPIRFPF------------CNHARFNLHCTDLNKTVLELPMSGTFLVRDIDYRRQK 87

Query: 68  LDINDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSSNHVPEHHRTVACLST 127
           + INDP NCL KR L  F++  SPF       +TFL+C +       +P  + ++ CLS 
Sbjct: 88  IYINDP-NCLAKRLL-TFNISGSPFSPHFDILYTFLSCPNEVV----LPSWYPSIPCLSN 141

Query: 128 ENYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGL------EDDIRLSW 181
              +  A  +    ++ LP      SC++++  + VP +  +             + L W
Sbjct: 142 STSSFFATSNYSLAQSMLP------SCQIVK-RLHVPATSPFGETRFSSDLNNQSLLLEW 194

Query: 182 SDPHC-APCEYRGEVCKFTNDDTSLVVGCSNSGKESVKYDA--IIIGIGFGTPGALFIIA 238
           + P C A C   G   K      S +  CS S      YD+  + I     +   + +I+
Sbjct: 195 ALPDCRAKC--LGATKKTGTIYNSNIFSCSFS----FLYDSRELFINGNLSSGVLVLVIS 248

Query: 239 LGCYL------CSKVWTHDPQRHRRRQPTTELSTSTVVAS---------LDKPTIESYPK 283
           L          C  +  +D +R       + ++ +TV+           LD+ TIE++ K
Sbjct: 249 LSAVTVFVFPTCIAIRLYDSERF-----DSAIAAATVMQQPREVMARRGLDQSTIETFKK 303

Query: 284 TIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
             +G S R    N   CPICLS Y  K+T+R IP+C+H FH  CID WL+++ SCP+CR
Sbjct: 304 MELGESRRLSGTNGIVCPICLSEYASKETVRFIPECDHCFHVECIDVWLKIHGSCPLCR 362

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C7E9|ATL20_ARATH RING-H2 finger protein ATL20 OS=Arabidopsis thaliana GN=ATL20 PE=2 SV=2

 Score =  135 bits (340), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 97/306 (31%), Positives = 146/306 (47%), Gaps = 28/306 (9%)

Query: 53  SGLFAVRNIDYNLQTLDINDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSS 112
           SG F V  I+Y  Q + I+DP NC+ KR L  F+   SPF       +TFL C +     
Sbjct: 2   SGTFLVDEINYQKQQISISDPENCMVKRLL-TFNTSGSPFSYGFSFYYTFLTCPNEVV-- 58

Query: 113 NHVPEHH-RTVACLSTENYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWN 171
             +P     ++ CLS    +  A  +  +++       +P SC++++  + VPV   Y +
Sbjct: 59  --IPVWSLMSIPCLSNSTSSFFATSNLTFSKL------LPPSCQIVKG-LYVPVDVIYKD 109

Query: 172 GLEDD-----------IRLSWSDPHCAPCEYRGEVCKFTNDDTSLVVGCSNSGKES-VKY 219
            + ++           + L WS P+C  CE     C F N  +  V   ++   E+  + 
Sbjct: 110 VITEEKGFSTVPWLGNVLLEWSSPNCRGCEKESLRCGFKNKASLEVKYLADPPDETKSRL 169

Query: 220 DAIIIGIGF-GTPGALFIIALGCYLCSKVWTHDPQRHR--RRQPTTELSTSTVVASLDKP 276
             +II +   G   A  I A+  Y   +      Q      R  T +     V   LD+ 
Sbjct: 170 RPLIITLCIIGGITATCIAAIRIYNSERFVNQRRQNAAITARNTTQQPRGVVVTTGLDQS 229

Query: 277 TIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA 336
           TIESY K  +G S R P  N   CPICLS Y  K+T+R +P+C+H FH  CID+WL++++
Sbjct: 230 TIESYKKVELGESRRLPGTNGIICPICLSEYASKETVRCMPECDHCFHVQCIDEWLKIHS 289

Query: 337 SCPVCR 342
           SCPVCR
Sbjct: 290 SCPVCR 295

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FL42|ATL69_ARATH Putative RING-H2 finger protein ATL69 OS=Arabidopsis thaliana GN=ATL69 PE=3 SV=1

 Score = 96.7 bits (239), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 49/131 (37%), Positives = 77/131 (58%), Gaps = 17/131 (12%)

Query: 224 IGIGFGTPGALFI------IALGCYLCSKVWTHDPQRHRRRQPTTEL------STSTVVA 271
           +G+G+G   A+ I      I L  Y+C +      +   R + T+++        + V  
Sbjct: 11  VGLGYGIAIAVSILVLISFIMLASYICIRS-----KSTGRDEATSDVVLDLPSPAAEVKL 65

Query: 272 SLDKPTIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKW 331
            LD+P IESYP+ ++G S R P+PN+  C ICL  Y+ ++ +R IP+CNH FH  C+D+W
Sbjct: 66  GLDRPVIESYPRIVLGDSRRLPRPNNGPCSICLCDYEAREPVRCIPECNHCFHTDCVDEW 125

Query: 332 LRMNASCPVCR 342
           LR +A+CP+CR
Sbjct: 126 LRTSATCPLCR 136

Arabidopsis thaliana (taxid: 3702)

>sp|O82353|ATL67_ARATH RING-H2 finger protein ATL67 OS=Arabidopsis thaliana GN=ATL67 PE=2 SV=1

 Score = 83.6 bits (205), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 39/86 (45%), Positives = 47/86 (54%), Gaps = 6/86 (6%)

Query: 263 ELSTSTVVASLDKPTIESYPK------TIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTI 316
           +L    VV  LD+  I SYPK      T    S       D TC ICL  YK  + LR +
Sbjct: 95  DLEAGDVVVGLDQAVINSYPKFHFSKDTSAASSDGFGGGGDTTCSICLCEYKEAEMLRMM 154

Query: 317 PKCNHYFHAYCIDKWLRMNASCPVCR 342
           P+C HYFH  C+D WL++N SCPVCR
Sbjct: 155 PECKHYFHLCCLDAWLKLNGSCPVCR 180

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M313|ATL68_ARATH RING-H2 finger protein ATL68 OS=Arabidopsis thaliana GN=ATL68 PE=2 SV=1

 Score = 81.6 bits (200), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 37/87 (42%), Positives = 48/87 (55%), Gaps = 9/87 (10%)

Query: 265 STSTVVASLDKPTIESYPK---------TIVGVSGRQPKPNDNTCPICLSRYKPKQTLRT 315
           S + VV  LD   I SYPK          + G      +  + TC ICL  Y  ++ LR 
Sbjct: 92  SGNVVVGGLDHSVINSYPKFHFTKDITAVVNGDGFHDGEGRETTCSICLCEYMEEEMLRM 151

Query: 316 IPKCNHYFHAYCIDKWLRMNASCPVCR 342
           +P+C HYFH YC+D WL++N SCPVCR
Sbjct: 152 MPECKHYFHVYCLDAWLKLNGSCPVCR 178

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RX29|ATL70_ARATH RING-H2 finger protein ATL70 OS=Arabidopsis thaliana GN=ATL70 PE=2 SV=1

 Score = 75.5 bits (184), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 37/70 (52%), Positives = 45/70 (64%), Gaps = 2/70 (2%)

Query: 273 LDKPTIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWL 332
           LD+ TI+SYPK I+    + P    + C ICL  YK K  LR +P CNH FH  CID WL
Sbjct: 122 LDEDTIQSYPK-ILYSEAKGPT-TASCCAICLGDYKGKHLLRQLPDCNHLFHLKCIDTWL 179

Query: 333 RMNASCPVCR 342
           R+N +CPVCR
Sbjct: 180 RLNPTCPVCR 189

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LGA5|ATL31_ARATH E3 ubiquitin-protein ligase ATL31 OS=Arabidopsis thaliana GN=ATL31 PE=1 SV=2

 Score = 73.6 bits (179), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 33/88 (37%), Positives = 53/88 (60%), Gaps = 1/88 (1%)

Query: 264 LSTSTVVASLDKPTIESYPKTIVG-VSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHY 322
           ++ +TV   LD  TIE++P  +   V  ++       C ICL+ ++  +TLR +PKC+H 
Sbjct: 87  VTNATVARGLDAETIETFPTFVYSEVKTQKIGKGALECAICLNEFEDDETLRLLPKCDHV 146

Query: 323 FHAYCIDKWLRMNASCPVCRKRLRFKSP 350
           FH +CI  WL+ + +CPVCR  L  ++P
Sbjct: 147 FHPHCIGAWLQGHVTCPVCRTNLAEQTP 174

E3 ubiquitin-protein ligase that is required for the plant C/N response during seedling growth transition. May be involved in the early steps of the plant defense signaling pathway.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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	352
224075100	385	predicted protein [Populus trichocarpa]	0.869	0.794	0.475	2e-71
255537789	392	ring finger protein, putative [Ricinus c	0.860	0.772	0.468	1e-69
224053779	378	predicted protein [Populus trichocarpa]	0.889	0.828	0.451	1e-63
449464090	393	PREDICTED: putative RING-H2 finger prote	0.863	0.773	0.445	3e-60
255544994	377	ring finger protein, putative [Ricinus c	0.892	0.832	0.432	6e-59
224132906	384	predicted protein [Populus trichocarpa]	0.889	0.815	0.409	3e-56
356511447	582	PREDICTED: putative RING-H2 finger prote	0.880	0.532	0.417	1e-55
359490864	1054	PREDICTED: uncharacterized protein LOC10	0.866	0.289	0.410	2e-54
302144043	381	unnamed protein product [Vitis vinifera]	0.869	0.803	0.402	1e-53
334188355	382	RING/U-box domain-containing protein-lik	0.869	0.801	0.390	1e-52

>gi|224075100|ref|XP_002304557.1| predicted protein [Populus trichocarpa] gi|222841989|gb|EEE79536.1| predicted protein [Populus trichocarpa]

 Score =  275 bits (703), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 163/343 (47%), Positives = 211/343 (61%), Gaps = 37/343 (10%)

Query: 15  VKFPFQIINNLESLNPRCRYPRFELLCS--RNKTILMLPRSGLFAVRNIDYNLQTLDIND 72
           V+FPF   NN      RCRYP F L C+  +N+ IL LP +G F V+NI+Y  QT+ I D
Sbjct: 38  VRFPFGFDNN------RCRYPGFNLSCNDLQNQIILNLPNTGNFTVQNINYRNQTVTITD 91

Query: 73  PLNCLPKRFLDN-FSLEDSPFEQKIYGN-FTFLNCSSSSSSSNHVPEHHRTVACLSTENY 130
           P NCLPK+F+D+ F L  SPF  + Y + FTFLNCSS+SS++       R + CLS EN+
Sbjct: 92  PQNCLPKKFMDSSFDLSGSPFIPEHYNHSFTFLNCSSNSSTT---VSGLRRIDCLSNENF 148

Query: 131 TVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGLEDDIRLSWSDPHCAPCE 190
           TV+A+     N   LP +P P+SC  ++  V VPV    W+  + + +L W++ +C  CE
Sbjct: 149 TVVAM---LINYESLPYMPAPASCTELKKRVFVPVLWSRWS--DSEAKLKWNESYCRRCE 203

Query: 191 YRGEVCKFTNDDTSLVV---GCSNSGK--ESVKYDAIIIGIGFGTPGALFIIALGCYLCS 245
             G  C F  D T L +   G  ++G    S KY  ++   G G PG L I  +G YL  
Sbjct: 204 KDGGTCGFKGD-TGLTIESKGRRSNGPLPRSAKYGIVL---GAGIPGLLCIFGIGSYLFG 259

Query: 246 KVWTHDPQRHRRRQPTTELST------STVVASLDKPTIESYPKTIVGVSGRQPKPNDNT 299
           ++     +     QPTTE ST      S V+  LD PTIESYPKT +G SGR PKPNDNT
Sbjct: 260 RL----KEYSGGNQPTTEFSTAIAPQPSVVITGLDAPTIESYPKTQLGDSGRLPKPNDNT 315

Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
           CPICLS Y+PK TLRTIP C+HYFHA CID+WL+MNA+CP+CR
Sbjct: 316 CPICLSEYQPKDTLRTIPDCSHYFHANCIDEWLKMNATCPLCR 358

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255537789|ref|XP_002509961.1| ring finger protein, putative [Ricinus communis] gi|223549860|gb|EEF51348.1| ring finger protein, putative [Ricinus communis]

 Score =  269 bits (688), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 162/346 (46%), Positives = 204/346 (58%), Gaps = 43/346 (12%)

Query: 15  VKFPFQIINNLESLNPRCRYPRFELLCSR-NKTILMLPRSGLFAVRNIDYNLQTLDINDP 73
           ++FPF +         RC YP F L CS  ++TIL LPR+G F V+ IDY+ Q + I DP
Sbjct: 33  IRFPFGLTGG------RCSYPGFNLSCSAGDQTILALPRAGNFIVQFIDYSAQQIYIRDP 86

Query: 74  LNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSSNHVPEHHRTVACLSTENYTVL 133
            NC+ +RFL NFSL  SPF  +IY +FTFLNCSS+ S+S  +P   R V CLS+EN TV+
Sbjct: 87  GNCIAERFLKNFSLSGSPFIAEIYRSFTFLNCSSNFSAS-FLPPSSRKVKCLSSENSTVV 145

Query: 134 AVPSRF---YNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGLEDDIRLSWSDPHCAPCE 190
           A+ + +   Y  +  P      SC V+   V VPVS   W   E D  L+W+ P C  CE
Sbjct: 146 ALLNSYDQGYEPSSFP------SCTVMAKRVEVPVSWYRWA--EGDASLTWTKPDCRSCE 197

Query: 191 YRGEVCKFTNDDTSLVVGCSNSGK------ESVKYDAIIIGIGFGTPGALFIIALGCYLC 244
            RG  C F   DT L +GC +  +       S KY  II       PG L II LGCY+ 
Sbjct: 198 ERGGTCGF-KGDTGLDIGCFDLPRSKRALPRSAKYGIIIGIG---IPGLLCIIGLGCYVA 253

Query: 245 SKVWTHDPQRHRR--------RQPTTELSTSTVVASLDKPTIESYPKTIVGVSGRQPKPN 296
            +V T+    H          RQP      S  V  +D  T+E YPKT++G S R PKPN
Sbjct: 254 GRVGTYRRSLHSSTALNATFPRQP------SMAVTGIDGATLELYPKTLLGESRRLPKPN 307

Query: 297 DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
           DNTCPICL  Y+PK+TLRTIP+CNHYFHA CID+WL+MNA+CP+CR
Sbjct: 308 DNTCPICLCEYQPKETLRTIPECNHYFHADCIDEWLKMNATCPLCR 353

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224053779|ref|XP_002297975.1| predicted protein [Populus trichocarpa] gi|222845233|gb|EEE82780.1| predicted protein [Populus trichocarpa]

 Score =  249 bits (636), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 155/343 (45%), Positives = 198/343 (57%), Gaps = 30/343 (8%)

Query: 11  SSVPVKFPFQIINNLESLNPRCRYPRFELLCSRNKTI--LMLPRSGLFAVRNIDYNLQTL 68
           +S+ V+FPF   NN      RC YP F+L C     I  L LP  G F VRNI+Y  QT+
Sbjct: 30  NSLEVRFPFGFDNN------RCSYPGFKLSCDSKTQIITLDLPNIGNFTVRNINYGSQTV 83

Query: 69  DINDPLNCLPKRFLDN-FSLEDSPFEQKIYGN--FTFLNCSSSSSSSNHVPEHHRTVACL 125
            I DP NCL K+F+D+ F L  SPF    Y N  FTFLNCS++S++   V    R V CL
Sbjct: 84  TITDPQNCLAKKFIDSSFDLSGSPFNIPEYYNHFFTFLNCSTNSTT---VISGIRRVNCL 140

Query: 126 STENYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGLEDDIRLSWSDPH 185
           S EN+TV+ +P+  Y      M P    C  ++  V VP    ++   + + RL W++P+
Sbjct: 141 SNENFTVVTLPTNIYESFPDFMPPF---CTELKKRVAVP---PWYRWSDSETRLIWNEPY 194

Query: 186 CAPCEYRGEVCKFTNDDTSLVVGCSNSGKESVKYDAIIIGIGFGTPGALFIIALGCYLCS 245
           C PCE  G  C+F   +T L + C+   K  +   A    I       L  I +G  + S
Sbjct: 195 CLPCEVDGGTCQF-KGNTGLTIDCNGRSKGPLPRSAKYGIIIGAGIPGLLCI-IG--IVS 250

Query: 246 KVWTHDPQRHRRRQPTTELSTST------VVASLDKPTIESYPKTIVGVSGRQPKPNDNT 299
            V+     R    +PT E+STS       VV  LD PTIESYPKT +G SGR PKPNDNT
Sbjct: 251 YVFGRLKARSSGNEPTMEMSTSVAPQPCVVVTGLDGPTIESYPKTQLGDSGRLPKPNDNT 310

Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
           CPICLS Y+PK TLRTIP CNHYFHA C+D+WL+MNA+CP+CR
Sbjct: 311 CPICLSEYQPKDTLRTIPNCNHYFHANCVDEWLKMNATCPLCR 353

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449464090|ref|XP_004149762.1| PREDICTED: putative RING-H2 finger protein ATL21A-like [Cucumis sativus] gi|449505086|ref|XP_004162372.1| PREDICTED: putative RING-H2 finger protein ATL21A-like [Cucumis sativus]

 Score =  238 bits (608), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 154/346 (44%), Positives = 203/346 (58%), Gaps = 42/346 (12%)

Query: 15  VKFPFQIINNLESLNPRCRY-PRFELLCS-RNKTILMLPRSGLFAVRNIDYNLQTLDIND 72
           V+FPF++ N+ +S   RC Y P F+L C+ RN+TIL LP +G   V  +DY  Q L IND
Sbjct: 38  VRFPFRLKNSQDS---RCGYQPDFDLFCNKRNQTILSLPNAGDVKVEIVDYKFQRLWIND 94

Query: 73  PLNCLPKRFL-DNFSLEDSPFEQKIYG----NFTFLNCSSSSSSSNHVP-EHHRTVACLS 126
           P  C PKR L D+FSLEDSPF   IY      FT LNCS    +   +P +  R + C+S
Sbjct: 95  PDQCFPKRILMDSFSLEDSPF---IYNYRLDKFTVLNCSYYVET---LPFDRVRRIKCMS 148

Query: 127 TENYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGLEDDIRLSWSDPHC 186
             NY+V+ VP R   + K     +P+ C+VI    + P++G     LE+ + + WS+P C
Sbjct: 149 GANYSVINVPDR---DLKAVTNLLPTPCKVITTKKL-PLTG---MELEEGMVVRWSEPEC 201

Query: 187 APCEYRGEVCKFTNDDTSLVVGCSNSGKESV----KYDAIIIGIGFGTPGALFIIALGCY 242
             CE RG  C F ++ +  VV C N  K  +    KY  II   G G PG LF+I L  Y
Sbjct: 202 GNCELRGGDCGFRSNSSDEVV-CFNLPKSGIPRGAKYGLII---GVGIPGLLFLIGLVFY 257

Query: 243 LCSKVWTHDPQRHRRRQPTTELSTS------TVVASLDKPTIESYPKTIVGVSGRQPKPN 296
           +C K         R  +PT+ LS S      +  A LD PTIES+PKT +G S R PK N
Sbjct: 258 ICGKCKAF----ARPNRPTSNLSLSLGHEPTSTKAGLDGPTIESFPKTTLGQSRRLPKSN 313

Query: 297 DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
           D TC ICLS Y+ K+T+RTIP C H+FHA C+D+WL++NA+CPVCR
Sbjct: 314 DTTCAICLSEYQSKETIRTIPDCGHFFHANCVDEWLKLNATCPVCR 359

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255544994|ref|XP_002513558.1| ring finger protein, putative [Ricinus communis] gi|223547466|gb|EEF48961.1| ring finger protein, putative [Ricinus communis]

 Score =  234 bits (596), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 148/342 (43%), Positives = 197/342 (57%), Gaps = 28/342 (8%)

Query: 15  VKFPFQIINNLESLNPRCRYPRFELLC--SRNKTILMLPRSGLFAVRNIDYNLQTLDIND 72
           ++FPF+I N        C YP F++ C  + N T+L LP SG F V+ IDY  Q L IND
Sbjct: 38  IRFPFRIENRQFK---SCGYPGFDVSCDTNTNHTLLELPYSGTFTVQAIDYATQELWIND 94

Query: 73  PLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSSNHVPEHHRTVACLSTENYTV 132
           P NCLPKR L + +L +SPF    Y NFTF NCS +    N+       +ACLS+   TV
Sbjct: 95  PNNCLPKRIL-SLNLSNSPFVGLFYQNFTFFNCSLT----NYTNFQLNPIACLSSSTNTV 149

Query: 133 LAVPS-RFYNETKLPMLPVPSSCEVIRADVMVPVSGGYW-----NGLEDDIRLSWSDPHC 186
            A  S R  N      L   SSCE   A + VPV   ++     + L DD+RL+W+ P C
Sbjct: 150 FATSSLRVINH-----LSGLSSCEAF-ASMEVPVEWPFYGQILSSDLSDDLRLTWAVPRC 203

Query: 187 APCEYRGEVCKFTNDDTSLVVGCSNSGKESVKYDA-IIIGIGFGTPGALFIIALGCYLCS 245
             CE  G  C   ++ + L+V C+N     +   A  II IG G P AL ++ L C++C+
Sbjct: 204 GKCESHGGRCGPRSNSSRLIV-CANPKLRGIPKSARYIITIGGGIPVALCVLGLLCFICN 262

Query: 246 KVWTHDPQRHRRRQPTTELSTS---TVVA-SLDKPTIESYPKTIVGVSGRQPKPNDNTCP 301
           +   +  +R     P +    +   TV A  LD  T+ESYPK ++G S R PKP+D TC 
Sbjct: 263 RASYYTGRRRSHLFPESNFVVNQQPTVSARGLDGQTLESYPKIVLGESRRLPKPDDITCS 322

Query: 302 ICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRK 343
           ICLS YKPK+TL+TIP+C H FHA CID+WL++NASCP+CRK
Sbjct: 323 ICLSEYKPKETLKTIPECQHCFHADCIDEWLKLNASCPICRK 364

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224132906|ref|XP_002321438.1| predicted protein [Populus trichocarpa] gi|222868434|gb|EEF05565.1| predicted protein [Populus trichocarpa]

 Score =  225 bits (573), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 142/347 (40%), Positives = 191/347 (55%), Gaps = 34/347 (9%)

Query: 15  VKFPFQIINNLESLNPRCRYPRFELLC-SRNKTILMLPRSGLFAVRNIDYNLQTLDINDP 73
           ++FPF+I N     +  C YP F++ C S N+T+L L  SG F V+ IDY  Q + IND 
Sbjct: 42  IRFPFRIQNRQ---SKACGYPGFDISCGSSNETMLELHSSGKFVVQAIDYATQEIWINDQ 98

Query: 74  LNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSSNHVPEHHRTVACLSTENYTVL 133
            NCL  R L + +L  SPF    Y +FTF NCSSS    ++       +ACLS   YTV 
Sbjct: 99  GNCLADRIL-SLNLFGSPFIGLYYQSFTFFNCSSS----DYRKYGLNPIACLSGSTYTVF 153

Query: 134 AVPSRFYNETKLPMLPVP-SSCEVIRADVMVPVSGGYW-----NGLEDDIRLSWSDPHCA 187
           A      N T +  L    SSC +IR  V VPV   ++     + L +D+ L+W +P C 
Sbjct: 154 ATS----NSTVVSSLQNGNSSCNLIRV-VPVPVDWPFYQQISSSDLSEDLHLTWEEPDCG 208

Query: 188 PCEYRGEVCKFTNDDTSLVVGCSN-------SGKESVKYDAIIIGIGFGTPGALFIIALG 240
            CE RG  C    + + +V  CSN       +  E  +     I    G PGAL ++ L 
Sbjct: 209 KCESRGGRCALKINSSKVV--CSNLPRHVATTWSEFPRSALYAIITAAGIPGALILVGLL 266

Query: 241 CYLCSKVWTHDPQRHR-----RRQPTTELSTSTVVASLDKPTIESYPKTIVGVSGRQPKP 295
           C++C +V   D              T +  +  ++A LD PTIESYPK ++G S R PKP
Sbjct: 267 CFICGRVKYCDRSSSESGGLPEVDSTVDTESVVIIAGLDGPTIESYPKIVLGESRRLPKP 326

Query: 296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
           +DNTC ICL  YKPK+TL+TIP+C H FH+ CID+WLR+NASCP+CR
Sbjct: 327 DDNTCSICLCEYKPKETLKTIPECKHCFHSDCIDEWLRLNASCPICR 373

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356511447|ref|XP_003524438.1| PREDICTED: putative RING-H2 finger protein ATL21B-like [Glycine max]

 Score =  223 bits (567), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 151/362 (41%), Positives = 202/362 (55%), Gaps = 52/362 (14%)

Query: 13  VPVKFPFQIINNLESLNPRCRY---PRFELLC--SRNKTILMLPRSGLFAVRNIDYNLQT 67
           + ++FPF +  + +     CRY     F+L C     +TIL LP  G   V++IDY  Q+
Sbjct: 37  IDIQFPFGLRGSNQDRG--CRYYPVQSFQLSCLHGGTQTILTLPGFGNLTVKSIDYESQS 94

Query: 68  LDINDPLNCLPKRFLDNFSLE--DSPF--EQKIYG----NFTFLNCSSSSSSSNHVPEHH 119
           + +NDP  CLPKRFL  +SL   DSPF     IYG    N TFL C S+ + S+  P   
Sbjct: 95  IRVNDPDGCLPKRFLQKWSLSVSDSPFVLNPMIYGTIPFNLTFLRCPSNVTDSSQYPL-- 152

Query: 120 RTVACLST-ENYTVLAVPSRFYNETKLPMLPVPS---SCEVI-RADVMVPVSGG----YW 170
             ++CLS   NY+V+A  S+       P++  PS    C+V+ RA V +PV       +W
Sbjct: 153 VPISCLSNNSNYSVIASWSQ-------PIMSSPSLSQQCQVMSRALVPLPVLDMPMWPFW 205

Query: 171 NGLEDDIRLSWSDPHCAPCEYRGEVCKFTNDDTSL-VVGC----SNSG-KESVKYDAIII 224
             L  D+ L W++P C  C   G+VC F+ + T    V C    S  G   S KY    +
Sbjct: 206 PDLNTDLDLVWTEPDCRNCALSGQVCGFSKEKTKTPQVRCFARDSTKGLSRSAKYG---L 262

Query: 225 GIGFGTPGALFIIALGCYLCSKVWTHDPQRHRRRQP----TTELSTSTVVASLDKPTIES 280
            IG G PG L +I + C +C K+       +RRR      T  L     V  LD  TI+ 
Sbjct: 263 AIGVGIPGLLCLIGISCCICGKL------TNRRRSADLPVTISLEPVPFVMGLDGATIDK 316

Query: 281 YPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPV 340
           YPKT++G SGR  KPNDNTC ICLS Y+PK+TLR+IP+CNHYFHA CID+WLR+NA+CP+
Sbjct: 317 YPKTLIGESGRLLKPNDNTCAICLSEYQPKETLRSIPECNHYFHADCIDEWLRLNATCPL 376

Query: 341 CR 342
           CR
Sbjct: 377 CR 378

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359490864|ref|XP_002267722.2| PREDICTED: uncharacterized protein LOC100262465 [Vitis vinifera]

 Score =  219 bits (558), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 142/346 (41%), Positives = 195/346 (56%), Gaps = 41/346 (11%)

Query: 11  SSVPVKFPFQIINNLESLNPR-CRYPRFELLCSRN-KTILMLPRSGLFAVRNIDYNLQTL 68
           S + ++FPF+    LE   P  C YP F+L C    +TIL LP SG F+V+ IDY  Q +
Sbjct: 16  SELEIRFPFR----LEDHQPESCGYPGFDLSCDATMQTILKLP-SGEFSVQGIDYGTQEI 70

Query: 69  DINDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSSNHVPEHHRTVACLSTE 128
            INDP NCLP R + + +L  S F    Y N++F  CS+             ++ACLS +
Sbjct: 71  WINDPKNCLP-RLILSLNLSGSSFRGVYYHNYSFFKCSADYRLD--------SIACLSDD 121

