Citrus Sinensis ID: 043654

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390
Protein Sequence
MHIFKLSFIIVVISSSLSFFTATTTIQNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELPSGKFSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSSYLQYRLNPIGCLSGANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSDNLRLTWDEPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHREIPKAARIAIMVGAGVPTMLCLLGLACIICAKLNSPDTRRRRRSNYNFPEFNPTVAPQPTVIAGLDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLPAAAAAADDDDDDHA
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHccccccccccccccccccccccccEEEcEEccccccccccccccEEEEccccccEEEEcccccEEEEEEEcccEEEEEEcccccccccccccccccccccccccccEEEEEcccccccccccccccccccccEEEEEEccccccccccccccEEEEEEEEEEEcccccccccccccccEEEEEcccccccccccccccEEccccccccccccccccccHHHHHHEEEEccccccccccccEEEEEEEcccccccccccccccccccccccccccccEEccccccccccccEEEEcccccccccccccccEEccccccccEEccccccccccccccHHHHHcccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHccccHHHHcccccccccccccEEEEcEEccccccccccccccEEEEccccccEEEEcccccEEEEEEEEcEEEEEEEccccccHHHHHccccccccccccccccEEEEEcccccccccccccccccccccEEEEEEccHHHHccccccccEEEEEcEcccccccHHHHHHHHHccccEEEcccccccccHHcccEEEEEccccccEEcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHcccccHHHHHHccEEEEEcccccccccccccEEEEcccccccEEEEcccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MHIFKLSFIIVVISSSlsfftatttiqncssvscrrdepwirfpfrittrqpescgypgfnvscdssssqtilelpsgkfslqaidYDAQQIWindqsnclpqkilslnlsgspfkalynqqftffncsssylqyrlnpigclsganftifaTSSTRVVNNFIQSSSCRFVarvqvpvdwpfydqvvssdlsdnlrltwdepqcgdcekgggrcgfknnssteigclslhhreiPKAARIAIMVGAGVPTMLCLLGLACIICaklnspdtrrrrrsnynfpefnptvapqptviagldgptiesypkivlgesrrlpkpddntcpiclaeykpketlktipecthcfhaDCVDEWLRlnatcpvcrnsparlpplpaaaaaaddddddha
Flexible Loop (DISEMBL)
MHIFKLSFIIVVISSSLSFFTAtttiqncssvscrrdepWIRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELPSGKFSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSSYLQYRLNPIGCLSGANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSDNLRLTWDEPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHREIPKAARIAIMVGAGVPTMLCLLGLACIICAKlnspdtrrRRRSNYnfpefnptvapqptvIAGLDGPTIESYPKIVlgesrrlpkpddntcpICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLpaaaaaaddddDDHA
Low Complexity Region (SEG)
MHifklsfiivvissslsfftatttIQNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELPSGKFSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSSYLQYRLNPIGCLSGANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSDNLRLTWDEPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHREIPKAARIAIMVGAGVPTMlcllglaciicaklNSPDTRRRRRSNYNFPEFNPTVAPQPTVIAGLDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLPaaaaaaddddddHA
Disordered region (IsUnstruct)
**IFKLSFIIVVISSSLSFFTATTTIQNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGFNVSCD****QTILELPSGKFSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSSYLQYRLNPIGCLSGANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSDNLRLTWDEPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHREIPKAARIAIMVGAGVPTMLCLLGLACIICAKLN****************F**TVAPQPTVIAGLDGPTIESYPKIVLGE********DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR************************
Disordered Region (DISOPRED)
*HIFKLSFIIVVISSSLSFFTATTTIQNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELPSGKFSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSSYLQYRLNPIGCLSGANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSDNLRLTWDEPQCGD******************GCLSLHHREIPKAARIAIMVGAGVPTMLCLLGLACIICAKLNSPDTRRRRRSNYNFPEFNPTVAPQPTVIAGLDGPTIESYPKIVLGESRR**KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNS**********************
Disordered Region (DISEMBL)
MHIFKLSFIIVVISSSLSFFTATTTIQNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELPSGKFSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSSYLQYRLNPIGCLSGANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSDNLRLTWDEPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHREIPKAARIAIMVGAGVPTMLCLLGLACIICAKLNSPDTRRRRRSNYNFPEFNPTVAPQPTVIAGLDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLP**************
Disordered Region (DISPRO)
MHIFKLSFIIVVISSSLSFFTATTTIQNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELPSGKFSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSSYLQYRLNPIGCLSGANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSDNLRLTWDEPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHREIPKAARIAIMVGAGVPTMLCLLGLACIICAKLNSP**************************AGLDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSP*********************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MHIFKLSFIIVVISSSLSFFTATTTIQNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELPSGKFSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSSYLQYRLNPIGCLSGANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSDNLRLTWDEPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHREIPKAARIAIMVGAGVPTMLCLLGLACIICAKLNSPDTRRRRRSNYNFPEFNPTVAPQPTVIAGLDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLPAAAAAADDDDDDHA
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	390	2.2.26 [Sep-21-2011]
P0CH01	372	Putative RING-H2 finger p	no	no	0.856	0.897	0.396	3e-64
P0CH02	362	Putative RING-H2 finger p	no	no	0.8	0.861	0.402	7e-61
Q9SKK8	377	RING-H2 finger protein AT	no	no	0.853	0.883	0.374	2e-55
Q9C7E9	299	RING-H2 finger protein AT	no	no	0.725	0.946	0.390	8e-51
P0CH03	366	Putative RING-H2 finger p	no	no	0.8	0.852	0.362	2e-46
Q9FL42	159	Putative RING-H2 finger p	no	no	0.320	0.786	0.469	6e-27
O82353	214	RING-H2 finger protein AT	no	no	0.207	0.378	0.482	9e-17
Q9M313	212	RING-H2 finger protein AT	no	no	0.210	0.386	0.450	3e-16
Q8RX29	217	RING-H2 finger protein AT	no	no	0.194	0.350	0.512	6e-16
Q9FG21	197	Putative RING-H2 finger p	no	no	0.223	0.441	0.442	3e-14

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

 Score =  245 bits (626), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 140/353 (39%), Positives = 204/353 (57%), Gaps = 19/353 (5%)

Query: 27  QNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELP-SGKFSLQAI 85
           Q CSS SC RD+  +RFPF + ++QPE CG+ GFN+ C ++S +T L+LP SG F ++ I
Sbjct: 24  QQCSSSSCGRDDVHVRFPFWLLSKQPELCGHAGFNLQC-TASPKTALKLPNSGTFLVREI 82

Query: 86  DYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSSYLQ-YRLNPIGCLS 144
           DY +QQI + D  NCL +K+L+ ++S SPF ALY   +TF +C +   +  R + I CL 
Sbjct: 83  DYLSQQIRLYDPENCLARKLLTFDISRSPFSALYLVSYTFLSCPNEVAKSSRFDSIPCLG 142

Query: 145 GANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQV--VSSDLSD-NLRLTWDE 201
            +  +  AT+S  +  + +   SC+ V  + VPV      +    S+D++D +L L WD 
Sbjct: 143 NSTTSFLATTSLDLAKSML--PSCQIVKTLDVPVSRRVIAKKSRFSTDVNDKDLWLKWDS 200

Query: 202 PQCGDCEKGGGRCGFKNNSSTEIGCLSLH---HREIPKAARIAIMVGAGVPTMLCLLGLA 258
           P C DCE+   RCGF++N+S ++ C       +   P+  +I ++   G  T+       
Sbjct: 201 PSCSDCERDFLRCGFRSNTSLQVKCFPFENSGYNTEPQVLKIILLSIIGPLTIFA----T 256

Query: 259 CIICAKLNSPDTRRRRRSNYNFPEFNPTVAPQPTVIAGLDGPTIESYPKIVLGESRRLP- 317
           CI      S       + N       P    +  V  GLD   IESY K  LGESRRLP 
Sbjct: 257 CIAVGVCTSERFASLIQRNVAIAALQPN---EVIVTTGLDESIIESYKKTELGESRRLPG 313

Query: 318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPA 370
             DD  CPICL+EY  KET++ IPEC HCFH++C+D WL+++ +CP+CRNSP+
Sbjct: 314 NNDDIVCPICLSEYASKETVRCIPECDHCFHSECIDVWLKIHGSCPLCRNSPS 366

Arabidopsis thaliana (taxid: 3702)

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

 Score =  234 bits (598), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 135/335 (40%), Positives = 191/335 (57%), Gaps = 23/335 (6%)

Query: 41  IRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELP-SGKFSLQAIDYDAQQIWINDQSN 99
           IRFPF         C +P FN+ C ++ + T+L+LP SG F +Q IDY  QQI+IND  N
Sbjct: 46  IRFPF---------CDHPLFNLLC-TNLNNTVLQLPMSGTFFVQYIDYRKQQIYINDPEN 95

Query: 100 CLPQKILSLNLSGSPFKALYNQQFTFFNCSSSYLQYRLNP-IGCLSGANFTIFATSSTRV 158
           CL +++L+ N+SGSPF   ++  +TF  C +  +     P I CLS +  + FATS+  +
Sbjct: 96  CLAKRLLTFNISGSPFSPRFDTLYTFLTCPNELVLPSWYPSIPCLSNSTSSFFATSNFAL 155

Query: 159 VNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSDNLRLTWDEPQCGDCEKGGGRCGFKN 218
             + +   SC+ V R+ VP D PF +   SS L+ +L L W+ P C  CE    RCGFKN
Sbjct: 156 AESML--PSCQIVKRIYVPADSPFAETRFSSYLNQSLLLEWNSPNCRGCEIDYLRCGFKN 213

Query: 219 NSSTEIGCLSLHHREIPKAARIAIMVGAGVPTMLCLLGLACIICAKLNSPDTRRRRRSNY 278
            +S E+ C           A +A+++   +   + +L + CI     N+P     RR ++
Sbjct: 214 KASPEVKCFGAKKSGHLSRAVVAVLICLSIIGAV-ILFVTCIAIRIHNTP-----RRRHW 267

Query: 279 NFPEFNPTVAPQPTVIA---GLDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKE 335
             P    TV  QP  +    GLD  TIE Y  + LGESRR P  +   CPICL+EY  KE
Sbjct: 268 AVPAAAATVMQQPREVMATRGLDQSTIEKYKTMELGESRRPPGTNGIVCPICLSEYVSKE 327

Query: 336 TLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPA 370
           T++ IPEC HCFHA C+D WL+++ +CP+CRNS A
Sbjct: 328 TVRFIPECDHCFHAKCIDVWLKIHGSCPLCRNSRA 362

Arabidopsis thaliana (taxid: 3702)

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

 Score =  216 bits (551), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 134/358 (37%), Positives = 196/358 (54%), Gaps = 25/358 (6%)

Query: 29  CSSVSCRRDEPWIRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELPSGK-FSLQAIDY 87
           C S SC ++    RFPF + + QPESCGY GFN+ C   ++ T L+LP  + F ++ IDY
Sbjct: 29  CYSFSCSQESVVARFPFSLFSYQPESCGYSGFNLICKDDAN-TTLKLPKSEPFLVKEIDY 87

Query: 88  DAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNC-SSSYLQYRLNPIGCLSGA 146
           + Q+I +ND  NCL +++L+ + SGSPF  L ++ +TF  C   + +      I CL   
Sbjct: 88  ETQRIRLNDPENCLARRLLNFDPSGSPFSFLRSRNYTFLICPKEANITASFRAIDCLGNT 147

Query: 147 NFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPF-YDQVVSSDLSDNLRLTWDEPQCG 205
             + F     +  N     SSC     + +P  W   Y        S ++ L WD P C 
Sbjct: 148 TSSFFV---VQFENLGSMPSSCHIFKILPLPFSWFVAYTTYPDGQNSRDMWLKWDSPDCR 204

Query: 206 DCE-KGGGRCGFKNNSSTEIGCLS-----LHHREIPKAARIAIMVGAGVPTMLCL-LGLA 258
           DCE +   RCGFKNN+S ++ C S     LH+  + +  +I  +   G  T L   +GL 
Sbjct: 205 DCERRTNSRCGFKNNTSHQVECFSSVNPGLHNTGL-QVLKIMCLSLVGPLTALTFCVGL- 262

Query: 259 CIICAKLNSPDTRRRRRSNYNFPEFNPTVAPQPT---VIAGLDGPTIESYPKIVLGESRR 315
            ++C    S +    +         + +V  QP+      GLD  TIESY K+ LGESRR
Sbjct: 263 -VMC----SSERVSSQIQQAVVARLSGSVTSQPSNEVARIGLDESTIESYKKVELGESRR 317

Query: 316 LPK-PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARL 372
           LP   +D  CPICL+EY  KET++ +PEC HCFH +C+D WL+L+++CPVCR++P+ L
Sbjct: 318 LPTGSNDVVCPICLSEYATKETVRCLPECEHCFHTECIDAWLKLHSSCPVCRSNPSPL 375

Arabidopsis thaliana (taxid: 3702)

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

 Score =  201 bits (511), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 119/305 (39%), Positives = 167/305 (54%), Gaps = 22/305 (7%)

Query: 77  SGKFSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSSYL--Q 134
           SG F +  I+Y  QQI I+D  NC+ +++L+ N SGSPF   ++  +TF  C +  +   
Sbjct: 2   SGTFLVDEINYQKQQISISDPENCMVKRLLTFNTSGSPFSYGFSFYYTFLTCPNEVVIPV 61

Query: 135 YRLNPIGCLSGANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSD---- 190
           + L  I CLS +  + FATS+  +  + +   SC+ V  + VPVD  + D +        
Sbjct: 62  WSLMSIPCLSNSTSSFFATSN--LTFSKLLPPSCQIVKGLYVPVDVIYKDVITEEKGFST 119

Query: 191 --LSDNLRLTWDEPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHREIPKAARIAIMVGAGV 248
                N+ L W  P C  CEK   RCGFKN +S E+  L+    E     R  I+     
Sbjct: 120 VPWLGNVLLEWSSPNCRGCEKESLRCGFKNKASLEVKYLADPPDETKSRLRPLIIT---- 175

Query: 249 PTMLCLLG---LACIICAKL-NSPDTRRRRRSNYNFPEFNPTVAPQPTVIA-GLDGPTIE 303
              LC++G     CI   ++ NS     +RR N      N T  P+  V+  GLD  TIE
Sbjct: 176 ---LCIIGGITATCIAAIRIYNSERFVNQRRQNAAITARNTTQQPRGVVVTTGLDQSTIE 232

Query: 304 SYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCP 363
           SY K+ LGESRRLP  +   CPICL+EY  KET++ +PEC HCFH  C+DEWL+++++CP
Sbjct: 233 SYKKVELGESRRLPGTNGIICPICLSEYASKETVRCMPECDHCFHVQCIDEWLKIHSSCP 292

Query: 364 VCRNS 368
           VCRNS
Sbjct: 293 VCRNS 297

Arabidopsis thaliana (taxid: 3702)

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

 Score =  186 bits (473), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 123/339 (36%), Positives = 184/339 (54%), Gaps = 27/339 (7%)

Query: 41  IRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELP-SGKFSLQAIDYDAQQIWINDQSN 99
           IRFPF         C +  FN+ C +  ++T+LELP SG F ++ IDY  Q+I+IND  N
Sbjct: 46  IRFPF---------CNHARFNLHC-TDLNKTVLELPMSGTFLVRDIDYRRQKIYINDP-N 94

Query: 100 CLPQKILSLNLSGSPFKALYNQQFTFFNCSSSYLQYRLNP-IGCLSGANFTIFATSSTRV 158
           CL +++L+ N+SGSPF   ++  +TF +C +  +     P I CLS +  + FATS+  +
Sbjct: 95  CLAKRLLTFNISGSPFSPHFDILYTFLSCPNEVVLPSWYPSIPCLSNSTSSFFATSNYSL 154

Query: 159 VNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSD-NLRLTWDEPQC-GDCEKGGGRCGF 216
             + + S  C+ V R+ VP   PF +   SSDL++ +L L W  P C   C     + G 
Sbjct: 155 AQSMLPS--CQIVKRLHVPATSPFGETRFSSDLNNQSLLLEWALPDCRAKCLGATKKTGT 212

Query: 217 KNNSSTEIGCLSLHH--REIPKAARIAIMVGAGVPTMLCLLGLACIICAKLNSPDTRRRR 274
             NS+      S  +  RE+     ++  V   V ++  +       C  +   D+ R  
Sbjct: 213 IYNSNIFSCSFSFLYDSRELFINGNLSSGVLVLVISLSAVTVFVFPTCIAIRLYDSER-- 270

Query: 275 RSNYNFPEFNPTVAPQPTVIA---GLDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEY 331
              ++      TV  QP  +    GLD  TIE++ K+ LGESRRL   +   CPICL+EY
Sbjct: 271 ---FDSAIAAATVMQQPREVMARRGLDQSTIETFKKMELGESRRLSGTNGIVCPICLSEY 327

Query: 332 KPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPA 370
             KET++ IPEC HCFH +C+D WL+++ +CP+CRNS A
Sbjct: 328 ASKETVRFIPECDHCFHVECIDVWLKIHGSCPLCRNSCA 366

Arabidopsis thaliana (taxid: 3702)

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

 Score =  122 bits (305), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 61/130 (46%), Positives = 83/130 (63%), Gaps = 5/130 (3%)

Query: 241 AIMVGAGVPTMLCLLGLACIICAKLNSPDTRRRRRSNYNFPEFNPTVAPQPTVIAGLDGP 300
            I +   +  ++  + LA  IC  + S  T R   ++    +     +P   V  GLD P
Sbjct: 16  GIAIAVSILVLISFIMLASYIC--IRSKSTGRDEATSDVVLDLP---SPAAEVKLGLDRP 70

Query: 301 TIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNA 360
            IESYP+IVLG+SRRLP+P++  C ICL +Y+ +E ++ IPEC HCFH DCVDEWLR +A
Sbjct: 71  VIESYPRIVLGDSRRLPRPNNGPCSICLCDYEAREPVRCIPECNHCFHTDCVDEWLRTSA 130

Query: 361 TCPVCRNSPA 370
           TCP+CRNSPA
Sbjct: 131 TCPLCRNSPA 140

Arabidopsis thaliana (taxid: 3702)

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

 Score = 88.2 bits (217), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 42/87 (48%), Positives = 49/87 (56%), Gaps = 6/87 (6%)

Query: 293 VIAGLDGPTIESYPKIVLGESRRLPKPD------DNTCPICLAEYKPKETLKTIPECTHC 346
           V+ GLD   I SYPK    +       D      D TC ICL EYK  E L+ +PEC H 
Sbjct: 101 VVVGLDQAVINSYPKFHFSKDTSAASSDGFGGGGDTTCSICLCEYKEAEMLRMMPECKHY 160

Query: 347 FHADCVDEWLRLNATCPVCRNSPARLP 373
           FH  C+D WL+LN +CPVCRNSP   P
Sbjct: 161 FHLCCLDAWLKLNGSCPVCRNSPLPTP 187

Arabidopsis thaliana (taxid: 3702)

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

 Score = 86.7 bits (213), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 41/91 (45%), Positives = 52/91 (57%), Gaps = 9/91 (9%)

Query: 292 TVIAGLDGPTIESYPK---------IVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPE 342
            V+ GLD   I SYPK         +V G+     +  + TC ICL EY  +E L+ +PE
Sbjct: 95  VVVGGLDHSVINSYPKFHFTKDITAVVNGDGFHDGEGRETTCSICLCEYMEEEMLRMMPE 154

Query: 343 CTHCFHADCVDEWLRLNATCPVCRNSPARLP 373
           C H FH  C+D WL+LN +CPVCRNSP   P
Sbjct: 155 CKHYFHVYCLDAWLKLNGSCPVCRNSPLPTP 185

Arabidopsis thaliana (taxid: 3702)

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

 Score = 85.5 bits (210), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 40/78 (51%), Positives = 50/78 (64%), Gaps = 2/78 (2%)

Query: 296 GLDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEW 355
           GLD  TI+SYPKI+  E++       + C ICL +YK K  L+ +P+C H FH  C+D W
Sbjct: 121 GLDEDTIQSYPKILYSEAKG--PTTASCCAICLGDYKGKHLLRQLPDCNHLFHLKCIDTW 178

Query: 356 LRLNATCPVCRNSPARLP 373
           LRLN TCPVCR SP   P
Sbjct: 179 LRLNPTCPVCRTSPLPTP 196

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FG21|ATL71_ARATH Putative RING-H2 finger protein ATL71 OS=Arabidopsis thaliana GN=ATL71 PE=3 SV=1