Query: 129 NYTVLAV-PSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGL-----EDDIRLSWS 182
           NYTV A   SR  N     + PV   C++I++ VMVP    +++ +       D+ LSW 
Sbjct: 122 NYTVFATDSSRVINF----LSPV---CDLIKS-VMVPAELPFYDPVWTSDLSSDLLLSWG 173

Query: 183 DPHCAPCEYRGEVCKFTNDDTSLVVGCSNSGKESVKYDA-IIIGIGFGTPGALFIIALGC 241
            P C  CE  G  C F ++ +SL +GC +  K  +   A   I +G G P  +  + L C
Sbjct: 174 APRCGDCEMEGGRCGFRSN-SSLEIGCFDVPKRGLPRTARYAITVGVGIPALMCFVGLLC 232

Query: 242 YLCSKVWTHDPQRHRRRQPTTELSTS-----TVVASLDKPTIESYPKTIVGVSGRQPKPN 296
           +LC +V         RR+P  E ++      T V  LD PTIESYPK ++G S R PKP+
Sbjct: 233 FLCGRVKAFGG----RRRPIAEFTSMVTPQPTAVMGLDGPTIESYPKVVLGESRRLPKPD 288

Query: 297 DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
           DNTC ICLS Y+PK+TL+ IP+C H FH+ CID+WL +NASCP+CR
Sbjct: 289 DNTCSICLSEYRPKETLKIIPECQHCFHSECIDEWLHLNASCPICR 334

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302144043|emb|CBI23148.3| unnamed protein product [Vitis vinifera]

 Score =  216 bits (551), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 139/345 (40%), Positives = 192/345 (55%), Gaps = 39/345 (11%)

Query: 11  SSVPVKFPFQIINNLESLNPR-CRYPRFELLCSRN-KTILMLPRSGLFAVRNIDYNLQTL 68
           S + ++FPF+    LE   P  C YP F+L C    +TIL LP SG F+V+ IDY  Q +
Sbjct: 45  SELEIRFPFR----LEDHQPESCGYPGFDLSCDATMQTILKLP-SGEFSVQGIDYGTQEI 99

Query: 69  DINDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSSNHVPEHHRTVACLSTE 128
            INDP NCLP+  L + +L  S F    Y N++F  CS+             ++ACLS +
Sbjct: 100 WINDPKNCLPRLIL-SLNLSGSSFRGVYYHNYSFFKCSADY--------RLDSIACLSDD 150

Query: 129 NYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWNGL-----EDDIRLSWSD 183
           NYTV A  S        P+      C++I++ VMVP    +++ +       D+ LSW  
Sbjct: 151 NYTVFATDSSRVINFLSPV------CDLIKS-VMVPAELPFYDPVWTSDLSSDLLLSWGA 203

Query: 184 PHCAPCEYRGEVCKFTNDDTSLVVGCSNSGKESVKYDA-IIIGIGFGTPGALFIIALGCY 242
           P C  CE  G  C F ++ +SL +GC +  K  +   A   I +G G P  +  + L C+
Sbjct: 204 PRCGDCEMEGGRCGFRSN-SSLEIGCFDVPKRGLPRTARYAITVGVGIPALMCFVGLLCF 262

Query: 243 LCSKVWTHDPQRHRRRQPTTELSTS-----TVVASLDKPTIESYPKTIVGVSGRQPKPND 297
           LC +V         RR+P  E ++      T V  LD PTIESYPK ++G S R PKP+D
Sbjct: 263 LCGRVKAFG----GRRRPIAEFTSMVTPQPTAVMGLDGPTIESYPKVVLGESRRLPKPDD 318

Query: 298 NTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
           NTC ICLS Y+PK+TL+ IP+C H FH+ CID+WL +NASCP+CR
Sbjct: 319 NTCSICLSEYRPKETLKIIPECQHCFHSECIDEWLHLNASCPICR 363

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334188355|ref|NP_200123.2| RING/U-box domain-containing protein-like protein [Arabidopsis thaliana] gi|332008921|gb|AED96304.1| RING/U-box domain-containing protein-like protein [Arabidopsis thaliana]

 Score =  213 bits (541), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 138/353 (39%), Positives = 193/353 (54%), Gaps = 47/353 (13%)

Query: 15  VKFPFQIINNLESLNPRCRYPR-FELLC---SRNKTILMLPRSGLFAVRNIDYNLQTLDI 70
           ++FPF++ +        C Y + F+L C   + N+T + LP SG F V  IDY  Q + I
Sbjct: 42  IRFPFRLKHQQSH---SCGYDKGFDLTCDINAGNRTTITLPFSGNFTVEEIDYAAQEIWI 98

Query: 71  NDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCSSSSSSSNHVPEHHR-----TVACL 125
           NDP NCLP+R L   +L  +PF       FTF NC +S        E+ R      + CL
Sbjct: 99  NDPNNCLPQRILQ-LNLNSTPFSGVYMRQFTFFNCPTS--------EYLRFRPLNPITCL 149

Query: 126 STENYTVLAVPS-RFYNETKLPMLPVPSSCEVIRADVMVPVSGGYW------NGLEDDIR 178
           S +N TV A PS R  N           SC +++  V VPV   ++      + L D++ 
Sbjct: 150 SGKNSTVFATPSPRVINYLS------SQSCRLMKT-VYVPVRWPFYEQIVSSSDLSDNLW 202

Query: 179 LSWSDPHCAPCEYRGEVCKFTNDDTSLVVGCSNSGKESVKYDA-IIIGIGFGTPGALFII 237
           L+W  P C+ CE +G  C   ++ +  ++ CS+  K ++   A   I +G G PGAL + 
Sbjct: 203 LTWRVPRCSRCEIKGGKCGIKSNSSREII-CSHVHKPAIPRRARYAIAVGAGIPGALIVF 261

Query: 238 ALGCYLCSKVWTHDPQRHRRRQPTTE--------LSTSTVVASLDKPTIESYPKTIVGVS 289
            L C++ SK+      + RR  PT E        L +S +V  LD PTIESYPK ++G S
Sbjct: 262 GLFCFVYSKI--SSCIKRRRLVPTPEINNAQAHYLHSSVIVMGLDGPTIESYPKIVLGES 319

Query: 290 GRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
            R PK +D TC ICLS Y+PK+TLRTIP+C H FHA CID+WL++N +CPVCR
Sbjct: 320 KRLPKVDDATCAICLSEYEPKETLRTIPQCQHCFHADCIDEWLKLNGTCPVCR 372

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	352
TAIR|locus:2040085	377	AT2G25410 [Arabidopsis thalian	0.889	0.830	0.348	2.6e-40
TAIR|locus:2010489	299	AT1G28040 [Arabidopsis thalian	0.789	0.929	0.326	1.1e-32
TAIR|locus:2169399	159	AT5G07040 [Arabidopsis thalian	0.335	0.742	0.377	1e-20
TAIR|locus:2039170	217	AT2G35910 [Arabidopsis thalian	0.326	0.529	0.380	1.4e-16
TAIR|locus:2062892	214	AT2G46160 [Arabidopsis thalian	0.227	0.373	0.453	7e-16
TAIR|locus:2082762	212	AT3G61550 [Arabidopsis thalian	0.221	0.367	0.436	9.1e-16
TAIR|locus:2123558	432	AT4G28890 [Arabidopsis thalian	0.343	0.280	0.328	9.8e-13
TAIR|locus:2103162	181	DAFL1 "DAF-Like gene 1" [Arabi	0.315	0.613	0.324	2.2e-12
TAIR|locus:2122348	132	AT4G09100 [Arabidopsis thalian	0.207	0.553	0.378	3.8e-12
TAIR|locus:2062008	227	AT2G47560 [Arabidopsis thalian	0.303	0.471	0.306	6.2e-12

TAIR|locus:2040085 AT2G25410 [Arabidopsis thaliana (taxid:3702)]

 Score = 429 (156.1 bits), Expect = 2.6e-40, P = 2.6e-40
 Identities = 122/350 (34%), Positives = 167/350 (47%)

Query:    12 SVPVKFPFQIINNLESLNPR-CRYPRFELLCSRN-KTILMLPRSGLFAVRNIDYNLQTLD 69
             SV  +FPF +     S  P  C Y  F L+C  +  T L LP+S  F V+ IDY  Q + 
Sbjct:    38 SVVARFPFSLF----SYQPESCGYSGFNLICKDDANTTLKLPKSEPFLVKEIDYETQRIR 93

Query:    70 INDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCXXXXXXXNHVPEHHRTVACLSTEN 129
             +NDP NCL +R L NF    SPF      N+TFL C        ++    R + CL    
Sbjct:    94 LNDPENCLARRLL-NFDPSGSPFSFLRSRNYTFLICPKEA----NITASFRAIDCLGNTT 148

Query:   130 YTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSG-----GYWNGLED-DIRLSWSD 183
              +   V  +F N     +  +PSSC + +  + +P S       Y +G    D+ L W  
Sbjct:   149 SSFFVV--QFEN-----LGSMPSSCHIFKI-LPLPFSWFVAYTTYPDGQNSRDMWLKWDS 200

Query:   184 PHCAPCEYR-GEVCKFTNDDTSLVVGCSNS---GKESVKYDAI-IIGIGFGTPGALFIIA 238
             P C  CE R    C F N+ TS  V C +S   G  +     + I+ +    P       
Sbjct:   201 PDCRDCERRTNSRCGFKNN-TSHQVECFSSVNPGLHNTGLQVLKIMCLSLVGPLTALTFC 259

Query:   239 LGCYLCS--KVWTHDPQRHRRR---QPTTELSTSTVVASLDKPTIESYPKTIVGVSGRQP 293
             +G  +CS  +V +   Q    R     T++ S       LD+ TIESY K  +G S R P
Sbjct:   260 VGLVMCSSERVSSQIQQAVVARLSGSVTSQPSNEVARIGLDESTIESYKKVELGESRRLP 319

Query:   294 K-PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
                ND  CPICLS Y  K+T+R +P+C H FH  CID WL++++SCPVCR
Sbjct:   320 TGSNDVVCPICLSEYATKETVRCLPECEHCFHTECIDAWLKLHSSCPVCR 369

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2010489 AT1G28040 [Arabidopsis thaliana (taxid:3702)]

 Score = 357 (130.7 bits), Expect = 1.1e-32, P = 1.1e-32
 Identities = 100/306 (32%), Positives = 149/306 (48%)

Query:    53 SGLFAVRNIDYNLQTLDINDPLNCLPKRFLDNFSLEDSPFEQKIYGNFTFLNCXXXXXXX 112
             SG F V  I+Y  Q + I+DP NC+ KR L  F+   SPF       +TFL C       
Sbjct:     2 SGTFLVDEINYQKQQISISDPENCMVKRLL-TFNTSGSPFSYGFSFYYTFLTCPNEVV-- 58

Query:   113 NHVPEHH-RTVACLSTENYTVLAVPSRFYNETKLPMLPVPSSCEVIRADVMVPVSGGYWN 171
               +P     ++ CLS    +  A  +  ++  KL    +P SC++++  + VPV   Y +
Sbjct:    59 --IPVWSLMSIPCLSNSTSSFFATSNLTFS--KL----LPPSCQIVKG-LYVPVDVIYKD 109

Query:   172 GLEDD-----------IRLSWSDPHCAPCEYRGEVCKFTNDDTSLVVGCSNSGKESV-KY 219
              + ++           + L WS P+C  CE     C F N  +  V   ++   E+  + 
Sbjct:   110 VITEEKGFSTVPWLGNVLLEWSSPNCRGCEKESLRCGFKNKASLEVKYLADPPDETKSRL 169

Query:   220 DAIIIGIGF-GTPGALFIIALGCYLCSKVWTHDPQRHR-RRQPTTELSTSTVVAS-LDKP 276
               +II +   G   A  I A+  Y   +      Q      + TT+     VV + LD+ 
Sbjct:   170 RPLIITLCIIGGITATCIAAIRIYNSERFVNQRRQNAAITARNTTQQPRGVVVTTGLDQS 229

Query:   277 TIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA 336
             TIESY K  +G S R P  N   CPICLS Y  K+T+R +P+C+H FH  CID+WL++++
Sbjct:   230 TIESYKKVELGESRRLPGTNGIICPICLSEYASKETVRCMPECDHCFHVQCIDEWLKIHS 289

Query:   337 SCPVCR 342
             SCPVCR
Sbjct:   290 SCPVCR 295

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2169399 AT5G07040 [Arabidopsis thaliana (taxid:3702)]

 Score = 244 (91.0 bits), Expect = 1.0e-20, P = 1.0e-20
 Identities = 48/127 (37%), Positives = 76/127 (59%)

Query:   224 IGIGFGTPGALFIIALGCY--LCSKVWTHDPQRHRRRQPTTEL------STSTVVASLDK 275
             +G+G+G   A+ I+ L  +  L S +        R  + T+++        + V   LD+
Sbjct:    11 VGLGYGIAIAVSILVLISFIMLASYICIRSKSTGRD-EATSDVVLDLPSPAAEVKLGLDR 69

Query:   276 PTIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN 335
             P IESYP+ ++G S R P+PN+  C ICL  Y+ ++ +R IP+CNH FH  C+D+WLR +
Sbjct:    70 PVIESYPRIVLGDSRRLPRPNNGPCSICLCDYEAREPVRCIPECNHCFHTDCVDEWLRTS 129

Query:   336 ASCPVCR 342
             A+CP+CR
Sbjct:   130 ATCPLCR 136

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2039170 AT2G35910 [Arabidopsis thaliana (taxid:3702)]

 Score = 207 (77.9 bits), Expect = 1.4e-16, P = 1.4e-16
 Identities = 48/126 (38%), Positives = 64/126 (50%)

Query:   224 IGIGFGTPGALFIIALGCYLCSK-VWTHDPQRHRRRQPTTELSTS------TVVASLDKP 276
             IG+  G    +  I L  Y C++   +  P +    Q +T +          VV  LD+ 
Sbjct:    68 IGVSIGVLLLITTITLTSYYCTRNQLSSSPSQ--TNQDSTRIHHHHHHVIIDVVPGLDED 125

Query:   277 TIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA 336
             TI+SYPK +     + P    + C ICL  YK K  LR +P CNH FH  CID WLR+N 
Sbjct:   126 TIQSYPKILYS-EAKGPT-TASCCAICLGDYKGKHLLRQLPDCNHLFHLKCIDTWLRLNP 183

Query:   337 SCPVCR 342
             +CPVCR
Sbjct:   184 TCPVCR 189

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2062892 AT2G46160 [Arabidopsis thaliana (taxid:3702)]

 Score = 201 (75.8 bits), Expect = 7.0e-16, P = 7.0e-16
 Identities = 39/86 (45%), Positives = 47/86 (54%)

Query:   263 ELSTSTVVASLDKPTIESYPK------TIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTI 316
             +L    VV  LD+  I SYPK      T    S       D TC ICL  YK  + LR +
Sbjct:    95 DLEAGDVVVGLDQAVINSYPKFHFSKDTSAASSDGFGGGGDTTCSICLCEYKEAEMLRMM 154

Query:   317 PKCNHYFHAYCIDKWLRMNASCPVCR 342
             P+C HYFH  C+D WL++N SCPVCR
Sbjct:   155 PECKHYFHLCCLDAWLKLNGSCPVCR 180

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

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2082762 AT3G61550 [Arabidopsis thaliana (taxid:3702)]

 Score = 200 (75.5 bits), Expect = 9.1e-16, P = 9.1e-16
 Identities = 38/87 (43%), Positives = 49/87 (56%)

Query:   265 STSTVVASLDKPTIESYPK--------TIVGVSG-RQPKPNDNTCPICLSRYKPKQTLRT 315
             S + VV  LD   I SYPK         +V   G    +  + TC ICL  Y  ++ LR 
Sbjct:    92 SGNVVVGGLDHSVINSYPKFHFTKDITAVVNGDGFHDGEGRETTCSICLCEYMEEEMLRM 151

Query:   316 IPKCNHYFHAYCIDKWLRMNASCPVCR 342
             +P+C HYFH YC+D WL++N SCPVCR
Sbjct:   152 MPECKHYFHVYCLDAWLKLNGSCPVCR 178

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2123558 AT4G28890 [Arabidopsis thaliana (taxid:3702)]

 Score = 193 (73.0 bits), Expect = 9.8e-13, P = 9.8e-13
 Identities = 42/128 (32%), Positives = 66/128 (51%)

Query:   223 IIGIGFGTPGALFIIALGCYLCSKVWTHDPQRHRRRQP-----TTELSTSTVVASLDKPT 277
             ++ I F     L + A  C++  +  + D +RH RR           ++S   + LDK  
Sbjct:    43 VLAIMFALTFVLLVYAKCCHIDLRSGSGDRRRHDRRLRQGIFFNRSTASSDRFSGLDKTA 102

Query:   278 IESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNAS 337
             IES P  +   S  +       C +CLS+++  + LR +PKC H FH  CID+WL  +A+
Sbjct:   103 IESLP--LFRFSALKGSKQGLDCSVCLSKFESVEILRLLPKCRHAFHIGCIDQWLEQHAT 160

Query:   338 CPVCRKRL 345
             CP+CR R+
Sbjct:   161 CPLCRDRV 168

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0000041 "transition metal ion transport" evidence=RCA

GO:0048527 "lateral root development" evidence=RCA

GO:0048589 "developmental growth" evidence=RCA

GO:0048765 "root hair cell differentiation" evidence=RCA

GO:0048767 "root hair elongation" evidence=RCA

TAIR|locus:2103162 DAFL1 "DAF-Like gene 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 170 (64.9 bits), Expect = 2.2e-12, P = 2.2e-12
 Identities = 37/114 (32%), Positives = 52/114 (45%)

Query:   238 ALGCYL-CSKVWTHDPQRHRRRQPTTELSTSTVVASLDKPTIESYPKTIVGVSGRQPKPN 296
             AL C L  ++ +T D Q          L        L K  ++  P  + G      K  
Sbjct:    53 ALRCVLRITRRFTSDDQVSNASNANANLGRLAAATGLKKQALKQIPVGLYGSGIIDMKAT 112

Query:   297 DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSP 350
             +  C ICL  ++  + +R +PKCNH FH  CID WL   +SCP CR+ L  + P
Sbjct:   113 E--CLICLGDFEDGEKVRVLPKCNHGFHVRCIDTWLLSRSSCPTCRQSLLLEQP 164

GO:0005634 "nucleus" evidence=ISM

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

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

TAIR|locus:2122348 AT4G09100 [Arabidopsis thaliana (taxid:3702)]

 Score = 168 (64.2 bits), Expect = 3.8e-12, P = 3.8e-12
 Identities = 28/74 (37%), Positives = 45/74 (60%)

Query:   273 LDKPTIESYPKTI-VGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKW 331
             LD   I+S+P  +     G +P   +  C +CL+ +K  +TLR +P C H FHA C+D W
Sbjct:    57 LDAEAIKSFPSFVYTEARGIEPGIGELECVVCLNEFKDDETLRLVPPCVHVFHADCVDIW 116

Query:   332 LRMNASCPVCRKRL 345
             L  +++CP+CR ++
Sbjct:   117 LSHSSTCPICRAKV 130

GO:0005576 "extracellular region" evidence=ISM

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

TAIR|locus:2062008 AT2G47560 [Arabidopsis thaliana (taxid:3702)]

 Score = 166 (63.5 bits), Expect = 6.2e-12, P = 6.2e-12
 Identities = 34/111 (30%), Positives = 52/111 (46%)

Query:   236 IIALGCYLCSKVWT---HDPQRHRR-RQPTTELSTSTVVASLDKPTIESYPKTIVGVSGR 291
             +I + C+     W    H+ +  RR R     LS S    +LD+  ++  P  +      
Sbjct:    40 VIMILCFHSYARWLFRRHNRRIRRRIRSHLRTLSASPRDQALDQAVLDKIPIFVYSSKNP 99

Query:   292 QPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
              P      C +CLS ++ +   R +PKC H FH  CID W R  ++CP+CR
Sbjct:   100 PPPEEKEECSVCLSEFEEEDEGRLLPKCGHSFHVDCIDTWFRSRSTCPLCR 150

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

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

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	352
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	3e-13
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	5e-10
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	2e-08
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	4e-07
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	5e-07
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	7e-07
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	3e-06
smart00184	40	smart00184, RING, Ring finger	1e-05
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	2e-05
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	4e-05
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	5e-05
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	1e-04

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

 Score = 63.2 bits (154), Expect = 3e-13
 Identities = 21/47 (44%), Positives = 31/47 (65%), Gaps = 1/47 (2%)

Query: 298 NTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKR 344
           + CPICL  ++P + +  +P C H FH  C+DKWLR + +CP+CR  
Sbjct: 1   DECPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCRAP 46

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 = 54.0 bits (130), Expect = 5e-10
 Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 4/48 (8%)

Query: 299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLR-MNASCPVCRKRL 345
            CPICL  ++       +  C H F   CIDKWL+    +CP+CR  +
Sbjct: 1   ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 50.1 bits (120), Expect = 2e-08
 Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 9/56 (16%)

Query: 296 NDNTCPICLSRY-----KPKQTLRTIP----KCNHYFHAYCIDKWLRMNASCPVCR 342
            D+ C IC + +     + K      P    +C H FH +CI +WL+   +CP+CR
Sbjct: 18  EDDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 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|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 45.6 bits (108), Expect = 4e-07
 Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 3/48 (6%)

Query: 296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRK 343
            +  CPICL   +       +  C H F   CI ++L+  + CP+CR 
Sbjct: 1   EELECPICLDLLR---DPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

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 = 46.8 bits (111), Expect = 5e-07
 Identities = 17/55 (30%), Positives = 21/55 (38%), Gaps = 1/55 (1%)

Query: 297 DNTCPICLSRYKPKQTLR-TIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSP 350
             TCP C     P          CNH FH +CI +WL     CP+ R+       
Sbjct: 31  MGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLADG 85

Length = 88

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

 Score = 50.0 bits (119), Expect = 7e-07
 Identities = 29/81 (35%), Positives = 39/81 (48%), Gaps = 12/81 (14%)

Query: 263 ELSTSTVVASLDKPTIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHY 322
            + T+T   SL   +IE   +   GV           C IC+S +     LR +P C+H 
Sbjct: 299 AIPTTTTKGSLKPLSIERAVEADKGVE----------CAICMSNFIKNDRLRVLP-CDHR 347

Query: 323 FHAYCIDKWL-RMNASCPVCR 342
           FH  C+DKWL   +  CPVCR
Sbjct: 348 FHVGCVDKWLLGYSNKCPVCR 368

Length = 374

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

 Score = 44.4 bits (105), Expect = 3e-06
 Identities = 21/57 (36%), Positives = 26/57 (45%), Gaps = 5/57 (8%)

Query: 295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNAS---CPVCRKRLRFK 348
             D TCP C  ++          KC H FH +CI KWL    S   CP+CR+   F 
Sbjct: 30  SFDGTCPQC--KFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCRQTFVFA 84

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|214546 smart00184, RING, Ring finger

 Score = 41.3 bits (97), Expect = 1e-05
 Identities = 19/43 (44%), Positives = 23/43 (53%), Gaps = 4/43 (9%)

Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVC 341
           CPICL  Y   +    +P C H F   CI KWL   N +CP+C
Sbjct: 1   CPICLEEYL--KDPVILP-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|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 46.6 bits (110), Expect = 2e-05
 Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 5/53 (9%)

Query: 300  CPIC---LSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNAS--CPVCRKRLRF 347
            C IC   L         +    C + FH  C+ KW   +A   CP+CR  + F
Sbjct: 1472 CAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524

Length = 1525

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

 Score = 44.0 bits (104), Expect = 4e-05
 Identities = 21/61 (34%), Positives = 27/61 (44%), Gaps = 6/61 (9%)

Query: 297 DNTCPICLSRYKPKQT----LRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRF--KSP 350
           D  C IC+ +   K+        +  CNH F   CID W +   +CPVCR       KS 
Sbjct: 174 DKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISVIKSR 233

Query: 351 F 351
           F
Sbjct: 234 F 234

Length = 238

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

 Score = 44.6 bits (105), Expect = 5e-05
 Identities = 20/74 (27%), Positives = 30/74 (40%), Gaps = 9/74 (12%)

Query: 283 KTIVGVSGRQPKPNDNTCPICLS------RYKPKQTLRTIPK---CNHYFHAYCIDKWLR 333
                 +  Q   +D TC IC+            + L   PK   C H  H +C+  WL 
Sbjct: 273 AMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLE 332

Query: 334 MNASCPVCRKRLRF 347
              +CP+CR+ + F
Sbjct: 333 RQQTCPICRRPVIF 346

Length = 491

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

 Score = 39.0 bits (91), Expect = 1e-04
 Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 4/43 (9%)

Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLR-MNASCPVC 341
           CPICL   K    +  +P C H F + CI  WL   N +CP+C
Sbjct: 1   CPICLEEPK--DPVTILP-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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	352
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.71
PF13947	106	GUB_WAK_bind: Wall-associated receptor kinase gala	99.69
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.59
PF14380	94	WAK_assoc: Wall-associated receptor kinase C-termi	99.49
PHA02929	238	N1R/p28-like protein; Provisional	99.41
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.35
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.2
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.15
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.09
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.03
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.02
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.01
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.0
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.9
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.9
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.86
PHA02926	242	zinc finger-like protein; Provisional	98.85
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.8
PF14634	44	zf-RING_5: zinc-RING finger domain	98.78
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.76
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.7
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.7
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.66
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.65
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.62
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.54
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.45
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.37
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.34
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.27
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.23
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.19
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.18
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.98
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	97.94
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.94
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.91
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.65
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.64
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.5
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.48
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.39
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.38
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.33
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.28
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.26
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.22
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.2
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	97.19
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.17
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.94
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.74
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.71
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.64
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.59
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.54
PHA02862	156	5L protein; Provisional	96.25
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.14
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	96.08
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.08
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	96.07
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.87
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.79
KOG3039	303	consensus Uncharacterized conserved protein [Funct	95.72
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	95.52
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	94.89
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.83
KOG2660	331	consensus Locus-specific chromosome binding protei	94.77
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	94.73
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	94.69
PHA03096	284	p28-like protein; Provisional	94.64
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	94.45
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	94.13
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	94.06
COG5152	259	Uncharacterized conserved protein, contains RING a	93.91
KOG1002	791	consensus Nucleotide excision repair protein RAD16	93.52
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	93.22
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	92.76
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	92.17
COG5236	493	Uncharacterized conserved protein, contains RING Z	92.06
PF04641	260	Rtf2: Rtf2 RING-finger	91.82
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	91.69
KOG1940	276	consensus Zn-finger protein [General function pred	91.35
PF04478	154	Mid2: Mid2 like cell wall stress sensor; InterPro:	90.74
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	90.74
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	88.67
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	87.91
COG5222	427	Uncharacterized conserved protein, contains RING Z	87.84
KOG1001	674	consensus Helicase-like transcription factor HLTF/	87.35
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	87.01
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	86.43
KOG0298	1394	consensus DEAD box-containing helicase-like transc	86.0
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	85.77
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	85.49
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	84.98
KOG3002	299	consensus Zn finger protein [General function pred	84.94
COG5175	480	MOT2 Transcriptional repressor [Transcription]	83.54
KOG3053	293	consensus Uncharacterized conserved protein [Funct	82.0
KOG1609	323	consensus Protein involved in mRNA turnover and st	81.46
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	81.12

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

Probab=99.71  E-value=2.9e-18  Score=157.32  Aligned_cols=76  Identities=34%  Similarity=0.774  Sum_probs=64.8

Q ss_pred             ccCCChHhhhcCCceeeccCCCCCCCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC-CcccccccccccC
Q 044813          270 VASLDKPTIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN-ASCPVCRKRLRFK  348 (352)
Q Consensus       270 ~~~~~~~~i~~l~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~-~~CP~Cr~~l~~~  348 (352)
                      ...+.+..+.++|...++........  .+|+||||+|++||.+|.|| |+|.||..|||.||.++ ..||+||+++...
T Consensus       204 ~~r~~k~~l~~~p~~~f~~~~~~~~~--~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~  280 (348)
T KOG4628|consen  204 RNRLIKRLLKKLPVRTFTKGDDEDAT--DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTD  280 (348)
T ss_pred             hhhhHHHHHhhCCcEEeccccccCCC--ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCC
Confidence            34577889999999999887654333  69999999999999999999 99999999999999776 4599999987543

>PF13947 GUB_WAK_bind: Wall-associated receptor kinase galacturonan-binding

Probab=99.69  E-value=8.6e-17  Score=126.43  Aligned_cols=93  Identities=35%  Similarity=0.662  Sum_probs=71.7

Q ss_pred             CCCCCCCCCCCCceecceeecCCCCCCCCCCCC-CCceeEecCC--ceEEeCCCCCceEEEEEeecccEEEEECCC--CC
Q 044813            2 GGDGNGGGGSSVPVKFPFQIINNLESLNPRCRY-PRFELLCSRN--KTILMLPRSGLFAVRNIDYNLQTLDINDPL--NC   76 (352)
Q Consensus         2 ~~~~~~CG~~~~~I~yPF~l~~~~~~~~~~CG~-p~f~L~C~~~--~~~l~l~~~~~y~V~~I~y~~~ti~v~d~~--~C   76 (352)
                      +| +.+||  +++|.||||+++       .||+ |+|+|.|+++  .+.|.+ .+++|+|++|+|.+++|+|.++.  .|
T Consensus         3 ~C-~~~CG--nv~IpYPFgi~~-------~C~~~~~F~L~C~~~~~~~~l~l-~~~~~~V~~I~~~~~~i~v~~~~~~~~   71 (106)
T PF13947_consen    3 GC-PSSCG--NVSIPYPFGIGP-------GCGRDPGFELTCNNNTSPPKLLL-SSGNYEVLSISYENGTIRVSDPISSNC   71 (106)
T ss_pred             CC-CCccC--CEeecCCCccCC-------CCCCCCCcEEECCCCCCCceeEe-cCCcEEEEEEecCCCEEEEEeccccce
Confidence            44 58999  679999999654       4999 9999999988  778888 68999999999999999999995  45


Q ss_pred             Ccc--cc--ccccCCCCCCCcc-cccccEEEEecC
Q 044813           77 LPK--RF--LDNFSLEDSPFEQ-KIYGNFTFLNCS  106 (352)
Q Consensus        77 ~~~--~~--~~n~~l~~~pf~~-~~~~~~~~~nCs  106 (352)
                      ...  ..  ..+++++. ||.. ...|.+++++|+
T Consensus        72 ~~~~~~~~~~~~~~~~~-~~~~s~~~N~~~~~GC~  105 (106)
T PF13947_consen   72 YSSSSSNSSNSNLSLNG-PFFFSSSSNKFTVVGCN  105 (106)
T ss_pred             ecCCCCcccccEEeecC-CceEccCCcEEEEECCC
Confidence            211  11  12345555 5544 455889999996

>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=99.59  E-value=5e-16  Score=101.68  Aligned_cols=44  Identities=48%  Similarity=1.256  Sum_probs=40.5

Q ss_pred             cccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccc
Q 044813          298 NTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR  342 (352)
Q Consensus       298 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr  342 (352)
                      ++|+||++++..++.+..++ |+|+||.+||.+|++++.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence            47999999999999999998 999999999999999999999997

...

>PF14380 WAK_assoc: Wall-associated receptor kinase C-terminal

Probab=99.49  E-value=3e-14  Score=109.14  Aligned_cols=59  Identities=31%  Similarity=0.653  Sum_probs=51.3

Q ss_pred             CccCceeecceeeeccc-----------cCccccccCceEEEec--CCCCcccccCCCceeeecCCCcceEEecCCC
Q 044813          150 VPSSCEVIRADVMVPVS-----------GGYWNGLEDDIRLSWS--DPHCAPCEYRGEVCKFTNDDTSLVVGCSNSG  213 (352)
Q Consensus       150 ~~~~C~~~~~~v~~Pv~-----------~~~~~~l~~gf~l~w~--~~~C~~C~~sgg~Cg~~~~~~~~~f~C~c~~  213 (352)
                      ++..|+.+   ++|||.           .+|.++|++||+|+|+  ..+|.+|+.|||+|||+.++  .+|.|+|++
T Consensus        21 ~~~~C~~~---v~vPV~~~~~~~~~~~~~~~~~~L~~GF~L~w~~~~~~C~~C~~SgG~Cgy~~~~--~~f~C~C~d   92 (94)
T PF14380_consen   21 LAGSCQKS---VVVPVLGSAVDSIDGSSGNYEEVLKKGFELEWNADSGDCRECEASGGRCGYDSNS--EQFTCFCSD   92 (94)
T ss_pred             cCCcCCEE---EEEEECchhhhccccchhHHHHHHhcCcEEEEeCCCCcCcChhcCCCEeCCCCCC--ceEEEECCC
Confidence            56899998   788883           2478889999999998  57999999999999999987  599999965

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.41  E-value=1.4e-13  Score=121.47  Aligned_cols=77  Identities=26%  Similarity=0.602  Sum_probs=59.7

Q ss_pred             cCCChHhhhcCCceeeccCCCCCCCCccccccccccccCCCe----eeeeCCCCCeechhhHHHHHhcCCcccccccccc
Q 044813          271 ASLDKPTIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQT----LRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR  346 (352)
Q Consensus       271 ~~~~~~~i~~l~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~----~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~  346 (352)
                      ++..+..++.+|.+....+.......+.+|+||++++.+++.    +.+++.|+|.||.+||.+|++.+.+||+||..+.
T Consensus       148 ~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        148 GKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             cchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            445777888888887665544445567899999999876541    2344459999999999999999999999999875


Q ss_pred             c
Q 044813          347 F  347 (352)
Q Consensus       347 ~  347 (352)
                      .
T Consensus       228 ~  228 (238)
T PHA02929        228 S  228 (238)
T ss_pred             E
Confidence            3

>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=99.35  E-value=7.1e-13  Score=96.26  Aligned_cols=45  Identities=40%  Similarity=0.999  Sum_probs=36.0

Q ss_pred             ccccccccccccCC----------CeeeeeCCCCCeechhhHHHHHhcCCcccccc
Q 044813          297 DNTCPICLSRYKPK----------QTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR  342 (352)
Q Consensus       297 ~~~C~ICl~~~~~~----------~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr  342 (352)
                      ++.|+||++++.+.          -.+...+ |||.||..||.+||+.+.+||+||
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            45699999999322          3445556 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=99.20  E-value=7.3e-12  Score=110.96  Aligned_cols=51  Identities=41%  Similarity=1.022  Sum_probs=46.6

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHh-cCCccccccccccc
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLR-MNASCPVCRKRLRF  347 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-~~~~CP~Cr~~l~~  347 (352)
                      ...+|+|||++|.++|.+++|| |.|.||..||+.|+. -+..||+||.+++.
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            4589999999999999999999 999999999999997 56789999998864

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

Probab=99.15  E-value=1.7e-11  Score=111.37  Aligned_cols=52  Identities=35%  Similarity=1.040  Sum_probs=44.0

Q ss_pred             CCCcccccccccc-ccCCC---------eeeeeCCCCCeechhhHHHHHhcCCcccccccccc
Q 044813          294 KPNDNTCPICLSR-YKPKQ---------TLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR  346 (352)
Q Consensus       294 ~~~~~~C~ICl~~-~~~~~---------~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~  346 (352)
                      ..++..|+||+|+ +..+.         .-+.|| |||+||.+|++.|++++++||+||.++.
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccc
Confidence            4578999999999 44431         336788 9999999999999999999999999863

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

Probab=99.09  E-value=6.5e-11  Score=86.54  Aligned_cols=53  Identities=42%  Similarity=0.930  Sum_probs=41.4

Q ss_pred             CccccccccccccC--------CC--eeeeeCCCCCeechhhHHHHHhc---CCcccccccccccCC
Q 044813          296 NDNTCPICLSRYKP--------KQ--TLRTIPKCNHYFHAYCIDKWLRM---NASCPVCRKRLRFKS  349 (352)
Q Consensus       296 ~~~~C~ICl~~~~~--------~~--~~~~lp~C~H~FH~~Ci~~Wl~~---~~~CP~Cr~~l~~~~  349 (352)
                      +++.|.||...|+.        |+  .+. +-.|+|.||..||.+|++.   ++.|||||+++..++
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv-~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k~   85 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLV-WGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFKE   85 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCcee-eccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeCC
Confidence            37799999999862        22  232 3359999999999999975   567999999998764

>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=99.03  E-value=1.9e-10  Score=72.93  Aligned_cols=39  Identities=46%  Similarity=1.141  Sum_probs=33.2

Q ss_pred             cccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCccccc
Q 044813          300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVC  341 (352)
Q Consensus       300 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~C  341 (352)
                      |+||++++.+  .+..++ |||.|+.+||.+|++.+.+||+|
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            8999999876  556777 99999999999999999999998

>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=99.02  E-value=2.6e-10  Score=76.60  Aligned_cols=46  Identities=33%  Similarity=0.973  Sum_probs=39.2

Q ss_pred             ccccccccccccCCCeeeeeCCCCCe-echhhHHHHHhcCCcccccccccc
Q 044813          297 DNTCPICLSRYKPKQTLRTIPKCNHY-FHAYCIDKWLRMNASCPVCRKRLR  346 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CP~Cr~~l~  346 (352)
                      +..|.||++...+   +..+| |||. |+.+|+..|++.+..||+||+++.
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            5689999998554   67788 9999 999999999999999999999875

...

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

Probab=99.01  E-value=1.7e-10  Score=102.27  Aligned_cols=53  Identities=28%  Similarity=0.746  Sum_probs=46.2

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCCCC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSPF  351 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~~~  351 (352)
                      .....|.+|||..+..   ..+| |||+||+.||.+|...+..||+||..+...+++
T Consensus       237 ~a~~kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi  289 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSKVI  289 (293)
T ss_pred             CCCCceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCccee
Confidence            4568999999987654   4778 999999999999999999999999999877664

>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=99.00  E-value=2.5e-10  Score=74.45  Aligned_cols=44  Identities=43%  Similarity=1.223  Sum_probs=37.0

Q ss_pred             ccccccccccCCCeeeeeCCCCCeechhhHHHHHhc-CCccccccccc
Q 044813          299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRL  345 (352)
Q Consensus       299 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l  345 (352)
                      +|+||++.+  .+.+...+ |+|.||.+|++.|++. +..||+||+.+
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  34555666 9999999999999987 77899999864

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.90  E-value=7.9e-10  Score=93.72  Aligned_cols=50  Identities=32%  Similarity=0.717  Sum_probs=40.6

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc----------------CCcccccccccccC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM----------------NASCPVCRKRLRFK  348 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~----------------~~~CP~Cr~~l~~~  348 (352)
                      .++.+|+||++.+++.   .+++ |||+||+.||.+|+..                +..||+||..+...
T Consensus        16 ~~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~   81 (193)
T PLN03208         16 GGDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA   81 (193)
T ss_pred             CCccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence            4578999999998654   4566 9999999999999852                35799999988654

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

Probab=98.90  E-value=1.1e-09  Score=90.43  Aligned_cols=55  Identities=36%  Similarity=0.788  Sum_probs=46.4

Q ss_pred             CCCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          293 PKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       293 ~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      ..+.-..|+|||+.+.+...+  ..+|||+|+.+||+.-++....||+|++.|.+++
T Consensus       127 ~~~~~~~CPiCl~~~sek~~v--sTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~  181 (187)
T KOG0320|consen  127 RKEGTYKCPICLDSVSEKVPV--STKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ  181 (187)
T ss_pred             ccccccCCCceecchhhcccc--ccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence            345568999999999876543  2369999999999999999999999999888775

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

Probab=98.86  E-value=1e-09  Score=77.81  Aligned_cols=53  Identities=30%  Similarity=0.698  Sum_probs=39.9

Q ss_pred             cccccccccc-----------cCCCee-eeeCCCCCeechhhHHHHHhcCCcccccccccccCCC
Q 044813          298 NTCPICLSRY-----------KPKQTL-RTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSP  350 (352)
Q Consensus       298 ~~C~ICl~~~-----------~~~~~~-~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~~  350 (352)
                      +.|+||...+           ..+++. ...-.|+|.||..||..||..+..|||+|+.+...++
T Consensus        21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~~   85 (88)
T COG5194          21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLADG   85 (88)
T ss_pred             chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEecc
Confidence            5677766655           333433 2333599999999999999999999999999877654

>PHA02926 zinc finger-like protein; Provisional

Probab=98.85  E-value=5.6e-10  Score=95.48  Aligned_cols=55  Identities=33%  Similarity=0.785  Sum_probs=41.3

Q ss_pred             CCCccccccccccccCCC-----eeeeeCCCCCeechhhHHHHHhcC------CcccccccccccC
Q 044813          294 KPNDNTCPICLSRYKPKQ-----TLRTIPKCNHYFHAYCIDKWLRMN------ASCPVCRKRLRFK  348 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~-----~~~~lp~C~H~FH~~Ci~~Wl~~~------~~CP~Cr~~l~~~  348 (352)
                      .+.+.+|+||||..-++.     .--+|+.|+|.||..||..|.+.+      .+||+||..+..-
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I  232 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI  232 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence            456789999999864431     123455699999999999999753      3599999987543

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

Probab=98.80  E-value=2.9e-09  Score=91.91  Aligned_cols=52  Identities=29%  Similarity=0.708  Sum_probs=40.7

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc---CCcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM---NASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~---~~~CP~Cr~~l~~~~  349 (352)
                      .....+|.||||.-++  .| ++. |||+||+-||.+||+.   .+.||+||..+..+.
T Consensus        44 ~~~~FdCNICLd~akd--PV-vTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~   98 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKD--PV-VTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT   98 (230)
T ss_pred             CCCceeeeeeccccCC--CE-Eee-cccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence            3567899999998554  44 444 9999999999999975   345999999886543

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.78  E-value=3.5e-09  Score=68.97  Aligned_cols=44  Identities=34%  Similarity=0.892  Sum_probs=38.2

Q ss_pred             ccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCccccccc
Q 044813          299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRK  343 (352)
Q Consensus       299 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~  343 (352)
                      .|.||+++|.+....++++ |||+|+.+|++.+......||+||+
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            4899999996666778887 9999999999999866678999985

>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=98.76  E-value=4.5e-09  Score=67.40  Aligned_cols=39  Identities=41%  Similarity=1.128  Sum_probs=33.3

Q ss_pred             cccccccccCCCeeeeeCCCCCeechhhHHHHHh--cCCccccc
Q 044813          300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLR--MNASCPVC  341 (352)
Q Consensus       300 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~--~~~~CP~C  341 (352)
                      |+||++.+.+..  ++++ |||.|+.+||.+|++  ....||+|
T Consensus         1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999987653  5677 999999999999998  45669998

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 ....

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

Probab=98.70  E-value=4.9e-09  Score=105.19  Aligned_cols=50  Identities=34%  Similarity=0.936  Sum_probs=44.5

Q ss_pred             CCccccccccccccCCCe--eeeeCCCCCeechhhHHHHHhcCCccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQT--LRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRL  345 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~--~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l  345 (352)
                      ..+..|+||+|++..+..  .+.+| |+|+||..|+..|++++++||+||..+
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~  340 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVL  340 (543)
T ss_pred             hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhh
Confidence            357899999999988765  67888 999999999999999999999999844

>smart00184 RING Ring finger

Probab=98.70  E-value=1e-08  Score=64.39  Aligned_cols=38  Identities=47%  Similarity=1.212  Sum_probs=32.2

Q ss_pred             cccccccccCCCeeeeeCCCCCeechhhHHHHHh-cCCccccc
Q 044813          300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLR-MNASCPVC  341 (352)
Q Consensus       300 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-~~~~CP~C  341 (352)
                      |+||++.   ....+.++ |+|.||.+|++.|++ .+..||+|
T Consensus         1 C~iC~~~---~~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEE---LKDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccC---CCCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence            7899998   34566787 999999999999998 66779987

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)

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

Probab=98.66  E-value=1.5e-08  Score=65.14  Aligned_cols=38  Identities=39%  Similarity=1.049  Sum_probs=28.6

Q ss_pred             cccccccccCCCeeeeeCCCCCeechhhHHHHHhcC----Cccccc
Q 044813          300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN----ASCPVC  341 (352)
Q Consensus       300 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~----~~CP~C  341 (352)
                      |+||++.|.++   ..|+ |||.|+..||..|.+..    ..||.|
T Consensus         1 CpiC~~~~~~P---v~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP---VSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE---EE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc---cccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999876   4566 99999999999999653    359987

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

Probab=98.65  E-value=3.2e-09  Score=74.68  Aligned_cols=53  Identities=40%  Similarity=0.833  Sum_probs=39.2

Q ss_pred             ccccccccccccC--------CCee-eeeCCCCCeechhhHHHHHhc---CCcccccccccccCC
Q 044813          297 DNTCPICLSRYKP--------KQTL-RTIPKCNHYFHAYCIDKWLRM---NASCPVCRKRLRFKS  349 (352)
Q Consensus       297 ~~~C~ICl~~~~~--------~~~~-~~lp~C~H~FH~~Ci~~Wl~~---~~~CP~Cr~~l~~~~  349 (352)
                      +++|.||...|..        +|.. .++-.|.|.||..||.+|+..   +..|||||+.+..++
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~e   84 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFKE   84 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEecC
Confidence            4499999999852        2211 122249999999999999964   456999999987653

>smart00504 Ubox Modified RING finger domain

Probab=98.62  E-value=3.8e-08  Score=69.39  Aligned_cols=48  Identities=27%  Similarity=0.514  Sum_probs=41.2

Q ss_pred             cccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          298 NTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       298 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      ..|+||++.+.++   ..++ |||+|..+||.+|++.+.+||+|++.+..++
T Consensus         2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~   49 (63)
T smart00504        2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHED   49 (63)
T ss_pred             cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence            4799999998875   4567 9999999999999988899999999886543

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

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

Probab=98.54  E-value=2.7e-08  Score=74.29  Aligned_cols=53  Identities=30%  Similarity=0.714  Sum_probs=40.9

Q ss_pred             ccccccccccc-------------cCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          297 DNTCPICLSRY-------------KPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       297 ~~~C~ICl~~~-------------~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      -+.|+||...+             ..++-....-.|+|-||..||..||+++..||+|.+++....
T Consensus        46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~qr  111 (114)
T KOG2930|consen   46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQR  111 (114)
T ss_pred             echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEee
Confidence            46899988765             122333344459999999999999999999999999886543

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

Probab=98.45  E-value=5.4e-08  Score=85.29  Aligned_cols=54  Identities=28%  Similarity=0.823  Sum_probs=44.7

Q ss_pred             CCCccccccccccccCCC-------eeeeeCCCCCeechhhHHHHH--hcCCcccccccccccC
Q 044813          294 KPNDNTCPICLSRYKPKQ-------TLRTIPKCNHYFHAYCIDKWL--RMNASCPVCRKRLRFK  348 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~-------~~~~lp~C~H~FH~~Ci~~Wl--~~~~~CP~Cr~~l~~~  348 (352)
                      ..++..|+||=..+...+       ..-.|. |+|+||..||.-|-  -++++||.|+..+..+
T Consensus       221 hl~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~  283 (328)
T KOG1734|consen  221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK  283 (328)
T ss_pred             CCCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence            457889999988876543       556787 99999999999996  6789999999988665

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

Probab=98.37  E-value=2.2e-07  Score=61.68  Aligned_cols=42  Identities=29%  Similarity=0.905  Sum_probs=32.3

Q ss_pred             ccccccccccCCCeeeeeCCCC-----CeechhhHHHHHhc--CCcccccc
Q 044813          299 TCPICLSRYKPKQTLRTIPKCN-----HYFHAYCIDKWLRM--NASCPVCR  342 (352)
Q Consensus       299 ~C~ICl~~~~~~~~~~~lp~C~-----H~FH~~Ci~~Wl~~--~~~CP~Cr  342 (352)
                      .|.||+++.. ++...+.| |.     |.+|.+|+.+|+..  +.+||+|+
T Consensus         1 ~CrIC~~~~~-~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGD-EGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCC-CCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899999433 44445788 85     89999999999954  44799995

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

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

Probab=98.34  E-value=1.3e-07  Score=67.88  Aligned_cols=52  Identities=25%  Similarity=0.667  Sum_probs=25.7

Q ss_pred             ccccccccccccCCCe--eeeeC--CCCCeechhhHHHHHhc-----------CCcccccccccccC
Q 044813          297 DNTCPICLSRYKPKQT--LRTIP--KCNHYFHAYCIDKWLRM-----------NASCPVCRKRLRFK  348 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~~--~~~lp--~C~H~FH~~Ci~~Wl~~-----------~~~CP~Cr~~l~~~  348 (352)
                      +.+|.||++.+.+++.  ..+.+  .|++.||..||.+||..           ...||.|+++|..+
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~   68 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS   68 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence            4689999998763332  23332  69999999999999952           12499999998765

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.27  E-value=4.7e-07  Score=86.04  Aligned_cols=49  Identities=27%  Similarity=0.623  Sum_probs=42.0

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCccccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~  347 (352)
                      .....|+||++.|...   .+++ |+|.||..||..|+..+..||+||..+..
T Consensus        24 e~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~   72 (397)
T TIGR00599        24 DTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE   72 (397)
T ss_pred             ccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence            3567999999998764   3567 99999999999999988899999998754

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

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

Probab=98.23  E-value=4.6e-07  Score=79.76  Aligned_cols=51  Identities=29%  Similarity=0.719  Sum_probs=41.9

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHH-HHhcCCc-ccccccccccCC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDK-WLRMNAS-CPVCRKRLRFKS  349 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~-Wl~~~~~-CP~Cr~~l~~~~  349 (352)
                      ..+..|+||++.....   ..++ |||+|+..||.. |-+++.- ||+||+....+.
T Consensus       213 ~~d~kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         213 LADYKCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             ccccceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            3578999999986654   4566 999999999999 9877666 999999886654

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

Probab=98.19  E-value=4.8e-07  Score=85.61  Aligned_cols=52  Identities=33%  Similarity=0.806  Sum_probs=40.3

Q ss_pred             CCccccccccccccCCC--------------eeeeeCCCCCeechhhHHHHHh-cCCccccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQ--------------TLRTIPKCNHYFHAYCIDKWLR-MNASCPVCRKRLRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~--------------~~~~lp~C~H~FH~~Ci~~Wl~-~~~~CP~Cr~~l~~  347 (352)
                      .....|+||+.++.--.              .-..+| |.|+||..|+.+|.. .+-.||+||.+++.
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            34589999999874211              123567 999999999999998 56689999998863

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

Probab=98.18  E-value=1.4e-06  Score=55.99  Aligned_cols=34  Identities=29%  Similarity=0.818  Sum_probs=21.4

Q ss_pred             cccccccccCC-CeeeeeCCCCCeechhhHHHHHhcC
Q 044813          300 CPICLSRYKPK-QTLRTIPKCNHYFHAYCIDKWLRMN  335 (352)
Q Consensus       300 C~ICl~~~~~~-~~~~~lp~C~H~FH~~Ci~~Wl~~~  335 (352)
                      |+||+| |... ..-++|+ |||+|..+||+.+++++
T Consensus         1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~   35 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKS   35 (43)
T ss_dssp             -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-
T ss_pred             CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcC
Confidence            899999 7553 3457898 99999999999999753

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

Probab=97.98  E-value=1.4e-06  Score=88.16  Aligned_cols=54  Identities=28%  Similarity=0.771  Sum_probs=40.9

Q ss_pred             CCCccccccccccccCCC---eeeeeCCCCCeechhhHHHHHhc--CCccccccccccc
Q 044813          294 KPNDNTCPICLSRYKPKQ---TLRTIPKCNHYFHAYCIDKWLRM--NASCPVCRKRLRF  347 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~---~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CP~Cr~~l~~  347 (352)
                      -+...+||||+.-+..-|   +-...+.|.|.||..|+.+|++.  +.+||+||.+++.
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence            455689999998876322   12334469999999999999975  5579999987753

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

Probab=97.94  E-value=6e-06  Score=59.96  Aligned_cols=50  Identities=22%  Similarity=0.488  Sum_probs=38.5

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc-CCcccccccccccCC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRFKS  349 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l~~~~  349 (352)
                      ++..|+|+.+-|.+.   .++| +||.|-..+|..|+++ +.+||++++.+...+
T Consensus         3 ~~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~   53 (73)
T PF04564_consen    3 DEFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESD   53 (73)
T ss_dssp             GGGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred             cccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence            567999999998865   4677 9999999999999988 889999999887654

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 ....