 Score = 79.7 bits (195), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 42/95 (44%), Positives = 55/95 (57%), Gaps = 8/95 (8%)

Query: 294 IAGLDGPTIESYPKIVLGESR---RLPKPDDNT--CPICLAEYKPKETLKTIPECTHCFH 348
           + GL    I+ +PK+   E+R    L K    T  C ICLA+YK  + ++ +P+C H FH
Sbjct: 94  VLGLTEEVIKGFPKLPYEEARVSYSLQKESSTTSCCSICLADYKKMDMIRVLPDCNHLFH 153

Query: 349 ADCVDEWLRLNATCPVCRNSPARLPPLPAAAAAAD 383
            +CVD WLRL+ TCPVCR SP    P PA    AD
Sbjct: 154 DNCVDPWLRLHPTCPVCRTSPL---PSPAMTPVAD 185

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	390
255544994	377	ring finger protein, putative [Ricinus c	0.951	0.984	0.6	1e-125
224132906	384	predicted protein [Populus trichocarpa]	0.943	0.958	0.583	1e-119
359490864	1054	PREDICTED: uncharacterized protein LOC10	0.876	0.324	0.586	1e-117
302144043	381	unnamed protein product [Vitis vinifera]	0.879	0.900	0.584	1e-116
334188355	382	RING/U-box domain-containing protein-lik	0.864	0.882	0.585	1e-109
357463879	388	RING finger protein [Medicago truncatula	0.884	0.889	0.519	7e-96
356516041	385	PREDICTED: putative RING-H2 finger prote	0.892	0.903	0.515	9e-95
255647206	385	unknown [Glycine max]	0.892	0.903	0.512	2e-93
224067976	373	predicted protein [Populus trichocarpa]	0.912	0.954	0.447	8e-83
449514611	388	PREDICTED: putative RING-H2 finger prote	0.758	0.762	0.507	5e-78

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

 Score =  454 bits (1168), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 228/380 (60%), Positives = 281/380 (73%), Gaps = 9/380 (2%)

Query: 1   MHIFKLSFIIVVISSSLSFFTATTTIQNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGF 60
           M I KL F  + +    SF     +   C + +C R+EP IRFPFRI  RQ +SCGYPGF
Sbjct: 1   MDIVKLIFSTIFL---FSFLQIIASQHLCLNSACARNEPVIRFPFRIENRQFKSCGYPGF 57

Query: 61  NVSCDSSSSQTILELP-SGKFSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALY 119
           +VSCD++++ T+LELP SG F++QAIDY  Q++WIND +NCLP++ILSLNLS SPF  L+
Sbjct: 58  DVSCDTNTNHTLLELPYSGTFTVQAIDYATQELWINDPNNCLPKRILSLNLSNSPFVGLF 117

Query: 120 NQQFTFFNCS-SSYLQYRLNPIGCLSGANFTIFATSSTRVVNNFIQSSSCRFVARVQVPV 178
            Q FTFFNCS ++Y  ++LNPI CLS +  T+FATSS RV+N+    SSC   A ++VPV
Sbjct: 118 YQNFTFFNCSLTNYTNFQLNPIACLSSSTNTVFATSSLRVINHLSGLSSCEAFASMEVPV 177

Query: 179 DWPFYDQVVSSDLSDNLRLTWDEPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHREIPKAA 238
           +WPFY Q++SSDLSD+LRLTW  P+CG CE  GGRCG ++NSS  I C +   R IPK+A
Sbjct: 178 EWPFYGQILSSDLSDDLRLTWAVPRCGKCESHGGRCGPRSNSSRLIVCANPKLRGIPKSA 237

Query: 239 RIAIMVGAGVPTMLCLLGLACIICAKLNSPDTRRRRRSNYNFPEFNPTVAPQPTVIA-GL 297
           R  I +G G+P  LC+LGL C IC + +    RRR   ++ FPE N  V  QPTV A GL
Sbjct: 238 RYIITIGGGIPVALCVLGLLCFICNRASYYTGRRR---SHLFPESNFVVNQQPTVSARGL 294

Query: 298 DGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLR 357
           DG T+ESYPKIVLGESRRLPKPDD TC ICL+EYKPKETLKTIPEC HCFHADC+DEWL+
Sbjct: 295 DGQTLESYPKIVLGESRRLPKPDDITCSICLSEYKPKETLKTIPECQHCFHADCIDEWLK 354

Query: 358 LNATCPVCRNSPARLPPLPA 377
           LNA+CP+CR SP RLPP PA
Sbjct: 355 LNASCPICRKSPDRLPPPPA 374

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 =  435 bits (1119), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 224/384 (58%), Positives = 273/384 (71%), Gaps = 16/384 (4%)

Query: 3   IFKLSFI--IVVISSSLSFFTATTTIQNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGF 60
           ++ L  I  I +  + +S+    T+   C   +C R EP IRFPFRI  RQ ++CGYPGF
Sbjct: 2   VYSLKVISSISLFLTMISYLNIATSQNLCLRTACNRSEPVIRFPFRIQNRQSKACGYPGF 61

Query: 61  NVSCDSSSSQTILEL-PSGKFSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALY 119
           ++SC  SS++T+LEL  SGKF +QAIDY  Q+IWINDQ NCL  +ILSLNL GSPF  LY
Sbjct: 62  DISC-GSSNETMLELHSSGKFVVQAIDYATQEIWINDQGNCLADRILSLNLFGSPFIGLY 120

Query: 120 NQQFTFFNCSSS-YLQYRLNPIGCLSGANFTIFATSSTRVVNNFIQ-SSSCRFVARVQVP 177
            Q FTFFNCSSS Y +Y LNPI CLSG+ +T+FATS++ VV++    +SSC  +  V VP
Sbjct: 121 YQSFTFFNCSSSDYRKYGLNPIACLSGSTYTVFATSNSTVVSSLQNGNSSCNLIRVVPVP 180

Query: 178 VDWPFYDQVVSSDLSDNLRLTWDEPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHR----- 232
           VDWPFY Q+ SSDLS++L LTW+EP CG CE  GGRC  K NSS ++ C +L        
Sbjct: 181 VDWPFYQQISSSDLSEDLHLTWEEPDCGKCESRGGRCALKINSS-KVVCSNLPRHVATTW 239

Query: 233 -EIPKAARIAIMVGAGVPTMLCLLGLACIICAKLNSPDTRRRRRSNYNFPEFNPTVAPQP 291
            E P++A  AI+  AG+P  L L+GL C IC ++   D  R    +   PE + TV  + 
Sbjct: 240 SEFPRSALYAIITAAGIPGALILVGLLCFICGRVKYCD--RSSSESGGLPEVDSTVDTES 297

Query: 292 TVI-AGLDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHAD 350
            VI AGLDGPTIESYPKIVLGESRRLPKPDDNTC ICL EYKPKETLKTIPEC HCFH+D
Sbjct: 298 VVIIAGLDGPTIESYPKIVLGESRRLPKPDDNTCSICLCEYKPKETLKTIPECKHCFHSD 357

Query: 351 CVDEWLRLNATCPVCRNSPARLPP 374
           C+DEWLRLNA+CP+CRNSP RLPP
Sbjct: 358 CIDEWLRLNASCPICRNSPERLPP 381

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  429 bits (1103), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 207/353 (58%), Positives = 257/353 (72%), Gaps = 11/353 (3%)

Query: 27  QNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELPSGKFSLQAID 86
           Q C   SC R E  IRFPFR+   QPESCGYPGF++SCD++  QTIL+LPSG+FS+Q ID
Sbjct: 6   QACEKSSCHRSELEIRFPFRLEDHQPESCGYPGFDLSCDATM-QTILKLPSGEFSVQGID 64

Query: 87  YDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSSYLQYRLNPIGCLSGA 146
           Y  Q+IWIND  NCLP+ ILSLNLSGS F+ +Y   ++FF CS+ Y   RL+ I CLS  
Sbjct: 65  YGTQEIWINDPKNCLPRLILSLNLSGSSFRGVYYHNYSFFKCSADY---RLDSIACLSDD 121

Query: 147 NFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSDNLRLTWDEPQCGD 206
           N+T+FAT S+RV+N    S  C  +  V VP + PFYD V +SDLS +L L+W  P+CGD
Sbjct: 122 NYTVFATDSSRVIN--FLSPVCDLIKSVMVPAELPFYDPVWTSDLSSDLLLSWGAPRCGD 179

Query: 207 CEKGGGRCGFKNNSSTEIGCLSLHHREIPKAARIAIMVGAGVPTMLCLLGLACIICAKLN 266
           CE  GGRCGF++NSS EIGC  +  R +P+ AR AI VG G+P ++C +GL C +C ++ 
Sbjct: 180 CEMEGGRCGFRSNSSLEIGCFDVPKRGLPRTARYAITVGVGIPALMCFVGLLCFLCGRVK 239

Query: 267 SPDTRRRRRSNYNFPEFNPTVAPQPTVIAGLDGPTIESYPKIVLGESRRLPKPDDNTCPI 326
           +   RRR        EF   V PQPT + GLDGPTIESYPK+VLGESRRLPKPDDNTC I
Sbjct: 240 AFGGRRR-----PIAEFTSMVTPQPTAVMGLDGPTIESYPKVVLGESRRLPKPDDNTCSI 294

Query: 327 CLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLPAAA 379
           CL+EY+PKETLK IPEC HCFH++C+DEWL LNA+CP+CRNSPA+ PP   A+
Sbjct: 295 CLSEYRPKETLKIIPECQHCFHSECIDEWLHLNASCPICRNSPAKSPPSQIAS 347

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 =  424 bits (1091), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 207/354 (58%), Positives = 256/354 (72%), Gaps = 11/354 (3%)

Query: 21  TATTTIQNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELPSGKF 80
           T     Q C   SC R E  IRFPFR+   QPESCGYPGF++SCD++  QTIL+LPSG+F
Sbjct: 29  TMAANSQACEKSSCHRSELEIRFPFRLEDHQPESCGYPGFDLSCDATM-QTILKLPSGEF 87

Query: 81  SLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSSYLQYRLNPI 140
           S+Q IDY  Q+IWIND  NCLP+ ILSLNLSGS F+ +Y   ++FF CS+    YRL+ I
Sbjct: 88  SVQGIDYGTQEIWINDPKNCLPRLILSLNLSGSSFRGVYYHNYSFFKCSA---DYRLDSI 144

Query: 141 GCLSGANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSDNLRLTWD 200
            CLS  N+T+FAT S+RV+N    S  C  +  V VP + PFYD V +SDLS +L L+W 
Sbjct: 145 ACLSDDNYTVFATDSSRVIN--FLSPVCDLIKSVMVPAELPFYDPVWTSDLSSDLLLSWG 202

Query: 201 EPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHREIPKAARIAIMVGAGVPTMLCLLGLACI 260
            P+CGDCE  GGRCGF++NSS EIGC  +  R +P+ AR AI VG G+P ++C +GL C 
Sbjct: 203 APRCGDCEMEGGRCGFRSNSSLEIGCFDVPKRGLPRTARYAITVGVGIPALMCFVGLLCF 262

Query: 261 ICAKLNSPDTRRRRRSNYNFPEFNPTVAPQPTVIAGLDGPTIESYPKIVLGESRRLPKPD 320
           +C ++ +   RRR        EF   V PQPT + GLDGPTIESYPK+VLGESRRLPKPD
Sbjct: 263 LCGRVKAFGGRRR-----PIAEFTSMVTPQPTAVMGLDGPTIESYPKVVLGESRRLPKPD 317

Query: 321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPP 374
           DNTC ICL+EY+PKETLK IPEC HCFH++C+DEWL LNA+CP+CRNSPA+ PP
Sbjct: 318 DNTCSICLSEYRPKETLKIIPECQHCFHSECIDEWLHLNASCPICRNSPAKSPP 371

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 =  400 bits (1029), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 205/350 (58%), Positives = 257/350 (73%), Gaps = 13/350 (3%)

Query: 34  CRRDEPWIRFPFRITTRQPESCGY-PGFNVSCD-SSSSQTILELP-SGKFSLQAIDYDAQ 90
           CRRD P IRFPFR+  +Q  SCGY  GF+++CD ++ ++T + LP SG F+++ IDY AQ
Sbjct: 35  CRRDGPIIRFPFRLKHQQSHSCGYDKGFDLTCDINAGNRTTITLPFSGNFTVEEIDYAAQ 94

Query: 91  QIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNC-SSSYLQYR-LNPIGCLSGANF 148
           +IWIND +NCLPQ+IL LNL+ +PF  +Y +QFTFFNC +S YL++R LNPI CLSG N 
Sbjct: 95  EIWINDPNNCLPQRILQLNLNSTPFSGVYMRQFTFFNCPTSEYLRFRPLNPITCLSGKNS 154

Query: 149 TIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSS-DLSDNLRLTWDEPQCGDC 207
           T+FAT S RV+N ++ S SCR +  V VPV WPFY+Q+VSS DLSDNL LTW  P+C  C
Sbjct: 155 TVFATPSPRVIN-YLSSQSCRLMKTVYVPVRWPFYEQIVSSSDLSDNLWLTWRVPRCSRC 213

Query: 208 EKGGGRCGFKNNSSTEIGCLSLHHREIPKAARIAIMVGAGVPTMLCLLGLACIICAKLNS 267
           E  GG+CG K+NSS EI C  +H   IP+ AR AI VGAG+P  L + GL C + +K++S
Sbjct: 214 EIKGGKCGIKSNSSREIICSHVHKPAIPRRARYAIAVGAGIPGALIVFGLFCFVYSKISS 273

Query: 268 PDTRRRRRSNYNFPEFNPTVAP---QPTVIAGLDGPTIESYPKIVLGESRRLPKPDDNTC 324
              RRR       PE N   A       ++ GLDGPTIESYPKIVLGES+RLPK DD TC
Sbjct: 274 CIKRRRLVPT---PEINNAQAHYLHSSVIVMGLDGPTIESYPKIVLGESKRLPKVDDATC 330

Query: 325 PICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPP 374
            ICL+EY+PKETL+TIP+C HCFHADC+DEWL+LN TCPVCRNSP ++ P
Sbjct: 331 AICLSEYEPKETLRTIPQCQHCFHADCIDEWLKLNGTCPVCRNSPEQILP 380

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357463879|ref|XP_003602221.1| RING finger protein [Medicago truncatula] gi|355491269|gb|AES72472.1| RING finger protein [Medicago truncatula]

 Score =  357 bits (915), Expect = 7e-96,   Method: Compositional matrix adjust.
 Identities = 184/354 (51%), Positives = 238/354 (67%), Gaps = 9/354 (2%)

Query: 25  TIQNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGFNVSC-DSSSSQTILELPSGK-FSL 82
           TI+ C    C  +EP IRFPF I  +Q  +CGYPGF V C +S  +QT+L LP  +  S+
Sbjct: 29  TIETCLDTVCHMNEPLIRFPFHIEEKQTNTCGYPGFKVLCNESEKNQTLLNLPYMENLSI 88

Query: 83  QAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSS--YLQYRLNPI 140
           Q I+Y  Q++++ND +NCLP+++LSLNLS SPF A+Y QQFTFFNCS +  YL  R  PI
Sbjct: 89  QKINYAKQELFVNDPNNCLPKQLLSLNLSTSPFDAVYYQQFTFFNCSYNLEYLTSRYKPI 148

Query: 141 GCLSG-ANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSDNLRLTW 199
            CLS  + + +FAT S  V  +   SS C  V  V VPV  PF+DQV+SS+L+D+LRL+W
Sbjct: 149 ACLSDYSKYNVFATPSLTVFVHL--SSVCDLVDTVNVPVQSPFFDQVLSSELNDDLRLSW 206

Query: 200 DEPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHRE-IPKAARIAIMVGAGVPTMLCLLGLA 258
           + P CG CE  GGRCGFKNNS+ EI C ++  R+ I + A  AI + AGVP +LC + L 
Sbjct: 207 NSPPCGRCESHGGRCGFKNNSTFEIACYNVPSRQGISRGASYAIAICAGVPALLCFVSLL 266

Query: 259 CIICAKLNSPDTRRRRRSNYNFPEFNPTVAPQPTVIAGLDGPTIESYPKIVLGESRRLPK 318
             IC+K     T     +     +F   +  + T  +GLD PTIESYPKIV+G+   LPK
Sbjct: 267 SWICSKFRI-GTHGWIWARETVADFESLLDHEYTNTSGLDKPTIESYPKIVIGDDIHLPK 325

Query: 319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARL 372
           P+  TCPICL+EY PKET+KT+PEC HCFHA C+DEWL LNA+CP+CR SP RL
Sbjct: 326 PNGKTCPICLSEYMPKETVKTMPECEHCFHAQCIDEWLPLNASCPICRTSPPRL 379

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356516041|ref|XP_003526705.1| PREDICTED: putative RING-H2 finger protein ATL21A-like [Glycine max]

 Score =  353 bits (905), Expect = 9e-95,   Method: Compositional matrix adjust.
 Identities = 184/357 (51%), Positives = 237/357 (66%), Gaps = 9/357 (2%)

Query: 22  ATTTIQNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELP--SGK 79
           A  +I+ C    C+  EP IRFPFRI   Q  SCG+PGF+VSC+ +  QT+L L     +
Sbjct: 24  ALASIEACLDSVCQTHEPVIRFPFRIEGEQENSCGHPGFSVSCNHNG-QTLLNLSYCGEE 82

Query: 80  FSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSS--YLQYRL 137
             +Q I+Y AQQ+W+ND +NCLP+++LSLNLS SPF A+Y Q+FTFFNCS +  YL  R 
Sbjct: 83  LRIQRINYAAQQLWVNDPNNCLPKRLLSLNLSASPFDAVYRQKFTFFNCSFNLEYLVRRY 142

Query: 138 NPIGCLSGA-NFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSDNLR 196
            PI CLS +  + +FAT S+ V  +   SS C  VA V VPV  PF D+V SS+LSD+LR
Sbjct: 143 RPISCLSDSPKYLVFATPSSTVFGHL--SSVCDLVATVTVPVQSPFNDRVTSSELSDDLR 200

Query: 197 LTWDEPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHREIPKAARIAIMVGAGVPTMLCLLG 256
            +WD P CG CE  GGRCGFK+N + E+ C  +  + I   AR AI++  G   +LC +G
Sbjct: 201 FSWDSPSCGRCESHGGRCGFKSNETFELDCSLVPSKGISHGARYAIVICIGATALLCCMG 260

Query: 257 LACIICAKLNSPDTRRRRRSNYNFPEFNPTVAPQPTVIAGLDGPTIESYPKIVLGESRRL 316
           +   I + L   + +    +N   P+F      +PT + GLD PTIESYPKIVLGE+R L
Sbjct: 261 VLRCIHSWLRIGN-QDGPWANETVPDFEALAGSRPTTVTGLDRPTIESYPKIVLGENRGL 319

Query: 317 PKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLP 373
           PK  D TC ICL+EY PKET+KTIPEC HCFHA C+DEWL LNA+CP+CR SP +LP
Sbjct: 320 PKKGDKTCSICLSEYIPKETVKTIPECGHCFHAQCIDEWLPLNASCPICRTSPRKLP 376

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255647206|gb|ACU24071.1| unknown [Glycine max]

 Score =  348 bits (893), Expect = 2e-93,   Method: Compositional matrix adjust.
 Identities = 183/357 (51%), Positives = 235/357 (65%), Gaps = 9/357 (2%)

Query: 22  ATTTIQNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELP--SGK 79
           A  +I+ C    C+  EP IRFPFRI   Q  SCG+PGF+VSC+ +  QT+L L     +
Sbjct: 24  ALASIEACLDSVCQTHEPVIRFPFRIEGEQENSCGHPGFSVSCNHNG-QTLLNLSYCGEE 82

Query: 80  FSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSS--YLQYRL 137
             +Q I+Y AQQ+W+ND +NCLP+++LSLNLS SPF A+Y Q+FTFFNCS +  YL  R 
Sbjct: 83  LRIQRINYAAQQLWVNDPNNCLPERLLSLNLSASPFDAVYRQKFTFFNCSFNLEYLVRRY 142

Query: 138 NPIGCLSGA-NFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSDNLR 196
            PI CLS +    +FAT S+ V  +   SS C  VA V VPV  PF D+V SS+LSD+LR
Sbjct: 143 RPISCLSDSPKNLVFATPSSTVFGHL--SSVCDLVATVTVPVQSPFNDRVTSSELSDDLR 200

Query: 197 LTWDEPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHREIPKAARIAIMVGAGVPTMLCLLG 256
            +WD P CG CE  GGRCGFK+N + E+ C  +  + I   AR AI++  G   +LC +G
Sbjct: 201 FSWDSPSCGRCESHGGRCGFKSNETFELDCSLVPSKGISHGARYAIVICIGATALLCCMG 260