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

Probab=97.94  E-value=3.4e-06  Score=79.33  Aligned_cols=49  Identities=45%  Similarity=0.969  Sum_probs=40.1

Q ss_pred             CCccccccccccccCCC-eeeeeCCCCCeechhhHHHHHhcCCcccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQ-TLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR  346 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~-~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~  346 (352)
                      -+-++|+||||.+.+.- .++... |.|.||..|+..|  ...+||+||.-..
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~  222 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS  222 (493)
T ss_pred             ccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence            45689999999998764 445566 9999999999999  5569999997554

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

Probab=97.91  E-value=6e-06  Score=79.23  Aligned_cols=49  Identities=35%  Similarity=0.796  Sum_probs=38.6

Q ss_pred             ccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc-----CCcccccccccccCC
Q 044813          297 DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-----NASCPVCRKRLRFKS  349 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-----~~~CP~Cr~~l~~~~  349 (352)
                      +..|+|||++.....   .+- |||+||..||-+.+..     ...||+||..+..++
T Consensus       186 ~~~CPICL~~~~~p~---~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd  239 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPV---RTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD  239 (513)
T ss_pred             CCcCCcccCCCCccc---ccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence            779999999865542   233 9999999999988853     346999999887754

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

Probab=97.65  E-value=2.8e-05  Score=71.68  Aligned_cols=49  Identities=27%  Similarity=0.686  Sum_probs=40.9

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCe-echhhHHHHHhcCCccccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHY-FHAYCIDKWLRMNASCPVCRKRLRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CP~Cr~~l~~  347 (352)
                      +...+|.|||++-.+   ..+|| |.|. .|..|.+.-.-+++.||+||+++..
T Consensus       288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE  337 (349)
T ss_pred             cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence            346799999998543   56899 9998 9999999987778899999998753

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

Probab=97.64  E-value=1.6e-05  Score=72.16  Aligned_cols=49  Identities=29%  Similarity=0.699  Sum_probs=42.8

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~  348 (352)
                      .-..|.||.|-|...   .++| |+|.||.-||...|..++.||.|+..+.+.
T Consensus        22 ~lLRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es   70 (442)
T KOG0287|consen   22 DLLRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTES   70 (442)
T ss_pred             HHHHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccchh
Confidence            346899999999875   5677 999999999999999999999999887654

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

Probab=97.50  E-value=3.4e-05  Score=71.62  Aligned_cols=45  Identities=38%  Similarity=0.886  Sum_probs=39.8

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR  342 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr  342 (352)
                      ..+...|+||++.|.+.   +++| |+|.|+..||..++.....||.||
T Consensus        10 ~~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr   54 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR   54 (386)
T ss_pred             ccccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence            34678999999999988   7888 999999999999988556799999

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

Probab=97.48  E-value=4.8e-05  Score=67.78  Aligned_cols=47  Identities=32%  Similarity=0.643  Sum_probs=40.1

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccc
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR  346 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~  346 (352)
                      ....|-||-+-+...   .+++ |||.|+.-||...|..+..||+||.+..
T Consensus        24 s~lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~   70 (391)
T COG5432          24 SMLRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPC   70 (391)
T ss_pred             hHHHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHH
Confidence            357899999888764   3455 9999999999999999999999998654

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

Probab=97.39  E-value=8.1e-05  Score=69.59  Aligned_cols=56  Identities=36%  Similarity=0.866  Sum_probs=42.7

Q ss_pred             CCccccccccccccCCC----eeeeeCCCCCeechhhHHHHH--hc-----CCcccccccccccCCC
Q 044813          295 PNDNTCPICLSRYKPKQ----TLRTIPKCNHYFHAYCIDKWL--RM-----NASCPVCRKRLRFKSP  350 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~----~~~~lp~C~H~FH~~Ci~~Wl--~~-----~~~CP~Cr~~l~~~~~  350 (352)
                      ..+.+|.||++-..+..    ...++|+|.|.|+..||..|-  ++     ...||.||.....-.|
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~p  225 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNP  225 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccccc
Confidence            46789999999976554    123457799999999999998  33     3579999987655443

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

Probab=97.38  E-value=2e-05  Score=72.15  Aligned_cols=53  Identities=45%  Similarity=0.721  Sum_probs=43.4

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc-CCcccccccccccCCC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRFKSP  350 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l~~~~~  350 (352)
                      ..+..|+|||+-++.-   +.+++|.|.|+.+||..-++. +..||.||+.+..+..
T Consensus        41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skrs   94 (381)
T KOG0311|consen   41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRS   94 (381)
T ss_pred             hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccccc
Confidence            4578999999988763   456679999999999999864 6789999998876654

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

Probab=97.33  E-value=4.7e-05  Score=50.23  Aligned_cols=46  Identities=22%  Similarity=0.662  Sum_probs=34.2

Q ss_pred             ccccccccccccCCCeeeeeCCCCCe-echhhHHHHHh-cCCcccccccccc
Q 044813          297 DNTCPICLSRYKPKQTLRTIPKCNHY-FHAYCIDKWLR-MNASCPVCRKRLR  346 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~-~~~~CP~Cr~~l~  346 (352)
                      +.+|.||+|.-.+.    ++-.|||. .+.+|-.+-++ .+..||+||+++.
T Consensus         7 ~dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            47999999985542    23239998 78888655444 6889999999874

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

Probab=97.28  E-value=5e-05  Score=75.93  Aligned_cols=52  Identities=29%  Similarity=0.616  Sum_probs=44.5

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCccccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~  347 (352)
                      .....|++||..+.++......+ |+|.||..||+.|-+.-.+||+||..+..
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~  172 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGE  172 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhe
Confidence            34578999999998877666666 99999999999999999999999987643

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

Probab=97.26  E-value=9.8e-05  Score=66.17  Aligned_cols=53  Identities=32%  Similarity=0.914  Sum_probs=44.0

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHh-----------------------cCCcccccccccccC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLR-----------------------MNASCPVCRKRLRFK  348 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-----------------------~~~~CP~Cr~~l~~~  348 (352)
                      .....|+|||--|.+++...+++ |.|-||..|+...|.                       .+..||+||..|.-.
T Consensus       113 ~p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e  188 (368)
T KOG4445|consen  113 HPNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE  188 (368)
T ss_pred             CCCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence            35679999999999999999998 999999999987763                       134599999887543

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

Probab=97.22  E-value=0.00021  Score=61.47  Aligned_cols=51  Identities=24%  Similarity=0.600  Sum_probs=42.9

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc--------CCccccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM--------NASCPVCRKRLRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--------~~~CP~Cr~~l~~  347 (352)
                      ....-|..|-..+.++|.+|+.  |.|+||++|+++|--.        ...||-|.+++-.
T Consensus        48 DY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             CCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            4567899999999999999876  9999999999999742        3459999987743

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

Probab=97.20  E-value=9.3e-05  Score=51.09  Aligned_cols=48  Identities=27%  Similarity=0.622  Sum_probs=23.6

Q ss_pred             ccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          297 DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      -..|++|.+-++++  +.+. +|.|+|+..||..-+.  ..||+|+.+.-.++
T Consensus         7 lLrCs~C~~~l~~p--v~l~-~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD   54 (65)
T PF14835_consen    7 LLRCSICFDILKEP--VCLG-GCEHIFCSSCIRDCIG--SECPVCHTPAWIQD   54 (65)
T ss_dssp             TTS-SSS-S--SS---B----SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred             hcCCcHHHHHhcCC--ceec-cCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence            35799999987765  3334 5999999999988544  35999988764443

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

Probab=97.19  E-value=0.00012  Score=59.61  Aligned_cols=33  Identities=27%  Similarity=0.647  Sum_probs=29.8

Q ss_pred             CCCCccccccccccccCCCeeeeeCCCCCeechh
Q 044813          293 PKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAY  326 (352)
Q Consensus       293 ~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~  326 (352)
                      .+.+..+|.||||+++.++++..|| |-.+||++
T Consensus       173 L~ddkGECvICLEdL~~GdtIARLP-CLCIYHK~  205 (205)
T KOG0801|consen  173 LKDDKGECVICLEDLEAGDTIARLP-CLCIYHKQ  205 (205)
T ss_pred             hcccCCcEEEEhhhccCCCceeccc-eEEEeecC
Confidence            3567789999999999999999999 99999974

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

Probab=97.17  E-value=0.00012  Score=68.06  Aligned_cols=54  Identities=24%  Similarity=0.743  Sum_probs=43.8

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc--CCcccccccccccCCCCC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM--NASCPVCRKRLRFKSPFV  352 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CP~Cr~~l~~~~~~~  352 (352)
                      +.-..|-||-|.   +..+++.| |||+.|..|+..|-..  .++||.||-++..-+++|
T Consensus       367 sTFeLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~vi  422 (563)
T KOG1785|consen  367 STFELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVI  422 (563)
T ss_pred             chHHHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecccccee
Confidence            345799999876   34578888 9999999999999732  678999999998777654

>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=96.94  E-value=0.00032  Score=56.10  Aligned_cols=38  Identities=24%  Similarity=0.518  Sum_probs=31.4

Q ss_pred             CccccccccccccCCCeeeeeCCCC------CeechhhHHHHHhc
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCN------HYFHAYCIDKWLRM  334 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~------H~FH~~Ci~~Wl~~  334 (352)
                      ...+|+||++.+.+.+.+..++ |+      |+||.+|++.|-+.
T Consensus        25 ~~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~   68 (134)
T PF05883_consen   25 CTVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRE   68 (134)
T ss_pred             cCeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhh
Confidence            3679999999999866677776 76      99999999999433

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.

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

Probab=96.74  E-value=0.00088  Score=71.14  Aligned_cols=53  Identities=26%  Similarity=0.718  Sum_probs=43.6

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC----------Cccccccccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN----------ASCPVCRKRLRF  347 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~----------~~CP~Cr~~l~~  347 (352)
                      ...++.|.||+.|-......+.|. |+|+||.+|...-|++.          -+||+|++++.+
T Consensus      3483 QD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             cccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            556789999999988778888897 99999999997766432          359999998754

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

Probab=96.71  E-value=0.00046  Score=64.10  Aligned_cols=47  Identities=38%  Similarity=0.868  Sum_probs=39.0

Q ss_pred             CccccccccccccCC-CeeeeeCCCCCeechhhHHHHHhcCC--ccccccc
Q 044813          296 NDNTCPICLSRYKPK-QTLRTIPKCNHYFHAYCIDKWLRMNA--SCPVCRK  343 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~-~~~~~lp~C~H~FH~~Ci~~Wl~~~~--~CP~Cr~  343 (352)
                      -+.-|..|=+.+..+ +.+..|| |.|+||..|+.+.|.++.  +||-||+
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            357899999888644 5678899 999999999999997654  5999984

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

Probab=96.64  E-value=0.0014  Score=42.96  Aligned_cols=40  Identities=38%  Similarity=1.077  Sum_probs=26.8

Q ss_pred             cccccccccCCCeeeeeCCCC-----CeechhhHHHHHh--cCCccccc
Q 044813          300 CPICLSRYKPKQTLRTIPKCN-----HYFHAYCIDKWLR--MNASCPVC  341 (352)
Q Consensus       300 C~ICl~~~~~~~~~~~lp~C~-----H~FH~~Ci~~Wl~--~~~~CP~C  341 (352)
                      |-||+++-.+.+.+ +.| |.     ...|.+|+.+|+.  .+.+|++|
T Consensus         1 CrIC~~~~~~~~~l-i~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPL-ISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-E-E-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCCce-ecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            67999997766533 455 53     3789999999996  45679987

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

Probab=96.59  E-value=0.00059  Score=68.92  Aligned_cols=49  Identities=27%  Similarity=0.672  Sum_probs=38.9

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc-CCcccccccccccC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l~~~  348 (352)
                      .-..|+.|-+.+++.    ++++|+|+||.+||..-+.. +..||.|...+...
T Consensus       642 ~~LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFgan  691 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAN  691 (698)
T ss_pred             hceeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence            347999999776652    44469999999999999954 66799999887544

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

Probab=96.54  E-value=0.0018  Score=44.33  Aligned_cols=43  Identities=26%  Similarity=0.633  Sum_probs=28.2

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc--CCcccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM--NASCPV  340 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CP~  340 (352)
                      .....|+|.+..|++  .++... |+|+|-++.|.+|+++  ...||+
T Consensus         9 ~~~~~CPiT~~~~~~--PV~s~~-C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFED--PVKSKK-CGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-SS--EEEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCChhhC--CcCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence            346799999999885  466554 9999999999999944  445998

>PHA02862 5L protein; Provisional

Probab=96.25  E-value=0.0027  Score=51.14  Aligned_cols=46  Identities=20%  Similarity=0.617  Sum_probs=33.8

Q ss_pred             ccccccccccccCCCeeeeeCCCC-----CeechhhHHHHHhc--CCccccccccccc
Q 044813          297 DNTCPICLSRYKPKQTLRTIPKCN-----HYFHAYCIDKWLRM--NASCPVCRKRLRF  347 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~~~~~lp~C~-----H~FH~~Ci~~Wl~~--~~~CP~Cr~~l~~  347 (352)
                      ...|-||+++-++  ..  -| |.     ..-|.+|+.+|++.  +..||+|+.+...
T Consensus         2 ~diCWIC~~~~~e--~~--~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          2 SDICWICNDVCDE--RN--NF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CCEEEEecCcCCC--Cc--cc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            3589999998433  22  45 53     56899999999954  5569999987643

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

Probab=96.14  E-value=0.0027  Score=61.24  Aligned_cols=52  Identities=35%  Similarity=0.707  Sum_probs=42.7

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      .++..|+||...+.+.-.  .+. |||.|+..|+.+|+..+..||.|+..+...+
T Consensus        19 ~~~l~C~~C~~vl~~p~~--~~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~   70 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDPVQ--TTT-CGHRFCAGCLLESLSNHQKCPVCRQELTQAE   70 (391)
T ss_pred             cccccCccccccccCCCC--CCC-CCCcccccccchhhccCcCCcccccccchhh
Confidence            467899999999877532  244 9999999999999999999999988775443

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

Probab=96.08  E-value=0.0037  Score=59.81  Aligned_cols=49  Identities=31%  Similarity=0.722  Sum_probs=41.7

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCccccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~  347 (352)
                      ..+.+|.||+.-+...   ..+| |||.|+..||+.-+.+..-||.||..+..
T Consensus        82 ~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence            5678999998887765   4567 99999999999988888889999988764

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.08  E-value=0.0047  Score=50.76  Aligned_cols=50  Identities=26%  Similarity=0.688  Sum_probs=35.5

Q ss_pred             CCCccccccccccccCCCeeeeeC-CCCC---eechhhHHHHHhc--CCccccccccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIP-KCNH---YFHAYCIDKWLRM--NASCPVCRKRLRF  347 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp-~C~H---~FH~~Ci~~Wl~~--~~~CP~Cr~~l~~  347 (352)
                      ...+..|-||.++-.  +..  -| .|..   .-|.+|++.|+..  ..+|++|+.+...
T Consensus         5 s~~~~~CRIC~~~~~--~~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i   60 (162)
T PHA02825          5 SLMDKCCWICKDEYD--VVT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI   60 (162)
T ss_pred             CCCCCeeEecCCCCC--Ccc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence            346789999998843  222  35 2444   5699999999954  4569999987643

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

Probab=96.07  E-value=0.0022  Score=65.32  Aligned_cols=50  Identities=34%  Similarity=0.791  Sum_probs=38.8

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC-------Cccccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN-------ASCPVCRK  343 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~-------~~CP~Cr~  343 (352)
                      .....+|.||++.+..-+.+=....|.|+||..||..|.++.       =.||-|..
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            345689999999998777654444599999999999998541       14999973

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

Probab=95.87  E-value=0.0065  Score=39.71  Aligned_cols=45  Identities=24%  Similarity=0.697  Sum_probs=22.2

Q ss_pred             cccccccccCCCeeeeeC-CCCCeechhhHHHHHh-cCCccccccccc
Q 044813          300 CPICLSRYKPKQTLRTIP-KCNHYFHAYCIDKWLR-MNASCPVCRKRL  345 (352)
Q Consensus       300 C~ICl~~~~~~~~~~~lp-~C~H~FH~~Ci~~Wl~-~~~~CP~Cr~~l  345 (352)
                      |++|.+++...+ ....| .|++..+..|...-++ .+..||-||++.
T Consensus         1 cp~C~e~~d~~d-~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETD-KDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCC-TT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCC-CccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            789999984433 23444 3899999999888875 578899999864

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

Probab=95.79  E-value=0.0059  Score=56.64  Aligned_cols=48  Identities=33%  Similarity=0.753  Sum_probs=35.3

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK  348 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~  348 (352)
                      ......|.||+++..+   ...+| |||+=+  |..-- +...+||+||+.+...
T Consensus       302 ~~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~~~  349 (355)
T KOG1571|consen  302 LPQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIRLV  349 (355)
T ss_pred             cCCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHHHH
Confidence            4456899999999665   56888 999944  54443 3456699999987643

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.72  E-value=0.0085  Score=52.54  Aligned_cols=56  Identities=18%  Similarity=0.349  Sum_probs=49.9

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCCCC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSPF  351 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~~~  351 (352)
                      ....|+||.+.+...-.+..|..|||+|..+|++..++.-..||+|-+++..++.+
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI  275 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDII  275 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceE
Confidence            56799999999999888888877999999999999999999999999988877654

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=95.52  E-value=0.0078  Score=40.29  Aligned_cols=49  Identities=24%  Similarity=0.643  Sum_probs=36.4

Q ss_pred             ccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCCCC
Q 044813          297 DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSPF  351 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~~~  351 (352)
                      ...|..|...   +..-.++| |+|+....|.+.+  +-+-||.|-+++...+|+
T Consensus         7 ~~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~~~~   55 (55)
T PF14447_consen    7 EQPCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFDDPF   55 (55)
T ss_pred             ceeEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCCCCC
Confidence            4456666544   33346788 9999999998886  556799999999887764

>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=94.89  E-value=0.019  Score=36.80  Aligned_cols=41  Identities=29%  Similarity=0.694  Sum_probs=24.2

Q ss_pred             cccccccccCCCeeeeeCCCCCeechhhHHHHHhcCC--ccccc
Q 044813          300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA--SCPVC  341 (352)
Q Consensus       300 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~--~CP~C  341 (352)
                      |.+|-+-...|....... |+=.+|..|++.+++.+.  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~-C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRD-CNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCc-cCchHHHHHHHHHHhcCCCCCCcCC
Confidence            678887777775544333 989999999999997655  79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=94.83  E-value=0.0077  Score=55.06  Aligned_cols=60  Identities=18%  Similarity=0.398  Sum_probs=43.9

Q ss_pred             ceeeccCCCCCCCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCccccccccc
Q 044813          283 KTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRL  345 (352)
Q Consensus       283 ~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l  345 (352)
                      ..++.++.+....+...|+||+..-+.+. +-.+  =|-+||..||-..+++++.||+=-.+.
T Consensus       286 h~~~~se~e~l~~~~~~CpvClk~r~Npt-vl~v--SGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  286 HKQYNSESELLPPDREVCPVCLKKRQNPT-VLEV--SGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             hhhcccccccCCCccccChhHHhccCCCc-eEEe--cceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            34444455555667899999999866643 2222  599999999999999999999854443

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

Probab=94.77  E-value=0.0065  Score=55.67  Aligned_cols=53  Identities=28%  Similarity=0.574  Sum_probs=43.4

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCCC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSP  350 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~~  350 (352)
                      ....+|.+|-.-|-+...+.   .|-|.||+.||...|....+||+|...+-.-.|
T Consensus        13 n~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~p   65 (331)
T KOG2660|consen   13 NPHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHP   65 (331)
T ss_pred             ccceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccCccc
Confidence            45689999988887765433   599999999999999999999999887755444

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

Probab=94.73  E-value=0.016  Score=54.72  Aligned_cols=37  Identities=22%  Similarity=0.669  Sum_probs=32.3

Q ss_pred             ccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc
Q 044813          297 DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM  334 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~  334 (352)
                      -..|.||+++..-.+....+| |+|+|++.|+...+..
T Consensus       184 lf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~  220 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTI  220 (445)
T ss_pred             cccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHH
Confidence            468999999976667888999 9999999999999853

>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=94.69  E-value=0.019  Score=44.58  Aligned_cols=33  Identities=24%  Similarity=0.657  Sum_probs=27.3

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHH
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCID  329 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~  329 (352)
                      .++..|++|-..+.. ....+-| |||+||..|++
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            456789999999887 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 [].

>PHA03096 p28-like protein; Provisional

Probab=94.64  E-value=0.015  Score=53.41  Aligned_cols=46  Identities=28%  Similarity=0.653  Sum_probs=33.4

Q ss_pred             cccccccccccCCC----eeeeeCCCCCeechhhHHHHHhc---CCccccccc
Q 044813          298 NTCPICLSRYKPKQ----TLRTIPKCNHYFHAYCIDKWLRM---NASCPVCRK  343 (352)
Q Consensus       298 ~~C~ICl~~~~~~~----~~~~lp~C~H~FH~~Ci~~Wl~~---~~~CP~Cr~  343 (352)
                      .+|.||++...+..    .--.|+.|.|.|+..||..|...   +.+||.||+
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            58999999976543    22357789999999999999843   233555543

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

Probab=94.45  E-value=0.003  Score=58.87  Aligned_cols=52  Identities=27%  Similarity=0.588  Sum_probs=44.7

Q ss_pred             CCccccccccccccCC-CeeeeeCCCCCeechhhHHHHHhcCCccccccccccc
Q 044813          295 PNDNTCPICLSRYKPK-QTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~-~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~  347 (352)
                      .-...|+||.+.+++. +.+..+- |||.+|.+||.+||.++..||-||+.|..
T Consensus       194 slv~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~  246 (465)
T KOG0827|consen  194 SLVGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPK  246 (465)
T ss_pred             HHHhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence            3457899999999877 6677776 99999999999999888899999998753

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

Probab=94.13  E-value=0.027  Score=46.95  Aligned_cols=52  Identities=31%  Similarity=0.722  Sum_probs=36.0

Q ss_pred             ccccccccccccCCC----eeeeeCCCCCeechhhHHHHHhc----C-------CcccccccccccCC
Q 044813          297 DNTCPICLSRYKPKQ----TLRTIPKCNHYFHAYCIDKWLRM----N-------ASCPVCRKRLRFKS  349 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~----~~~~lp~C~H~FH~~Ci~~Wl~~----~-------~~CP~Cr~~l~~~~  349 (352)
                      -..|.||+.--.+|.    ..--.+ ||.-||.-|+..||+.    .       ..||.|..++.+|-
T Consensus       165 ~~~cgicyayqldGTipDqtCdN~q-CgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm  231 (234)
T KOG3268|consen  165 LGACGICYAYQLDGTIPDQTCDNIQ-CGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM  231 (234)
T ss_pred             hhcccceeeeecCCccccccccccc-cCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence            456777765433331    222344 9999999999999963    1       34999999887764

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

Probab=94.06  E-value=0.035  Score=52.32  Aligned_cols=35  Identities=31%  Similarity=0.822  Sum_probs=25.1

Q ss_pred             CCeeeeeCCCCCeechhhHHHHHhc--CCcccccccc
Q 044813          310 KQTLRTIPKCNHYFHAYCIDKWLRM--NASCPVCRKR  344 (352)
Q Consensus       310 ~~~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CP~Cr~~  344 (352)
                      ++.....+.|||.|..+||+.||-+  +..||.|.-+
T Consensus        18 g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k   54 (463)
T KOG1645|consen   18 GNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK   54 (463)
T ss_pred             CceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence            3333333349999999999999943  3459999643

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

Probab=93.91  E-value=0.019  Score=48.75  Aligned_cols=46  Identities=26%  Similarity=0.559  Sum_probs=38.9

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCccccccccc
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRL  345 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l  345 (352)
                      -...|.||-++|+.+   .++ .|||.|+..|...-++....|-+|-+..
T Consensus       195 IPF~C~iCKkdy~sp---vvt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         195 IPFLCGICKKDYESP---VVT-ECGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             Cceeehhchhhccch---hhh-hcchhHHHHHHHHHhccCCcceecchhh
Confidence            457999999999876   234 4999999999999989999999997754

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

Probab=93.52  E-value=0.026  Score=54.74  Aligned_cols=50  Identities=26%  Similarity=0.672  Sum_probs=38.3

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc-----CCccccccccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-----NASCPVCRKRLRF  347 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-----~~~CP~Cr~~l~~  347 (352)
                      .....+|.+|.+.-++.   .... |.|.||.-||.+++..     +.+||.|-..|..
T Consensus       533 nk~~~~C~lc~d~aed~---i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi  587 (791)
T KOG1002|consen  533 NKGEVECGLCHDPAEDY---IESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI  587 (791)
T ss_pred             ccCceeecccCChhhhh---Hhhh-hhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence            45568999999875443   3454 9999999999999853     5679999886643

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

Probab=93.22  E-value=0.022  Score=51.32  Aligned_cols=42  Identities=24%  Similarity=0.680  Sum_probs=31.7

Q ss_pred             ccccccccccccCCCeeeeeCCCCCe-echhhHHHHHhcCCcccccccccc
Q 044813          297 DNTCPICLSRYKPKQTLRTIPKCNHY-FHAYCIDKWLRMNASCPVCRKRLR  346 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CP~Cr~~l~  346 (352)
                      +..|+||++.   ......|+ |||. -+.+|-+.    -+.||+||+.+.
T Consensus       300 ~~LC~ICmDa---P~DCvfLe-CGHmVtCt~CGkr----m~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDA---PRDCVFLE-CGHMVTCTKCGKR----MNECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcC---CcceEEee-cCcEEeehhhccc----cccCchHHHHHH
Confidence            6899999987   34467888 9998 56777443    247999998763

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

Probab=92.76  E-value=0.12  Score=46.41  Aligned_cols=50  Identities=24%  Similarity=0.575  Sum_probs=37.9

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc--CCcccccccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM--NASCPVCRKRLR  346 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CP~Cr~~l~  346 (352)
                      ...+.+|++|-+.-..+  ....+ |+|+||--||..-+..  .-+||.|-.+..
T Consensus       236 ~t~~~~C~~Cg~~PtiP--~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPTIP--HVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             ccCCceeeccCCCCCCC--eeecc-ccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            56678999998875543  33444 9999999999987643  357999987664

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

Probab=92.17  E-value=0.11  Score=48.16  Aligned_cols=49  Identities=29%  Similarity=0.576  Sum_probs=40.8

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR  346 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~  346 (352)
                      ..++..|+||...   +-.....| |+|.=+..||.+-+-..+.|=.|+..+.
T Consensus       419 ~sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  419 DSEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             CcccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceee
Confidence            5788999999875   23345677 9999999999999988899999988664

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

Probab=92.06  E-value=0.21  Score=46.19  Aligned_cols=49  Identities=27%  Similarity=0.632  Sum_probs=37.7

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHH--HhcCCcccccccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKW--LRMNASCPVCRKRLR  346 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~W--l~~~~~CP~Cr~~l~  346 (352)
                      .++...|.||-+.+.-   ..++| |+|..+.-|--.-  |-.+..||+||.++.
T Consensus        58 DEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e  108 (493)
T COG5236          58 DEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTETE  108 (493)
T ss_pred             ccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccccc
Confidence            4566799999887543   46788 9999999997543  456788999998764

>PF04641 Rtf2: Rtf2 RING-finger

Probab=91.82  E-value=0.19  Score=45.75  Aligned_cols=55  Identities=18%  Similarity=0.469  Sum_probs=42.5

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      ......|+|...+|........+-.|||+|-.++|++- +....||+|-.++...+
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D  164 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED  164 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence            45678999999999655555444349999999999997 33567999999887554

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=91.69  E-value=0.22  Score=33.39  Aligned_cols=45  Identities=24%  Similarity=0.708  Sum_probs=35.9

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccc--cccc
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPV--CRKR  344 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~--Cr~~  344 (352)
                      ....|.+|-+.|.+++.+.+.|.|+-.+|.+|-+.    ...|-.  |...
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~   50 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG   50 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence            45689999999998898999999999999999543    455655  5443

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

Probab=91.35  E-value=0.1  Score=47.46  Aligned_cols=44  Identities=30%  Similarity=0.805  Sum_probs=37.1

Q ss_pred             ccccccccccCCC-eeeeeCCCCCeechhhHHHHHhcCCccccccc
Q 044813          299 TCPICLSRYKPKQ-TLRTIPKCNHYFHAYCIDKWLRMNASCPVCRK  343 (352)
Q Consensus       299 ~C~ICl~~~~~~~-~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~  343 (352)
                      -|+||.+.+-... .+..++ |||.-|..|+.+....+-+||+|.+
T Consensus       160 ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  160 NCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence            3999999976655 345666 9999999999999888889999987

>PF04478 Mid2: Mid2 like cell wall stress sensor; InterPro: IPR007567 This family represents a region near the C terminus of Mid2, which contains a transmembrane region

Probab=90.74  E-value=0.38  Score=39.50  Aligned_cols=37  Identities=27%  Similarity=0.260  Sum_probs=23.2

Q ss_pred             CCCCccceEEeeehhhhhHHHHHhhheeeeEeecccC
Q 044813          214 KESVKYDAIIIGIGFGTPGALFIIALGCYLCSKVWTH  250 (352)
Q Consensus       214 ~~~~~~~i~~i~i~~~~~~~i~~~~l~~~~~~~~r~~  250 (352)
                      +...+..++.+++++|+.+++.++++++++|.|.++.
T Consensus        44 S~knknIVIGvVVGVGg~ill~il~lvf~~c~r~kkt   80 (154)
T PF04478_consen   44 SSKNKNIVIGVVVGVGGPILLGILALVFIFCIRRKKT   80 (154)
T ss_pred             CcCCccEEEEEEecccHHHHHHHHHhheeEEEecccC
Confidence            3444556666667777777777677776666655543

The remainder of the protein sequence is serine-rich and of low complexity, and is therefore impossible to align accurately. Mid2 is thought to act as a mechanosensor of cell wall stress. The C-terminal cytoplasmic region of Mid2 is known to interact with Rom2, a guanine nucleotide exchange factor (GEF) for Rho1, which is part of the cell wall integrity signalling pathway [].