Query: 257 LACIICAKLNSPDTRRRRRSNYNFPEFNPTVAPQPTVIAGLDGPTIESYPKIVLGESRRL 316
           +   I + L   + +    +N   P+F      +PT + GLD PTIESYPKIVLGE+R L
Sbjct: 261 VLRCIHSWLRIGN-QDGPWANETVPDFEALAGSRPTTVTGLDRPTIESYPKIVLGENRGL 319

Query: 317 PKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLP 373
           PK  D TC ICL+EY PKET+KTIPEC HCFHA C+DEWL LNA+CP+CR  P +LP
Sbjct: 320 PKKGDKTCSICLSEYIPKETVKTIPECGHCFHAQCIDEWLPLNASCPICRTFPRKLP 376

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224067976|ref|XP_002302627.1| predicted protein [Populus trichocarpa] gi|222844353|gb|EEE81900.1| predicted protein [Populus trichocarpa]

 Score =  313 bits (802), Expect = 8e-83,   Method: Compositional matrix adjust.
 Identities = 169/378 (44%), Positives = 237/378 (62%), Gaps = 22/378 (5%)

Query: 1   MHIFKLSFIIVVISSSLSFFTATTTIQNCSSVSCRRDEPWIRFPFRITTRQPESCGYPGF 60
           M I ++ F+I +    L F  A     +CS  +C   +  +RFPFRI  +QP +CGYPGF
Sbjct: 1   MCILEVLFLIKL----LHFINAAA---DCSISTCSIGDVPVRFPFRIEGQQPRNCGYPGF 53

Query: 61  NVSCDSSSSQTILELP-SGKFSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALY 119
           ++SC++ SS T+L+LP SG F ++ I+Y  QQI + D  NCL +++L LNLSGSPF   +
Sbjct: 54  DLSCNNQSS-TVLKLPHSGDFLVRDINYLTQQIQLYDSDNCLAKRLLQLNLSGSPFLGFF 112

Query: 120 NQQFTFFNCSSSYLQYRLNPIGCLSGANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVD 179
           +Q +TF +C +  ++ R   I CLS +  ++ ATSS  +VN    SSSC  ++ +++PV 
Sbjct: 113 HQNYTFLSCPTQLVKSRFTTINCLSNSTISVLATSSLNLVNEM--SSSCDVISTLKIPVS 170

Query: 180 WPF-YDQVVSSDLSDNLRLTWDEPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHREIPKAA 238
           WP  Y++  +SDLS+NL LTW  P C  CE  G  CGF  N+S EIGC   +  +  K+A
Sbjct: 171 WPVKYNEGFTSDLSENLLLTWFSPDCNKCETQGSMCGFHGNASQEIGCF--YDSKKGKSA 228

Query: 239 RIAIMVGA-----GVPTMLCLLGLACIICAKLNSPDTRRRRRSNYNFPEFNPTVAPQPTV 293
               + G      G+P ++C  G+A  +      P T     +  N       V+PQPT+
Sbjct: 229 SDLRVFGIFILLIGIPVLVCASGIAISLYLMPWHPRTNEANATQRN--STIAAVSPQPTI 286

Query: 294 IA-GLDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCV 352
           +  GLD  TIES+ K+VLGES+RLP P+ +TC ICL+EY  KET++ IPEC HCFHADCV
Sbjct: 287 LVLGLDESTIESFDKLVLGESKRLPGPNGSTCAICLSEYNSKETVRIIPECKHCFHADCV 346

Query: 353 DEWLRLNATCPVCRNSPA 370
           DEWLR+N+TCPVCR SP+
Sbjct: 347 DEWLRMNSTCPVCRKSPS 364

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449514611|ref|XP_004164427.1| PREDICTED: putative RING-H2 finger protein ATL21B-like [Cucumis sativus]

 Score =  297 bits (761), Expect = 5e-78,   Method: Compositional matrix adjust.
 Identities = 159/313 (50%), Positives = 201/313 (64%), Gaps = 17/313 (5%)

Query: 67  SSSQTILELPSGKFSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFF 126
           SS+   LE   G+F +Q IDY  Q+IW+ND +NCLP+KILSL L GSPF A     FTFF
Sbjct: 83  SSNFKELEDNIGEFIVQYIDYKNQEIWVNDPNNCLPRKILSLMLFGSPFDAKNTVDFTFF 142

Query: 127 NCSSSY---LQYRLNPIGCLSGANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFY 183
           NCS S      + LNPI CLSG ++ +FA+SS+ V  N I SS C  V  V VP+    Y
Sbjct: 143 NCSGSDEIPYDFNLNPISCLSGLSYAVFASSSSMV--NEILSSRCELVKTVSVPMSLETY 200

Query: 184 DQVVSSDLSDNLRLTWDEPQCGDCEKGGGRCGFKNNSSTEIGCL--SLHHREIPKAARIA 241
               S DL ++LRL W +P C  CE  GG CG K NS+ EI C   +     + + AR A
Sbjct: 201 ----SWDLRNDLRLGWKKPNCKKCELNGGICGIKPNSTNEIQCKYNTSTQSGMARGARYA 256

Query: 242 IMVGAGVPTMLCLLGLACIICAKLNSPDTRRRRRSNYNFPEFNPTVAPQPTVIAGLDGPT 301
           I +G GVP  +C+LG  C +CA++ S  + R         E +  ++ +P +  GLDGPT
Sbjct: 257 ISIGVGVPVTMCVLGFLCCLCARVRSSTSGRNSSI-----EAHWVISSRP-ITMGLDGPT 310

Query: 302 IESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNAT 361
           I+SYPKIVLGES RLPKP DN CPICL+EY+PKET+KTIP+C H FH DC+DEWLRLN +
Sbjct: 311 IDSYPKIVLGESLRLPKPTDNICPICLSEYRPKETVKTIPQCQHFFHQDCIDEWLRLNPS 370

Query: 362 CPVCRNSPARLPP 374
           CP+CR  P + PP
Sbjct: 371 CPLCRMPPLKSPP 383

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	390
TAIR|locus:2040085	377	AT2G25410 [Arabidopsis thalian	0.502	0.519	0.357	1.6e-59
TAIR|locus:2010489	299	AT1G28040 [Arabidopsis thalian	0.733	0.956	0.380	3.2e-49
TAIR|locus:2169399	159	AT5G07040 [Arabidopsis thalian	0.212	0.522	0.638	1.2e-28
TAIR|locus:2039170	217	AT2G35910 [Arabidopsis thalian	0.202	0.364	0.518	1.9e-19
TAIR|locus:2062892	214	AT2G46160 [Arabidopsis thalian	0.207	0.378	0.482	3.5e-18
TAIR|locus:2144088	197	AT5G06490 [Arabidopsis thalian	0.279	0.553	0.409	7.9e-18
TAIR|locus:2082762	212	AT3G61550 [Arabidopsis thalian	0.207	0.382	0.455	9e-17
TAIR|locus:2122348	132	AT4G09100 [Arabidopsis thalian	0.182	0.537	0.486	1.3e-15
TAIR|locus:2074678	158	AT3G11110 [Arabidopsis thalian	0.184	0.455	0.410	1.6e-15
TAIR|locus:2062008	227	AT2G47560 [Arabidopsis thalian	0.256	0.440	0.333	1.4e-12

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

 Score = 347 (127.2 bits), Expect = 1.6e-59, Sum P(2) = 1.6e-59
 Identities = 73/204 (35%), Positives = 108/204 (52%)

Query:    29 CSSVSCRRDEPWIRFPFRITTRQPESCGYPGFNVSCDSSSSQTILELPSGK-FSLQAIDY 87
             C S SC ++    RFPF + + QPESCGY GFN+ C   ++ T L+LP  + F ++ IDY
Sbjct:    29 CYSFSCSQESVVARFPFSLFSYQPESCGYSGFNLICKDDANTT-LKLPKSEPFLVKEIDY 87

Query:    88 DAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNC-SSSYLQYRLNPIGCLSGA 146
             + Q+I +ND  NCL +++L+ + SGSPF  L ++ +TF  C   + +      I CL   
Sbjct:    88 ETQRIRLNDPENCLARRLLNFDPSGSPFSFLRSRNYTFLICPKEANITASFRAIDCLGNT 147

Query:   147 NFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDW-PFYDQVVSSDLSDNLRLTWDEPQCG 205
               + F      + +     SSC     + +P  W   Y        S ++ L WD P C 
Sbjct:   148 TSSFFVVQFENLGS---MPSSCHIFKILPLPFSWFVAYTTYPDGQNSRDMWLKWDSPDCR 204

Query:   206 DCEKG-GGRCGFKNNSSTEIGCLS 228
             DCE+    RCGFKNN+S ++ C S
Sbjct:   205 DCERRTNSRCGFKNNTSHQVECFS 228

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 = 513 (185.6 bits), Expect = 3.2e-49, P = 3.2e-49
 Identities = 115/302 (38%), Positives = 162/302 (53%)

Query:    77 SGKFSLQAIDYDAQQIWINDQSNCLPQKILSLNLSGSPFKALYNQQFTFFNCSSSYL--Q 134
             SG F +  I+Y  QQI I+D  NC+ +++L+ N SGSPF   ++  +TF  C +  +   
Sbjct:     2 SGTFLVDEINYQKQQISISDPENCMVKRLLTFNTSGSPFSYGFSFYYTFLTCPNEVVIPV 61

Query:   135 YRLNPIGCLSGANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLS-- 192
             + L  I CLS +  + FATS+  +  + +   SC+ V  + VPVD   Y  V++ +    
Sbjct:    62 WSLMSIPCLSNSTSSFFATSN--LTFSKLLPPSCQIVKGLYVPVD-VIYKDVITEEKGFS 118

Query:   193 -----DNLRLTWDEPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHREIPKAARIAIMVGAG 247
                   N+ L W  P C  CEK   RCGFKN +S E+  L+    E     R  I+    
Sbjct:   119 TVPWLGNVLLEWSSPNCRGCEKESLRCGFKNKASLEVKYLADPPDETKSRLRPLIIT--- 175

Query:   248 VPTMXXXXXXXXXXXXXXNSPDTRRRRRSNYNFPEFNPTVAPQPTVIA-GLDGPTIESYP 306
             +  +              NS     +RR N      N T  P+  V+  GLD  TIESY 
Sbjct:   176 LCIIGGITATCIAAIRIYNSERFVNQRRQNAAITARNTTQQPRGVVVTTGLDQSTIESYK 235

Query:   307 KIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
             K+ LGESRRLP  +   CPICL+EY  KET++ +PEC HCFH  C+DEWL+++++CPVCR
Sbjct:   236 KVELGESRRLPGTNGIICPICLSEYASKETVRCMPECDHCFHVQCIDEWLKIHSSCPVCR 295

Query:   367 NS 368
             NS
Sbjct:   296 NS 297

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 319 (117.4 bits), Expect = 1.2e-28, P = 1.2e-28
 Identities = 53/83 (63%), Positives = 66/83 (79%)

Query:   288 APQPTVIAGLDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCF 347
             +P   V  GLD P IESYP+IVLG+SRRLP+P++  C ICL +Y+ +E ++ IPEC HCF
Sbjct:    58 SPAAEVKLGLDRPVIESYPRIVLGDSRRLPRPNNGPCSICLCDYEAREPVRCIPECNHCF 117

Query:   348 HADCVDEWLRLNATCPVCRNSPA 370
             H DCVDEWLR +ATCP+CRNSPA
Sbjct:   118 HTDCVDEWLRTSATCPLCRNSPA 140

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 232 (86.7 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 42/81 (51%), Positives = 53/81 (65%)

Query:   293 VIAGLDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCV 352
             V+ GLD  TI+SYPKI+  E++  P    + C ICL +YK K  L+ +P+C H FH  C+
Sbjct:   118 VVPGLDEDTIQSYPKILYSEAKG-PTTA-SCCAICLGDYKGKHLLRQLPDCNHLFHLKCI 175

Query:   353 DEWLRLNATCPVCRNSPARLP 373
             D WLRLN TCPVCR SP   P
Sbjct:   176 DTWLRLNPTCPVCRTSPLPTP 196

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 221 (82.9 bits), Expect = 3.5e-18, P = 3.5e-18
 Identities = 42/87 (48%), Positives = 49/87 (56%)

Query:   293 VIAGLDGPTIESYPKIVLGESRRLPKPD------DNTCPICLAEYKPKETLKTIPECTHC 346
             V+ GLD   I SYPK    +       D      D TC ICL EYK  E L+ +PEC H 
Sbjct:   101 VVVGLDQAVINSYPKFHFSKDTSAASSDGFGGGGDTTCSICLCEYKEAEMLRMMPECKHY 160

Query:   347 FHADCVDEWLRLNATCPVCRNSPARLP 373
             FH  C+D WL+LN +CPVCRNSP   P
Sbjct:   161 FHLCCLDAWLKLNGSCPVCRNSPLPTP 187

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

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2144088 AT5G06490 [Arabidopsis thaliana (taxid:3702)]

 Score = 218 (81.8 bits), Expect = 7.9e-18, P = 7.9e-18
 Identities = 50/122 (40%), Positives = 67/122 (54%)

Query:   267 SPDTRRRRR-SNYNFP----EFNPTVAPQPTVIA---GLDGPTIESYPKIVLGESR---R 315
             +P TRRR+R SN   P     F+       TV+    GL    I+ +PK+   E+R    
Sbjct:    59 TPRTRRRQRESNGTLPPGQERFDFEDDESDTVVVEVLGLTEEVIKGFPKLPYEEARVSYS 118

Query:   316 LPKPDDNT--CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLP 373
             L K    T  C ICLA+YK  + ++ +P+C H FH +CVD WLRL+ TCPVCR SP   P
Sbjct:   119 LQKESSTTSCCSICLADYKKMDMIRVLPDCNHLFHDNCVDPWLRLHPTCPVCRTSPLPSP 178

Query:   374 PL 375
              +
Sbjct:   179 AM 180

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 209 (78.6 bits), Expect = 9.0e-17, P = 9.0e-17
 Identities = 41/90 (45%), Positives = 52/90 (57%)

Query:   293 VIAGLDGPTIESYPK---------IVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPEC 343
             V+ GLD   I SYPK         +V G+     +  + TC ICL EY  +E L+ +PEC
Sbjct:    96 VVGGLDHSVINSYPKFHFTKDITAVVNGDGFHDGEGRETTCSICLCEYMEEEMLRMMPEC 155

Query:   344 THCFHADCVDEWLRLNATCPVCRNSPARLP 373
              H FH  C+D WL+LN +CPVCRNSP   P
Sbjct:   156 KHYFHVYCLDAWLKLNGSCPVCRNSPLPTP 185

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 199 (75.1 bits), Expect = 1.3e-15, P = 1.3e-15
 Identities = 35/72 (48%), Positives = 47/72 (65%)

Query:   296 GLDGPTIESYPKIVLGESRRL-PKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDE 354
             GLD   I+S+P  V  E+R + P   +  C +CL E+K  ETL+ +P C H FHADCVD 
Sbjct:    56 GLDAEAIKSFPSFVYTEARGIEPGIGELECVVCLNEFKDDETLRLVPPCVHVFHADCVDI 115

Query:   355 WLRLNATCPVCR 366
             WL  ++TCP+CR
Sbjct:   116 WLSHSSTCPICR 127

GO:0005576 "extracellular region" evidence=ISM

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

TAIR|locus:2074678 AT3G11110 [Arabidopsis thaliana (taxid:3702)]

 Score = 180 (68.4 bits), Expect = 1.6e-15, Sum P(2) = 1.6e-15
 Identities = 30/73 (41%), Positives = 45/73 (61%)

Query:   296 GLDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEW 355
             GLD   I S P +VL    R  + ++  C ICL  ++  E +K +P C+HC+H +CVD W
Sbjct:    80 GLDPAEIRSLP-VVLCRRERAEEEEEKECCICLGGFEEGEKMKVLPPCSHCYHCECVDRW 138

Query:   356 LRLNATCPVCRNS 368
             L+  ++CP+CR S
Sbjct:   139 LKTESSCPLCRVS 151

GO:0005634 "nucleus" evidence=ISM

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

GO:0009741 "response to brassinosteroid stimulus" evidence=RCA

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

 Score = 172 (65.6 bits), Expect = 1.4e-12, P = 1.4e-12
 Identities = 35/105 (33%), Positives = 57/105 (54%)

Query:   271 RRRRRSNYNFPEFNPTVAPQPTVIAGLDGPTIESYPKIVLGESRRLPKPDDNT-CPICLA 329
             R  RR          T++  P   A LD   ++  P I +  S+  P P++   C +CL+
Sbjct:    56 RHNRRIRRRIRSHLRTLSASPRDQA-LDQAVLDKIP-IFVYSSKNPPPPEEKEECSVCLS 113

Query:   330 EYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPP 374
             E++ ++  + +P+C H FH DC+D W R  +TCP+CR +P + PP
Sbjct:   114 EFEEEDEGRLLPKCGHSFHVDCIDTWFRSRSTCPLCR-APVQ-PP 156

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	390
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	3e-12
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	1e-08
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	8e-08
pfam13947	106	pfam13947, GUB_WAK_bind, Wall-associated receptor	3e-06
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	5e-06
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	9e-06
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	9e-06
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	1e-04
smart00184	40	smart00184, RING, Ring finger	2e-04
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	3e-04
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	3e-04
pfam14380	94	pfam14380, WAK_assoc, Wall-associated receptor kin	0.001
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	0.002
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	0.002

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

 Score = 60.5 bits (147), Expect = 3e-12
 Identities = 23/45 (51%), Positives = 33/45 (73%), Gaps = 1/45 (2%)

Query: 322 NTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
           + CPICL E++P E +  +P C H FH +C+D+WLR + TCP+CR
Sbjct: 1   DECPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCR 44

Length = 46

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

 Score = 50.1 bits (120), Expect = 1e-08
 Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 4/45 (8%)

Query: 323 TCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCR 366
            CPICL E++       +  C H F   C+D+WL+    TCP+CR
Sbjct: 1   ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCR 42

Length = 45

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

 Score = 48.6 bits (116), Expect = 8e-08
 Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 9/56 (16%)

Query: 320 DDNTCPICLAEYKPKETLKTIP---------ECTHCFHADCVDEWLRLNATCPVCR 366
           +D+ C IC   +         P         EC H FH  C+  WL+   TCP+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|222467 pfam13947, GUB_WAK_bind, Wall-associated receptor kinase galacturonan-binding

 Score = 45.3 bits (108), Expect = 3e-06
 Identities = 25/98 (25%), Positives = 43/98 (43%), Gaps = 12/98 (12%)

Query: 41  IRFPFRITTRQPESCGY-PGFNVSCDSSSSQTILELPSGKFSLQAIDYDAQQIWINDQ-- 97
           I +PF I       C   PGF ++C++++S   L L +G + + +I      + + D   
Sbjct: 13  IPYPFGIGPG----CARDPGFELTCNNTTSPPRLLLGNGNYEVLSISLANGTVRVLDPIS 68

Query: 98  SNCL-----PQKILSLNLSGSPFKALYNQQFTFFNCSS 130
           SNC           SL+L G  F +    +F    C++
Sbjct: 69  SNCYNSSGKRTDNGSLSLGGPFFFSSSRNKFVVVGCNT 106

This cysteine-rich GUB_WAK_bind domain is the extracellular part of this serine/threonine kinase that binds to the cell-wall pectins. Length = 106

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

 Score = 42.9 bits (101), Expect = 5e-06
 Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 3/47 (6%)

Query: 320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
           ++  CPICL   +       +  C H F  +C+  +L+  + CP+CR
Sbjct: 1   EELECPICLDLLR---DPVVLTPCGHVFCRECILRYLKKKSKCPICR 44

Length = 45

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

 Score = 47.3 bits (112), Expect = 9e-06
 Identities = 21/61 (34%), Positives = 26/61 (42%), Gaps = 11/61 (18%)

Query: 320 DDNTCPICLAE--YKPKETL--------KTIPECTHCFHADCVDEWLRLNATCPVCRNSP 369
            D TC IC+ E  +   E L        K +P C H  H  C+  WL    TCP+CR   
Sbjct: 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPV 344

Query: 370 A 370
            
Sbjct: 345 I 345

Length = 491

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

 Score = 46.3 bits (110), Expect = 9e-06
 Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 4/51 (7%)

Query: 321 DNTCPICLAEYKPKET----LKTIPECTHCFHADCVDEWLRLNATCPVCRN 367
           D  C IC+ +   KE        +  C H F  +C+D W +   TCPVCR 
Sbjct: 174 DKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRT 224

Length = 238

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

 Score = 43.1 bits (101), Expect = 1e-04
 Identities = 21/53 (39%), Positives = 31/53 (58%), Gaps = 5/53 (9%)

Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWL-RLNATCPVCRNSPARLPPL 375
           C IC++ +   + L+ +P C H FH  CVD+WL   +  CPVCR +   +PP 
Sbjct: 326 CAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTA---IPPP 374

Length = 374

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

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 19/43 (44%), Positives = 22/43 (51%), Gaps = 4/43 (9%)

Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVC 365
           CPICL EY        I  C H F   C+ +WL   N TCP+C
Sbjct: 1   CPICLEEY---LKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 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 = 43.1 bits (101), Expect = 3e-04
 Identities = 14/50 (28%), Positives = 20/50 (40%), Gaps = 5/50 (10%)

Query: 324  CPIC---LAEYKPKETLKTIPECTHCFHADCVDEWLRL--NATCPVCRNS 368
            C IC   L         K    C + FH  C+ +W      + CP+CR+ 
Sbjct: 1472 CAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSE 1521

Length = 1525

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

 Score = 37.8 bits (88), Expect = 3e-04
 Identities = 19/43 (44%), Positives = 22/43 (51%), Gaps = 4/43 (9%)

Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNA-TCPVC 365
           CPICL E K      TI  C H F + C+  WL     TCP+C
Sbjct: 1   CPICLEEPKDP---VTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

>gnl|CDD|222721 pfam14380, WAK_assoc, Wall-associated receptor kinase C-terminal

 Score = 37.4 bits (87), Expect = 0.001
 Identities = 22/69 (31%), Positives = 27/69 (39%), Gaps = 7/69 (10%)

Query: 165 SSSCRFVARVQVPVDWPFYDQVVSSDLSDNLR----LTW--DEPQCGDCEKGGGRCGFKN 218
           S  C     V V       D        + LR    L W  D   C +CE  GGRCG+ +
Sbjct: 22  SGGCSRSVVVPVLGSALGADLGSGDGYEEVLREGFELEWNVDPGDCSECEASGGRCGY-D 80

Query: 219 NSSTEIGCL 227
            +S   GCL
Sbjct: 81  QTSEFFGCL 89

This WAK_assoc domain is cysteine-rich and lies C-terminal to the binding domain, GUB_WAK_bind, pfam13947. Length = 94

>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 = 36.7 bits (85), Expect = 0.002
 Identities = 16/47 (34%), Positives = 18/47 (38%), Gaps = 1/47 (2%)

Query: 321 DNTCPICLAEYKP-KETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
             TCP C     P  E       C H FH  C+  WL     CP+ R
Sbjct: 31  MGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

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

 Score = 36.3 bits (84), Expect = 0.002
 Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 5/51 (9%)

Query: 321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNAT---CPVCRNS 368
           D TCP C  ++   +      +C H FH  C+ +WL    +   CP+CR +
Sbjct: 32  DGTCPQC--KFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCRQT 80

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	390
PF13947	106	GUB_WAK_bind: Wall-associated receptor kinase gala	99.77
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.74
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.55
PF14380	94	WAK_assoc: Wall-associated receptor kinase C-termi	99.52
PHA02929	238	N1R/p28-like protein; Provisional	99.34
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.3
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.23
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.02
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.0
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.96
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.95
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.91
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.89
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.88
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.87
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.81
PHA02926	242	zinc finger-like protein; Provisional	98.79
PF14634	44	zf-RING_5: zinc-RING finger domain	98.77
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.7
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.7
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.67
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.63
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.59
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.51
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.42
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.36
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.32
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.3
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.3
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.26
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.15
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.14
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.09
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.99
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.98
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	97.94
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.84
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.76
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.7
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.6
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.58
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.58
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.57
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.57
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.57
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.45
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.4
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.31
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.31
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.16
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.09
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.83
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	96.8
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.77
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	96.7
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.7
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.59
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.56
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.52
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.42
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.28
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.21
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	96.2
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	96.17
PHA02862	156	5L protein; Provisional	96.02
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.97
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	95.81
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.61
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	95.32
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	95.09
KOG3039	303	consensus Uncharacterized conserved protein [Funct	95.03
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	94.78
COG5152	259	Uncharacterized conserved protein, contains RING a	94.65
KOG2660	331	consensus Locus-specific chromosome binding protei	94.53
PHA03096	284	p28-like protein; Provisional	94.32
KOG1940	276	consensus Zn-finger protein [General function pred	94.26
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	94.26
PF14569	80	zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.	94.08
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	93.7
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	93.49
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	93.49
COG5236	493	Uncharacterized conserved protein, contains RING Z	92.9
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	92.86
PF04641	260	Rtf2: Rtf2 RING-finger	92.36
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	92.29
COG5175	480	MOT2 Transcriptional repressor [Transcription]	91.93
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	91.32
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	91.3
KOG4739	233	consensus Uncharacterized protein involved in syna	91.15
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	91.1
PLN02189	1040	cellulose synthase	91.01
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	90.72
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	90.66
PLN02436	1094	cellulose synthase A	89.58
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	88.53
COG5222	427	Uncharacterized conserved protein, contains RING Z	88.47
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	88.18
PF02439	38	Adeno_E3_CR2: Adenovirus E3 region protein CR2; In	87.17
PLN02400	1085	cellulose synthase	86.74
PLN02638	1079	cellulose synthase A (UDP-forming), catalytic subu	86.24
KOG3053	293	consensus Uncharacterized conserved protein [Funct	86.17
KOG3002	299	consensus Zn finger protein [General function pred	85.34
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	85.18
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	85.14
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	83.96
KOG1001	674	consensus Helicase-like transcription factor HLTF/	83.58
KOG3899	381	consensus Uncharacterized conserved protein [Funct	82.42
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	81.75
PF08693	40	SKG6: Transmembrane alpha-helix domain; InterPro:	81.47
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	81.26
PLN02915	1044	cellulose synthase A [UDP-forming], catalytic subu	80.21

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

Probab=99.77  E-value=1.3e-18  Score=139.95  Aligned_cols=96  Identities=34%  Similarity=0.753  Sum_probs=75.8

Q ss_pred             CCCCCCCCCCCCCceecceeeCCCCCCCCCC-CCceEEecCCCCCceEeeCCceEEEEEEEcCCcEEEEecC--CCCCcc
Q 043654           27 QNCSSVSCRRDEPWIRFPFRITTRQPESCGY-PGFNVSCDSSSSQTILELPSGKFSLQAIDYDAQQIWINDQ--SNCLPQ  103 (390)
Q Consensus        27 ~~C~~~~CG~~~~~I~yPF~~~~~~~~~Cg~-p~f~L~C~~~~~~~~l~~~~~~~~V~~I~~~~~~i~v~~~--~~C~~~  103 (390)
                      ++|+ .+||  +++|+||||+++    +|++ |+|+|.|+++.+.++|.+..+.|+|++|+|++++|+|.++  ..|...
T Consensus         2 ~~C~-~~CG--nv~IpYPFgi~~----~C~~~~~F~L~C~~~~~~~~l~l~~~~~~V~~I~~~~~~i~v~~~~~~~~~~~   74 (106)
T PF13947_consen    2 PGCP-SSCG--NVSIPYPFGIGP----GCGRDPGFELTCNNNTSPPKLLLSSGNYEVLSISYENGTIRVSDPISSNCYSS   74 (106)
T ss_pred             CCCC-CccC--CEeecCCCccCC----CCCCCCCcEEECCCCCCCceeEecCCcEEEEEEecCCCEEEEEeccccceecC
Confidence            5797 4999  688999999975    5999 9999999988667888888899999999999999999995  344332


Q ss_pred             cc-----cccccCCCCc-eeecccceEEEecCC
Q 043654          104 KI-----LSLNLSGSPF-KALYNQQFTFFNCSS  130 (390)
Q Consensus       104 ~~-----~~~~~~~~~f-~~~~~~~~~~~~C~~  130 (390)
                      ..     .++++.. || .+...|.++++||++
T Consensus        75 ~~~~~~~~~~~~~~-~~~~s~~~N~~~~~GC~t  106 (106)
T PF13947_consen   75 SSSNSSNSNLSLNG-PFFFSSSSNKFTVVGCNT  106 (106)
T ss_pred             CCCcccccEEeecC-CceEccCCcEEEEECCCC
Confidence            11     2334444 66 667778899999974

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

Probab=99.74  E-value=3.7e-18  Score=160.27  Aligned_cols=76  Identities=29%  Similarity=0.698  Sum_probs=63.9

Q ss_pred             CChhhhhcCCceeeccCCCCCCCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCC-CCcccCCcCCCCCCC
Q 043654          297 LDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNA-TCPVCRNSPARLPPL  375 (390)
Q Consensus       297 ~~~~~~~~~p~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~-~CP~CR~~~~~~~~~  375 (390)
                      +.+..++++|...|........  ...|+||||+|++++++|+|| |+|.||..|||+||.++. .||+||+++......
T Consensus       207 ~~k~~l~~~p~~~f~~~~~~~~--~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~~  283 (348)
T KOG4628|consen  207 LIKRLLKKLPVRTFTKGDDEDA--TDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSGS  283 (348)
T ss_pred             hHHHHHhhCCcEEeccccccCC--CceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCCCC
Confidence            7788999999999887653221  269999999999999999999 999999999999998775 499999987655443

>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=99.55  E-value=1.3e-15  Score=102.05  Aligned_cols=44  Identities=50%  Similarity=1.312  Sum_probs=40.6

Q ss_pred             CcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043654          322 NTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR  366 (390)
Q Consensus       322 ~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR  366 (390)
                      ++|+||+++|..++.+..++ |+|+||.+||.+|++++.+||+||
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            47999999999999999999 999999999999999999999997

...

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

Probab=99.52  E-value=2.6e-14  Score=111.97  Aligned_cols=87  Identities=23%  Similarity=0.472  Sum_probs=62.1

Q ss_pred             ccCCCCCCc-eEEEEeCCccccccCCCCCCeeeEEeeeCCCCcc----cccccccccCCCeEEEec--CCCCccccCCCC
Q 043654          140 IGCLSGANF-TIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPF----YDQVVSSDLSDNLRLTWD--EPQCGDCEKGGG  212 (390)
Q Consensus       140 ~~C~~~~~~-~~~~~~~~~~~~~~~~~~~C~~~~~v~vp~~~~~----~~~~~~~~l~~gf~l~w~--~~~C~~C~~sgG  212 (390)
                      |+|.+++.. ..|.....   ..+  ...|+.++.|+|+.....    ..+.|.++|++||+|+|.  ..+|.+|++|||
T Consensus         1 ~~C~~~~~~~~~~~v~~~---~~~--~~~C~~~v~vPV~~~~~~~~~~~~~~~~~~L~~GF~L~w~~~~~~C~~C~~SgG   75 (94)
T PF14380_consen    1 INCSINSGNSVSYFVFRS---SDL--AGSCQKSVVVPVLGSAVDSIDGSSGNYEEVLKKGFELEWNADSGDCRECEASGG   75 (94)
T ss_pred             CccccCCCCceeEEEeCC---ccc--CCcCCEEEEEEECchhhhccccchhHHHHHHhcCcEEEEeCCCCcCcChhcCCC
Confidence            467665543 33443333   223  789999655555443221    245789999999999999  469999999999


Q ss_pred             eeeeccCCcceeEeeccCCC
Q 043654          213 RCGFKNNSSTEIGCLSLHHR  232 (390)
Q Consensus       213 ~Cg~~~~~~~~f~C~~~~~~  232 (390)
                      +|||+.+... |.|+|.+++
T Consensus        76 ~Cgy~~~~~~-f~C~C~dg~   94 (94)
T PF14380_consen   76 RCGYDSNSEQ-FTCFCSDGP   94 (94)
T ss_pred             EeCCCCCCce-EEEECCCCC
Confidence            9999988755 999998864

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.34  E-value=6.8e-13  Score=119.81  Aligned_cols=75  Identities=25%  Similarity=0.617  Sum_probs=58.2

Q ss_pred             CCChhhhhcCCceeeccCCCCCCCCCCcccccccccCCCC----cEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCC
Q 043654          296 GLDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKE----TLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPA  370 (390)
Q Consensus       296 ~~~~~~~~~~p~~~~~~~~~~~~~~~~~C~ICl~~~~~~~----~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~  370 (390)
                      +..+..+..+|.+............+.+|+||++++.+++    .+.+++.|+|.||.+||.+|++.+.+||+||.++.
T Consensus       149 ~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        149 KNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             chhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            5677888888888654333223455789999999987653    23456569999999999999999999999999865

>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=99.30  E-value=2e-12  Score=96.02  Aligned_cols=45  Identities=40%  Similarity=1.001  Sum_probs=36.1

Q ss_pred             CCcccccccccCCC----------CcEEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043654          321 DNTCPICLAEYKPK----------ETLKTIPECTHCFHADCVDEWLRLNATCPVCR  366 (390)
Q Consensus       321 ~~~C~ICl~~~~~~----------~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR  366 (390)
                      ++.|+||+++|.+.          -.+...+ |+|.||..||.+||+.+.+||+||
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            45699999999432          2344455 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=99.23  E-value=4.9e-12  Score=114.52  Aligned_cols=52  Identities=37%  Similarity=0.997  Sum_probs=46.9

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHh-CCCCCcccCCcCCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLR-LNATCPVCRNSPAR  371 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~-~~~~CP~CR~~~~~  371 (390)
                      ..+.+|+|||++|..+|.++++| |.|.||..|++.|+. -+..||+||+++.+
T Consensus       321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            44689999999999999999999 999999999999997 46679999998764

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

Probab=99.02  E-value=1.5e-10  Score=107.68  Aligned_cols=51  Identities=41%  Similarity=1.024  Sum_probs=43.4

Q ss_pred             CCCCCccccccccc-CCCC---------cEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcC
Q 043654          318 KPDDNTCPICLAEY-KPKE---------TLKTIPECTHCFHADCVDEWLRLNATCPVCRNSP  369 (390)
Q Consensus       318 ~~~~~~C~ICl~~~-~~~~---------~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~  369 (390)
                      ...+..|.||++++ +.+.         .-+.|| |||+||.+|+..|++++++||+||.++
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcc
Confidence            45688999999994 4431         346788 999999999999999999999999994

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.00  E-value=4.3e-10  Score=97.54  Aligned_cols=55  Identities=27%  Similarity=0.686  Sum_probs=43.6

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC----------------CCCCcccCCcCCCCCCCc
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL----------------NATCPVCRNSPARLPPLP  376 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~----------------~~~CP~CR~~~~~~~~~~  376 (390)
                      ..++.+|+||++.+.++   .+++ |||+||+.||.+|+..                ...||+||+++......+
T Consensus        15 ~~~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvP   85 (193)
T PLN03208         15 SGGDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVP   85 (193)
T ss_pred             CCCccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEE
Confidence            44578999999998755   4566 9999999999999842                347999999987655544

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

Probab=98.96  E-value=6e-10  Score=74.25  Aligned_cols=44  Identities=45%  Similarity=1.229  Sum_probs=37.0

Q ss_pred             cccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC-CCCCcccCCcC
Q 043654          323 TCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRNSP  369 (390)
Q Consensus       323 ~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~~  369 (390)
                      +|+||++.+  .+.+...+ |+|.||..|++.|++. +..||+||..+
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  34555565 9999999999999987 77899999864

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

Probab=98.95  E-value=5.8e-10  Score=72.35  Aligned_cols=39  Identities=44%  Similarity=1.184  Sum_probs=32.9

Q ss_pred             ccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCccc
Q 043654          324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVC  365 (390)
Q Consensus       324 C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~C  365 (390)
                      |+||++.+.+  .+..++ |||+|+.+||.+|++.+..||+|
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            8999999776  456677 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=98.91  E-value=8.6e-10  Score=75.74  Aligned_cols=46  Identities=33%  Similarity=0.949  Sum_probs=39.1

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCc-ccHhhHHHHHhCCCCCcccCCcCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHC-FHADCVDEWLRLNATCPVCRNSPA  370 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~-FH~~Ci~~wl~~~~~CP~CR~~~~  370 (390)
                      +..|.||++...   .+..+| |||. |+..|+.+|++.+..||+||+++.
T Consensus         2 ~~~C~iC~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPR---DVVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBS---SEEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCC---ceEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            568999999844   467788 9999 999999999999999999999875

...

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

Probab=98.89  E-value=1.6e-09  Score=91.43  Aligned_cols=54  Identities=30%  Similarity=0.724  Sum_probs=45.1

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLP  373 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~  373 (390)
                      ..+...|+|||+.+.+.  +.+..+|||+||+.||..-++....||+||+.+..+.
T Consensus       128 ~~~~~~CPiCl~~~sek--~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~  181 (187)
T KOG0320|consen  128 KEGTYKCPICLDSVSEK--VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ  181 (187)
T ss_pred             cccccCCCceecchhhc--cccccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence            45568999999998854  3344569999999999999999999999999776654

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

Probab=98.88  E-value=9.6e-10  Score=99.78  Aligned_cols=50  Identities=30%  Similarity=0.741  Sum_probs=43.4

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCC
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLP  373 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~  373 (390)
                      ....|.+|||....+   .-+| |||+||+.||.+|...+..||+||....+..
T Consensus       238 a~~kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  238 ATRKCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             CCCceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            458999999997655   4677 9999999999999999999999999876654

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

Probab=98.87  E-value=1.4e-09  Score=81.33  Aligned_cols=51  Identities=29%  Similarity=0.800  Sum_probs=39.2

Q ss_pred             CCCcccccccccCC--------CCc-EEEcCCCCCcccHhhHHHHHhC---CCCCcccCCcCC
Q 043654          320 DDNTCPICLAEYKP--------KET-LKTIPECTHCFHADCVDEWLRL---NATCPVCRNSPA  370 (390)
Q Consensus       320 ~~~~C~ICl~~~~~--------~~~-~~~l~~C~H~FH~~Ci~~wl~~---~~~CP~CR~~~~  370 (390)
                      +++.|.||...|+.        ++. -.++-.|+|.||..||.+|+..   +..||+||++..
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            47899999999972        222 2234469999999999999975   467999999754

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

Probab=98.81  E-value=2.9e-09  Score=93.94  Aligned_cols=56  Identities=29%  Similarity=0.577  Sum_probs=44.8

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC---CCCCcccCCcCCCCCCCcc
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL---NATCPVCRNSPARLPPLPA  377 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~---~~~CP~CR~~~~~~~~~~~  377 (390)
                      .....+|.|||+.-+++   .++. |||.||+.||.+||..   .+.||+||..+.....+|-
T Consensus        44 ~~~~FdCNICLd~akdP---VvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPl  102 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDP---VVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPL  102 (230)
T ss_pred             CCCceeeeeeccccCCC---EEee-cccceehHHHHHHHhhcCCCeeCCccccccccceEEee
Confidence            45679999999985544   4455 9999999999999965   3469999999988776663

>PHA02926 zinc finger-like protein; Provisional

Probab=98.79  E-value=3.7e-09  Score=92.54  Aligned_cols=54  Identities=26%  Similarity=0.701  Sum_probs=41.9

Q ss_pred             CCCCCcccccccccCCC-----CcEEEcCCCCCcccHhhHHHHHhCC------CCCcccCCcCCC
Q 043654          318 KPDDNTCPICLAEYKPK-----ETLKTIPECTHCFHADCVDEWLRLN------ATCPVCRNSPAR  371 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~-----~~~~~l~~C~H~FH~~Ci~~wl~~~------~~CP~CR~~~~~  371 (390)
                      ...+.+|+||||...++     ....+|+.|+|.||..||..|.+.+      .+||+||..+..
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~  231 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN  231 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence            34578999999987432     2345777799999999999998653      459999998653

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.77  E-value=6.2e-09  Score=69.37  Aligned_cols=44  Identities=27%  Similarity=0.815  Sum_probs=38.6

Q ss_pred             cccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCC
Q 043654          323 TCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRN  367 (390)
Q Consensus       323 ~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~  367 (390)
                      .|+||+++|.+....++++ |||+|+..|+..+......||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            4999999996666778887 9999999999999867788999985

>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=98.70  E-value=8.8e-09  Score=67.56  Aligned_cols=39  Identities=41%  Similarity=1.164  Sum_probs=33.3

Q ss_pred             ccccccccCCCCcEEEcCCCCCcccHhhHHHHHh--CCCCCccc
Q 043654          324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLR--LNATCPVC  365 (390)
Q Consensus       324 C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~--~~~~CP~C  365 (390)
                      |+||++.+....  +.++ |+|.|+..||.+|++  ....||+|
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  56679998

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 ....