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

Probab=90.74  E-value=0.11  Score=47.13  Aligned_cols=46  Identities=28%  Similarity=0.572  Sum_probs=38.4

Q ss_pred             ccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccc
Q 044813          297 DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR  346 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~  346 (352)
                      ...|-||...|..+   .++ +|+|-|+..|-..=+++...|++|-++..
T Consensus       241 Pf~c~icr~~f~~p---Vvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~  286 (313)
T KOG1813|consen  241 PFKCFICRKYFYRP---VVT-KCGHYFCEVCALKPYQKGEKCYVCSQQTH  286 (313)
T ss_pred             Cccccccccccccc---hhh-cCCceeehhhhccccccCCcceecccccc
Confidence            46799999999876   233 49999999999988888899999987653

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

Probab=88.67  E-value=0.24  Score=50.36  Aligned_cols=22  Identities=36%  Similarity=0.999  Sum_probs=20.7

Q ss_pred             CCCeechhhHHHHHhcCCcccc
Q 044813          319 CNHYFHAYCIDKWLRMNASCPV  340 (352)
Q Consensus       319 C~H~FH~~Ci~~Wl~~~~~CP~  340 (352)
                      |+|+-|..|..+|++.+-.||-
T Consensus      1048 C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1048 CGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             ccccccHHHHHHHHhcCCcCCC
Confidence            9999999999999999989984

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

Probab=87.91  E-value=0.38  Score=45.53  Aligned_cols=30  Identities=27%  Similarity=0.871  Sum_probs=21.8

Q ss_pred             CCCeechhhHHHHHhc-------------CCcccccccccccC
Q 044813          319 CNHYFHAYCIDKWLRM-------------NASCPVCRKRLRFK  348 (352)
Q Consensus       319 C~H~FH~~Ci~~Wl~~-------------~~~CP~Cr~~l~~~  348 (352)
                      |.-+.|.+|+.+|+-.             +..||+||+.+...
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCil  353 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCIL  353 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceee
Confidence            3445679999999832             34699999987543

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

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

Probab=87.84  E-value=0.3  Score=44.24  Aligned_cols=46  Identities=30%  Similarity=0.733  Sum_probs=34.4

Q ss_pred             cccccccccccCCCeeeeeCCCCCeechhhHHHHH-hcCCcccccc-cccc
Q 044813          298 NTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWL-RMNASCPVCR-KRLR  346 (352)
Q Consensus       298 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl-~~~~~CP~Cr-~~l~  346 (352)
                      ..|+.|-.-+...  ++ +|.|+|.|+.+||..-| ..-..||.|. +++.
T Consensus       275 LkCplc~~Llrnp--~k-T~cC~~~fc~eci~~al~dsDf~CpnC~rkdvl  322 (427)
T COG5222         275 LKCPLCHCLLRNP--MK-TPCCGHTFCDECIGTALLDSDFKCPNCSRKDVL  322 (427)
T ss_pred             ccCcchhhhhhCc--cc-CccccchHHHHHHhhhhhhccccCCCcccccch
Confidence            7899997765543  33 36699999999999776 5667899994 4443

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

Probab=87.35  E-value=0.16  Score=52.33  Aligned_cols=46  Identities=35%  Similarity=0.756  Sum_probs=36.3

Q ss_pred             cccccccccccCCCeeeeeCCCCCeechhhHHHHHhc--CCcccccccccccC
Q 044813          298 NTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM--NASCPVCRKRLRFK  348 (352)
Q Consensus       298 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CP~Cr~~l~~~  348 (352)
                      ..|.||++    .+....++ |+|.|+.+|+.+-++.  ...||+||..+..+
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~  502 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEK  502 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHH
Confidence            69999999    34555676 9999999999988743  33599999877554

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

Probab=87.01  E-value=0.44  Score=48.92  Aligned_cols=54  Identities=26%  Similarity=0.764  Sum_probs=40.8

Q ss_pred             CCCccccccccccccCCCeeeeeCCCC-----CeechhhHHHHHhc--CCcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCN-----HYFHAYCIDKWLRM--NASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~-----H~FH~~Ci~~Wl~~--~~~CP~Cr~~l~~~~  349 (352)
                      ..++..|-||..|=..++++- -| |.     .-.|.+|+.+|+.-  ...|-+|+.++..++
T Consensus         9 N~d~~~CRICr~e~~~d~pLf-hP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~   69 (1175)
T COG5183           9 NEDKRSCRICRTEDIRDDPLF-HP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD   69 (1175)
T ss_pred             CccchhceeecCCCCCCCcCc-cc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence            456689999999977777653 44 53     23899999999954  455999998887654

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

Probab=86.43  E-value=0.31  Score=50.34  Aligned_cols=43  Identities=23%  Similarity=0.661  Sum_probs=31.7

Q ss_pred             ccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCccccccccc
Q 044813          297 DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRL  345 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l  345 (352)
                      ...|..|-..++-+  ...-. |||.||.+|+.   .+...||-|+-++
T Consensus       840 ~skCs~C~~~LdlP--~VhF~-CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  840 VSKCSACEGTLDLP--FVHFL-CGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeeecccCCccccc--eeeee-cccHHHHHhhc---cCcccCCccchhh
Confidence            36899997776654  33343 99999999998   4556799998643

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

Probab=86.00  E-value=0.22  Score=53.69  Aligned_cols=46  Identities=26%  Similarity=0.725  Sum_probs=38.1

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRK  343 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~  343 (352)
                      .....|.||++.+.....+.   .|||.++..|+..|+..+..||+|+.
T Consensus      1151 ~~~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             hcccchHHHHHHHHhcCCee---eechhHhhhHHHHHHHHhccCcchhh
Confidence            34479999999988543332   39999999999999999999999974

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

Probab=85.77  E-value=0.29  Score=44.65  Aligned_cols=43  Identities=30%  Similarity=0.643  Sum_probs=29.5

Q ss_pred             ccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccc
Q 044813          299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR  346 (352)
Q Consensus       299 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~  346 (352)
                      -|.-|--.  ..-.-|++| |+|+||.+|-..  ..-+.||.|-..+.
T Consensus        92 fCd~Cd~P--I~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   92 FCDRCDFP--IAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQ  134 (389)
T ss_pred             eecccCCc--ceeeecccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence            46666333  334558898 999999999654  23558999976553

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

Probab=85.49  E-value=0.37  Score=50.07  Aligned_cols=36  Identities=25%  Similarity=0.615  Sum_probs=28.1

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHH
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWL  332 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl  332 (352)
                      ..+.+|.+|--.+... .-.+-| |||.||++||..-.
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            4568999998887664 445667 99999999997654

>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=84.98  E-value=0.46  Score=30.75  Aligned_cols=30  Identities=37%  Similarity=0.871  Sum_probs=21.8

Q ss_pred             C-CCeechhhHHHHHhcCCcccccccccccC
Q 044813          319 C-NHYFHAYCIDKWLRMNASCPVCRKRLRFK  348 (352)
Q Consensus       319 C-~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~  348 (352)
                      | .|-.+..|+...+.....||+|..+++.+
T Consensus        18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen   18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             -SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             ecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            7 59999999999999999999999998764

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.

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

Probab=84.94  E-value=0.56  Score=43.46  Aligned_cols=44  Identities=25%  Similarity=0.739  Sum_probs=34.7

Q ss_pred             CCccccccccccccCCCeeeeeCCC--CCeechhhHHHHHhcCCcccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKC--NHYFHAYCIDKWLRMNASCPVCRKRLR  346 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C--~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~  346 (352)
                      .+-.+|+||.+.+...    +.+ |  ||+-+..|=.   +....||.||.++.
T Consensus        46 ~~lleCPvC~~~l~~P----i~Q-C~nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   46 LDLLDCPVCFNPLSPP----IFQ-CDNGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             hhhccCchhhccCccc----cee-cCCCcEehhhhhh---hhcccCCccccccc
Confidence            4568999999998876    333 6  7999999965   35678999999876

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=83.54  E-value=0.71  Score=42.66  Aligned_cols=52  Identities=21%  Similarity=0.703  Sum_probs=34.9

Q ss_pred             CCccccccccccccCCCe-eeeeCCCCCeechhhHHHHHh-cCCccccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQT-LRTIPKCNHYFHAYCIDKWLR-MNASCPVCRKRLRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~-~~~lp~C~H~FH~~Ci~~Wl~-~~~~CP~Cr~~l~~  347 (352)
                      .+++.|+.|+|++...|. ..-.| ||-..+.-|-..--+ -+..||-||+....
T Consensus        12 deed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~d   65 (480)
T COG5175          12 DEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDD   65 (480)
T ss_pred             cccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence            356679999999876553 33455 887766666433321 36789999986644

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.00  E-value=0.65  Score=41.30  Aligned_cols=53  Identities=23%  Similarity=0.707  Sum_probs=35.5

Q ss_pred             CCCccccccccccccCCCee-eeeCCC-----CCeechhhHHHHHhcC--------Cccccccccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTL-RTIPKC-----NHYFHAYCIDKWLRMN--------ASCPVCRKRLRF  347 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~-~~lp~C-----~H~FH~~Ci~~Wl~~~--------~~CP~Cr~~l~~  347 (352)
                      .+.+..|-||+.-=++.... =+-| |     .|=.|..|+..|+.++        -+||.|+.+..-
T Consensus        17 ~e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii   83 (293)
T KOG3053|consen   17 QELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII   83 (293)
T ss_pred             cccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence            45678999999874443211 1234 5     3779999999999432        249999876543

>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]

Probab=81.46  E-value=0.86  Score=42.52  Aligned_cols=48  Identities=29%  Similarity=0.801  Sum_probs=35.5

Q ss_pred             ccccccccccccCCCe-eeeeCCCC-----CeechhhHHHHHh--cCCccccccccc
Q 044813          297 DNTCPICLSRYKPKQT-LRTIPKCN-----HYFHAYCIDKWLR--MNASCPVCRKRL  345 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~~-~~~lp~C~-----H~FH~~Ci~~Wl~--~~~~CP~Cr~~l  345 (352)
                      +..|-||.++..+... ....| |.     +..|..|++.|+.  .+..|.+|....
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~  133 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF  133 (323)
T ss_pred             CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence            5789999998765432 33455 63     5679999999996  456699998754

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

Probab=81.12  E-value=0.43  Score=47.76  Aligned_cols=43  Identities=28%  Similarity=0.639  Sum_probs=32.0

Q ss_pred             ccccccccccccCCCee-eeeCCCCCeechhhHHHHHhcCCccccccc
Q 044813          297 DNTCPICLSRYKPKQTL-RTIPKCNHYFHAYCIDKWLRMNASCPVCRK  343 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~~~-~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~  343 (352)
                      -..|.||+..|....-. +.+. |||..+..|+..-.  +.+|| |++
T Consensus        11 ~l~c~ic~n~f~~~~~~Pvsl~-cghtic~~c~~~ly--n~scp-~~~   54 (861)
T KOG3161|consen   11 LLLCDICLNLFVVQRLEPVSLQ-CGHTICGHCVQLLY--NASCP-TKR   54 (861)
T ss_pred             HhhchHHHHHHHHHhcCccccc-ccchHHHHHHHhHh--hccCC-CCc
Confidence            45799999998765432 3454 99999999998864  56888 654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	352
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		5e-09
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		1e-07
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		1e-07
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		2e-06
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		3e-06
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		4e-05
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		4e-04
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		4e-04
4ayc_A	138	Rnf8 Ring Domain Structure Length = 138		4e-04

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

Iteration: 1
 Score = 58.5 bits (140), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 28/65 (43%), Positives = 41/65 (63%), Gaps = 10/65 (15%)
Query: 287 GVSGRQPK----PNDNT-----CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNAS 337
           G SG+ P     PN++      C +C+  ++ +Q LR +P CNH FHA C+DKWL+ N +
Sbjct: 4   GSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRT 62
Query: 338 CPVCR 342
           CP+CR
Sbjct: 63  CPICR 67

>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 = 54.3 bits (129), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 23/49 (46%), Positives = 30/49 (61%), Gaps = 1/49 (2%)
Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
           CP+C   Y   +++R +P CNH FH  CI  WL  + SCPVCRK L  +
Sbjct: 18  CPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQ 65

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/43 (41%), Positives = 29/43 (67%)
Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
           C +CL+  +  +  R +P+C H FHA C+D WL  +++CP+CR
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

>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 = 49.7 bits (117), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 26/72 (36%), Positives = 39/72 (54%), Gaps = 10/72 (13%)
Query: 275 KPTIESYPKTIV----GVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDK 330
           K +I++ P+ +V    G  G++       CPIC S Y        +P C+HYFH  C+  
Sbjct: 19  KESIDALPEILVTEDHGAVGQE-----MCCPICCSEYVKGDVATELP-CHHYFHKPCVSI 72
Query: 331 WLRMNASCPVCR 342
           WL+ + +CPVCR
Sbjct: 73  WLQKSGTCPVCR 84

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 21/51 (41%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSP 350
           C ICLS  +  + +R +P C H FH  C+D+WL  N  CP+CR  +  + P
Sbjct: 17  CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQLP 66

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 22/56 (39%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 287 GVSGRQPKPN-DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVC 341
           G SG+  + N    C +CL  +KP+  L   P C H FH  C+ KWL +   CP+C
Sbjct: 4   GSSGKVKELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58

>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure Length = 138

Iteration: 1
 Score = 42.4 bits (98), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS 349
            N+  C IC   +    TL     C H F +YCI++W++    CP+CRK ++ K+
Sbjct: 51  ENELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDIKSKT 101

>pdb|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HETERODIMER Length = 149

Iteration: 1
 Score = 42.4 bits (98), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS 349
            N+  C IC   +    TL     C H F +YCI++W++    CP+CRK ++ K+
Sbjct: 62  ENELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDIKSKT 112

>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure Length = 138

Iteration: 1
 Score = 42.4 bits (98), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS 349
            N+  C IC   +    TL     C H F +YCI++W++    CP+CRK ++ K+
Sbjct: 51  ENELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDIKSKT 101

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	352
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	2e-21
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	4e-21
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-20
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	3e-19
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	4e-19
2ect_A	78	Ring finger protein 126; metal binding protein, st	2e-17
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	3e-17
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-16
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	3e-14
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	3e-13
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-12
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	9e-12
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-11
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	4e-11
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-10
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	6e-10
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-09
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-09
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	3e-09
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	3e-09
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-08
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	3e-08
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	4e-08
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	6e-08
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	7e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	4e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	6e-05
3nw0_A	238	Non-structural maintenance of chromosomes element	1e-06
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	3e-06
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	4e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	4e-06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-05
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	1e-05
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	1e-05
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	2e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	2e-05
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	2e-05
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	3e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	3e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	4e-05
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	4e-05
1z6u_A	150	NP95-like ring finger protein isoform B; structura	5e-05
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	5e-05
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	7e-05
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	8e-05
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-04
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	2e-04
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	3e-04
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	3e-04
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	3e-04
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	4e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	6e-04

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

 Score = 85.8 bits (213), Expect = 2e-21
 Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 3/72 (4%)

Query: 275 KPTIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM 334
             +    P      +    +     C +C+  ++ +Q LR +P CNH FHA C+DKWL+ 
Sbjct: 3   SGSSGQLP--SYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKA 59

Query: 335 NASCPVCRKRLR 346
           N +CP+CR    
Sbjct: 60  NRTCPICRADSG 71

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

 Score = 84.6 bits (210), Expect = 4e-21
 Identities = 18/50 (36%), Positives = 31/50 (62%)

Query: 296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRL 345
           +   C +CL+  +  +  R +P+C H FHA C+D WL  +++CP+CR  +
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 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 = 83.9 bits (208), Expect = 2e-20
 Identities = 24/73 (32%), Positives = 36/73 (49%), Gaps = 2/73 (2%)

Query: 273 LDKPTIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWL 332
             K +I++ P+ +V          +  CPIC S Y        +P C+HYFH  C+  WL
Sbjct: 17  ASKESIDALPEILVTEDHGAVG-QEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWL 74

Query: 333 RMNASCPVCRKRL 345
           + + +CPVCR   
Sbjct: 75  QKSGTCPVCRCMF 87

>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 = 79.7 bits (197), Expect = 3e-19
 Identities = 21/55 (38%), Positives = 31/55 (56%), Gaps = 1/55 (1%)

Query: 296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSP 350
            +  C ICLS  +  + +R +P C H FH  C+D+WL  N  CP+CR  +  + P
Sbjct: 13  TEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQLP 66

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

 Score = 79.4 bits (196), Expect = 4e-19
 Identities = 22/60 (36%), Positives = 32/60 (53%), Gaps = 2/60 (3%)

Query: 287 GVSGRQPKPNDN-TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRL 345
           G SG+  + N +  C +CL  +KP+  L   P C H FH  C+ KWL +   CP+C   +
Sbjct: 4   GSSGKVKELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPV 62

>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 = 75.2 bits (185), Expect = 2e-17
 Identities = 23/50 (46%), Positives = 30/50 (60%), Gaps = 1/50 (2%)

Query: 296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRL 345
           +   CP+C   Y   +++R +P CNH FH  CI  WL  + SCPVCRK L
Sbjct: 14  SGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL 62

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

 Score = 74.6 bits (183), Expect = 3e-17
 Identities = 14/52 (26%), Positives = 26/52 (50%)

Query: 297 DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
            + C  C +  K +  +    +CNH FH  C+  W++ N  CP+C++    +
Sbjct: 26  MDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ 77

>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 = 71.1 bits (175), Expect = 2e-16
 Identities = 13/48 (27%), Positives = 21/48 (43%)

Query: 296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRK 343
             + CPICL      + +  +  C H  H  C ++ L+    CP+C  
Sbjct: 4   GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSG 51

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

 Score = 66.3 bits (162), Expect = 3e-14
 Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 5/50 (10%)

Query: 296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRL 345
           ++  C IC+           +P C H F   CIDKW   + +CP+CR ++
Sbjct: 14  DEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQM 58

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

 Score = 63.2 bits (154), Expect = 3e-13
 Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 3/50 (6%)

Query: 297 DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR 346
              CPICL    P      +P C H F   CI +W+R N +CP+C+  + 
Sbjct: 5   AERCPICLE--DPSNYSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVE 51

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

 Score = 61.5 bits (149), Expect = 1e-12
 Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 4/64 (6%)

Query: 289 SGRQPKPNDN-TCPICLSRYKPKQTLR---TIPKCNHYFHAYCIDKWLRMNASCPVCRKR 344
           SG   +P+   +CPIC+  Y             +C H F + C+   L+   +CP CRK+
Sbjct: 6   SGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 65

Query: 345 LRFK 348
           +  K
Sbjct: 66  INHK 69

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

 Score = 59.0 bits (143), Expect = 9e-12
 Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 3/54 (5%)

Query: 299 TCPICLSRYKPKQTLRTIP---KCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS 349
           +CPIC+  Y        +    +C H F + C+   L+   +CP CRK++  K 
Sbjct: 5   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 58

>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 = 57.9 bits (140), Expect = 2e-11
 Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 4/66 (6%)

Query: 287 GVSGRQPKPNDNTCPICLSRYKPKQTLRTIP---KCNHYFHAYCIDKWLRMNASCPVCRK 343
           G +G +P     +CPIC+  Y        +    +C H F + C+   L+   +CP CRK
Sbjct: 1   GTTGLRPSGTV-SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 59

Query: 344 RLRFKS 349
           ++  K 
Sbjct: 60  KINHKR 65

>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 = 58.3 bits (140), Expect = 4e-11
 Identities = 13/55 (23%), Positives = 22/55 (40%)

Query: 294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
                 C    +    ++       CNH FH +CI +WL+    CP+  +   F+
Sbjct: 48  MDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQ 102

>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 = 56.8 bits (136), Expect = 2e-10
 Identities = 13/55 (23%), Positives = 22/55 (40%)

Query: 294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
                 C    +    ++       CNH FH +CI +WL+    CP+  +   F+
Sbjct: 59  MDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQ 113

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

 Score = 54.5 bits (131), Expect = 6e-10
 Identities = 15/56 (26%), Positives = 22/56 (39%), Gaps = 6/56 (10%)

Query: 289 SGRQPKPNDNTCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRK 343
            G + +     C IC   ++ P  T     KC HYF   C  +  R    C +C +
Sbjct: 7   GGSEEEEIPFRCFICRQAFQNPVVT-----KCRHYFCESCALEHFRATPRCYICDQ 57

>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 = 53.7 bits (129), Expect = 1e-09
 Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 4/52 (7%)

Query: 299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWL-RMNASCPVCRKRLRFKS 349
            C IC+ + +     R  P C+      CI +WL    A CP CR  L+ + 
Sbjct: 24  RCFICMEKLR---DARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRE 72

>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 = 14/52 (26%), Positives = 18/52 (34%), Gaps = 3/52 (5%)

Query: 299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSP 350
            C IC        T   I +C H F   CI +    +  CP C   +    P
Sbjct: 17  LCSICKGYLIDATT---ITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQP 65

>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 = 51.9 bits (124), Expect = 3e-09
 Identities = 19/67 (28%), Positives = 26/67 (38%), Gaps = 6/67 (8%)

Query: 287 GVSGRQPKPND-NTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM--NASCPVCRK 343
           G SGR+  P+    C IC S     Q+  T   C    H  C+ K+ +      CP C  
Sbjct: 4   GSSGRETYPDAVKICNICHSLLIQGQSCET---CGIRMHLPCVAKYFQSNAEPRCPHCND 60

Query: 344 RLRFKSP 350
               + P
Sbjct: 61  YWPHEIP 67

>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 = 52.9 bits (127), Expect = 3e-09
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 3/53 (5%)

Query: 299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSPF 351
            C +C   +       TI +C H F   CI ++L  +  CP+C  ++    P 
Sbjct: 17  MCVLCGGYFI---DATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPL 66

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

 Score = 52.0 bits (124), Expect = 2e-08
 Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 4/55 (7%)

Query: 296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSP 350
           N+  C IC   +    TL     C H F +YCI++W++    CP+CRK ++ K+ 
Sbjct: 63  NELQCIICSEYFIEAVTL----NCAHSFCSYCINEWMKRKIECPICRKDIKSKTY 113

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

 Score = 50.1 bits (120), Expect = 3e-08
 Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 5/49 (10%)

Query: 299 TCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR 346
            C IC   +         IP+C+H + + CI K+L     CP C   + 
Sbjct: 24  RCGICFEYFNIA----MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVT 68

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

 Score = 53.3 bits (127), Expect = 4e-08
 Identities = 13/68 (19%), Positives = 23/68 (33%), Gaps = 15/68 (22%)

Query: 296 NDNTCPICLSRYKPKQTLRTI----PKCNHYFHAYCIDKWLRMNAS-----------CPV 340
            +  C IC +       +  +     KC    HA C+++W +               CP 
Sbjct: 307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPF 366

Query: 341 CRKRLRFK 348
           C+ +L   
Sbjct: 367 CKAKLSTS 374

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

 Score = 48.3 bits (115), Expect = 6e-08
 Identities = 13/58 (22%), Positives = 18/58 (31%), Gaps = 6/58 (10%)

Query: 289 SGRQPKPNDNTCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRL 345
               P      C ICL     P         C H F   C+     +   C +CR+ +
Sbjct: 7   GNTAPSLTVPECAICLQTCVHPVSL-----PCKHVFCYLCVKGASWLGKRCALCRQEI 59

>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 = 49.5 bits (117), Expect = 7e-08
 Identities = 13/68 (19%), Positives = 22/68 (32%), Gaps = 19/68 (27%)

Query: 295 PNDNTCPICL--------------SRYKPKQTLRTIPKCNHYFHAYCIDKWLR-----MN 335
             +  C IC+              S+      +  + KC+H FH  C+           +
Sbjct: 23  APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGS 82

Query: 336 ASCPVCRK 343
             CP C+ 
Sbjct: 83  LQCPSCKT 90

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

 Score = 47.9 bits (113), Expect = 4e-07
 Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 3/59 (5%)

Query: 296 NDNTCPICLSRYKPKQTLRTIP---KCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSPF 351
              +CPIC+  Y        +    +C H F + C+   L+   +CP CRK++  K   
Sbjct: 6   GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH 64

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

 Score = 41.3 bits (96), Expect = 6e-05
 Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 3/50 (6%)

Query: 300 CPICLSRYK---PKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR 346
           CPIC+  Y        L    +C H F + C+   L+   +CP CRK++ 
Sbjct: 75  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 124

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

 Score = 48.2 bits (114), Expect = 1e-06
 Identities = 14/57 (24%), Positives = 19/57 (33%), Gaps = 5/57 (8%)

Query: 296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM--NASCPVCRKRLRFKSP 350
               C IC S     Q+  T   C    H  C+ K+ +      CP C      + P
Sbjct: 179 AVKICNICHSLLIQGQSCET---CGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIP 232

>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 = 44.9 bits (106), Expect = 3e-06
 Identities = 10/51 (19%), Positives = 17/51 (33%), Gaps = 5/51 (9%)

Query: 299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS 349
            C  C +  +       +  C H F + C+   +     CPVC      + 
Sbjct: 24  RCSRCTNILR---EPVCLGGCEHIFCSNCVSDCI--GTGCPVCYTPAWIQD 69

>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 = 45.4 bits (107), Expect = 4e-06
 Identities = 23/55 (41%), Positives = 25/55 (45%), Gaps = 6/55 (10%)

Query: 299 TCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWLR-MNASCPVCRKRLRFKSPF 351
            CPICL   K       T  +C H F A CI   LR  N  CP CRK+L  K   
Sbjct: 56  MCPICLDMLKNT----MTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSL 106

>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 = 43.2 bits (102), Expect = 4e-06
 Identities = 14/59 (23%), Positives = 20/59 (33%), Gaps = 7/59 (11%)

Query: 291 RQPKPNDNTCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWLRM--NASCPVCRKRLR 346
             P P++  C IC             IP C + +   CI   L      +CP C +   
Sbjct: 9   DDPIPDELLCLICKDIMTDAV----VIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV 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 = 45.9 bits (108), Expect = 1e-05
 Identities = 15/58 (25%), Positives = 18/58 (31%), Gaps = 5/58 (8%)

Query: 296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLR-MNASCPVCRKRLRFKSPFV 352
               C IC    K       I  C H     C+  W       CP CR  ++   P V
Sbjct: 331 TFQLCKICAENDKDV----KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIV 384

>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 = 43.0 bits (101), Expect = 1e-05
 Identities = 14/49 (28%), Positives = 16/49 (32%), Gaps = 5/49 (10%)

Query: 299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA-SCPVCRKRLR 346
            C  C        T      C H     C+D+  R    SCP CR  L 
Sbjct: 54  QCICCQELVFRPITT----VCQHNVCKDCLDRSFRAQVFSCPACRYDLG 98

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

 Score = 41.3 bits (97), Expect = 1e-05
 Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 7/57 (12%)

Query: 292 QPKPNDNTCPICLSR-YKPKQTLRTIPKCNHYFHAYCIDKWLR-MNASCPVCRKRLR 346
           +   +   C  C      PKQT     +C H F   C+   L   +  C  C++ + 
Sbjct: 10  KTVEDKYKCEKCHLVLCSPKQT-----ECGHRFCESCMAALLSSSSPKCTACQESIV 61

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

 Score = 41.1 bits (96), Expect = 2e-05
 Identities = 15/53 (28%), Positives = 22/53 (41%), Gaps = 2/53 (3%)

Query: 296 NDNTCPICLS-RYKPKQTLRTIPKCNHYFHAYCIDKWL-RMNASCPVCRKRLR 346
           +D  CP C + +Y+       +  C H     C+D    R   +CP C   LR
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR 54

>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 = 15/59 (25%), Positives = 22/59 (37%), Gaps = 7/59 (11%)

Query: 289 SGRQPKPNDNTCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWLRMN--ASCPVCRKR 344
           S   P P++  C IC             IP C + +   CI   L  +   +CP C + 
Sbjct: 5   SEDDPIPDELLCLICKDIMTDAV----VIPCCGNSYCDECIRTALLESDEHTCPTCHQN 59

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

 Score = 41.4 bits (97), Expect = 2e-05
 Identities = 12/62 (19%), Positives = 24/62 (38%), Gaps = 5/62 (8%)

Query: 296 NDNTCPICLSRYKPKQTLRTIPKCN---HYFHAYCIDKWLRM--NASCPVCRKRLRFKSP 350
           + + C IC      +  L T   C    H+ H  C+ +W++      C +C+     ++ 
Sbjct: 14  SQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMETK 73

Query: 351 FV 352
             
Sbjct: 74  LS 75

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

 Score = 41.2 bits (97), Expect = 3e-05
 Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 3/48 (6%)

Query: 299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA---SCPVCRK 343
            CPIC+  +  +Q    +  C H     C++K L  +     CP C K
Sbjct: 17  ECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSK 64

>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 = 41.8 bits (98), Expect = 3e-05
 Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 7/61 (11%)

Query: 293 PKPNDNTCPICLSR-YKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRFKSP 350
           P  ++  C IC+    +P     T+P CNH     C    +   +  CP CR+R+   + 
Sbjct: 11  PSLSECQCGICMEILVEPV----TLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTR 65

Query: 351 F 351
           +
Sbjct: 66  Y 66

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

 Score = 40.5 bits (94), Expect = 4e-05
 Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 1/53 (1%)

Query: 292 QPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLR-MNASCPVCRK 343
             K +   CP+C+   +          C +    +C  +     N  CP CRK
Sbjct: 6   DAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRK 58

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

 Score = 43.4 bits (101), Expect = 4e-05
 Identities = 16/56 (28%), Positives = 23/56 (41%), Gaps = 9/56 (16%)