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

Probab=98.70  E-value=9.7e-09  Score=67.48  Aligned_cols=38  Identities=37%  Similarity=1.023  Sum_probs=29.1

Q ss_pred             ccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC----CCCccc
Q 043654          324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN----ATCPVC  365 (390)
Q Consensus       324 C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~----~~CP~C  365 (390)
                      |+||++.|.++   ..|+ |||.|+..||.+|++..    ..||.|
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            89999999987   5566 99999999999999653    469987

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

Probab=98.67  E-value=7.6e-09  Score=106.26  Aligned_cols=53  Identities=36%  Similarity=0.852  Sum_probs=46.3

Q ss_pred             CCCCcccccccccCCCCc--EEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          319 PDDNTCPICLAEYKPKET--LKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~--~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      ..+..|+||+|++..+..  .++++ |+|+||..|+..|+++.++||+||..+.+.
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~  343 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDY  343 (543)
T ss_pred             hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhcc
Confidence            347899999999998765  77888 999999999999999999999999955443

>smart00184 RING Ring finger

Probab=98.63  E-value=2.5e-08  Score=63.93  Aligned_cols=38  Identities=47%  Similarity=1.234  Sum_probs=32.6

Q ss_pred             ccccccccCCCCcEEEcCCCCCcccHhhHHHHHh-CCCCCccc
Q 043654          324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLR-LNATCPVC  365 (390)
Q Consensus       324 C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~-~~~~CP~C  365 (390)
                      |+||++.   ......++ |+|.||..|++.|++ .+..||+|
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   44567788 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)

>smart00504 Ubox Modified RING finger domain

Probab=98.59  E-value=5.8e-08  Score=69.97  Aligned_cols=49  Identities=22%  Similarity=0.417  Sum_probs=41.8

Q ss_pred             CcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCC
Q 043654          322 NTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPP  374 (390)
Q Consensus       322 ~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~  374 (390)
                      ..|+||++.+.++   .+++ |||+|.+.||.+|++.+..||+|+.++.....
T Consensus         2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l   50 (63)
T smart00504        2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHEDL   50 (63)
T ss_pred             cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChhhc
Confidence            4799999999876   4566 99999999999999989999999998755443

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

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

Probab=98.51  E-value=7e-08  Score=70.13  Aligned_cols=49  Identities=29%  Similarity=0.724  Sum_probs=36.3

Q ss_pred             CcccccccccC-----------CCCc-EEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCC
Q 043654          322 NTCPICLAEYK-----------PKET-LKTIPECTHCFHADCVDEWLRLNATCPVCRNSPA  370 (390)
Q Consensus       322 ~~C~ICl~~~~-----------~~~~-~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~  370 (390)
                      +.|+||...|.           ++++ ..+.-.|+|.||..||.+||..+..||++|++..
T Consensus        21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            55666665553           4443 2233359999999999999999999999999753

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

Probab=98.42  E-value=6e-08  Score=69.86  Aligned_cols=51  Identities=33%  Similarity=0.791  Sum_probs=37.4

Q ss_pred             CCCcccccccccCC--------CCc-EEEcCCCCCcccHhhHHHHHhC---CCCCcccCCcCC
Q 043654          320 DDNTCPICLAEYKP--------KET-LKTIPECTHCFHADCVDEWLRL---NATCPVCRNSPA  370 (390)
Q Consensus       320 ~~~~C~ICl~~~~~--------~~~-~~~l~~C~H~FH~~Ci~~wl~~---~~~CP~CR~~~~  370 (390)
                      .+++|-||...|..        ++. -.++-.|.|.||..||.+|+..   +..||+||++..
T Consensus        19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            34589999988862        332 1233369999999999999955   345999998753

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

Probab=98.36  E-value=1.2e-07  Score=84.94  Aligned_cols=53  Identities=25%  Similarity=0.668  Sum_probs=44.1

Q ss_pred             CCCCCcccccccccCCCC-------cEEEcCCCCCcccHhhHHHHH--hCCCCCcccCCcCCC
Q 043654          318 KPDDNTCPICLAEYKPKE-------TLKTIPECTHCFHADCVDEWL--RLNATCPVCRNSPAR  371 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~-------~~~~l~~C~H~FH~~Ci~~wl--~~~~~CP~CR~~~~~  371 (390)
                      .-++..|+||-..+....       ++-.|. |+|+||..||.-|-  .++++||.|+..+..
T Consensus       221 hl~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             CCCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence            446789999999887654       567788 99999999999994  678899999987643

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

Probab=98.32  E-value=4.8e-07  Score=61.47  Aligned_cols=42  Identities=29%  Similarity=0.839  Sum_probs=33.1

Q ss_pred             cccccccccCCCCcEEEcCCCC-----CcccHhhHHHHHhC--CCCCcccC
Q 043654          323 TCPICLAEYKPKETLKTIPECT-----HCFHADCVDEWLRL--NATCPVCR  366 (390)
Q Consensus       323 ~C~ICl~~~~~~~~~~~l~~C~-----H~FH~~Ci~~wl~~--~~~CP~CR  366 (390)
                      .|.||++ ...++...+.| |.     |.+|..|+.+|+..  +.+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899999 44455566788 85     99999999999954  45899995

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

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

Probab=98.30  E-value=4.7e-07  Score=59.51  Aligned_cols=38  Identities=34%  Similarity=0.936  Sum_probs=22.5

Q ss_pred             ccccccccCCCC-cEEEcCCCCCcccHhhHHHHHhCC----CCCc
Q 043654          324 CPICLAEYKPKE-TLKTIPECTHCFHADCVDEWLRLN----ATCP  363 (390)
Q Consensus       324 C~ICl~~~~~~~-~~~~l~~C~H~FH~~Ci~~wl~~~----~~CP  363 (390)
                      |+||+| |...+ .-.+|+ |||+|+++||+.|++.+    ..||
T Consensus         1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 76644 457788 99999999999999743    3476

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.30  E-value=4.8e-07  Score=87.92  Aligned_cols=50  Identities=24%  Similarity=0.584  Sum_probs=42.3

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPAR  371 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~  371 (390)
                      ......|+||++.|..+   .+++ |+|.||..||..|+.....||+||..+..
T Consensus        23 Le~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~   72 (397)
T TIGR00599        23 LDTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE   72 (397)
T ss_pred             cccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence            34568999999999765   3566 99999999999999988899999998643

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

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

Probab=98.26  E-value=3.6e-07  Score=88.38  Aligned_cols=51  Identities=31%  Similarity=0.832  Sum_probs=39.8

Q ss_pred             CCCcccccccccCCCC--------------cEEEcCCCCCcccHhhHHHHHh-CCCCCcccCCcCCC
Q 043654          320 DDNTCPICLAEYKPKE--------------TLKTIPECTHCFHADCVDEWLR-LNATCPVCRNSPAR  371 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~--------------~~~~l~~C~H~FH~~Ci~~wl~-~~~~CP~CR~~~~~  371 (390)
                      ...+|+||+.++.--.              ...++| |+|+||+.|+..|+. .+..||+||.++..
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            3578999999875211              133557 999999999999998 55689999998753

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

Probab=98.15  E-value=1e-06  Score=79.36  Aligned_cols=50  Identities=30%  Similarity=0.685  Sum_probs=40.9

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHH-HHhCCCC-CcccCCcCCCCC
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDE-WLRLNAT-CPVCRNSPARLP  373 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~-wl~~~~~-CP~CR~~~~~~~  373 (390)
                      .+..|+||++.....   ..++ |||+|+..||.. |-+++.- ||+||+.+.+..
T Consensus       214 ~d~kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         214 ADYKCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             cccceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            478999999985544   5677 999999999999 9777665 999999876554

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

Probab=98.14  E-value=7.5e-07  Score=87.20  Aligned_cols=50  Identities=28%  Similarity=0.688  Sum_probs=39.6

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC-----CCCCcccCCcCCCCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-----NATCPVCRNSPARLPP  374 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~-----~~~CP~CR~~~~~~~~  374 (390)
                      +..|||||++....    ++..|||+||..||-++|..     ...||+||..+.....
T Consensus       186 ~~~CPICL~~~~~p----~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl  240 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP----VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDL  240 (513)
T ss_pred             CCcCCcccCCCCcc----cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccce
Confidence            78999999985544    33339999999999998754     3579999999877443

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

Probab=98.09  E-value=7.2e-07  Score=65.57  Aligned_cols=50  Identities=26%  Similarity=0.634  Sum_probs=23.7

Q ss_pred             CCcccccccccCCCCc--EEEc--CCCCCcccHhhHHHHHhC---C--------CCCcccCCcCC
Q 043654          321 DNTCPICLAEYKPKET--LKTI--PECTHCFHADCVDEWLRL---N--------ATCPVCRNSPA  370 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~--~~~l--~~C~H~FH~~Ci~~wl~~---~--------~~CP~CR~~~~  370 (390)
                      +.+|.||++.+...+.  ..+-  +.|++.||..||.+|++.   .        ..||.|++++.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            4689999998763332  2222  269999999999999853   1        14999999874

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

Probab=97.99  E-value=3.2e-06  Score=64.78  Aligned_cols=49  Identities=27%  Similarity=0.671  Sum_probs=37.4

Q ss_pred             CCcccccccccC-------------CCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcC
Q 043654          321 DNTCPICLAEYK-------------PKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSP  369 (390)
Q Consensus       321 ~~~C~ICl~~~~-------------~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~  369 (390)
                      -+.|+||...+.             .++-+..--.|+|.||..||.+||+.+..||+|.++-
T Consensus        46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            578999877652             1122333346999999999999999999999998763

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

Probab=97.98  E-value=2.4e-06  Score=82.15  Aligned_cols=50  Identities=36%  Similarity=0.940  Sum_probs=41.2

Q ss_pred             CCCCCcccccccccCCCC-cEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCC
Q 043654          318 KPDDNTCPICLAEYKPKE-TLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPA  370 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~-~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~  370 (390)
                      ..+-.+||||||.+.+.. .++.+. |.|.||..|+..|.  ..+||+||.-..
T Consensus       172 ~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  172 LTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             cccCCCcchhHhhcCccccceeeee-cccccchHHHhhcc--cCcChhhhhhcC
Confidence            445689999999998765 355555 99999999999996  788999998655

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

Probab=97.94  E-value=4.3e-06  Score=62.13  Aligned_cols=52  Identities=21%  Similarity=0.477  Sum_probs=39.7

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC-CCCCcccCCcCCCCCCCc
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRNSPARLPPLP  376 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~~~~~~~~~  376 (390)
                      ...|+|+.+-|.++   .+++ +||.|-+.+|..|++. +.+||+|+.++......+
T Consensus         4 ~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~p   56 (73)
T PF04564_consen    4 EFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIP   56 (73)
T ss_dssp             GGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE
T ss_pred             ccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceE
Confidence            57899999999876   4567 9999999999999988 889999999887655444

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 ....

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.84  E-value=1.5e-05  Score=74.59  Aligned_cols=55  Identities=27%  Similarity=0.570  Sum_probs=40.6

Q ss_pred             CCcccccccc-cCCCC-cEEEcCCCCCcccHhhHHHHH-hCCCCCcccCCcCCCCCCCc
Q 043654          321 DNTCPICLAE-YKPKE-TLKTIPECTHCFHADCVDEWL-RLNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       321 ~~~C~ICl~~-~~~~~-~~~~l~~C~H~FH~~Ci~~wl-~~~~~CP~CR~~~~~~~~~~  376 (390)
                      +..||||+.+ +..++ .+.+.+ |||.||..||+..+ .....||.|+.++......+
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~   60 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRV   60 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhhccc
Confidence            5689999996 33333 333445 99999999999966 44567999999887765443

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

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

Probab=97.76  E-value=5.9e-06  Score=85.58  Aligned_cols=53  Identities=25%  Similarity=0.696  Sum_probs=39.8

Q ss_pred             CCCCCcccccccccCCCC---cEEEcCCCCCcccHhhHHHHHhC--CCCCcccCCcCC
Q 043654          318 KPDDNTCPICLAEYKPKE---TLKTIPECTHCFHADCVDEWLRL--NATCPVCRNSPA  370 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~---~~~~l~~C~H~FH~~Ci~~wl~~--~~~CP~CR~~~~  370 (390)
                      ..+..+||||...+..-+   .-...+.|.|.||..|+..|++.  +++||+||.++.
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            456789999999876222   11233359999999999999966  567999998763

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

Probab=97.70  E-value=2.2e-05  Score=73.93  Aligned_cols=53  Identities=26%  Similarity=0.681  Sum_probs=44.4

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCc-ccHhhHHHHHhCCCCCcccCCcCCCCCCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHC-FHADCVDEWLRLNATCPVCRNSPARLPPL  375 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~-FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~  375 (390)
                      +...+|.|||.+   ...+.+|| |.|. .|..|-+...-.+..||+||+++.....+
T Consensus       288 ~~gkeCVIClse---~rdt~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~i  341 (349)
T KOG4265|consen  288 ESGKECVICLSE---SRDTVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEELLEI  341 (349)
T ss_pred             cCCCeeEEEecC---CcceEEec-chhhehhHhHHHHHHHhhcCCCccccchHhhhee
Confidence            457899999998   56678999 9999 89999999877788899999998665443

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

Probab=97.60  E-value=2.3e-05  Score=72.73  Aligned_cols=47  Identities=28%  Similarity=0.712  Sum_probs=41.6

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSP  369 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~  369 (390)
                      +.-..|-||.|-|..+   .++| |+|.||.-||..+|..+..||.|+.++
T Consensus        21 D~lLRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~   67 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTV   67 (442)
T ss_pred             HHHHHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceeccc
Confidence            3457899999999877   4666 999999999999999999999999975

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

Probab=97.58  E-value=2.7e-05  Score=73.66  Aligned_cols=44  Identities=36%  Similarity=1.008  Sum_probs=34.6

Q ss_pred             CcccccccccCC-CCcEEEcCCCCCcccHhhHHHHHhC---CCCCcccC
Q 043654          322 NTCPICLAEYKP-KETLKTIPECTHCFHADCVDEWLRL---NATCPVCR  366 (390)
Q Consensus       322 ~~C~ICl~~~~~-~~~~~~l~~C~H~FH~~Ci~~wl~~---~~~CP~CR  366 (390)
                      -.|.|| +++.+ ..++.-+..|||+||..|+.+|+..   +..||+||
T Consensus         5 A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~   52 (465)
T KOG0827|consen    5 AECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ   52 (465)
T ss_pred             ceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence            479999 55544 4456655569999999999999976   35799999

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

Probab=97.58  E-value=1.7e-05  Score=75.50  Aligned_cols=53  Identities=30%  Similarity=0.819  Sum_probs=41.1

Q ss_pred             CCCcccccccccCCC-CcEEEcCCCCCcccHhhHHHHHhC--CCCCcccCCcCCCC
Q 043654          320 DDNTCPICLAEYKPK-ETLKTIPECTHCFHADCVDEWLRL--NATCPVCRNSPARL  372 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~-~~~~~l~~C~H~FH~~Ci~~wl~~--~~~CP~CR~~~~~~  372 (390)
                      ....|+|||+++... +...+.+.|||.|-.+||+.||.+  ...||.|.......
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr   58 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKR   58 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHH
Confidence            457899999999864 444556679999999999999953  34699998765433

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

Probab=97.57  E-value=5.9e-05  Score=72.12  Aligned_cols=56  Identities=27%  Similarity=0.830  Sum_probs=43.6

Q ss_pred             CCCCcccccccccCCCC----cEEEcCCCCCcccHhhHHHHH--hC-----CCCCcccCCcCCCCCC
Q 043654          319 PDDNTCPICLAEYKPKE----TLKTIPECTHCFHADCVDEWL--RL-----NATCPVCRNSPARLPP  374 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~----~~~~l~~C~H~FH~~Ci~~wl--~~-----~~~CP~CR~~~~~~~~  374 (390)
                      ..+.+|.||++...+..    ..+.+|+|.|.|+..||+.|-  ++     .+.||.||.......+
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            55789999999876543    244567899999999999997  44     4789999998655543

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

Probab=97.57  E-value=3.8e-05  Score=69.87  Aligned_cols=46  Identities=28%  Similarity=0.599  Sum_probs=39.9

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCc
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNS  368 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~  368 (390)
                      +....|-||-+-|..+   ..++ |||.||.-||...|..+..||+||.+
T Consensus        23 Ds~lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~   68 (391)
T COG5432          23 DSMLRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCRED   68 (391)
T ss_pred             hhHHHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCcccccc
Confidence            3457899999988765   3444 99999999999999999999999987

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

Probab=97.57  E-value=2.8e-05  Score=73.83  Aligned_cols=45  Identities=36%  Similarity=0.857  Sum_probs=40.1

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR  366 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR  366 (390)
                      ..+...|+||++.|..+   ++++ |+|.|+..||..++.....||.||
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            34578999999999988   7888 999999999999988667799999

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

Probab=97.45  E-value=3e-05  Score=54.74  Aligned_cols=47  Identities=26%  Similarity=0.664  Sum_probs=23.8

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      -..|++|.+-+.++  | .+..|.|+|+..||.+-+.  ..||+|+.+.+..
T Consensus         7 lLrCs~C~~~l~~p--v-~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~q   53 (65)
T PF14835_consen    7 LLRCSICFDILKEP--V-CLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQ   53 (65)
T ss_dssp             TTS-SSS-S--SS---B----SSS--B-TTTGGGGTT--TB-SSS--B-S-S
T ss_pred             hcCCcHHHHHhcCC--c-eeccCccHHHHHHhHHhcC--CCCCCcCChHHHH
Confidence            35799999998765  2 2345999999999988554  4599999987544

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

Probab=97.40  E-value=0.00011  Score=64.42  Aligned_cols=56  Identities=23%  Similarity=0.514  Sum_probs=46.4

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC--------CCCCcccCCcCCCCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL--------NATCPVCRNSPARLPPL  375 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~--------~~~CP~CR~~~~~~~~~  375 (390)
                      .+....|..|--.+..++.+|..  |-|+||++|+++|...        ...||.|..++.++.-.
T Consensus        47 sDY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~Nl  110 (299)
T KOG3970|consen   47 SDYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINL  110 (299)
T ss_pred             cCCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccc
Confidence            55678999999999999998865  9999999999999743        34699999998766443

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

Probab=97.31  E-value=5.4e-05  Score=51.08  Aligned_cols=46  Identities=24%  Similarity=0.600  Sum_probs=35.0

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCc-ccHhhHHHHHh-CCCCCcccCCcCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHC-FHADCVDEWLR-LNATCPVCRNSPA  370 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~-FH~~Ci~~wl~-~~~~CP~CR~~~~  370 (390)
                      +.+|.||+|.-.+.    +|..|||. .+.+|-.+-++ .+..||+||+++.
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            48999999974433    44459998 77888666554 6889999999864

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

Probab=97.31  E-value=0.00012  Score=74.97  Aligned_cols=52  Identities=31%  Similarity=0.606  Sum_probs=45.0

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPAR  371 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~  371 (390)
                      .....|++|+..+.++......+ |+|.||..||+.|-+...+||+||..+..
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            44678999999998776666666 99999999999999999999999998643

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

Probab=97.16  E-value=0.00011  Score=67.23  Aligned_cols=51  Identities=29%  Similarity=0.739  Sum_probs=42.9

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC-----------------------CCCCcccCCcCCC
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-----------------------NATCPVCRNSPAR  371 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~-----------------------~~~CP~CR~~~~~  371 (390)
                      ....|+|||.-|..++.+.+++ |-|.||..|+.++|..                       ...||+||..+..
T Consensus       114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~  187 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI  187 (368)
T ss_pred             CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence            3578999999999999999999 9999999999987621                       2359999998743

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

Probab=97.09  E-value=6.8e-05  Score=70.33  Aligned_cols=52  Identities=38%  Similarity=0.668  Sum_probs=42.0

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC-CCCCcccCCcCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRNSPARL  372 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~~~~~  372 (390)
                      ...+..|+|||+-++..   +.++.|.|.||.+||..-++. ++.||.||+.+...
T Consensus        40 ~~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   40 FDIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             hhhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            34578999999987754   566689999999999988855 78899999986433

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

Probab=96.83  E-value=0.00058  Score=64.84  Aligned_cols=46  Identities=39%  Similarity=0.885  Sum_probs=38.9

Q ss_pred             CCcccccccccCCC-CcEEEcCCCCCcccHhhHHHHHhCC--CCCcccCC
Q 043654          321 DNTCPICLAEYKPK-ETLKTIPECTHCFHADCVDEWLRLN--ATCPVCRN  367 (390)
Q Consensus       321 ~~~C~ICl~~~~~~-~~~~~l~~C~H~FH~~Ci~~wl~~~--~~CP~CR~  367 (390)
                      +..|-.|-|.+-.. +.+.-|| |.|+||..|+.+.|.++  .+||.||+
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            57899999988654 4677898 99999999999999664  57999994

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

Probab=96.80  E-value=0.00043  Score=65.81  Aligned_cols=45  Identities=31%  Similarity=0.785  Sum_probs=38.8

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC--CCCCcccCCcC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL--NATCPVCRNSP  369 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~--~~~CP~CR~~~  369 (390)
                      -.-|-||-|.   ...|++-| |||..|..|+..|-..  .++||.||.++
T Consensus       369 FeLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEI  415 (563)
T KOG1785|consen  369 FELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEI  415 (563)
T ss_pred             HHHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence            4679999986   56788999 9999999999999733  57899999986

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

Probab=96.77  E-value=0.00083  Score=47.08  Aligned_cols=42  Identities=26%  Similarity=0.670  Sum_probs=27.9

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC--CCCCcc
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL--NATCPV  364 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~--~~~CP~  364 (390)
                      -...|||.+..|+++  |+-.. |+|+|-++.|.+|+++  ...||+
T Consensus        10 ~~~~CPiT~~~~~~P--V~s~~-C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFEDP--VKSKK-CGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SSE--EEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhCC--cCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence            367999999998854  55555 9999999999999944  445998

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

Probab=96.70  E-value=0.00094  Score=61.54  Aligned_cols=49  Identities=24%  Similarity=0.461  Sum_probs=38.5

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC-CCCCcccCCcCCCC
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRNSPARL  372 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~~~~~  372 (390)
                      -..+|+||+..-.-+   ..|+ |+|.|+..||.--.+. ..+|++||.++...
T Consensus         6 ~~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~   55 (324)
T KOG0824|consen    6 KKKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDST   55 (324)
T ss_pred             cCCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence            357899999985544   4566 9999999999886654 56699999997543

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

Probab=96.70  E-value=0.00056  Score=57.10  Aligned_cols=41  Identities=27%  Similarity=0.746  Sum_probs=33.1

Q ss_pred             CceeeccCCCCCCCCCCcccccccccCCCCcEEEcCCCCCcccH
Q 043654          306 PKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHA  349 (390)
Q Consensus       306 p~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~  349 (390)
                      |++.|.+.  +.++...+|.||||+++.++.+..|| |-.+||+
T Consensus       164 PrlsYNdD--VL~ddkGECvICLEdL~~GdtIARLP-CLCIYHK  204 (205)
T KOG0801|consen  164 PRLSYNDD--VLKDDKGECVICLEDLEAGDTIARLP-CLCIYHK  204 (205)
T ss_pred             cccccccc--hhcccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence            44444442  33567789999999999999999999 9999997

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

Probab=96.59  E-value=0.0012  Score=65.08  Aligned_cols=56  Identities=32%  Similarity=0.682  Sum_probs=46.5

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCCCc
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~~  376 (390)
                      .+++..|+||...+.++-..  + .|||.|+..|+..|+..+..||.||..+......+
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~   73 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELP   73 (391)
T ss_pred             CcccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccchhhccC
Confidence            45678999999998876221  3 49999999999999999999999999887766554

>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=96.56  E-value=0.00099  Score=54.53  Aligned_cols=39  Identities=23%  Similarity=0.521  Sum_probs=32.2

Q ss_pred             CCcccccccccCCCCcEEEcCCCC------CcccHhhHHHHHhCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECT------HCFHADCVDEWLRLNA  360 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~------H~FH~~Ci~~wl~~~~  360 (390)
                      ..+|+||++.+...+.+..++ |+      |+||.+|+.+|-+.++
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~~~   70 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRERN   70 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhhcc
Confidence            579999999999866677777 76      9999999999954443

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.

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

Probab=96.52  E-value=0.00086  Score=69.31  Aligned_cols=49  Identities=24%  Similarity=0.628  Sum_probs=39.7

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHh-CCCCCcccCCcCCCC
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLR-LNATCPVCRNSPARL  372 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~-~~~~CP~CR~~~~~~  372 (390)
                      +-..|+.|-..+++-    ++++|+|+||..||..-+. +...||.|.+.+...
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            357899999776654    6667999999999999984 567799999987544

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

Probab=96.42  E-value=0.0031  Score=59.27  Aligned_cols=51  Identities=29%  Similarity=0.638  Sum_probs=43.8

Q ss_pred             CCCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCC
Q 043654          317 PKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPAR  371 (390)
Q Consensus       317 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~  371 (390)
                      +..++..|+||...   +-.....| |+|.=|..||.+-|...+.|=.|++++..
T Consensus       418 p~sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  418 PDSEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             CCcccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            45778999999875   44445667 99999999999999999999999999876

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

Probab=96.28  E-value=0.0028  Score=42.57  Aligned_cols=40  Identities=35%  Similarity=0.934  Sum_probs=26.8

Q ss_pred             ccccccccCCCCcEEEcCCCC-----CcccHhhHHHHHh--CCCCCccc
Q 043654          324 CPICLAEYKPKETLKTIPECT-----HCFHADCVDEWLR--LNATCPVC  365 (390)
Q Consensus       324 C~ICl~~~~~~~~~~~l~~C~-----H~FH~~Ci~~wl~--~~~~CP~C  365 (390)
                      |-||+++-.+.+ ..+.| |+     -..|..|+.+|+.  .+.+|++|
T Consensus         1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            679999877655 33455 64     3779999999996  45679887

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

Probab=96.21  E-value=0.0037  Score=41.78  Aligned_cols=45  Identities=24%  Similarity=0.600  Sum_probs=23.3

Q ss_pred             ccccccccCCCC-cEEEcCCCCCcccHhhHHHHHh-CCCCCcccCCcC
Q 043654          324 CPICLAEYKPKE-TLKTIPECTHCFHADCVDEWLR-LNATCPVCRNSP  369 (390)
Q Consensus       324 C~ICl~~~~~~~-~~~~l~~C~H~FH~~Ci~~wl~-~~~~CP~CR~~~  369 (390)
                      |++|.+++...+ .+.--+ |++..++.|...-++ .+..||-||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            789999995433 444454 899999999888876 578899999874

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

Probab=96.20  E-value=0.003  Score=61.86  Aligned_cols=51  Identities=29%  Similarity=0.729  Sum_probs=43.4

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      ...+.+|.||+.-+..+   .++| |||.|+..||++-+..+.-||.||..+...
T Consensus        81 ~~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~  131 (398)
T KOG4159|consen   81 IRSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVEL  131 (398)
T ss_pred             ccchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCcccccccccc
Confidence            35689999999988876   4567 999999999999888888899999988653

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

Probab=96.17  E-value=0.004  Score=64.83  Aligned_cols=51  Identities=27%  Similarity=0.735  Sum_probs=42.3

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC-------CCCcccCCc
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN-------ATCPVCRNS  368 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~-------~~CP~CR~~  368 (390)
                      .....+|.||.+.+...+.+.--..|-|+||..||..|.+..       -.||.|+..
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            455789999999999888888777799999999999998541       249999854

>PHA02862 5L protein; Provisional

Probab=96.02  E-value=0.0044  Score=51.03  Aligned_cols=45  Identities=20%  Similarity=0.626  Sum_probs=33.8

Q ss_pred             CCcccccccccCCCCcEEEcCCCC-----CcccHhhHHHHHhC--CCCCcccCCcCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECT-----HCFHADCVDEWLRL--NATCPVCRNSPA  370 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~-----H~FH~~Ci~~wl~~--~~~CP~CR~~~~  370 (390)
                      ...|-||+++-++.    .-| |+     ..-|.+|+.+|++.  +..||+||.+..
T Consensus         2 ~diCWIC~~~~~e~----~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~   53 (156)
T PHA02862          2 SDICWICNDVCDER----NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN   53 (156)
T ss_pred             CCEEEEecCcCCCC----ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence            35799999984332    345 54     67899999999954  567999999863

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

Probab=95.97  E-value=0.0035  Score=61.83  Aligned_cols=58  Identities=26%  Similarity=0.519  Sum_probs=43.6

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHh-----CCCCCcccCCcCCCCCCCcccc
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLR-----LNATCPVCRNSPARLPPLPAAA  379 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~-----~~~~CP~CR~~~~~~~~~~~~~  379 (390)
                      ..+..+|.+|-++-+   ...+.. |+|.||+.||.++..     .+-+||.|...+......|+.+
T Consensus       533 nk~~~~C~lc~d~ae---d~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~ale  595 (791)
T KOG1002|consen  533 NKGEVECGLCHDPAE---DYIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPALE  595 (791)
T ss_pred             ccCceeecccCChhh---hhHhhh-hhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchhhh
Confidence            456789999998743   335555 999999999999873     3568999998877665555444

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

Probab=95.81  E-value=0.0057  Score=66.67  Aligned_cols=53  Identities=28%  Similarity=0.706  Sum_probs=42.9

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC----------CCCcccCCcCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN----------ATCPVCRNSPAR  371 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~----------~~CP~CR~~~~~  371 (390)
                      .+.++.|.||+-+--.......|- |+|+||..|...-|.++          -+||+|+.++.+
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            677899999998866666777887 99999999998766442          369999998744

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.61  E-value=0.0098  Score=50.05  Aligned_cols=48  Identities=31%  Similarity=0.771  Sum_probs=34.7

Q ss_pred             CCCCCcccccccccCCCCcEEEcC-CCCC---cccHhhHHHHHhC--CCCCcccCCcC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIP-ECTH---CFHADCVDEWLRL--NATCPVCRNSP  369 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~-~C~H---~FH~~Ci~~wl~~--~~~CP~CR~~~  369 (390)
                      ...+..|-||.++-.  +.  .-| +|..   .-|.+|+.+|+..  +.+|++|+++.
T Consensus         5 s~~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y   58 (162)
T PHA02825          5 SLMDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY   58 (162)
T ss_pred             CCCCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence            345789999998843  22  245 2444   5699999999954  56799999985

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

Probab=95.32  E-value=0.0077  Score=47.97  Aligned_cols=34  Identities=21%  Similarity=0.647  Sum_probs=28.4

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHH
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVD  353 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~  353 (390)
                      ......|++|-..+.. ..+.+.| |||+||..|+.
T Consensus        75 i~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~  108 (109)
T PF10367_consen   75 ITESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK  108 (109)
T ss_pred             ECCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence            4557789999999987 5677778 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 [].

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

Probab=95.09  E-value=0.03  Score=52.42  Aligned_cols=47  Identities=23%  Similarity=0.557  Sum_probs=36.6

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRN  367 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~  367 (390)
                      ......||||+..-..+.   ++..=|-+||..||-..++.+..||+=-.
T Consensus       297 ~~~~~~CpvClk~r~Npt---vl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~  343 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQNPT---VLEVSGYVFCYPCIFSYVVNYGHCPVTGY  343 (357)
T ss_pred             CCccccChhHHhccCCCc---eEEecceEEeHHHHHHHHHhcCCCCccCC
Confidence            344679999999977653   22225899999999999999999997433

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.03  E-value=0.021  Score=51.21  Aligned_cols=57  Identities=14%  Similarity=0.289  Sum_probs=50.2

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCCCc
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~~  376 (390)
                      ....||||.+.+.....+.+|..|||+|..+|++..++....||+|-.++.+...++
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~  276 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIG  276 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEe
Confidence            468899999999998888888889999999999999999999999998886665433

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

Probab=94.78  E-value=0.026  Score=51.55  Aligned_cols=53  Identities=23%  Similarity=0.473  Sum_probs=38.7

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC--CCCCcccCCcCCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL--NATCPVCRNSPARLP  373 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~--~~~CP~CR~~~~~~~  373 (390)
                      ...+.+|++|-+.=..+  .... +|+|+||.-||..=...  ..+||.|-+++....
T Consensus       236 ~t~~~~C~~Cg~~PtiP--~~~~-~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq  290 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPTIP--HVIG-KCGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ  290 (298)
T ss_pred             ccCCceeeccCCCCCCC--eeec-cccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence            45678999999973322  2334 49999999999886543  468999988776443

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

Probab=94.65  E-value=0.014  Score=50.64  Aligned_cols=44  Identities=27%  Similarity=0.604  Sum_probs=38.2

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCc
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNS  368 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~  368 (390)
                      ...|.||-++|..+   .++ .|||.||..|...-++....|-+|-+.
T Consensus       196 PF~C~iCKkdy~sp---vvt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~  239 (259)
T COG5152         196 PFLCGICKKDYESP---VVT-ECGHSFCSLCAIRKYQKGDECGVCGKA  239 (259)
T ss_pred             ceeehhchhhccch---hhh-hcchhHHHHHHHHHhccCCcceecchh
Confidence            46899999999987   344 499999999999999999999999764

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

Probab=94.53  E-value=0.0098  Score=55.79  Aligned_cols=51  Identities=27%  Similarity=0.569  Sum_probs=41.5

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      .....|.+|-.-|-+...   +..|-|.||+.||-..|..+..||+|...+-..
T Consensus        13 n~~itC~LC~GYliDATT---I~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   13 NPHITCRLCGGYLIDATT---ITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT   63 (331)
T ss_pred             ccceehhhccceeecchh---HHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence            346799999988876533   234999999999999999999999998876444

>PHA03096 p28-like protein; Provisional

Probab=94.32  E-value=0.021  Score=53.55  Aligned_cols=48  Identities=23%  Similarity=0.445  Sum_probs=35.1

Q ss_pred             CcccccccccCCC----CcEEEcCCCCCcccHhhHHHHHhC---CC---CCcccCCcC
Q 043654          322 NTCPICLAEYKPK----ETLKTIPECTHCFHADCVDEWLRL---NA---TCPVCRNSP  369 (390)
Q Consensus       322 ~~C~ICl~~~~~~----~~~~~l~~C~H~FH~~Ci~~wl~~---~~---~CP~CR~~~  369 (390)
                      ..|.||++.....    .....|+.|.|.|+..||..|...   ..   .||.||.-+
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~  236 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI  236 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence            5899999987643    245578899999999999999744   23   355555443

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

Probab=94.26  E-value=0.0097  Score=55.16  Aligned_cols=53  Identities=26%  Similarity=0.615  Sum_probs=42.5

Q ss_pred             CcccccccccCCCCc-EEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCCCc
Q 043654          322 NTCPICLAEYKPKET-LKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       322 ~~C~ICl~~~~~~~~-~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~~  376 (390)
                      ..||||.+.+..... +..++ |+|.-|..|+.+....+.+||+|.+ +.++...+
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~-~~d~~~~~  212 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK-PGDMSHYF  212 (276)
T ss_pred             CCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc-hHHHHHHH
Confidence            459999998877664 55666 9999999999999988899999998 65544333

>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=94.26  E-value=0.022  Score=37.42  Aligned_cols=41  Identities=24%  Similarity=0.686  Sum_probs=24.2

Q ss_pred             ccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCC--CCccc
Q 043654          324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNA--TCPVC  365 (390)
Q Consensus       324 C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~--~CP~C  365 (390)
                      |.+|.+-...|+...... |+=.+|..|+..+++...  .||.|
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            677888777775544434 888999999999997765  79987

; PDB: 3NW0_A 2CT0_A.

>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A

Probab=94.08  E-value=0.081  Score=38.84  Aligned_cols=64  Identities=20%  Similarity=0.363  Sum_probs=24.2

Q ss_pred             CCCCcccccccccCC---CCcEEEcCCCCCcccHhhHHHHH-hCCCCCcccCCcCCCCCCCccccccc
Q 043654          319 PDDNTCPICLAEYKP---KETLKTIPECTHCFHADCVDEWL-RLNATCPVCRNSPARLPPLPAAAAAA  382 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~---~~~~~~l~~C~H~FH~~Ci~~wl-~~~~~CP~CR~~~~~~~~~~~~~~~~  382 (390)
                      .+...|.||-++.-.   ++....-..|+--.++.|.+-=. ..++.||.|+++.......|....++
T Consensus         7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~kgsp~V~gDe   74 (80)
T PF14569_consen    7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRHKGSPRVEGDE   74 (80)
T ss_dssp             -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----TT----TTS-
T ss_pred             cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccccCCCCCCCCc
Confidence            346789999998753   33333333477778899987655 44788999999988777666444333

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=93.70  E-value=0.091  Score=36.03  Aligned_cols=35  Identities=29%  Similarity=0.820  Sum_probs=31.2

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHH
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDE  354 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~  354 (390)
                      ....|++|-+.|.+++.+.+-|.|+=.+|++|-+.
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            45689999999999999999999999999999654

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=93.49  E-value=0.049  Score=37.37  Aligned_cols=47  Identities=19%  Similarity=0.415  Sum_probs=33.8

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLP  373 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~  373 (390)
                      ...|..|...   +..-.++| |+|+....|.+-+  +-+-||.|-+++....
T Consensus         7 ~~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    7 EQPCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFDD   53 (55)
T ss_pred             ceeEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCCC
Confidence            3455555554   44456788 9999999998764  4567999999886543

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

Probab=93.49  E-value=0.054  Score=51.58  Aligned_cols=46  Identities=33%  Similarity=0.646  Sum_probs=33.9

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPA  370 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~  370 (390)
                      ......|.||+++..+   ...+| |||+=+  |...-. ....||+||..+.
T Consensus       302 ~~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs~-~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  302 LPQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCSK-HLPQCPVCRQRIR  347 (355)
T ss_pred             cCCCCceEEecCCccc---eeeec-CCcEEE--chHHHh-hCCCCchhHHHHH
Confidence            4457899999999554   67888 999955  665543 3345999999764

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

Probab=92.90  E-value=0.17  Score=47.77  Aligned_cols=48  Identities=25%  Similarity=0.647  Sum_probs=37.7

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHH--HhCCCCCcccCCcC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEW--LRLNATCPVCRNSP  369 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~w--l~~~~~CP~CR~~~  369 (390)
                      ..+...|.||-+.+.   ...++| |+|..+--|--+.  |-..+.||+||++-
T Consensus        58 DEen~~C~ICA~~~T---Ys~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          58 DEENMNCQICAGSTT---YSARYP-CGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             ccccceeEEecCCce---EEEecc-CCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            455688999998754   346888 9999998897654  45678899999974

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

Probab=92.86  E-value=0.063  Score=51.87  Aligned_cols=48  Identities=25%  Similarity=0.656  Sum_probs=37.6

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC--------CCCCcccCCc
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL--------NATCPVCRNS  368 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~--------~~~CP~CR~~  368 (390)
                      ....|.||+++..-......+| |+|+|++.|+..+...        .-.||-++-.
T Consensus       183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~  238 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG  238 (445)
T ss_pred             hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence            3578999999987557788888 9999999999999732        2358776553

>PF04641 Rtf2: Rtf2 RING-finger

Probab=92.36  E-value=0.11  Score=48.57  Aligned_cols=58  Identities=21%  Similarity=0.450  Sum_probs=45.0

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCCCc
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~~  376 (390)
                      ......|||...+|........+-.|||+|-..+|.+-- ....||+|-.++.....++
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI~  167 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDIIP  167 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEEE
Confidence            456789999999996655555554499999999999983 4567999999887554443

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

Probab=92.29  E-value=0.061  Score=49.77  Aligned_cols=45  Identities=22%  Similarity=0.494  Sum_probs=38.8

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSP  369 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~  369 (390)
                      ...|-||.+.|..+    +..+|+|.|+..|-..=++....|++|-+..
T Consensus       241 Pf~c~icr~~f~~p----Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t  285 (313)
T KOG1813|consen  241 PFKCFICRKYFYRP----VVTKCGHYFCEVCALKPYQKGEKCYVCSQQT  285 (313)
T ss_pred             Cccccccccccccc----hhhcCCceeehhhhccccccCCcceeccccc
Confidence            46799999999987    4445999999999999999999999998764

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=91.93  E-value=0.086  Score=49.52  Aligned_cols=58  Identities=21%  Similarity=0.515  Sum_probs=41.4

Q ss_pred             CCCCCcccccccccCCCC-cEEEcCCCCCcccHhhHHHHHh-CCCCCcccCCcCCCCCCCc
Q 043654          318 KPDDNTCPICLAEYKPKE-TLKTIPECTHCFHADCVDEWLR-LNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~-~~~~l~~C~H~FH~~Ci~~wl~-~~~~CP~CR~~~~~~~~~~  376 (390)
                      .++++-|+.|+|++...+ ...-.| ||-..|+-|...--+ -+..||-||+...+....+
T Consensus        11 edeed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~   70 (480)
T COG5175          11 EDEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRY   70 (480)
T ss_pred             ccccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccccceeE
Confidence            455667999999998765 455566 998888877554432 2678999999876665443