Query: 299 TCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWLRMNAS--CPV--CRKRLRFKS 349
           TCPI    Y+ P        KCNH F    I  +L+   +  CP   C + +  + 
Sbjct: 183 TCPITCKPYEAPL----ISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRD 234

>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 = 41.9 bits (98), Expect = 5e-05
 Identities = 13/50 (26%), Positives = 16/50 (32%), Gaps = 7/50 (14%)

Query: 299 TCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWLRMNA-SCPVCRKRLR 346
            C  C      P     T   C H     C+ +  +    SCP CR  L 
Sbjct: 80  MCVCCQELVYQPV----TTE-CFHNVCKDCLQRSFKAQVFSCPACRHDLG 124

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

 Score = 40.0 bits (94), Expect = 5e-05
 Identities = 17/55 (30%), Positives = 23/55 (41%), Gaps = 9/55 (16%)

Query: 299 TCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWL---RMNASCPVCRKRLRFKS 349
            CPICL   + P     TI  C H F   CI +          CP+C+  +R  +
Sbjct: 22  ICPICLDILQKPV----TID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA 71

>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 = 41.0 bits (96), Expect = 7e-05
 Identities = 19/55 (34%), Positives = 22/55 (40%), Gaps = 7/55 (12%)

Query: 299 TCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWLR-MNASCPVCRKRLRFKSPF 351
            CPICL   +   QT      C H F   CI K +R     CPV  + L     F
Sbjct: 20  ECPICLMALREAVQT-----PCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLF 69

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

 Score = 40.5 bits (95), Expect = 8e-05
 Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 9/56 (16%)

Query: 299 TCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWL---RMNASCPVCRKRLRFKSP 350
            CPICL   K P     +   C+H F  +C+ K L   +  + CP+C+  +  +S 
Sbjct: 23  ECPICLELIKEP----VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL 73

>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 = 40.3 bits (94), Expect = 1e-04
 Identities = 16/50 (32%), Positives = 21/50 (42%), Gaps = 7/50 (14%)

Query: 299 TCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWLR-MNASCPVCRKRLR 346
           +C IC      P +T      C H F   CI + L+ M + CP CR    
Sbjct: 25  SCQICEHILADPVET-----SCKHLFCRICILRCLKVMGSYCPSCRYPCF 69

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

 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 21/59 (35%), Positives = 24/59 (40%), Gaps = 12/59 (20%)

Query: 299 TCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWLRMN------ASCPVCRKRLRFKSP 350
           TCPICL   K P     +   CNH F   CI      N       +CPVCR    F + 
Sbjct: 21  TCPICLELLKEP----VSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNL 74

>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 = 38.7 bits (90), Expect = 3e-04
 Identities = 12/51 (23%), Positives = 20/51 (39%), Gaps = 9/51 (17%)

Query: 299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM--------NASCPVC 341
            C +CL  Y  +Q    I +C   F   C+ +++ +          SCP  
Sbjct: 7   GCKLCLGEYPVEQMTT-IAQCQCIFCTLCLKQYVELLIKEGLETAISCPDA 56

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

 Score = 38.0 bits (89), Expect = 3e-04
 Identities = 17/60 (28%), Positives = 22/60 (36%), Gaps = 13/60 (21%)

Query: 299 TCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKW-------LRMNASCPVCRKRLRFKSP 350
           TCPICL     P     ++  C H     CI          +   +SCPVC     F+  
Sbjct: 14  TCPICLELLTEPL----SLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHL 68

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

 Score = 38.0 bits (89), Expect = 3e-04
 Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 12/59 (20%)

Query: 299 TCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWLRMNA------SCPVCRKRLRFKSP 350
           TCPICL     P     ++  C H F   C+    + +       SCPVCR   + ++ 
Sbjct: 21  TCPICLELLTQPL----SLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENI 74

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

 Score = 39.7 bits (92), Expect = 4e-04
 Identities = 18/56 (32%), Positives = 22/56 (39%), Gaps = 7/56 (12%)

Query: 295 PNDNTCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWLRMNAS-CPVCRKRLRFK 348
            +   CPICL   +   QT      C H F   CI K +R     CPV  + L   
Sbjct: 16  ESKYECPICLMALREAVQT-----PCGHRFCKACIIKSIRDAGHKCPVDNEILLEN 66

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

 Score = 36.6 bits (85), Expect = 6e-04
 Identities = 11/49 (22%), Positives = 17/49 (34%), Gaps = 9/49 (18%)

Query: 299 TCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR 346
            C  C +  K PK        C H   + C++        CP+C+    
Sbjct: 8   RCQQCQAEAKCPKLL-----PCLHTLCSGCLEA---SGMQCPICQAPWP 48

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	352
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.71
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.65
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.59
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.58
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.56
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.55
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.54
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.48
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.45
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.45
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.43
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.42
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.42
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.41
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.39
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.38
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.35
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.33
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.33
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.31
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.3
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.29
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.26
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.23
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.22
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.19
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.15
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.15
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.14
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.14
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.13
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.12
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.11
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.11
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.1
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.1
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.1
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.08
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.04
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.0
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.97
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.97
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.95
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.94
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.94
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.93
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.91
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.9
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.88
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.86
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.85
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.84
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.83
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.83
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.81
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.81
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.77
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.73
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.69
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.58
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.58
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.57
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.56
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.46
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.4
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.36
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.31
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.3
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.14
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.07
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.06
3nw0_A	238	Non-structural maintenance of chromosomes element	98.04
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	95.18
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	92.71
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	91.96
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	91.62
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	91.12
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	88.81
1we9_A	64	PHD finger family protein; structural genomics, PH	88.74
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	88.69
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	87.64
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	87.23
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	86.68
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	84.81
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	84.34
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	82.14
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	82.03
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	80.69
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	80.08

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

Probab=99.71  E-value=1.8e-17  Score=125.50  Aligned_cols=81  Identities=31%  Similarity=0.696  Sum_probs=69.6

Q ss_pred             CcchhccCCChHhhhcCCceeeccCCCCCCCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccc
Q 044813          265 STSTVVASLDKPTIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKR  344 (352)
Q Consensus       265 ~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~  344 (352)
                      .......+++++.++.+|...+..... ...++..|+||+++|..++.++.+| |+|.||..||+.|++.+.+||+||+.
T Consensus         9 ~~~~~~~~~s~~~i~~lp~~~~~~~~~-~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr~~   86 (91)
T 2l0b_A            9 SHMVANPPASKESIDALPEILVTEDHG-AVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCM   86 (91)
T ss_dssp             CCSSCCCCCCHHHHHTSCEEECCTTCS-SSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTCCB
T ss_pred             CCCcCCCCCCHHHHHhCCCeeeccccc-ccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcCcc
Confidence            334567789999999999988876543 2456789999999999999999999 99999999999999999999999998


Q ss_pred             ccc
Q 044813          345 LRF  347 (352)
Q Consensus       345 l~~  347 (352)
                      +..
T Consensus        87 ~~~   89 (91)
T 2l0b_A           87 FPP   89 (91)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            864

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

Probab=99.65  E-value=6.8e-17  Score=117.73  Aligned_cols=69  Identities=33%  Similarity=0.835  Sum_probs=58.5

Q ss_pred             hhhcCCceeeccCCCCCCCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccC
Q 044813          277 TIESYPKTIVGVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK  348 (352)
Q Consensus       277 ~i~~l~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~  348 (352)
                      .++.+|...+.....  ..++.+|+||+++|..++.++.+| |+|+||.+||++|++.+.+||+||+++...
T Consensus         5 ~i~~lp~~~~~~~~~--~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            5 SSGQLPSYRFNPNNH--QSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CCSSCCCEEBCSSSC--SSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             hHhhCCcEEecCccc--cCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            456677777765432  456789999999999999999999 999999999999999999999999988654

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

Probab=99.59  E-value=6.3e-16  Score=105.43  Aligned_cols=52  Identities=35%  Similarity=0.931  Sum_probs=47.2

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR  346 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~  346 (352)
                      +++.+|+||++++.+++.++.++.|+|.||.+||.+|++++.+||+||+++.
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            3567999999999999888888679999999999999999999999999874

>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=99.58  E-value=1.6e-15  Score=108.57  Aligned_cols=56  Identities=38%  Similarity=0.978  Sum_probs=50.5

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSP  350 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~~  350 (352)
                      ...+..|+||++.|..++.++.++ |+|.||.+||.+|++.+.+||+||+.+....|
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQLP   66 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCSCCC
T ss_pred             CCCCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccCcCC
Confidence            456789999999999888899998 99999999999999999999999999877655

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

Probab=99.56  E-value=3.3e-15  Score=108.41  Aligned_cols=55  Identities=33%  Similarity=0.837  Sum_probs=49.2

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      ...+.+|+||++++..++.++.++ |+|.||.+||.+|++.+.+||+||+++....
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2ep4_A           12 LNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA   66 (74)
T ss_dssp             CCCSCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSSCC
T ss_pred             CCCCCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCccccccc
Confidence            345779999999999999999998 9999999999999999999999999886543

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

Probab=99.55  E-value=3.8e-15  Score=109.19  Aligned_cols=56  Identities=41%  Similarity=0.939  Sum_probs=50.2

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSP  350 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~~  350 (352)
                      ..++.+|+||+++|..++.++.++ |+|.||.+||.+|++.+.+||+||+.+..++.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   67 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNT   67 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCSCS
T ss_pred             CCCCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCccc
Confidence            445789999999999998888998 99999999999999999999999999876553

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

Probab=99.54  E-value=1.8e-15  Score=111.82  Aligned_cols=53  Identities=28%  Similarity=0.773  Sum_probs=43.2

Q ss_pred             CccccccccccccC-----------CCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccC
Q 044813          296 NDNTCPICLSRYKP-----------KQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~-----------~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~  348 (352)
                      ++.+|+||+++|.+           ++.++.++.|+|.||.+||++|++++.+||+||+++..+
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            45678888888754           455666656999999999999999999999999998654

>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=99.48  E-value=2.1e-14  Score=97.78  Aligned_cols=51  Identities=27%  Similarity=0.776  Sum_probs=44.0

Q ss_pred             CCccccccccccccCCC-eeeeeCCCCCeechhhHHHHHhcCCcccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQ-TLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR  346 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~-~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~  346 (352)
                      .++.+|+||++++.+++ .++.++ |+|.||.+||.+|++.+.+||+||+.+.
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            35679999999996644 567787 9999999999999999999999999874

>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=99.45  E-value=3.6e-14  Score=109.79  Aligned_cols=52  Identities=31%  Similarity=0.678  Sum_probs=44.2

Q ss_pred             CccccccccccccCCC---------------eeeeeCCCCCeechhhHHHHHhcCCcccccccccccC
Q 044813          296 NDNTCPICLSRYKPKQ---------------TLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~---------------~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~  348 (352)
                      ++..|+||+++|.+..               .++.++ |+|.||.+||++||+.+.+||+||+++..+
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~~~  102 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEFQ  102 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCCEE
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCcceee
Confidence            4678999999998651               356677 999999999999999999999999987543

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

Probab=99.45  E-value=2.8e-14  Score=102.50  Aligned_cols=55  Identities=29%  Similarity=0.780  Sum_probs=46.8

Q ss_pred             CCCccccccccccccCC----CeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPK----QTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~----~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      ..++.+|+||++.+.+.    +.++.++ |||.||.+||++|++.+.+||+||+.+..++
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR   65 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCCCS
T ss_pred             CCCCCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccChhh
Confidence            34678999999998753    4556777 9999999999999999999999999987654

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

Probab=99.43  E-value=7.2e-14  Score=99.67  Aligned_cols=53  Identities=28%  Similarity=0.791  Sum_probs=45.2

Q ss_pred             CCCccccccccccccCC----CeeeeeCCCCCeechhhHHHHHhcCCccccccccccc
Q 044813          294 KPNDNTCPICLSRYKPK----QTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRF  347 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~----~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~  347 (352)
                      ..++.+|+||++.+.+.    +.+..++ |||.||.+||+.|++.+.+||+||+.+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            34678999999999764    3446777 99999999999999999999999998864

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

Probab=99.42  E-value=1.2e-13  Score=101.29  Aligned_cols=54  Identities=22%  Similarity=0.788  Sum_probs=45.4

Q ss_pred             CCCccccccccccccCCCeeeeeCCCC-----CeechhhHHHHHhcC--CcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCN-----HYFHAYCIDKWLRMN--ASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~-----H~FH~~Ci~~Wl~~~--~~CP~Cr~~l~~~~  349 (352)
                      ..++..|+|||+++.+++.+ ++| |+     |.||.+||++|++.+  .+||+||+.+..+.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            44567999999999887776 588 96     999999999999765  58999999886644

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

Probab=99.42  E-value=6.5e-14  Score=98.32  Aligned_cols=53  Identities=30%  Similarity=0.788  Sum_probs=45.5

Q ss_pred             CccccccccccccCC----CeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          296 NDNTCPICLSRYKPK----QTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~----~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      ++.+|+||++++.+.    +.+..++ |||.||.+||.+|++++.+||+||+.+..++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   58 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR   58 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEET-TSCEEEHHHHHHHHHHCSBCTTTCCBCTTTC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCC-CCCchhHHHHHHHHHcCCCCCCCCccCCccc
Confidence            467999999999753    4556787 9999999999999999999999999987654

>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=99.41  E-value=1.4e-13  Score=108.33  Aligned_cols=52  Identities=25%  Similarity=0.574  Sum_probs=42.5

Q ss_pred             CccccccccccccCCC---------------eeeeeCCCCCeechhhHHHHH-----hcCCcccccccccccC
Q 044813          296 NDNTCPICLSRYKPKQ---------------TLRTIPKCNHYFHAYCIDKWL-----RMNASCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~---------------~~~~lp~C~H~FH~~Ci~~Wl-----~~~~~CP~Cr~~l~~~  348 (352)
                      .+..|+|||++|.++.               .++.++ |+|+||.+||++|+     +.+.+||+||+.+..+
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            4569999999997653               344677 99999999999999     4567899999988654

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

Probab=99.39  E-value=3e-13  Score=97.39  Aligned_cols=55  Identities=22%  Similarity=0.446  Sum_probs=46.6

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCCCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSPF  351 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~~~  351 (352)
                      ..++..|+||++.+.+.  +.+++ |||.||.+||..|++.+.+||+||+.+...+++
T Consensus        12 ~~~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   66 (72)
T 2djb_A           12 LTPYILCSICKGYLIDA--TTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPL   66 (72)
T ss_dssp             CCGGGSCTTTSSCCSSC--EECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSSCSC
T ss_pred             cCCCCCCCCCChHHHCc--CEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCccccc
Confidence            34578999999998863  44447 999999999999999899999999999877764

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

Probab=99.38  E-value=2e-13  Score=97.73  Aligned_cols=51  Identities=31%  Similarity=0.821  Sum_probs=44.9

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCCC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSP  350 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~~  350 (352)
                      .++..|+||++.+.+    ..++ |+|.||.+||.+|++.+.+||+||+.+...+.
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   63 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGANE   63 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTCCCC
T ss_pred             CCCCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccCCCc
Confidence            457899999999876    6788 99999999999999999999999999876553

>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=99.35  E-value=8.5e-14  Score=109.16  Aligned_cols=52  Identities=31%  Similarity=0.705  Sum_probs=1.0

Q ss_pred             CccccccccccccCC-------------C--eeeeeCCCCCeechhhHHHHHhcCCcccccccccccC
Q 044813          296 NDNTCPICLSRYKPK-------------Q--TLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~-------------~--~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~  348 (352)
                      ++..|+||+++|.+.             +  .+..++ |+|.||.+||++||+.+.+||+||+++..+
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~-C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~~  113 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEFQ  113 (117)
T ss_dssp             CC------------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCC-cCceEcHHHHHHHHHcCCcCCCCCCeeeee
Confidence            457999999999753             2  223345 999999999999999999999999987654

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

Probab=99.33  E-value=5.9e-13  Score=94.68  Aligned_cols=50  Identities=34%  Similarity=0.861  Sum_probs=43.1

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCccccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~  347 (352)
                      ..+.+|+||++.+.+  ..+.++ |||.||.+||..|++.+.+||+||+.+..
T Consensus         3 ~~~~~C~IC~~~~~~--~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            3 TVAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCCeeCCccccC--CcEecC-CCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            356799999999874  346787 99999999999999999999999998754

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

Probab=99.33  E-value=5.4e-13  Score=95.79  Aligned_cols=50  Identities=24%  Similarity=0.610  Sum_probs=43.2

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCccccccccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRF  347 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~  347 (352)
                      ..++.+|+||++.+.+.   ..++ |+|.||.+||..|++.+.+||+||+.+..
T Consensus        12 ~~~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           12 SLTVPECAICLQTCVHP---VSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSSCCBCSSSSSBCSSE---EEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCCccCCcccCCC---EEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            45678999999998653   5677 99999999999999999999999998854

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

Probab=99.31  E-value=1.8e-12  Score=92.94  Aligned_cols=53  Identities=26%  Similarity=0.579  Sum_probs=45.1

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC--CcccccccccccCCC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN--ASCPVCRKRLRFKSP  350 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~--~~CP~Cr~~l~~~~~  350 (352)
                      ....+|+||.+.+..++...   .|+|.||..||++||+++  .+||+||++|..+.+
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~---~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~~   67 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIP   67 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECS---SSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCCC
T ss_pred             CCCCcCcchhhHcccCCccC---CCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCCC
Confidence            34589999999998775443   499999999999999887  789999999987654

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

Probab=99.30  E-value=2.5e-12  Score=96.19  Aligned_cols=54  Identities=28%  Similarity=0.672  Sum_probs=45.8

Q ss_pred             CCCccccccccccccCCCe-eeeeCCCCCeechhhHHHHHhcC---CcccccccccccC
Q 044813          294 KPNDNTCPICLSRYKPKQT-LRTIPKCNHYFHAYCIDKWLRMN---ASCPVCRKRLRFK  348 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~-~~~lp~C~H~FH~~Ci~~Wl~~~---~~CP~Cr~~l~~~  348 (352)
                      ..+..+|+||++.|.+.+. .+.++ |||.||.+||..|++.+   .+||+||+.+...
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            3467899999999988664 56777 99999999999999875   7899999987654

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

Probab=99.29  E-value=3.3e-12  Score=92.39  Aligned_cols=55  Identities=24%  Similarity=0.509  Sum_probs=44.3

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC--CcccccccccccCCCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN--ASCPVCRKRLRFKSPF  351 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~--~~CP~Cr~~l~~~~~~  351 (352)
                      ..++..|+||++.|.+.   ..++.|||.||..||..|++.+  .+||+||+.+...+.+
T Consensus        12 ~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~   68 (74)
T 2yur_A           12 IPDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDAL   68 (74)
T ss_dssp             SCGGGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTTTT
T ss_pred             CCCCCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcccc
Confidence            34678999999999864   3465599999999999999865  6899999987665543

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

Probab=99.26  E-value=4.2e-12  Score=89.68  Aligned_cols=52  Identities=17%  Similarity=0.455  Sum_probs=43.6

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHH-hcCCcccccccccccCCC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWL-RMNASCPVCRKRLRFKSP  350 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl-~~~~~CP~Cr~~l~~~~~  350 (352)
                      .++..|+||++.+.+..   .++ |||.||.+||.+|+ +.+.+||+||+.+..++.
T Consensus        13 ~~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~i   65 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSPK---QTE-CGHRFCESCMAALLSSSSPKCTACQESIVKDKV   65 (66)
T ss_dssp             CCCEECTTTCCEESSCC---CCS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTTC
T ss_pred             CcCCCCCCCChHhcCee---ECC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCChhhc
Confidence            45789999999998653   367 99999999999999 456789999999987654

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

Probab=99.23  E-value=7.9e-12  Score=90.03  Aligned_cols=52  Identities=31%  Similarity=0.646  Sum_probs=42.9

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHh---cCCcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLR---MNASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~---~~~~CP~Cr~~l~~~~  349 (352)
                      ..++..|+||++.+.+.   ..++ |||.||.+||..|++   .+..||+||+.+..++
T Consensus        17 ~~~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           17 LQEEVICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCCBCTTTCSBCSSE---EECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             CccCCEeccCCcccCCe---EEcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            34678999999998753   4567 999999999999996   4568999999987654

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

Probab=99.22  E-value=1.1e-11  Score=91.30  Aligned_cols=48  Identities=23%  Similarity=0.551  Sum_probs=41.8

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR  346 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~  346 (352)
                      .....|+||++.+.+.   .+++ |||.||..||..|++.+.+||+||+.+.
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQNP---VVTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCSE---EECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcCe---eEcc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            4567999999998663   3577 9999999999999999999999999875

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

Probab=99.19  E-value=6.6e-12  Score=101.23  Aligned_cols=54  Identities=30%  Similarity=0.798  Sum_probs=46.2

Q ss_pred             CCccccccccccccCC----CeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          295 PNDNTCPICLSRYKPK----QTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~----~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      .++.+|+||++.|.+.    +.++.++ |||.||.+||++|++.+.+||+||+.+..++
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            4578999999999764    4557787 9999999999999999999999999886543

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

Probab=99.15  E-value=9.2e-12  Score=101.36  Aligned_cols=49  Identities=37%  Similarity=0.971  Sum_probs=42.4

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~  348 (352)
                      ++..|+||++.|.++   .++| |||.||..||..|++.+.+||+||+++...
T Consensus        52 ~~~~C~iC~~~~~~~---~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           52 NELQCIICSEYFIEA---VTLN-CAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HHSBCTTTCSBCSSE---EEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             ccCCCcccCcccCCc---eECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            356899999998753   5678 999999999999999999999999988643

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

Probab=99.15  E-value=1.9e-11  Score=86.03  Aligned_cols=53  Identities=26%  Similarity=0.631  Sum_probs=42.1

Q ss_pred             Cccccccccc-cccCCCee-eeeCCCCCeechhhHHHHHhc-CCcccccccccccCC
Q 044813          296 NDNTCPICLS-RYKPKQTL-RTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRFKS  349 (352)
Q Consensus       296 ~~~~C~ICl~-~~~~~~~~-~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l~~~~  349 (352)
                      ++..|+||++ .+.+.... ..++ |||.||.+||++|+.+ +..||+||+.+..++
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            3568999999 77766543 3466 9999999999999754 467999999987554

>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=99.14  E-value=1.3e-11  Score=94.62  Aligned_cols=50  Identities=28%  Similarity=0.691  Sum_probs=42.2

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC-CcccccccccccC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN-ASCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~-~~CP~Cr~~l~~~  348 (352)
                      ++..|+||++.|.+  .+..++ |||.||..||..|++.+ .+||+||+.+...
T Consensus        21 ~~~~C~IC~~~~~~--p~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (100)
T 3lrq_A           21 EVFRCFICMEKLRD--ARLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR   71 (100)
T ss_dssp             HHTBCTTTCSBCSS--EEECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CCCCCccCCccccC--ccccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCHH
Confidence            46799999999875  343377 99999999999999877 6999999988654

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

Probab=99.14  E-value=3.5e-11  Score=87.83  Aligned_cols=52  Identities=25%  Similarity=0.504  Sum_probs=43.7

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc-CCcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l~~~~  349 (352)
                      ..++..|+||++.|.+.   ..++ |||.||..||.+|++. +.+||+||+++...+
T Consensus         5 ~~~~~~C~IC~~~~~~P---v~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~   57 (78)
T 1t1h_A            5 FPEYFRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHAG   57 (78)
T ss_dssp             CSSSSSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC
T ss_pred             CcccCCCCCccccccCC---EEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCChhh
Confidence            34678999999998764   3567 9999999999999987 788999999886543

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

Probab=99.13  E-value=5e-11  Score=88.26  Aligned_cols=50  Identities=38%  Similarity=0.763  Sum_probs=42.7

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc------CCcccccccccccC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM------NASCPVCRKRLRFK  348 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~------~~~CP~Cr~~l~~~  348 (352)
                      .++..|+||++.+.+.   ..++ |+|.||.+||..|++.      +..||+||+.+..+
T Consensus        17 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           17 KEEVTCPICLELLKEP---VSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             CTTTSCTTTCSCCSSC---EECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             ccCCCCcCCChhhCcc---eeCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            4578999999998765   3677 9999999999999977      67899999988754

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

Probab=99.12  E-value=7.1e-11  Score=82.45  Aligned_cols=44  Identities=34%  Similarity=0.705  Sum_probs=36.9

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHh---cCCccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLR---MNASCPVC  341 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~---~~~~CP~C  341 (352)
                      ..++..|+||++.+.+.   ..++ |||.||.+||.+|++   .+.+||+|
T Consensus        17 ~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSSC---EECT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchhCCe---EEeC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            34678999999998864   4567 999999999999997   45689998

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

Probab=99.11  E-value=4e-11  Score=93.28  Aligned_cols=51  Identities=24%  Similarity=0.578  Sum_probs=43.6

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      ++..|+||++.+.+  .+.+++ |||.||..||..|++.+.+||+||+.+....
T Consensus        14 ~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   64 (108)
T 2ckl_A           14 PHLMCVLCGGYFID--ATTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHKTR   64 (108)
T ss_dssp             GGTBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCSSC
T ss_pred             CcCCCccCChHHhC--cCEeCC-CCChhhHHHHHHHHHhCCcCcCCCccccccC
Confidence            57899999999875  444447 9999999999999999999999999987653

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

Probab=99.11  E-value=6.5e-11  Score=87.67  Aligned_cols=51  Identities=31%  Similarity=0.719  Sum_probs=43.0

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc------CCcccccccccccCC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM------NASCPVCRKRLRFKS  349 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~------~~~CP~Cr~~l~~~~  349 (352)
                      .++.+|+||++.+.+.   ..++ |||.||.+||..|++.      +..||+||+.+...+
T Consensus        17 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecv_A           17 KEEVTCPICLELLTQP---LSLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN   73 (85)
T ss_dssp             CCCCCCTTTCSCCSSC---BCCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSS
T ss_pred             cCCCCCCCCCcccCCc---eeCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHh
Confidence            4578999999998764   3567 9999999999999976      778999999887543

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

Probab=99.10  E-value=2.8e-11  Score=92.66  Aligned_cols=50  Identities=24%  Similarity=0.630  Sum_probs=42.3

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~  348 (352)
                      ++..|+||++.+.+  .+..++ |||.||..||..|++.+.+||+||+.+...
T Consensus        21 ~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   70 (99)
T 2y43_A           21 DLLRCGICFEYFNI--AMIIPQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTEP   70 (99)
T ss_dssp             HHTBCTTTCSBCSS--EEECTT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCGG
T ss_pred             CCCCcccCChhhCC--cCEECC-CCCHhhHHHHHHHHHCCCCCCCCCCcCChh
Confidence            46799999999886  343346 999999999999999989999999988653

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

Probab=99.10  E-value=1.5e-11  Score=90.02  Aligned_cols=51  Identities=31%  Similarity=0.679  Sum_probs=42.6

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc-------CCcccccccccccC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-------NASCPVCRKRLRFK  348 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-------~~~CP~Cr~~l~~~  348 (352)
                      ..++.+|+||++.+.+.   +.++ |||.||.+||..|++.       ...||+||+.+..+
T Consensus         9 ~~~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~   66 (79)
T 2egp_A            9 VQEEVTCPICLELLTEP---LSLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFE   66 (79)
T ss_dssp             CCCCCEETTTTEECSSC---CCCS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSS
T ss_pred             cccCCCCcCCCcccCCe---eECC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHh
Confidence            34678999999998764   3467 9999999999999976       56799999988654

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

Probab=99.10  E-value=3.1e-11  Score=97.26  Aligned_cols=54  Identities=30%  Similarity=0.798  Sum_probs=45.7

Q ss_pred             CCccccccccccccCC----CeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          295 PNDNTCPICLSRYKPK----QTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~----~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      .+...|+||++.+.+.    .....++ |||.||..||++|++.+.+||+||+.+..++
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEET-TSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCC-CCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            3567899999998753    3446777 9999999999999999999999999987654

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

Probab=99.08  E-value=6.8e-11  Score=80.99  Aligned_cols=43  Identities=35%  Similarity=0.912  Sum_probs=36.2

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHH---hcCCccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWL---RMNASCPVC  341 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl---~~~~~CP~C  341 (352)
                      .++..|+||++.+.+.   +.++ |||.||.+||.+|+   +.+.+||+|
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKEP---VIIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSSC---CCCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCcc---EeCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            4568999999999875   4577 99999999999995   456789998