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

Probab=91.32  E-value=0.13  Score=43.94  Aligned_cols=52  Identities=33%  Similarity=0.682  Sum_probs=34.5

Q ss_pred             CCCcccccccccCCCC----cEEEcCCCCCcccHhhHHHHHhC----C-------CCCcccCCcCCCC
Q 043654          320 DDNTCPICLAEYKPKE----TLKTIPECTHCFHADCVDEWLRL----N-------ATCPVCRNSPARL  372 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~----~~~~l~~C~H~FH~~Ci~~wl~~----~-------~~CP~CR~~~~~~  372 (390)
                      .-..|.||..---.+.    .+--. .||.-||.-|+.+||+.    +       ..||.|..++..+
T Consensus       164 ~~~~cgicyayqldGTipDqtCdN~-qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  164 ELGACGICYAYQLDGTIPDQTCDNI-QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             hhhcccceeeeecCCcccccccccc-ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            3456777765332221    22233 49999999999999954    1       2599998887544

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

Probab=91.30  E-value=0.011  Score=56.31  Aligned_cols=52  Identities=23%  Similarity=0.554  Sum_probs=44.8

Q ss_pred             CCCcccccccccCCC-CcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          320 DDNTCPICLAEYKPK-ETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~-~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      -...|+||.+.++.. +.+..+- |||++|.+||..||.....||.||+++...
T Consensus       195 lv~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  195 LVGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKN  247 (465)
T ss_pred             HHhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence            357899999999876 6677776 999999999999998888899999987554

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

Probab=91.15  E-value=0.078  Score=47.87  Aligned_cols=44  Identities=23%  Similarity=0.606  Sum_probs=31.7

Q ss_pred             cccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCC
Q 043654          323 TCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPA  370 (390)
Q Consensus       323 ~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~  370 (390)
                      .|--|.-.=. ++....+. |+|+||..|...-.  ...||+||+++.
T Consensus         5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~~--~~~C~lCkk~ir   48 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKASS--PDVCPLCKKSIR   48 (233)
T ss_pred             EeccccccCC-CCceeeee-chhhhhhhhcccCC--ccccccccceee
Confidence            4666655433 67777777 99999999976532  228999999863

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

Probab=91.10  E-value=0.22  Score=41.96  Aligned_cols=33  Identities=30%  Similarity=0.751  Sum_probs=21.4

Q ss_pred             CCcccccccccCCCCcEEEcC------C-----CC-CcccHhhHHHHH
Q 043654          321 DNTCPICLAEYKPKETLKTIP------E-----CT-HCFHADCVDEWL  356 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~------~-----C~-H~FH~~Ci~~wl  356 (390)
                      +..|+||||-=.   ....|.      +     |+ -.=|..|++++-
T Consensus         2 d~~CpICme~PH---NAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk   46 (162)
T PF07800_consen    2 DVTCPICMEHPH---NAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK   46 (162)
T ss_pred             CccCceeccCCC---ceEEEEeccccCCccccccCCccchhHHHHHHH
Confidence            568999999733   333333      1     33 234899999985

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

>PLN02189 cellulose synthase

Probab=91.01  E-value=0.3  Score=53.12  Aligned_cols=60  Identities=23%  Similarity=0.414  Sum_probs=42.3

Q ss_pred             CCCCcccccccccC---CCCcEEEcCCCCCcccHhhHHHHH-hCCCCCcccCCcCCCCCCCccc
Q 043654          319 PDDNTCPICLAEYK---PKETLKTIPECTHCFHADCVDEWL-RLNATCPVCRNSPARLPPLPAA  378 (390)
Q Consensus       319 ~~~~~C~ICl~~~~---~~~~~~~l~~C~H~FH~~Ci~~wl-~~~~~CP~CR~~~~~~~~~~~~  378 (390)
                      .....|.||.++..   +++.......|+--.|+.|.+-=- ..+++||.|++........|..
T Consensus        32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~kgs~~v   95 (1040)
T PLN02189         32 LDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKRLKGSPRV   95 (1040)
T ss_pred             ccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhccCCCCc
Confidence            34568999999975   344444455588889999995433 3477899999998766544433

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

Probab=90.72  E-value=0.17  Score=48.05  Aligned_cols=48  Identities=25%  Similarity=0.707  Sum_probs=38.6

Q ss_pred             CCcccccccccCCCC---cEEEcCCCCCcccHhhHHHHHhCC-CCCcccCCcC
Q 043654          321 DNTCPICLAEYKPKE---TLKTIPECTHCFHADCVDEWLRLN-ATCPVCRNSP  369 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~---~~~~l~~C~H~FH~~Ci~~wl~~~-~~CP~CR~~~  369 (390)
                      ...|-||-++|...+   .-|+|. |||.|+..|+..-+... ..||.||.+.
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence            358999999998764   245555 99999999999887654 4699999984

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

Probab=90.66  E-value=0.11  Score=54.52  Aligned_cols=43  Identities=21%  Similarity=0.620  Sum_probs=33.2

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSP  369 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~  369 (390)
                      ...|..|--.++-+  ...- .|||.||.+|+.   .....||-|+.++
T Consensus       840 ~skCs~C~~~LdlP--~VhF-~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  840 VSKCSACEGTLDLP--FVHF-LCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeeecccCCccccc--eeee-ecccHHHHHhhc---cCcccCCccchhh
Confidence            36899998887755  2233 399999999999   4567799999854

>PLN02436 cellulose synthase A

Probab=89.58  E-value=0.47  Score=51.74  Aligned_cols=57  Identities=26%  Similarity=0.494  Sum_probs=40.9

Q ss_pred             CCCcccccccccC---CCCcEEEcCCCCCcccHhhHHHHH-hCCCCCcccCCcCCCCCCCc
Q 043654          320 DDNTCPICLAEYK---PKETLKTIPECTHCFHADCVDEWL-RLNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       320 ~~~~C~ICl~~~~---~~~~~~~l~~C~H~FH~~Ci~~wl-~~~~~CP~CR~~~~~~~~~~  376 (390)
                      ....|.||-++..   +++...-...|+--.|+.|.+-=- ..+++||.|++........+
T Consensus        35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~kgs~   95 (1094)
T PLN02436         35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKRIKGSP   95 (1094)
T ss_pred             CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhccCCC
Confidence            4569999999963   455555555677779999995433 34678999999987655444

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

Probab=88.53  E-value=0.11  Score=47.98  Aligned_cols=42  Identities=24%  Similarity=0.631  Sum_probs=31.8

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCc-ccHhhHHHHHhCCCCCcccCCcCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHC-FHADCVDEWLRLNATCPVCRNSPA  370 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~-FH~~Ci~~wl~~~~~CP~CR~~~~  370 (390)
                      ..-|+||++.   +..+..|+ |||. -+.+|-..    -..||+||+-+.
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            6789999987   66778888 9997 46666433    347999998653

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

Probab=88.47  E-value=0.17  Score=46.76  Aligned_cols=44  Identities=27%  Similarity=0.757  Sum_probs=35.0

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHH-hCCCCCcccCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWL-RLNATCPVCRN  367 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl-~~~~~CP~CR~  367 (390)
                      ...|+.|..-+...  + .++.|+|.|+.+||.--| .....||.|.+
T Consensus       274 ~LkCplc~~Llrnp--~-kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         274 SLKCPLCHCLLRNP--M-KTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             cccCcchhhhhhCc--c-cCccccchHHHHHHhhhhhhccccCCCccc
Confidence            47899998876654  2 347799999999998665 56788999976

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

Probab=88.18  E-value=0.23  Score=52.63  Aligned_cols=37  Identities=27%  Similarity=0.693  Sum_probs=30.1

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHH
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWL  356 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl  356 (390)
                      ...++.|.+|...+.. ....+-| |||.||++||.+-.
T Consensus       814 ~ep~d~C~~C~~~ll~-~pF~vf~-CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLI-KPFYVFP-CGHCFHRDCLIRHV  850 (911)
T ss_pred             ecCccchHHhcchhhc-Ccceeee-ccchHHHHHHHHHH
Confidence            4567999999998874 4666778 99999999998754

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

Probab=87.17  E-value=0.95  Score=28.51  Aligned_cols=25  Identities=24%  Similarity=0.372  Sum_probs=16.6

Q ss_pred             ehhhhhhHHHHHHHHHHHHHHhhhh
Q 043654          240 IAIMVGAGVPTMLCLLGLACIICAK  264 (390)
Q Consensus       240 ~~i~i~~~i~~~l~~~~i~~~i~~~  264 (390)
                      +.+++++.+.+++++++++++.+++
T Consensus         6 IaIIv~V~vg~~iiii~~~~YaCcy   30 (38)
T PF02439_consen    6 IAIIVAVVVGMAIIIICMFYYACCY   30 (38)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666666666777777777776

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

>PLN02400 cellulose synthase

Probab=86.74  E-value=0.69  Score=50.64  Aligned_cols=59  Identities=19%  Similarity=0.379  Sum_probs=40.3

Q ss_pred             CCCcccccccccCC---CCcEEEcCCCCCcccHhhHHHH-HhCCCCCcccCCcCCCCCCCccc
Q 043654          320 DDNTCPICLAEYKP---KETLKTIPECTHCFHADCVDEW-LRLNATCPVCRNSPARLPPLPAA  378 (390)
Q Consensus       320 ~~~~C~ICl~~~~~---~~~~~~l~~C~H~FH~~Ci~~w-l~~~~~CP~CR~~~~~~~~~~~~  378 (390)
                      ....|.||-++...   |+.......|+-=-|+.|.+-= -..+++||.||+........|..
T Consensus        35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR~KgsprV   97 (1085)
T PLN02400         35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRRHKGSPRV   97 (1085)
T ss_pred             CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccccccCCCCC
Confidence            45699999998753   4433333446666899998432 23478899999998766655533

>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit

Probab=86.24  E-value=1  Score=49.32  Aligned_cols=61  Identities=21%  Similarity=0.371  Sum_probs=41.9

Q ss_pred             CCCcccccccccCC---CCcEEEcCCCCCcccHhhHHHH-HhCCCCCcccCCcCCCCCCCccccc
Q 043654          320 DDNTCPICLAEYKP---KETLKTIPECTHCFHADCVDEW-LRLNATCPVCRNSPARLPPLPAAAA  380 (390)
Q Consensus       320 ~~~~C~ICl~~~~~---~~~~~~l~~C~H~FH~~Ci~~w-l~~~~~CP~CR~~~~~~~~~~~~~~  380 (390)
                      ....|.||-++...   |+.......|+-=-|+.|.+-= -..++.||.|++........|....
T Consensus        16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr~kgsprv~g   80 (1079)
T PLN02638         16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKRHKGSPAILG   80 (1079)
T ss_pred             CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhhcCCCCcCc
Confidence            45699999998753   4444444457777899999432 2447889999999976665554433

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.17  E-value=0.31  Score=44.25  Aligned_cols=52  Identities=23%  Similarity=0.637  Sum_probs=36.4

Q ss_pred             CCCCCcccccccccCCCCc-EEEcCCCC-----CcccHhhHHHHHhCC--------CCCcccCCcCC
Q 043654          318 KPDDNTCPICLAEYKPKET-LKTIPECT-----HCFHADCVDEWLRLN--------ATCPVCRNSPA  370 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~-~~~l~~C~-----H~FH~~Ci~~wl~~~--------~~CP~CR~~~~  370 (390)
                      ...+..|=||+..=++... -.+-| |.     |--|..|+..|+.++        -+||.|+++..
T Consensus        17 ~e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   17 QELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             cccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            3456789999987443321 23455 53     889999999998442        25999999863

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

Probab=85.34  E-value=0.53  Score=44.64  Aligned_cols=45  Identities=27%  Similarity=0.712  Sum_probs=35.1

Q ss_pred             CCCCcccccccccCCCCcEEEcCCC--CCcccHhhHHHHHhCCCCCcccCCcCCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPEC--THCFHADCVDEWLRLNATCPVCRNSPAR  371 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C--~H~FH~~Ci~~wl~~~~~CP~CR~~~~~  371 (390)
                      ..-.+||||.+.+..+    ... |  ||+-+..|-.   +....||.||-++..
T Consensus        46 ~~lleCPvC~~~l~~P----i~Q-C~nGHlaCssC~~---~~~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   46 LDLLDCPVCFNPLSPP----IFQ-CDNGHLACSSCRT---KVSNKCPTCRLPIGN   92 (299)
T ss_pred             hhhccCchhhccCccc----cee-cCCCcEehhhhhh---hhcccCCcccccccc
Confidence            3458999999999877    444 7  5888888865   347789999998863

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

Probab=85.18  E-value=0.48  Score=49.31  Aligned_cols=22  Identities=41%  Similarity=1.056  Sum_probs=20.7

Q ss_pred             CCCcccHhhHHHHHhCCCCCcc
Q 043654          343 CTHCFHADCVDEWLRLNATCPV  364 (390)
Q Consensus       343 C~H~FH~~Ci~~wl~~~~~CP~  364 (390)
                      |+|+.|..|..+|++....||.
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

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

Probab=85.14  E-value=0.35  Score=45.08  Aligned_cols=45  Identities=27%  Similarity=0.661  Sum_probs=31.0

Q ss_pred             cccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          323 TCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       323 ~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      .|.-|-..+.  -.-|.+| |.|+||.+|-..  ...+.||.|-..+...
T Consensus        92 fCd~Cd~PI~--IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~VqrI  136 (389)
T KOG2932|consen   92 FCDRCDFPIA--IYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQRI  136 (389)
T ss_pred             eecccCCcce--eeecccc-cchhhhhhhhhc--CccccCcCcccHHHHH
Confidence            4666644332  3457889 999999999654  3466899997765433

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

Probab=83.96  E-value=0.34  Score=49.48  Aligned_cols=45  Identities=27%  Similarity=0.548  Sum_probs=35.3

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCc
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNS  368 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~  368 (390)
                      -..|.||+..|......-+.+.|||..+..|+..-.  +.+|| |+.+
T Consensus        11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~D   55 (861)
T KOG3161|consen   11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKRD   55 (861)
T ss_pred             HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCcc
Confidence            357999999998776655666799999999998754  67788 6554

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

Probab=83.58  E-value=0.45  Score=50.22  Aligned_cols=46  Identities=30%  Similarity=0.713  Sum_probs=36.0

Q ss_pred             CcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC--CCCCcccCCcCCCC
Q 043654          322 NTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL--NATCPVCRNSPARL  372 (390)
Q Consensus       322 ~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~--~~~CP~CR~~~~~~  372 (390)
                      ..|.||++    .+.....+ |+|.|+.+|+..-+..  ..-||+||..+...
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            79999999    34555666 9999999999998754  33599999976443

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.42  E-value=0.66  Score=42.91  Aligned_cols=30  Identities=23%  Similarity=0.572  Sum_probs=23.6

Q ss_pred             CCCcccHhhHHHHHh-------------CCCCCcccCCcCCCC
Q 043654          343 CTHCFHADCVDEWLR-------------LNATCPVCRNSPARL  372 (390)
Q Consensus       343 C~H~FH~~Ci~~wl~-------------~~~~CP~CR~~~~~~  372 (390)
                      |.-.+|++|+.+|+.             ++-+||+||+.....
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~  367 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR  367 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence            778999999999862             345799999986443

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

Probab=81.75  E-value=0.74  Score=41.28  Aligned_cols=39  Identities=28%  Similarity=0.758  Sum_probs=29.7

Q ss_pred             ccccccccCCCCcEEEcCCCCCc-ccHhhHHHHHhCCCCCcccCCcCC
Q 043654          324 CPICLAEYKPKETLKTIPECTHC-FHADCVDEWLRLNATCPVCRNSPA  370 (390)
Q Consensus       324 C~ICl~~~~~~~~~~~l~~C~H~-FH~~Ci~~wl~~~~~CP~CR~~~~  370 (390)
                      |-.|.+.   ...|..+| |.|. +|..|=+.    -..||+|+....
T Consensus       161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKT  200 (207)
T ss_pred             ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence            8888876   66788999 9865 77888443    456999998653

>PF08693 SKG6: Transmembrane alpha-helix domain; InterPro: IPR014805 SKG6 and AXL2 are membrane proteins that show polarised intracellular localisation [, ]

Probab=81.47  E-value=0.9  Score=29.12  Aligned_cols=22  Identities=18%  Similarity=0.153  Sum_probs=9.1

Q ss_pred             hhhhHHHHHHHHHHHHHHhhhh
Q 043654          243 MVGAGVPTMLCLLGLACIICAK  264 (390)
Q Consensus       243 ~i~~~i~~~l~~~~i~~~i~~~  264 (390)
                      .+++-+.++++++++++++++|
T Consensus        16 ~VvVPV~vI~~vl~~~l~~~~r   37 (40)
T PF08693_consen   16 GVVVPVGVIIIVLGAFLFFWYR   37 (40)
T ss_pred             EEEechHHHHHHHHHHhheEEe
Confidence            3333333444444444444443

This entry represents the highly conserved transmembrane alpha-helical domain found in these proteins [, ]. The full-length AXL2 protein has a negative regulatory function in cytokinesis [].

>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=81.26  E-value=0.48  Score=31.38  Aligned_cols=29  Identities=24%  Similarity=0.729  Sum_probs=21.8

Q ss_pred             CC-CcccHhhHHHHHhCCCCCcccCCcCCC
Q 043654          343 CT-HCFHADCVDEWLRLNATCPVCRNSPAR  371 (390)
Q Consensus       343 C~-H~FH~~Ci~~wl~~~~~CP~CR~~~~~  371 (390)
                      |. |-.+..|+...|.+...||+|..++..
T Consensus        18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt   47 (50)
T PF03854_consen   18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPT   47 (50)
T ss_dssp             -SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred             ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence            76 999999999999999999999987653

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.