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

Probab=99.04  E-value=1.8e-10  Score=86.77  Aligned_cols=50  Identities=26%  Similarity=0.564  Sum_probs=41.1

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC--Ccccccccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN--ASCPVCRKRLR  346 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~--~~CP~Cr~~l~  346 (352)
                      ..++..|+||++.|.+.   ..++.|||.||..||..|+..+  ..||+||+.+.
T Consensus        10 ~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           10 IPDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCTTTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CCcCCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            45678999999999864   3455599999999999999653  58999999873

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

Probab=99.00  E-value=1.7e-10  Score=92.03  Aligned_cols=48  Identities=29%  Similarity=0.542  Sum_probs=40.8

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCC-ccccccccccc
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA-SCPVCRKRLRF  347 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~-~CP~Cr~~l~~  347 (352)
                      ++..|+||++.|.+.   ..++ |||.||..||..|++.+. +||+||+.+..
T Consensus        51 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFRP---ITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSSE---EECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcCc---EEee-CCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            457899999998854   4567 999999999999998554 89999999865

>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=98.97  E-value=2.2e-10  Score=96.04  Aligned_cols=49  Identities=47%  Similarity=0.831  Sum_probs=41.6

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc-CCccccccccccc
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRF  347 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l~~  347 (352)
                      ++..|+||++.|.+  .+.+++ |||.||..||..|++. +..||+||..+..
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            45799999999886  444457 9999999999999987 7789999998854

>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=98.97  E-value=2.2e-10  Score=89.60  Aligned_cols=50  Identities=32%  Similarity=0.772  Sum_probs=41.5

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCC---cccccccccccCC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA---SCPVCRKRLRFKS  349 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~---~CP~Cr~~l~~~~  349 (352)
                      +...|+||++.+.+.   ..++ |||.||.+||..|++.+.   +||+||+.+...+
T Consensus        20 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (112)
T 1jm7_A           20 KILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (112)
T ss_dssp             HHTSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             CCCCCcccChhhcCe---EECC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhh
Confidence            356899999998764   3467 999999999999998654   8999999887543

>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=98.95  E-value=1.3e-10  Score=91.55  Aligned_cols=50  Identities=26%  Similarity=0.564  Sum_probs=41.9

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc-CCcccccccccccCC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRFKS  349 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l~~~~  349 (352)
                      ++..|+||++.+.+.   ..++ |||.||..||..|++. +.+||+||+.+...+
T Consensus        22 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           22 KSISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HHTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCcHhcCc---EEcC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            467899999998753   3477 9999999999999986 778999999886543

>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=98.94  E-value=3.1e-10  Score=89.65  Aligned_cols=51  Identities=33%  Similarity=0.611  Sum_probs=42.7

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCC-cccccccccccC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA-SCPVCRKRLRFK  348 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~-~CP~Cr~~l~~~  348 (352)
                      ..++..|+||++.+.+.   ..++ |||.||..||..|++.+. +||+||+.+...
T Consensus        15 ~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           15 LESKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             CCGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCcCChhhcCe---EECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            34678999999998764   4567 999999999999997655 899999988654

>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=98.94  E-value=3.9e-10  Score=78.92  Aligned_cols=50  Identities=28%  Similarity=0.489  Sum_probs=40.9

Q ss_pred             CCccccccccccccCCCeee-eeCCCCCe-echhhHHHHHhcCCccccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLR-TIPKCNHY-FHAYCIDKWLRMNASCPVCRKRLRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~-~lp~C~H~-FH~~Ci~~Wl~~~~~CP~Cr~~l~~  347 (352)
                      .++.+|.||++...+.  +. .+| |||. |+.+|+..|.+.+..||+||+++..
T Consensus         6 ~~~~~C~IC~~~~~~~--~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   57 (64)
T 2vje_A            6 NAIEPCVICQGRPKNG--CIVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPIQM   57 (64)
T ss_dssp             GGGSCCTTTSSSCSCE--EEEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCCCE
T ss_pred             CCcCCCCcCCCCCCCE--EEECCC-CCChhhHHHHHHHHHHcCCcCCCcCcchhc
Confidence            4677999999986543  22 238 9999 8999999999988899999998753

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

Probab=98.93  E-value=7.9e-10  Score=80.42  Aligned_cols=55  Identities=22%  Similarity=0.513  Sum_probs=42.1

Q ss_pred             CCCccccccccccccCCCee-eeeCCCCCeechhhHHHHHh-cCCcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTL-RTIPKCNHYFHAYCIDKWLR-MNASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~-~~lp~C~H~FH~~Ci~~Wl~-~~~~CP~Cr~~l~~~~  349 (352)
                      ..++.+|+||++.+...+.. ..++ |||.||..|+..|++ .+..||+||+.+....
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             cccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            34678999999998654332 2245 999999999999974 4568999999886543

>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=98.91  E-value=6e-10  Score=91.78  Aligned_cols=49  Identities=24%  Similarity=0.521  Sum_probs=41.6

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCC-cccccccccccC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA-SCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~-~CP~Cr~~l~~~  348 (352)
                      ++..|+||++.|.+.   ..++ |||.||..||..|++.+. +||+||+.+...
T Consensus        77 ~~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQP---VTTE-CFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSSE---EECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             cCCEeecCChhhcCC---EEcC-CCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            457999999998764   3477 999999999999998654 899999998765

>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=98.90  E-value=2.2e-10  Score=90.04  Aligned_cols=49  Identities=29%  Similarity=0.697  Sum_probs=41.3

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc-CCccccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l~~  347 (352)
                      .++..|+||++.+.+.   ..++ |||.||..||..|++. +.+||+||+.+..
T Consensus        13 ~~~~~C~iC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           13 LSECQCGICMEILVEP---VTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHHBCTTTCSBCSSC---EECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCCccCCcccCce---eEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            4568999999998764   4567 9999999999999976 6789999998753

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

Probab=98.88  E-value=4.4e-10  Score=76.43  Aligned_cols=49  Identities=20%  Similarity=0.520  Sum_probs=40.9

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCCC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSP  350 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~~  350 (352)
                      .++..|+||++.|.+.   +.++ |||.||..||..|   ...||+||+.+..+..
T Consensus         4 ~~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~   52 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGAD   52 (56)
T ss_dssp             CCCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCSS
T ss_pred             ccCCCceEeCCccCCe---EEcC-CCCcccHHHHccC---CCCCCcCCcEeecCCc
Confidence            4577899999999865   5687 9999999999885   6689999999876543

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

Probab=98.86  E-value=1.9e-09  Score=79.93  Aligned_cols=52  Identities=15%  Similarity=0.160  Sum_probs=44.9

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      ..++..|+||++-|.+.   .+++ |||.|+..||..|+..+.+||+||+.+...+
T Consensus        11 ~p~~~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~   62 (85)
T 2kr4_A           11 APDEFRDPLMDTLMTDP---VRLP-SGTVMDRSIILRHLLNSPTDPFNRQMLTESM   62 (85)
T ss_dssp             CCTTTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CchheECcccCchhcCC---eECC-CCCEECHHHHHHHHhcCCCCCCCcCCCChHh
Confidence            34678999999998875   4577 9999999999999998899999999887653

>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=98.85  E-value=1.3e-09  Score=75.97  Aligned_cols=51  Identities=22%  Similarity=0.496  Sum_probs=40.6

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCe-echhhHHHHHhcCCccccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHY-FHAYCIDKWLRMNASCPVCRKRLRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CP~Cr~~l~~  347 (352)
                      ..+.+|.||++...+. .+..+| |||+ |+.+|+..|.+.+..||+||+++..
T Consensus         5 ~~~~~C~IC~~~~~~~-~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDG-NIIHGR-TGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             GGGSBCTTTSSSBSCE-EEEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             CcCCCCcccCCcCCCe-EEEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            4567999999985542 122338 9998 9999999999888899999998753

>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=98.84  E-value=1.9e-09  Score=82.40  Aligned_cols=52  Identities=15%  Similarity=0.172  Sum_probs=45.1

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      ..++..|+||++-|.++   .+++ |||.|+..||..|+..+.+||+||+++...+
T Consensus        26 ~p~~~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~   77 (100)
T 2kre_A           26 APDEFRDPLMDTLMTDP---VRLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTESM   77 (100)
T ss_dssp             CSTTTBCTTTCSBCSSE---EEET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCTTS
T ss_pred             CcHhhCCcCccCcccCC---eECC-CCCEEchHHHHHHHHcCCCCCCCCCCCChhh
Confidence            45678999999998875   4577 9999999999999998899999999987654

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=98.83  E-value=2.3e-09  Score=73.72  Aligned_cols=49  Identities=22%  Similarity=0.568  Sum_probs=38.6

Q ss_pred             CCccccccccccccCCCeeeeeCCCC--C---eechhhHHHHHhc--CCccccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCN--H---YFHAYCIDKWLRM--NASCPVCRKRLRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~--H---~FH~~Ci~~Wl~~--~~~CP~Cr~~l~~  347 (352)
                      ++...|.||+++.  ++.+ ++| |.  |   .||.+||++|+..  +.+||+||..+..
T Consensus         4 ~~~~~CrIC~~~~--~~~l-~~P-C~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            4 EDVPVCWICNEEL--GNER-FRA-CGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEEC--SCCC-CCS-CCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCEeEEeecCC--CCce-ecC-cCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            4677999999983  3344 577 65  4   8999999999964  6789999998764

>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=98.83  E-value=1.4e-09  Score=88.63  Aligned_cols=49  Identities=16%  Similarity=0.520  Sum_probs=41.0

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCC-ccccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA-SCPVCRKRLRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~-~CP~Cr~~l~~  347 (352)
                      .++..|+||++.+.+.   ..++ |||.||..||..|++.+. +||+||+++..
T Consensus        29 ~~~~~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           29 EAKYLCSACRNVLRRP---FQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             CGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             CcCcCCCCCChhhcCc---EECC-CCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            4678999999998865   3467 999999999999997654 89999997643

>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=98.81  E-value=2e-09  Score=100.83  Aligned_cols=50  Identities=26%  Similarity=0.707  Sum_probs=42.6

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHh-cCCcccccccccccCC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLR-MNASCPVCRKRLRFKS  349 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-~~~~CP~Cr~~l~~~~  349 (352)
                      ...+|+||++.+.+   ...+| |||.||..||..|++ .+.+||+||+.+....
T Consensus       331 ~~~~C~ICle~~~~---pv~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~  381 (389)
T 2y1n_A          331 TFQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE  381 (389)
T ss_dssp             SSSBCTTTSSSBCC---EEEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCEEE
T ss_pred             CCCCCCccCcCCCC---eEEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCCce
Confidence            34799999999855   46788 999999999999998 6889999999886654

>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=98.81  E-value=3.7e-09  Score=80.46  Aligned_cols=51  Identities=16%  Similarity=0.152  Sum_probs=44.3

Q ss_pred             CCccccccccccccCCCeeeeeCCCC-CeechhhHHHHHhcCCcccccccccccCC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCN-HYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~-H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      .++..|+||++-|.++   .+++ || |.|+..||..|+..+.+||+||+++...+
T Consensus        20 p~~~~CpI~~~~m~dP---V~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~   71 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDP---VVLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQ   71 (98)
T ss_dssp             CTTTBCTTTCSBCSSE---EECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTT
T ss_pred             cHhcCCcCccccccCC---eECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCChhh
Confidence            4678999999998865   3567 99 99999999999998899999999987654

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

Probab=98.77  E-value=2.2e-09  Score=97.72  Aligned_cols=55  Identities=24%  Similarity=0.612  Sum_probs=42.5

Q ss_pred             CCccccccccccccCCCee----eeeCCCCCeechhhHHHHHhcC-----------CcccccccccccCC
Q 044813          295 PNDNTCPICLSRYKPKQTL----RTIPKCNHYFHAYCIDKWLRMN-----------ASCPVCRKRLRFKS  349 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~----~~lp~C~H~FH~~Ci~~Wl~~~-----------~~CP~Cr~~l~~~~  349 (352)
                      ....+|+||++.+.+++.+    ...++|+|.||..||.+||++.           .+||+||+++..+.
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~sf  375 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTSF  375 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGGG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCccH
Confidence            4578999999999874332    1223599999999999999752           46999999987653

>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=98.73  E-value=2.3e-09  Score=84.52  Aligned_cols=48  Identities=21%  Similarity=0.537  Sum_probs=39.9

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~  348 (352)
                      ++..|+||++.|.+.  +.+.+ |||.||..||..|++  ..||+||+.+...
T Consensus        21 ~~~~C~IC~~~~~~p--v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~   68 (117)
T 1jm7_B           21 KLLRCSRCTNILREP--VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWIQ   68 (117)
T ss_dssp             HTTSCSSSCSCCSSC--BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSCS
T ss_pred             hCCCCCCCChHhhCc--cEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCccc
Confidence            467999999999764  33337 999999999999987  7899999988544

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

Probab=98.69  E-value=3.6e-09  Score=76.20  Aligned_cols=45  Identities=29%  Similarity=0.795  Sum_probs=38.0

Q ss_pred             CccccccccccccCCCeeeeeCCCCCe-echhhHHHHHhcCCcccccccccccC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHY-FHAYCIDKWLRMNASCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CP~Cr~~l~~~  348 (352)
                      ++..|+||++.+.+   ...+| |||. |+.+|+..|    ..||+||+.+...
T Consensus        23 ~~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~~   68 (74)
T 4ic3_A           23 EEKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEAV----DKCPMCYTVITFK   68 (74)
T ss_dssp             HHTBCTTTSSSBCC---EEEET-TCCBCCCHHHHTTC----SBCTTTCCBCSEE
T ss_pred             cCCCCCCCCCCCCC---EEEcC-CCChhHHHHhhhcC----ccCCCcCcCccCc
Confidence            46799999998765   35678 9999 999999999    7899999988643

>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=98.58  E-value=1.6e-08  Score=76.37  Aligned_cols=49  Identities=27%  Similarity=0.756  Sum_probs=41.1

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc--------CCcccc--cccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM--------NASCPV--CRKR  344 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--------~~~CP~--Cr~~  344 (352)
                      ++..+|+||++++...+.+++.+ |||.|+.+|+..+++.        ...||.  |++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~l~~-CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCCcCCcccCcccccccceEcCC-CCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            35678999999998877776677 9999999999999953        236999  9987

>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=98.58  E-value=1.7e-08  Score=84.82  Aligned_cols=50  Identities=34%  Similarity=0.628  Sum_probs=42.1

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC-CcccccccccccC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN-ASCPVCRKRLRFK  348 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~-~~CP~Cr~~l~~~  348 (352)
                      .++..|+||++.+.+.   ..++ |||.|+..||..|++.+ .+||+||..+...
T Consensus        16 ~~~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           16 ESKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             CGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCChhhcCc---EECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            4678999999998864   3477 99999999999999764 4899999988654

>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=98.57  E-value=2.6e-08  Score=75.15  Aligned_cols=50  Identities=26%  Similarity=0.542  Sum_probs=39.6

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC------Ccccc--cccc-ccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN------ASCPV--CRKR-LRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~------~~CP~--Cr~~-l~~  347 (352)
                      .++..|+||++.|.++  ++ ++.|||.|+..||.+|+..+      .+||+  |++. +..
T Consensus         5 ~~~~~CPI~~~~~~dP--V~-~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~   63 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKP--VK-NKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRK   63 (94)
T ss_dssp             SSCCBCTTTCSBCSSE--EE-ESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCG
T ss_pred             CcEeECcCcCchhcCC--EE-cCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCH
Confidence            4678999999998864  43 43499999999999999754      48999  9866 543

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.56  E-value=3.9e-08  Score=69.43  Aligned_cols=46  Identities=24%  Similarity=0.631  Sum_probs=37.8

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCe-echhhHHHHHhcCCccccccccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHY-FHAYCIDKWLRMNASCPVCRKRLRF  347 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CP~Cr~~l~~  347 (352)
                      ..++..|.||++...+   +..+| |+|. |+.+|+..    ...||+||+.+..
T Consensus        12 ~~~~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           12 EENSKDCVVCQNGTVN---WVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CCCSSCCSSSSSSCCC---CEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCCCCcCcCCCC---EEEEC-CCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            4457899999998654   56788 9999 99999984    4789999998754

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

Probab=98.46  E-value=5.5e-08  Score=70.11  Aligned_cols=46  Identities=28%  Similarity=0.782  Sum_probs=37.2

Q ss_pred             CccccccccccccCCCeeeeeCCCCCe-echhhHHHHHhcCCcccccccccccCC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHY-FHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      ++.+|+||++.+.+   ...+| |||. |+.+|+..    ...||+||+.+....
T Consensus        24 ~~~~C~IC~~~~~~---~~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~~~   70 (75)
T 2ecg_A           24 EEKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEA----VDKCPMCYTVITFKQ   70 (75)
T ss_dssp             HHHSCSSSCSSCCC---BCCSS-SCCCCBCHHHHHH----CSBCTTTCCBCCCCC
T ss_pred             CCCCCCcCCCCCCC---EEEec-CCCHHHHHHHhhC----CCCCccCCceecCcE
Confidence            45789999998765   35678 9999 99999964    478999999886543

>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=98.40  E-value=1.5e-07  Score=85.20  Aligned_cols=52  Identities=17%  Similarity=0.178  Sum_probs=43.2

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc-CCcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l~~~~  349 (352)
                      ..+...|+||++-|.++   .++| |||.|+..||..|+.. +.+||+||.++...+
T Consensus       205 ~~~~~~c~i~~~~~~dP---v~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~  257 (281)
T 2c2l_A          205 IPDYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ  257 (281)
T ss_dssp             CCSTTBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CCcccCCcCcCCHhcCC---eECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCchhc
Confidence            45678999999998865   3577 9999999999999976 445999999986543

>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=98.36  E-value=8.4e-08  Score=69.84  Aligned_cols=44  Identities=30%  Similarity=0.659  Sum_probs=36.6

Q ss_pred             CccccccccccccCCCeeeeeCCCCCe-echhhHHHHHhcCCccccccccccc
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHY-FHAYCIDKWLRMNASCPVCRKRLRF  347 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CP~Cr~~l~~  347 (352)
                      ++..|.||++.+.+   ...+| |||. |+.+|+..|    ..||+||+.+..
T Consensus        17 ~~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   61 (79)
T 2yho_A           17 EAMLCMVCCEEEIN---STFCP-CGHTVCCESCAAQL----QSCPVCRSRVEH   61 (79)
T ss_dssp             HHTBCTTTSSSBCC---EEEET-TCBCCBCHHHHTTC----SBCTTTCCBCCE
T ss_pred             CCCEeEEeCcccCc---EEEEC-CCCHHHHHHHHHhc----CcCCCCCchhhC
Confidence            45689999998654   46788 9999 999999987    499999998753

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

Probab=98.31  E-value=2.6e-07  Score=77.62  Aligned_cols=52  Identities=17%  Similarity=0.152  Sum_probs=43.3

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC-CcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN-ASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~-~~CP~Cr~~l~~~~  349 (352)
                      ..+...|+||++-|.++  | ++| |||.|...||..|+..+ .+||+||.++...+
T Consensus       103 ip~~f~CPI~~elm~DP--V-~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~  155 (179)
T 2f42_A          103 IPDYLCGKISFELMREP--C-ITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQ  155 (179)
T ss_dssp             CCGGGBCTTTCSBCSSE--E-ECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CcHhhcccCccccCCCC--e-ECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCChhh
Confidence            46789999999998864  3 557 99999999999999764 57999999887653

>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=98.30  E-value=2.7e-07  Score=63.54  Aligned_cols=50  Identities=10%  Similarity=0.227  Sum_probs=41.7

Q ss_pred             ccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          297 DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      ...|+|+++-+.+.  +...+ +||+|..+||.+|++++.+||+.++++..++
T Consensus         3 ~~~CpIs~~~m~dP--V~~~~-sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~   52 (61)
T 2bay_A            3 HMLCAISGKVPRRP--VLSPK-SRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   52 (61)
T ss_dssp             -CCCTTTCSCCSSE--EEETT-TTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             eEEecCCCCCCCCC--EEeCC-CCcEEcHHHHHHHHHhCCCCcCCcCCCChhh
Confidence            46899999998854  43325 9999999999999998889999999987765

>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=98.14  E-value=1e-06  Score=77.68  Aligned_cols=52  Identities=29%  Similarity=0.615  Sum_probs=42.0

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC--Ccccc--cccccccCC
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN--ASCPV--CRKRLRFKS  349 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~--~~CP~--Cr~~l~~~~  349 (352)
                      ..+..|+||++.|.+  .|+.+. |||.|++.||.+|++.+  .+||+  ||+.+...+
T Consensus       179 ~~el~CPIcl~~f~D--PVts~~-CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~d  234 (267)
T 3htk_C          179 KIELTCPITCKPYEA--PLISRK-CNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRD  234 (267)
T ss_dssp             BCCSBCTTTSSBCSS--EEEESS-SCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGG
T ss_pred             ceeeECcCccCcccC--CeeeCC-CCCcccHHHHHHHHHhCCCCCCCcccccCcCchhh
Confidence            456899999999875  455555 99999999999999764  46999  999876543

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

Probab=98.07  E-value=2.7e-06  Score=63.21  Aligned_cols=44  Identities=30%  Similarity=0.561  Sum_probs=35.8

Q ss_pred             cccccccccCCCeeeeeCCCCCeechhhHHHHHhc-CCcccccccccc
Q 044813          300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLR  346 (352)
Q Consensus       300 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l~  346 (352)
                      |.+|--.+.  ...|++| |+|+|+.+|+..|.++ .++||+|+.++.
T Consensus         4 C~~C~~Pi~--iygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            4 CDKCGLPIK--VYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             CTTTCSBCS--EEEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             cCccCCCeE--EEeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            677755543  5678999 9999999999999854 678999999874

>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=98.06  E-value=1.1e-06  Score=81.68  Aligned_cols=44  Identities=27%  Similarity=0.765  Sum_probs=37.6

Q ss_pred             CccccccccccccCCCeeeeeCCCCCe-echhhHHHHHhcCCccccccccccc
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHY-FHAYCIDKWLRMNASCPVCRKRLRF  347 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CP~Cr~~l~~  347 (352)
                      ++..|+||++.+.+   ...+| |||. ||..|+..|    ..||+||..+..
T Consensus       294 ~~~~C~IC~~~~~~---~v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          294 EERTCKVCMDKEVS---VVFIP-CGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             TTCBCTTTSSSBCC---EEEET-TCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             CCCCCCccCCcCCc---eEEcC-CCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            45799999999765   45678 9999 999999998    789999998754

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

Probab=98.04  E-value=4.1e-06  Score=73.87  Aligned_cols=54  Identities=30%  Similarity=0.583  Sum_probs=44.9

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCC--cccccccccccCCCCC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA--SCPVCRKRLRFKSPFV  352 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~--~CP~Cr~~l~~~~~~~  352 (352)
                      ....|+||.+-...+.   ..+.|+|.||..|+..|++.+.  .||.|+..|....|-|
T Consensus       179 ~i~~C~iC~~iv~~g~---~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~~~~~  234 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQ---SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIPKV  234 (238)
T ss_dssp             TCCBCTTTCSBCSSCE---ECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSCCCCC
T ss_pred             CCCcCcchhhHHhCCc---ccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCCCC
Confidence            4679999999988763   3345999999999999997654  8999999998887743

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=95.18  E-value=0.017  Score=39.85  Aligned_cols=47  Identities=17%  Similarity=0.354  Sum_probs=34.4

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCC----ccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA----SCPVCRKRL  345 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~----~CP~Cr~~l  345 (352)
                      .....|.||.+.    +.+.....|...||..|++..+....    .||.|+...
T Consensus        10 ~~~~~C~vC~~~----~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C           10 APGARCGVCGDG----TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             CTTCCCTTTSCC----TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCCcCCCCCC----CeEEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            345689999743    33445556999999999998886543    599997653

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=92.71  E-value=0.075  Score=39.64  Aligned_cols=35  Identities=11%  Similarity=0.333  Sum_probs=26.2

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHH
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKW  331 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~W  331 (352)
                      ++..|.||++++.......-+. |+|.|+..|+..+
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~-C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVT-CEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETT-TTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCc-CChHHhHHHCHHH
Confidence            3578999998754433333366 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=91.62  E-value=0.11  Score=35.06  Aligned_cols=47  Identities=23%  Similarity=0.615  Sum_probs=33.1

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc----CCcccccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM----NASCPVCRKR  344 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~----~~~CP~Cr~~  344 (352)
                      ...+..|.||.+.    ..+.....|...||..|++.-+..    .=.||.|++.
T Consensus         8 ~~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            8 TDHQDYCEVCQQG----GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             SCCCSSCTTTSCC----SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCCccCCCC----CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            3456789999863    344444468899999999986533    2359999753

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=91.12  E-value=0.044  Score=36.90  Aligned_cols=52  Identities=23%  Similarity=0.557  Sum_probs=36.5

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC----CcccccccccccCCCC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN----ASCPVCRKRLRFKSPF  351 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~----~~CP~Cr~~l~~~~~~  351 (352)
                      .+..|.||...   + .+.....|...||..|+++=+...    -.||.|+.....++..
T Consensus         4 ~~~~C~vC~~~---g-~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~~~~~~   59 (60)
T 2puy_A            4 HEDFCSVCRKS---G-QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQMLKKEEA   59 (60)
T ss_dssp             CCSSCTTTCCC---S-SCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHHHHTTTT
T ss_pred             CCCCCcCCCCC---C-cEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccChhhchhcc
Confidence            46789999863   3 344444699999999999655432    2499998877665543

>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=88.81  E-value=0.4  Score=34.17  Aligned_cols=36  Identities=25%  Similarity=0.601  Sum_probs=24.4

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHH
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKW  331 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~W  331 (352)
                      ...+..|.||- .+..++ +.-...|+-+||..|+.+-
T Consensus        12 ~~~D~~C~VC~-~~t~~~-l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           12 VVNDEMCDVCE-VWTAES-LFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTTC-CCCSSC-CSSCSSSSSCCCHHHHHHH
T ss_pred             CCCCcccCccc-cccccc-eeccccccccccHhhcccc
Confidence            34678999994 344333 2222258999999999996

>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=88.74  E-value=0.14  Score=34.83  Aligned_cols=50  Identities=20%  Similarity=0.533  Sum_probs=35.4

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHh-----cCCcccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLR-----MNASCPVCRKR  344 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-----~~~~CP~Cr~~  344 (352)
                      .+...|+||...+.+++..+..-.|..=||..|+..-..     .+-.||.|+..
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            456789999988865554444445888899999975432     24469999764

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=88.69  E-value=0.098  Score=34.61  Aligned_cols=46  Identities=24%  Similarity=0.651  Sum_probs=32.1

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCC----ccccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA----SCPVCRK  343 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~----~CP~Cr~  343 (352)
                      ...+..|.||.+.   + .+.....|...||..|+++-+...+    .||.|++
T Consensus         6 ~~~~~~C~vC~~~---g-~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            6 SGHEDFCSVCRKS---G-QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             CSSCCSCSSSCCS---S-CCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCCccCCCC---C-eEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            3456789999874   3 3444445999999999986554322    4999965

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=87.64  E-value=0.13  Score=35.30  Aligned_cols=46  Identities=26%  Similarity=0.579  Sum_probs=32.4

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC----Cccccccc
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN----ASCPVCRK  343 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~----~~CP~Cr~  343 (352)
                      ...+..|.||.+.   + .+.....|...||..|+..-+...    =.||.|+.
T Consensus         5 ~~~~~~C~vC~~~---g-~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~   54 (66)
T 1xwh_A            5 QKNEDECAVCRDG---G-ELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQ   54 (66)
T ss_dssp             CSCCCSBSSSSCC---S-SCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHH
T ss_pred             CCCCCCCccCCCC---C-CEEEcCCCChhhcccccCCCcCcCCCCCeECccccC
Confidence            3467899999863   3 344444689999999998655332    24999965

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=87.23  E-value=0.33  Score=35.27  Aligned_cols=52  Identities=23%  Similarity=0.464  Sum_probs=36.0

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCC----cccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA----SCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~----~CP~Cr~~l~~~~  349 (352)
                      ...+..|.+|...   + .+.....|.-.||..|+++=+...+    .||.|+..-..++
T Consensus        22 d~n~~~C~vC~~~---g-~LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~~~~ke   77 (88)
T 1fp0_A           22 DDSATICRVCQKP---G-DLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPDLKE   77 (88)
T ss_dssp             SSSSSCCSSSCSS---S-CCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCSSCC
T ss_pred             CCCCCcCcCcCCC---C-CEEECCCCCCceecccCCCCCCCCcCCCcCCccccCCCccch
Confidence            3456799999864   3 3444445889999999977664422    4999987655444

>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=86.68  E-value=0.18  Score=33.91  Aligned_cols=47  Identities=21%  Similarity=0.430  Sum_probs=32.1

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC----Cccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN----ASCPVCRKRL  345 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~----~~CP~Cr~~l  345 (352)
                      ..+..|.||.+.    ..+.....|...||..|+..-+...    =.||.|+...
T Consensus         7 ~~~~~C~vC~~~----g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            7 HHMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SSCSSCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCCCcCCCCCCC----CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            456789999752    3344444588999999998655432    2499997643

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=84.81  E-value=0.38  Score=30.92  Aligned_cols=44  Identities=27%  Similarity=0.680  Sum_probs=29.4

Q ss_pred             ccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC----Cccccccc
Q 044813          299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN----ASCPVCRK  343 (352)
Q Consensus       299 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~----~~CP~Cr~  343 (352)
                      .|.||...-.. +.+..-..|...||..|++.=+...    =.||.|+.
T Consensus         2 ~C~vC~~~~~~-~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCC-CCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            58888765333 3444445699999999997644332    24999965

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}

Probab=84.34  E-value=0.41  Score=33.26  Aligned_cols=51  Identities=20%  Similarity=0.348  Sum_probs=34.9

Q ss_pred             CCCccccccccccc-cCCCeeeeeCCCCCeechhhHHHHHh--cCCcccccccc
Q 044813          294 KPNDNTCPICLSRY-KPKQTLRTIPKCNHYFHAYCIDKWLR--MNASCPVCRKR  344 (352)
Q Consensus       294 ~~~~~~C~ICl~~~-~~~~~~~~lp~C~H~FH~~Ci~~Wl~--~~~~CP~Cr~~  344 (352)
                      ...+..|.||.+.- .+.+.+.....|.-.||..|+..-..  ..=.||.|+..
T Consensus        13 ~~~~~~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~~~vP~g~W~C~~C~~~   66 (71)
T 2ku3_A           13 IDEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQS   66 (71)
T ss_dssp             CCSSCSCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTCSSCCSSCCCCHHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCEEECCCCCCccccccCCCCcCCCCCcCCccCcCc
Confidence            45678999998753 34445555566999999999975321  12259999653

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=82.14  E-value=0.38  Score=36.64  Aligned_cols=45  Identities=29%  Similarity=0.547  Sum_probs=31.4

Q ss_pred             ccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC----Cccccccc
Q 044813          299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN----ASCPVCRK  343 (352)
Q Consensus       299 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~----~~CP~Cr~  343 (352)
                      .|.||.+.-.+.+.+.....|...||..|+++-|...    =.||.|+.
T Consensus        63 ~C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           63 TCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             CBTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             ccccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            7899986533334454555699999999998765432    25999975

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=82.03  E-value=0.55  Score=34.13  Aligned_cols=53  Identities=19%  Similarity=0.310  Sum_probs=35.4

Q ss_pred             CCccccccccccc-cCCCeeeeeCCCCCeechhhHHHHHh--cCCccccccccccc
Q 044813          295 PNDNTCPICLSRY-KPKQTLRTIPKCNHYFHAYCIDKWLR--MNASCPVCRKRLRF  347 (352)
Q Consensus       295 ~~~~~C~ICl~~~-~~~~~~~~lp~C~H~FH~~Ci~~Wl~--~~~~CP~Cr~~l~~  347 (352)
                      .++..|.||...- .+.+.+.....|.-.||..|+..-+.  ..=.||.|+.....
T Consensus        23 ~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~~~~~   78 (88)
T 2l43_A           23 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQSRAR   78 (88)
T ss_dssp             CCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHHHTTS
T ss_pred             CCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccCccch
Confidence            3567999998753 23345555556888999999975331  12359999765443

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=80.69  E-value=0.55  Score=32.85  Aligned_cols=51  Identities=18%  Similarity=0.462  Sum_probs=35.5

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc----CCcccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM----NASCPVCRKRLR  346 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~----~~~CP~Cr~~l~  346 (352)
                      .+...|.||..... ++.+...-.|.--||..|+..-...    .-.||.|+..+.
T Consensus        16 ~~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           16 NQIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             CEEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            34567999987643 4444455568999999999865532    335999987664

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=80.08  E-value=0.6  Score=35.38  Aligned_cols=39  Identities=18%  Similarity=0.391  Sum_probs=27.2

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHh
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLR  333 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~  333 (352)
                      ...+..|.||.+.=+.. .+..-..|...||..|++..+.
T Consensus         4 ~~~~~~C~~C~~~g~~~-~ll~C~~C~~~~H~~Cl~~~~~   42 (111)
T 2ysm_A            4 GSSGANCAVCDSPGDLL-DQFFCTTCGQHYHGMCLDIAVT   42 (111)
T ss_dssp             CCCCSCBTTTCCCCCTT-TSEECSSSCCEECTTTTTCCCC
T ss_pred             CCCCCCCcCCCCCCCCc-CCeECCCCCCCcChHHhCCccc
Confidence            34678999998763222 2233345999999999988764

---

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	352
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	2e-17
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-11
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	1e-10
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	5e-10
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	3e-09
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	7e-09
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	9e-09
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	8e-08
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	3e-07
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	1e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-06
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	3e-06
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	2e-04
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 = 73.4 bits (180), Expect = 2e-17
 Identities = 18/50 (36%), Positives = 31/50 (62%)

Query: 296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRL 345
           +   C +CL+  +  +  R +P+C H FHA C+D WL  +++CP+CR  +
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 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 = 57.3 bits (138), Expect = 1e-11
 Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 3/47 (6%)

Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR 346
           CPICL              C H F   CI +W+R N +CP+C+  + 
Sbjct: 8   CPICLEDPSNY---SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE 51

>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 = 55.1 bits (132), Expect = 1e-10
 Identities = 15/67 (22%), Positives = 23/67 (34%), Gaps = 14/67 (20%)

Query: 296 NDNTCPICLSRYKPKQTLRTIP--------------KCNHYFHAYCIDKWLRMNASCPVC 341
             + C IC +                           CNH FH +CI +WL+    CP+ 
Sbjct: 20  VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 79

Query: 342 RKRLRFK 348
            +   F+
Sbjct: 80  NREWEFQ 86

>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 = 52.9 bits (126), Expect = 5e-10
 Identities = 14/54 (25%), Positives = 20/54 (37%), Gaps = 2/54 (3%)

Query: 297 DNTCPICLSRYKPKQTLRTIP-KCNHYFHAYCIDKWLRMN-ASCPVCRKRLRFK 348
           D  CP C +      +L+ +   C H     C+D        +CP C   LR  
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS 56

>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 = 51.2 bits (122), Expect = 3e-09
 Identities = 15/58 (25%), Positives = 20/58 (34%), Gaps = 5/58 (8%)

Query: 296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN-ASCPVCRKRLRFKSPFV 352
               C IC    K    ++  P C H     C+  W       CP CR  ++   P V
Sbjct: 22  TFQLCKICAENDK---DVKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIV 75

>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 = 49.5 bits (117), Expect = 7e-09
 Identities = 10/56 (17%), Positives = 17/56 (30%), Gaps = 3/56 (5%)

Query: 296 NDNTCPICLSRYKPKQTLRTIPK-CNHYFHAYCIDKWLR--MNASCPVCRKRLRFK 348
           +   C IC      ++             H  C+  WL    N +C +C      +
Sbjct: 5   DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNTR 60

>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 = 48.9 bits (116), Expect = 9e-09
 Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 1/45 (2%)

Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRK 343
           CP+C+   +          C +    +C  +     N  CP CRK
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRK 47

>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 = 46.0 bits (109), Expect = 8e-08
 Identities = 10/48 (20%), Positives = 17/48 (35%), Gaps = 7/48 (14%)

Query: 299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR 346
            C  C +  K  + L     C H   + C++        CP+C+    
Sbjct: 8   RCQQCQAEAKCPKLL----PCLHTLCSGCLEAS---GMQCPICQAPWP 48

>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 = 46.2 bits (108), Expect = 3e-07
 Identities = 13/72 (18%), Positives = 22/72 (30%), Gaps = 19/72 (26%)

Query: 291 RQPKPNDNTCPICL--------------SRYKPKQTLRTIPKCNHYFHAYCIDKWLR--- 333
                 +  C IC+              S+      +  + KC+H FH  C+        
Sbjct: 19  ELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGN 78

Query: 334 --MNASCPVCRK 343
              +  CP C+ 
Sbjct: 79  KDGSLQCPSCKT 90

>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 = 44.7 bits (105), Expect = 1e-06
 Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 7/54 (12%)

Query: 299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWL---RMNASCPVCRKRLRFKS 349
            CPICL   K   +     KC+H F  +C+ K L   +  + CP+C+  +  +S
Sbjct: 23  ECPICLELIKEPVST----KCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS 72

>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 = 44.1 bits (104), Expect = 1e-06
 Identities = 14/49 (28%), Positives = 18/49 (36%), Gaps = 5/49 (10%)

Query: 299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLR-MNASCPVCRKRLR 346
           +C IC               C H F   CI + L+ M + CP CR    
Sbjct: 25  SCQICEHILADPVETS----CKHLFCRICILRCLKVMGSYCPSCRYPCF 69

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.9 bits (100), Expect = 3e-06
 Identities = 11/54 (20%), Positives = 18/54 (33%), Gaps = 5/54 (9%)

Query: 299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSPFV 352
            C  C +  +    L     C H F + C+   +     CPVC      +   +
Sbjct: 24  RCSRCTNILREPVCL---GGCEHIFCSNCVSDCI--GTGCPVCYTPAWIQDLKI 72

>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 = 38.1 bits (88), Expect = 2e-04
 Identities = 12/56 (21%), Positives = 20/56 (35%), Gaps = 9/56 (16%)

Query: 297 DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWL--------RMNASCPVCRKR 344
            + C +CL  Y  +Q    I +C   F   C+ +++            SCP     
Sbjct: 5   SSGCKLCLGEYPVEQMTT-IAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP 59

>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 = 7/48 (14%), Positives = 17/48 (35%), Gaps = 3/48 (6%)

Query: 299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR 346
            C I        +     PK    F    ++++++   + P+  + L 
Sbjct: 2   LCAISGK---VPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLS 46

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	352
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.74
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.51
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.5
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.48
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.42
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.42
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.4
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.29
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.16
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.14
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.12
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.05
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.9
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.87
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.81
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.61
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.51
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	92.87
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	92.77
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	88.42
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	87.19
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	84.88
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	84.59
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	83.94
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	82.1
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	80.65

>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=99.74  E-value=4.8e-19  Score=118.74  Aligned_cols=52  Identities=35%  Similarity=0.931  Sum_probs=47.3

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR  346 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~  346 (352)
                      +++.+|+|||++|.+++.++.++.|+|.||.+||++|++++.+||+||++|.
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            3566899999999999999888679999999999999999999999999875

>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=99.51  E-value=3.4e-15  Score=104.52  Aligned_cols=48  Identities=35%  Similarity=0.916  Sum_probs=42.1

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccc
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLR  346 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~  346 (352)
                      ...+|+||++.+.+  .++.+| |||.||.+||.+|++++.+||+||+++.
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            45689999999865  456787 9999999999999999999999999874

>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=99.50  E-value=4.9e-15  Score=109.21  Aligned_cols=52  Identities=31%  Similarity=0.678  Sum_probs=43.6

Q ss_pred             CccccccccccccCCC---------------eeeeeCCCCCeechhhHHHHHhcCCcccccccccccC
Q 044813          296 NDNTCPICLSRYKPKQ---------------TLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~---------------~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~  348 (352)
                      .+..|+||++++.+..               .+..++ |+|+||.+||++||+.+.+||+||+++..+
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   86 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEFQ   86 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCCEE
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCccccc
Confidence            4557999999886533               356677 999999999999999999999999998754

>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=99.48  E-value=3.3e-15  Score=98.68  Aligned_cols=48  Identities=23%  Similarity=0.560  Sum_probs=40.5

Q ss_pred             ccccccccccCCCee-eeeCCCCCeechhhHHHHHhc-CCccccccccccc
Q 044813          299 TCPICLSRYKPKQTL-RTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRF  347 (352)
Q Consensus       299 ~C~ICl~~~~~~~~~-~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l~~  347 (352)
                      +|+|||++|..++.. +.++ |||.||.+||++|++. +.+||+||+++..
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 4556 9999999999999975 4579999998864

>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=99.42  E-value=4.2e-14  Score=97.86  Aligned_cols=52  Identities=27%  Similarity=0.579  Sum_probs=41.3

Q ss_pred             CccccccccccccCCC--eeeeeCCCCCeechhhHHHHHhc-CCcccccccccccC
Q 044813          296 NDNTCPICLSRYKPKQ--TLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~--~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l~~~  348 (352)
                      ++.+|+||++++..+.  .+.+++ |||.||.+||..|+++ +.+||+||+.+...
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            4679999999865433  345566 9999999999999965 55799999988654

>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=99.42  E-value=7.8e-14  Score=100.35  Aligned_cols=52  Identities=27%  Similarity=0.739  Sum_probs=43.9

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc-CCcccccccccccCCCC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRFKSPF  351 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l~~~~~~  351 (352)
                      ....|+||++++.+   .+++| |||.||.+||..|++. +.+||+||+.|...+++
T Consensus        22 ~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~i   74 (79)
T d1fbva4          22 TFQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI   74 (79)
T ss_dssp             CTTBCTTTSSSBCC---EECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCCS
T ss_pred             CCCCCccCCCcCCC---eEEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccCCcee
Confidence            34579999998765   56788 9999999999999975 56799999999877765

>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=99.40  E-value=8.2e-14  Score=107.89  Aligned_cols=52  Identities=25%  Similarity=0.556  Sum_probs=41.2

Q ss_pred             CccccccccccccCC---------------CeeeeeCCCCCeechhhHHHHHhcC-----CcccccccccccC
Q 044813          296 NDNTCPICLSRYKPK---------------QTLRTIPKCNHYFHAYCIDKWLRMN-----ASCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~---------------~~~~~lp~C~H~FH~~Ci~~Wl~~~-----~~CP~Cr~~l~~~  348 (352)
                      .+..|+||++++...               ..+++++ |+|+||.+||++|++.+     .+||+||+.+..+
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             ccccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            456899999998542               2456677 99999999999999753     4799999977554

>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=99.29  E-value=3.8e-13  Score=90.01  Aligned_cols=48  Identities=15%  Similarity=0.329  Sum_probs=41.3

Q ss_pred             ccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       299 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      .|+||++.++++  + .++.|||+||.+||.+|++++.+||+||+++..++
T Consensus         2 ~C~Ic~~~~~~P--v-~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~d   49 (56)
T d2baya1           2 LCAISGKVPRRP--V-LSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   49 (56)
T ss_dssp             CCTTTCSCCSSE--E-EETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             CCccCCchHHhc--C-ccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHh
Confidence            699999998753  4 44459999999999999999999999999987765

>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=99.16  E-value=9.3e-12  Score=84.40  Aligned_cols=54  Identities=19%  Similarity=0.404  Sum_probs=39.5

Q ss_pred             CCccccccccccccCCCeee-eeCCCCCeechhhHHHHHh--cCCcccccccccccC
Q 044813          295 PNDNTCPICLSRYKPKQTLR-TIPKCNHYFHAYCIDKWLR--MNASCPVCRKRLRFK  348 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~-~lp~C~H~FH~~Ci~~Wl~--~~~~CP~Cr~~l~~~  348 (352)
                      ++...|.||++++....... ...+|+|.||.+||.+|++  .+.+||+||+++..+
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~k   60 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNTR   60 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeecC
Confidence            46789999999986542111 1112469999999999994  456899999988653

>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=99.14  E-value=2.8e-12  Score=85.37  Aligned_cols=47  Identities=21%  Similarity=0.573  Sum_probs=39.1

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      +..+|+||++.+.+.   +++| |||.||..||+.|   +.+||+||+++....
T Consensus         5 ~~l~C~IC~~~~~~p---~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           5 QFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             CCCCCcccCcccCCC---EEec-CCCHHhHHHHHcC---CCcCcCCCCcccCCC
Confidence            346999999999764   5778 9999999999876   678999999886543

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.12  E-value=9.4e-12  Score=90.25  Aligned_cols=49  Identities=27%  Similarity=0.573  Sum_probs=40.5

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc-CCcccccccccccC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRFK  348 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l~~~  348 (352)
                      ++..|+||++.+.+.   .+++ |||.|+.+||.+|++. +.+||+||.++...
T Consensus        22 ~~l~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~   71 (86)
T d1rmda2          22 KSISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (86)
T ss_dssp             HHTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cCcCCccCCcchhcc---eecC-CCChhhHHHHHHHHhhCCCcCcccCCCCChh
Confidence            346899999998753   5677 9999999999999975 46799999987644

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=4e-11  Score=90.59  Aligned_cols=50  Identities=32%  Similarity=0.782  Sum_probs=40.7

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC---CcccccccccccCC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN---ASCPVCRKRLRFKS  349 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~---~~CP~Cr~~l~~~~  349 (352)
                      +...|+||++.|.++   ..++ |||.||..||..|++.+   ..||+||+++..++
T Consensus        20 ~~l~CpIC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (103)
T d1jm7a_          20 KILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (103)
T ss_dssp             HHTSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             cCcCCCccCchhCCe---EEcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhh
Confidence            346899999998764   3577 99999999999999664   37999999886543

>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=98.90  E-value=1.2e-10  Score=86.88  Aligned_cols=49  Identities=20%  Similarity=0.529  Sum_probs=39.7

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      +...|+||++.|.++  +...+ |||.||.+||..|+.  ..||+||..+...+
T Consensus        21 ~~l~C~IC~~~~~~p--v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~   69 (97)
T d1jm7b_          21 KLLRCSRCTNILREP--VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWIQD   69 (97)
T ss_dssp             HTTSCSSSCSCCSSC--BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSCSS
T ss_pred             hcCCCccCCchhhcC--ceeCC-CCCchhHHHHHHHHh--ccccccCCcCchhh
Confidence            356899999999765  44456 999999999999985  46999999876544

>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=98.87  E-value=6.9e-10  Score=79.53  Aligned_cols=52  Identities=17%  Similarity=0.182  Sum_probs=43.2

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhc-CCcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~l~~~~  349 (352)
                      ..++..|+||++-|.+.  + +++ |||.|+..||.+|+.+ +.+||+||+++...+
T Consensus         4 iP~~l~CpIc~~l~~dP--v-~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~   56 (80)
T d2c2la2           4 IPDYLCGKISFELMREP--C-ITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ   56 (80)
T ss_dssp             CCSTTBCTTTCSBCSSE--E-ECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CCccccCcCcCchhhhh--c-ccC-CcCeecHHHHHHHHhcCCccCCCccccccccc
Confidence            34788999999998865  3 577 9999999999999965 567999999886544

>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=98.81  E-value=1.6e-09  Score=77.10  Aligned_cols=52  Identities=25%  Similarity=0.523  Sum_probs=43.5

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC-CcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN-ASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~-~~CP~Cr~~l~~~~  349 (352)
                      ..++..|+||++-|.+.  + +++ |||.|+..||.+|++.+ .+||.|+.++...+
T Consensus         5 iP~~l~CpIc~~~m~dP--V-~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~   57 (78)
T d1t1ha_           5 FPEYFRCPISLELMKDP--V-IVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHAG   57 (78)
T ss_dssp             CSSSSSCTTTSCCCSSE--E-EET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC
T ss_pred             CCccCCCcCcCchhhCc--e-Ecc-CCCcchHHHHHHHHHHCCCCCCcccccCCccc
Confidence            34688999999998765  3 577 99999999999999764 57999999887654

>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=98.61  E-value=1.8e-08  Score=74.66  Aligned_cols=53  Identities=15%  Similarity=0.141  Sum_probs=44.1

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCCcccccccccccCC
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS  349 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~l~~~~  349 (352)
                      ..++..|+||++-|.++   .+++.|+|.|...||..|++.+.+||+||+++...+
T Consensus        19 ~P~~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~   71 (98)
T d1wgma_          19 ACDEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQ   71 (98)
T ss_dssp             CCTTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTT
T ss_pred             CcHHhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCcccccccccchh
Confidence            44689999999998875   366634568999999999999999999999987654

>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=98.51  E-value=1.9e-08  Score=74.15  Aligned_cols=47  Identities=23%  Similarity=0.660  Sum_probs=37.9

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC--------Ccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN--------ASCPVCR  342 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~--------~~CP~Cr  342 (352)
                      ....+|+||++++...+.++.++ |+|.||.+|+..|++.+        -+||.|+
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            35679999999998777777776 99999999999999531        2599853

>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=92.87  E-value=0.018  Score=35.80  Aligned_cols=44  Identities=27%  Similarity=0.709  Sum_probs=31.4

Q ss_pred             ccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCC----ccccccc
Q 044813          299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA----SCPVCRK  343 (352)
Q Consensus       299 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~----~CP~Cr~  343 (352)
                      .|.||-..-.. +.+..-..|...||.+|++.-+...+    .||.||.
T Consensus         2 ~C~vC~~~~~~-~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCC-CCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            58888765433 34445556999999999998765433    4999975

>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=92.77  E-value=0.012  Score=38.53  Aligned_cols=50  Identities=20%  Similarity=0.540  Sum_probs=36.3

Q ss_pred             CCccccccccccccCCCeeeeeCCCCCeechhhHHHHH---h--cCCcccccccc
Q 044813          295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWL---R--MNASCPVCRKR  344 (352)
Q Consensus       295 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl---~--~~~~CP~Cr~~  344 (352)
                      .....|.||.....+++.++.-..|+.-||..|+..=.   .  .+-.||.|+..
T Consensus         4 ~~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            35679999998877766655566699999999996422   1  23469999753

>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=88.42  E-value=0.04  Score=35.61  Aligned_cols=46  Identities=22%  Similarity=0.447  Sum_probs=31.8

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcC----Cccccccccc
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMN----ASCPVCRKRL  345 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~----~~CP~Cr~~l  345 (352)
                      .+..|.||.+.    ..+..-..|.-.||..|++..+...    -.||.|+...
T Consensus         8 ~~~~C~~C~~~----g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           8 HMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SCSSCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CcCCCcCCCCC----CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            45579999752    3344444689999999998766432    2599997643

>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=87.19  E-value=0.11  Score=34.30  Aligned_cols=47  Identities=26%  Similarity=0.537  Sum_probs=32.2

Q ss_pred             CccccccccccccCCCeeeeeCCCCCeechhhHHHHHhcCC----cccccccccc
Q 044813          296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNA----SCPVCRKRLR  346 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~----~CP~Cr~~l~  346 (352)
                      ....|.||.+   . +.+..-..|...||..|+...+...+    .||.|+..-.
T Consensus         6 ~c~~C~~C~~---~-~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   56 (70)
T d1fp0a1           6 SATICRVCQK---P-GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   56 (70)
T ss_dssp             SSSCCSSSCS---S-SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCCCCCCC---c-CEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCc
Confidence            3456777754   2 33555556999999999998875433    3999976443

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.88  E-value=0.32  Score=26.33  Aligned_cols=29  Identities=14%  Similarity=0.442  Sum_probs=24.9

Q ss_pred             cccccccccccCCCeeeeeCCCCCeechhhH
Q 044813          298 NTCPICLSRYKPKQTLRTIPKCNHYFHAYCI  328 (352)
Q Consensus       298 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci  328 (352)
                      ..|+-|...+...|.++.-.  +++||.+|.
T Consensus         3 g~Ca~C~~~I~~~e~VmRA~--~~VyHl~CF   31 (31)
T d1rutx3           3 GACSACGQSIPASELVMRAQ--GNVYHLKCF   31 (31)
T ss_dssp             EECTTTCCEECTTSEEEEET--TEEECGGGC
T ss_pred             cccccccCcCChhHhheecc--cceeeeccC
Confidence            47999999999999888774  899999984

>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=84.59  E-value=0.43  Score=32.07  Aligned_cols=36  Identities=22%  Similarity=0.628  Sum_probs=26.1

Q ss_pred             CCCccccccccccccCCCeeeeeCCCCCeechhhHHHH
Q 044813          294 KPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKW  331 (352)
Q Consensus       294 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~W  331 (352)
                      ...+..|.|| +.+...+.. -...|+.+||..|+..-
T Consensus        12 v~~D~mC~vC-~v~t~~~l~-pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          12 VVNDEMCDVC-EVWTAESLF-PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTT-CCCCSSCCS-SCSSSSSCCCHHHHHHH
T ss_pred             CCcCcccccc-Cccccccee-cceeecchhhHHHHHHh
Confidence            4567899999 666654422 22258999999999987

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {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 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.94  E-value=0.095  Score=36.35  Aligned_cols=49  Identities=16%  Similarity=0.440  Sum_probs=32.6

Q ss_pred             cccccccccccc-CCCeeeeeCCCCCeechhhHHHHH-----hc---CCccccccccc
Q 044813          297 DNTCPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWL-----RM---NASCPVCRKRL  345 (352)
Q Consensus       297 ~~~C~ICl~~~~-~~~~~~~lp~C~H~FH~~Ci~~Wl-----~~---~~~CP~Cr~~l  345 (352)
                      ...|.||..... ++..+.....|...||..|+...+     +.   .-.||.|+...
T Consensus        16 ~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~   73 (88)
T d1weva_          16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQM   73 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHH
T ss_pred             cCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchH
Confidence            457999986543 333455555699999999987543     11   23599997543

>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=82.10  E-value=0.25  Score=33.24  Aligned_cols=48  Identities=17%  Similarity=0.394  Sum_probs=31.0

Q ss_pred             CccccccccccccCCCeeeeeC--CCCCeechhhHHHH----Hh-----cCCccccccccc
Q 044813          296 NDNTCPICLSRYKPKQTLRTIP--KCNHYFHAYCIDKW----LR-----MNASCPVCRKRL  345 (352)
Q Consensus       296 ~~~~C~ICl~~~~~~~~~~~lp--~C~H~FH~~Ci~~W----l~-----~~~~CP~Cr~~l  345 (352)
                      +...| ||-.....+..+ .+.  .|..=||..|+.--    -.     .+-.||.|+..-
T Consensus        15 ~~~~C-~C~~~~~~~~~i-~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~~   73 (78)
T d1wewa_          15 IKVRC-VCGNSLETDSMI-QCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTS   73 (78)
T ss_dssp             CCCCC-SSCCCCCCSCEE-ECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCC
T ss_pred             CccEe-ECCCccCCCcEE-EEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCcC
Confidence            34567 998877655544 442  48899999998421    01     124699997644

>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=80.65  E-value=0.39  Score=31.70  Aligned_cols=44  Identities=25%  Similarity=0.606  Sum_probs=25.3

Q ss_pred             ccccccccccccCCCeeeee-CCCCC-eechhhHHHHHhc----CCcccccccc
Q 044813          297 DNTCPICLSRYKPKQTLRTI-PKCNH-YFHAYCIDKWLRM----NASCPVCRKR  344 (352)
Q Consensus       297 ~~~C~ICl~~~~~~~~~~~l-p~C~H-~FH~~Ci~~Wl~~----~~~CP~Cr~~  344 (352)
                      ..-| ||.... .++.+... ..|.+ -||..||.  +..    +-.||.|+..
T Consensus        16 ~~~C-iC~~~~-~~~~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~~   65 (71)
T d1wesa_          16 PTYC-LCNQVS-YGEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRGD   65 (71)
T ss_dssp             CCCS-TTCCCC-CSSEECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSSC
T ss_pred             CCEE-EeCCCC-CCCEEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCccc
Confidence            3445 998653 33333321 12544 59999985  332    2349999753