>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit

Probab=80.21  E-value=2.5  Score=46.31  Aligned_cols=57  Identities=23%  Similarity=0.388  Sum_probs=40.4

Q ss_pred             CCCcccccccccCC---CCcEEEcCCCCCcccHhhHHHHH-hCCCCCcccCCcCCCCCCCc
Q 043654          320 DDNTCPICLAEYKP---KETLKTIPECTHCFHADCVDEWL-RLNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       320 ~~~~C~ICl~~~~~---~~~~~~l~~C~H~FH~~Ci~~wl-~~~~~CP~CR~~~~~~~~~~  376 (390)
                      ....|.||-++...   |+.......|+--.|+.|.+-=. ..+++||.|++........+
T Consensus        14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~~~~~~~   74 (1044)
T PLN02915         14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYKRHKGCP   74 (1044)
T ss_pred             CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhhcCCC
Confidence            46789999998753   44444444577779999995433 34778999999987655444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	390
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		9e-09
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		7e-08
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		2e-05
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		2e-05
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		2e-05
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		3e-05

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

Iteration: 1
 Score = 57.8 bits (138), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 23/47 (48%), Positives = 31/47 (65%)
Query: 320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
           D   C +CLAE +  E  + +P C H FHA+CVD WL  ++TCP+CR
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

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

Iteration: 1
 Score = 55.1 bits (131), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 20/49 (40%), Positives = 34/49 (69%), Gaps = 1/49 (2%)
Query: 318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
           + +   C +C+ +++ ++ L+ +P C H FHA CVD+WL+ N TCP+CR
Sbjct: 20  QSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 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 = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNS 368
           CP+C  +Y   E+++ +P C H FH  C+  WL  + +CPVCR S
Sbjct: 18  CPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKS 61

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 23/51 (45%), Positives = 32/51 (62%), Gaps = 2/51 (3%)
Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR-NSPARLP 373
           C ICL+  +  E ++ +P C H FH  CVD+WL  N  CP+CR +  A+LP
Sbjct: 17  CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQLP 66

>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 = 46.6 bits (109), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 25/66 (37%), Positives = 37/66 (56%), Gaps = 2/66 (3%)
Query: 301 TIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNA 360
           +I++ P+I++ E        +  CPIC +EY   +    +P C H FH  CV  WL+ + 
Sbjct: 21  SIDALPEILVTEDHG-AVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSG 78
Query: 361 TCPVCR 366
           TCPVCR
Sbjct: 79  TCPVCR 84

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/42 (40%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVC 365
           C +CL ++KP++ L   P C H FH  C+ +WL +   CP+C
Sbjct: 18  CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	390
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	2e-21
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	2e-21
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	8e-21
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-18
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	2e-18
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-16
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-16
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	5e-16
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-13
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	4e-12
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	5e-10
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	6e-10
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	1e-09
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-09
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	4e-09
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	7e-09
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	5e-08
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	5e-08
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	2e-07
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	2e-07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	8e-07
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	1e-06
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	1e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-04
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	3e-06
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	4e-06
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	4e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	2e-05
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	3e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	4e-05
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-04
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	2e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	5e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	5e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-04
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	7e-04

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

 Score = 86.6 bits (215), Expect = 2e-21
 Identities = 21/70 (30%), Positives = 37/70 (52%), Gaps = 3/70 (4%)

Query: 301 TIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNA 360
           +    P      +    + +   C +C+ +++ ++ L+ +P C H FHA CVD+WL+ N 
Sbjct: 5   SSGQLPSYRFNPNNH--QSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANR 61

Query: 361 TCPVCRNSPA 370
           TCP+CR    
Sbjct: 62  TCPICRADSG 71

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

 Score = 85.7 bits (213), Expect = 2e-21
 Identities = 23/49 (46%), Positives = 32/49 (65%)

Query: 320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNS 368
           D   C +CLAE +  E  + +P C H FHA+CVD WL  ++TCP+CR +
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLT 52

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

 Score = 85.1 bits (211), Expect = 8e-21
 Identities = 27/74 (36%), Positives = 39/74 (52%), Gaps = 5/74 (6%)

Query: 301 TIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNA 360
           +I++ P+I++ E        +  CPIC +EY   +    +P C H FH  CV  WL+ + 
Sbjct: 21  SIDALPEILVTEDHGAVG-QEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSG 78

Query: 361 TCPVCRNSPARLPP 374
           TCPVCR      PP
Sbjct: 79  TCPVCRCM---FPP 89

>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 = 77.8 bits (192), Expect = 2e-18
 Identities = 20/47 (42%), Positives = 28/47 (59%), Gaps = 1/47 (2%)

Query: 320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
            +  C ICL+  +  E ++ +P C H FH  CVD+WL  N  CP+CR
Sbjct: 13  TEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58

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

 Score = 77.9 bits (192), Expect = 2e-18
 Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 1/62 (1%)

Query: 320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLPAAA 379
               C +CL ++KP++ L   P C H FH  C+ +WL +   CP+C     +L  L   +
Sbjct: 14  LHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLSGPS 72

Query: 380 AA 381
           + 
Sbjct: 73  SG 74

>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 = 73.2 bits (180), Expect = 1e-16
 Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 1/49 (2%)

Query: 320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNS 368
               CP+C  +Y   E+++ +P C H FH  C+  WL  + +CPVCR S
Sbjct: 14  SGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKS 61

>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 = 71.9 bits (177), Expect = 2e-16
 Identities = 14/48 (29%), Positives = 21/48 (43%)

Query: 321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNS 368
            + CPICL +      +  +  C H  H  C +E L+    CP+C   
Sbjct: 5   SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGP 52

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

 Score = 71.5 bits (175), Expect = 5e-16
 Identities = 16/46 (34%), Positives = 25/46 (54%)

Query: 321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
            + C  C AE K ++ +    EC H FH  C+  W++ N  CP+C+
Sbjct: 26  MDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

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

 Score = 63.6 bits (155), Expect = 2e-13
 Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 5/49 (10%)

Query: 320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNS 368
           D+  C IC+              C H F   C+D+W   +  CP+CR  
Sbjct: 14  DEEECCICMDGRADLIL-----PCAHSFCQKCIDKWSDRHRNCPICRLQ 57

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

 Score = 60.1 bits (146), Expect = 4e-12
 Identities = 16/47 (34%), Positives = 21/47 (44%), Gaps = 3/47 (6%)

Query: 320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
               CPICL +            C H F   C+  W+R N TCP+C+
Sbjct: 4   VAERCPICLEDPSNYSMA---LPCLHAFCYVCITRWIRQNPTCPLCK 47

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

 Score = 54.1 bits (130), Expect = 5e-10
 Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 3/47 (6%)

Query: 323 TCPICLAEYK---PKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
           +CPIC+  Y        L    EC H F + C+ + L+   TCP CR
Sbjct: 17  SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63

>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 = 55.2 bits (132), Expect = 6e-10
 Identities = 13/53 (24%), Positives = 17/53 (32%)

Query: 314 RRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
           R         C    A    +E       C H FH  C+  WL+    CP+  
Sbjct: 44  RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96

>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 = 54.5 bits (130), Expect = 1e-09
 Identities = 13/53 (24%), Positives = 17/53 (32%)

Query: 314 RRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
           R         C    A    +E       C H FH  C+  WL+    CP+  
Sbjct: 55  RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

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

 Score = 51.7 bits (124), Expect = 3e-09
 Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 3/47 (6%)

Query: 323 TCPICLAEYKPKETLKTIP---ECTHCFHADCVDEWLRLNATCPVCR 366
           +CPIC+  Y        +    EC H F + C+ + L+   TCP CR
Sbjct: 5   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 51

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

 Score = 52.1 bits (125), Expect = 4e-09
 Identities = 20/71 (28%), Positives = 26/71 (36%), Gaps = 4/71 (5%)

Query: 311 GESRRLPKPDDN-TCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSP 369
           G S  L +      C IC   Y    T  TI EC H F   C+      +  CP C    
Sbjct: 4   GSSGNLSELTPYILCSICK-GYLIDAT--TITECLHTFCKSCIVRHFYYSNRCPKCNIVV 60

Query: 370 ARLPPLPAAAA 380
            +  PL   ++
Sbjct: 61  HQTQPLSGPSS 71

>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 = 51.0 bits (122), Expect = 7e-09
 Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 3/47 (6%)

Query: 323 TCPICLAEYKPKETLKTIP---ECTHCFHADCVDEWLRLNATCPVCR 366
           +CPIC+  Y        +    EC H F + C+ + L+   TCP CR
Sbjct: 12  SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 58

>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 = 48.8 bits (116), Expect = 5e-08
 Identities = 14/72 (19%), Positives = 25/72 (34%), Gaps = 6/72 (8%)

Query: 312 ESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL--NATCPVCRNS- 368
             R         C IC +     ++ +T   C    H  CV ++ +      CP C +  
Sbjct: 6   SGRETYPDAVKICNICHSLLIQGQSCET---CGIRMHLPCVAKYFQSNAEPRCPHCNDYW 62

Query: 369 PARLPPLPAAAA 380
           P  +P    ++ 
Sbjct: 63  PHEIPKSGPSSG 74

>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 = 49.8 bits (119), Expect = 5e-08
 Identities = 15/54 (27%), Positives = 23/54 (42%), Gaps = 3/54 (5%)

Query: 323 TCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLP 376
            C +C   +   +   TI EC H F   C+  +L  +  CP+C     +  PL 
Sbjct: 17  MCVLCGGYFI--DAT-TIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLL 67

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

 Score = 47.1 bits (112), Expect = 2e-07
 Identities = 15/56 (26%), Positives = 17/56 (30%), Gaps = 4/56 (7%)

Query: 313 SRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNS 368
               P      C ICL       +L     C H F   CV     L   C +CR  
Sbjct: 7   GNTAPSLTVPECAICLQTCVHPVSLP----CKHVFCYLCVKGASWLGKRCALCRQE 58

>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 = 47.6 bits (113), Expect = 2e-07
 Identities = 13/51 (25%), Positives = 20/51 (39%), Gaps = 4/51 (7%)

Query: 319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRNS 368
            +   C IC+ + +     +  P C+      C+  WL    A CP CR  
Sbjct: 20  AEVFRCFICMEKLR---DARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAP 67

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

 Score = 45.9 bits (109), Expect = 8e-07
 Identities = 13/49 (26%), Positives = 21/49 (42%), Gaps = 9/49 (18%)

Query: 323 TCPICLAEYKPKETLK---TIPECTHCFHADCVDEWLRLNATCPVCRNS 368
            C IC       E       IP+C+H + + C+ ++L     CP C  +
Sbjct: 24  RCGICF------EYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVT 66

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

 Score = 45.2 bits (107), Expect = 1e-06
 Identities = 13/47 (27%), Positives = 17/47 (36%), Gaps = 6/47 (12%)

Query: 321 DNTCPICLAEYK-PKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
              C IC   ++ P  T     +C H F   C  E  R    C +C 
Sbjct: 15  PFRCFICRQAFQNPVVT-----KCRHYFCESCALEHFRATPRCYICD 56

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1 Length = 114

 Score = 46.0 bits (108), Expect = 1e-06
 Identities = 12/71 (16%), Positives = 22/71 (30%), Gaps = 19/71 (26%)

Query: 315 RLPKPDDNTCPICLAEYKPK--------------ETLKTIPECTHCFHADCVDEWLR--- 357
            L    +  C IC+ +                    +  + +C+H FH  C+        
Sbjct: 19  ELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGN 78

Query: 358 --LNATCPVCR 366
              +  CP C+
Sbjct: 79  KDGSLQCPSCK 89

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

 Score = 45.9 bits (108), Expect = 2e-06
 Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 3/55 (5%)

Query: 320 DDNTCPICLAEYKPKETLKTIP---ECTHCFHADCVDEWLRLNATCPVCRNSPAR 371
              +CPIC+  Y        +    EC H F + C+ + L+   TCP CR     
Sbjct: 6   GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 60

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

 Score = 39.8 bits (92), Expect = 3e-04
 Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 3/48 (6%)

Query: 324 CPICLAEYK---PKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNS 368
           CPIC+  Y        L    EC H F + C+ + L+   TCP CR  
Sbjct: 75  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 122

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

 Score = 47.9 bits (113), Expect = 3e-06
 Identities = 16/83 (19%), Positives = 29/83 (34%), Gaps = 17/83 (20%)

Query: 302 IESYPKIVLGESRRLPKPDDNT--CPICLAEYKPKETLKTI----PECTHCFHADCVDEW 355
           +  +P     +  +L + D+    C IC A       +  +     +C    HA C++EW
Sbjct: 287 LCYFPMPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEW 346

Query: 356 LR-----------LNATCPVCRN 367
            +               CP C+ 
Sbjct: 347 FKTLMDGKTFLEVSFGQCPFCKA 369

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

 Score = 45.4 bits (107), Expect = 4e-06
 Identities = 14/51 (27%), Positives = 22/51 (43%), Gaps = 8/51 (15%)

Query: 320 DDNTCPICLAEYKPKETLK--TIPECTHCFHADCVDEWLRLNATCPVCRNS 368
           ++  C IC       E         C H F + C++EW++    CP+CR  
Sbjct: 63  NELQCIICS------EYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKD 107

>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 = 45.7 bits (108), Expect = 4e-06
 Identities = 23/57 (40%), Positives = 25/57 (43%), Gaps = 10/57 (17%)

Query: 323 TCPICLAEYKPKETLK---TIPECTHCFHADCVDEWLRL-NATCPVCRNSPARLPPL 375
            CPICL      + LK   T  EC H F ADC+   LR  N  CP CR        L
Sbjct: 56  MCPICL------DMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSL 106

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

 Score = 44.3 bits (104), Expect = 2e-05
 Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 6/59 (10%)

Query: 320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL--NATCPVCRNS-PARLPPL 375
               C IC +        ++   C    H  CV ++ +      CP C +  P  +P +
Sbjct: 179 AVKICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIPKV 234

>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 = 40.9 bits (96), Expect = 3e-05
 Identities = 16/64 (25%), Positives = 22/64 (34%), Gaps = 7/64 (10%)

Query: 317 PKPDDNTCPICLAEYK-PKETLKTIPECTHCFHADCVDEWLRL--NATCPVCRNSPARLP 373
           P PD+  C IC             IP C + +  +C+   L      TCP C  +     
Sbjct: 11  PIPDELLCLICKDIMTDAV----VIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD 66

Query: 374 PLPA 377
            L  
Sbjct: 67  ALSG 70

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

 Score = 41.3 bits (97), Expect = 4e-05
 Identities = 17/69 (24%), Positives = 26/69 (37%), Gaps = 11/69 (15%)

Query: 313 SRRLPKPDDNTCPICLAEYKPKETLK---TIPECTHCFHADCVDEWLRLN--ATCPVCRN 367
           S   P PD+  C IC       + +     IP C + +  +C+   L  +   TCP C  
Sbjct: 5   SEDDPIPDELLCLICK------DIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQ 58

Query: 368 SPARLPPLP 376
           +      L 
Sbjct: 59  NDVSPDALI 67

>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 = 42.1 bits (98), Expect = 2e-04
 Identities = 14/58 (24%), Positives = 16/58 (27%), Gaps = 5/58 (8%)

Query: 320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRNSPARLPPLP 376
               C IC    K       I  C H     C+  W       CP CR       P+ 
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 = 40.0 bits (93), Expect = 2e-04
 Identities = 14/58 (24%), Positives = 18/58 (31%), Gaps = 5/58 (8%)

Query: 320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNA-TCPVCRNSPARLPPLP 376
           +   C  C        T      C H    DC+D   R    +CP CR    R   + 
Sbjct: 51  ETFQCICCQELVFRPITT----VCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQ 104

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 117

 Score = 38.7 bits (90), Expect = 5e-04
 Identities = 11/44 (25%), Positives = 17/44 (38%), Gaps = 5/44 (11%)

Query: 323 TCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
            C  C    +       +  C H F ++CV +   +   CPVC 
Sbjct: 24  RCSRCTNILR---EPVCLGGCEHIFCSNCVSDC--IGTGCPVCY 62

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

 Score = 37.2 bits (86), Expect = 5e-04
 Identities = 14/49 (28%), Positives = 16/49 (32%), Gaps = 2/49 (4%)

Query: 320 DDNTCPICLAE-YKPKETLKTIPECTHCFHADCVDEWLRLN-ATCPVCR 366
           DD  CP C    Y+       +  C H     CVD         CP C 
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECG 50

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

 Score = 41.0 bits (95), Expect = 7e-04
 Identities = 54/379 (14%), Positives = 107/379 (28%), Gaps = 120/379 (31%)

Query: 34  CRRDEPWIRFPFRITTRQPESCGYPGF--NVS-CDSSSSQTILELPSGKFSLQAIDYDAQ 90
           C   +   +  F+I            F  N+  C+S  +  +LE+      LQ + Y   
Sbjct: 171 CLSYKVQCKMDFKI------------FWLNLKNCNSPET--VLEM------LQKLLYQID 210

Query: 91  QIWIN--DQSNCLPQKILSLNLSGSPFKALYNQQFTFFNC--------SSSYLQYRLNPI 140
             W +  D S+ +  +I S+         L ++ +   NC        ++       N +
Sbjct: 211 PNWTSRSDHSSNIKLRIHSIQAELRRL--LKSKPYE--NCLLVLLNVQNAKAWNA-FN-L 264

Query: 141 GCLSGANFTIFATSSTRVVNNFIQSSSCRFVARVQVPVDWPFYDQVVSSDLSDNLRLTWD 200
            C       I  T+  + V +F+ +++   +                     +   L   
Sbjct: 265 SC------KILLTTRFKQVTDFLSAATTTHI--SLDHHSMTLTP-------DEVKSL--- 306

Query: 201 EPQCGDCEKGGGRCGFKNNSSTEIGCLSLHHREIPKAARIAI-MVGAGVPTMLCLLG--- 256
                                     L    RE+       + ++   +   L       
Sbjct: 307 ---------------LLKYLDCRPQDLP---REVLTTNPRRLSIIAESIRDGLATWDNWK 348

Query: 257 ------LACIICAKLN--SPDTRRRRRSNYN----FPEFNPTVAPQPTVIAGLDGPTIES 304
                 L  II + LN   P   R+    ++    FP  +  +     +++ +    I+S
Sbjct: 349 HVNCDKLTTIIESSLNVLEPAEYRKM---FDRLSVFPP-SAHIPTI--LLSLIWFDVIKS 402

Query: 305 YPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIP-----ECTHC-----FHADCVDE 354
              +V+ +  +            L E +PKE+  +IP                H   VD 
Sbjct: 403 DVMVVVNKLHKY----------SLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVD- 451

Query: 355 WLRLNATCPVCRNSPARLP 373
               N       +      
Sbjct: 452 --HYNIPKTFDSDDLIPPY 468

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

 Score = 37.4 bits (86), Expect = 7e-04
 Identities = 12/51 (23%), Positives = 17/51 (33%), Gaps = 1/51 (1%)

Query: 317 PKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLR-LNATCPVCR 366
            K D   CP+C+   +  +       C +     C        N  CP CR
Sbjct: 7   AKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 57

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	390
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.69
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.61
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.55
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.55
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.53
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.53
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.48
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.43
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.39
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.38
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.38
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.37
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.35
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.35
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.35
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.3
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.29
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.26
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.26
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.22
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.21
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.2
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.19
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.18
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.17
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.16
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.15
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.13
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.11
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.11
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.09
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.08
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.07
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.03
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.02
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.02
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.01
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.0
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.99
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.97
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.94
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.94
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.88
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.87
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.86
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.85
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.84
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.84
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.83
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.82
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.81
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.74
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.71
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.71
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.7
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.64
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.62
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.62
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.57
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.52
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.48
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.45
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.44
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.42
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.33
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.24
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.22
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.1
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.04
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	97.98
3nw0_A	238	Non-structural maintenance of chromosomes element	97.63
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	95.07
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.53
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	94.26
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	92.59
1we9_A	64	PHD finger family protein; structural genomics, PH	89.47
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	86.53
2l2t_A	44	Receptor tyrosine-protein kinase ERBB-4; transmemb	85.24
2klu_A	70	T-cell surface glycoprotein CD4; cell membrane, di	83.79
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	83.65
2jwa_A	44	Receptor tyrosine-protein kinase ERBB-2; transmemb	83.47
2ks1_B	44	Epidermal growth factor receptor; ERBB1, ERBB2, tr	82.52
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	80.99

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

Probab=99.69  E-value=4.2e-17  Score=126.26  Aligned_cols=83  Identities=30%  Similarity=0.660  Sum_probs=70.1

Q ss_pred             CCCCCcccCCCChhhhhcCCceeeccCCCCCCCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043654          287 VAPQPTVIAGLDGPTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR  366 (390)
Q Consensus       287 ~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR  366 (390)
                      .........+++++.++.+|.+.+..... ....+..|+||+++|..++.++.++ |+|.||..||+.|++.+.+||+||
T Consensus         7 ~~~~~~~~~~~s~~~i~~lp~~~~~~~~~-~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr   84 (91)
T 2l0b_A            7 HHSHMVANPPASKESIDALPEILVTEDHG-AVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR   84 (91)
T ss_dssp             CSCCSSCCCCCCHHHHHTSCEEECCTTCS-SSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTC
T ss_pred             cCCCCcCCCCCCHHHHHhCCCeeeccccc-ccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcC
Confidence            33444555689999999999988775432 2456788999999999999999999 999999999999999999999999


Q ss_pred             CcCCC
Q 043654          367 NSPAR  371 (390)
Q Consensus       367 ~~~~~  371 (390)
                      +++..
T Consensus        85 ~~~~~   89 (91)
T 2l0b_A           85 CMFPP   89 (91)
T ss_dssp             CBSSC
T ss_pred             ccCCC
Confidence            98765

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

Probab=99.61  E-value=2.8e-16  Score=117.07  Aligned_cols=70  Identities=30%  Similarity=0.857  Sum_probs=58.6

Q ss_pred             hhhhcCCceeeccCCCCCCCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          300 PTIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       300 ~~~~~~p~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      +.++.+|...+....  ...++.+|+||+++|..++.++.++ |+|+||..||.+|++.+.+||+||+++...
T Consensus         4 ~~i~~lp~~~~~~~~--~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            4 GSSGQLPSYRFNPNN--HQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CCCSSCCCEEBCSSS--CSSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             hhHhhCCcEEecCcc--ccCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            345667777765432  2456789999999999999999999 999999999999999999999999988654

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

Probab=99.55  E-value=4.3e-15  Score=110.22  Aligned_cols=59  Identities=32%  Similarity=0.884  Sum_probs=52.4

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCCCcc
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLPA  377 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~~~  377 (390)
                      ...+..|+||+++|..++.+++++ |+|+||..||.+|++.+.+||+||+++........
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~   70 (74)
T 2ep4_A           12 LNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLSG   70 (74)
T ss_dssp             CCCSCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSSCCSCCC
T ss_pred             CCCCCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCcccccccccCC
Confidence            445789999999999999999999 99999999999999999999999999977665543

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

Probab=99.55  E-value=2.5e-15  Score=104.69  Aligned_cols=52  Identities=44%  Similarity=0.993  Sum_probs=47.5

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPA  370 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~  370 (390)
                      +++.+|+||+++|..++.++.++.|+|+||..||.+|++.+.+||+||+++.
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            4568999999999998888888779999999999999999999999999764

>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=99.53  E-value=9.4e-15  Score=106.83  Aligned_cols=56  Identities=38%  Similarity=0.912  Sum_probs=50.0

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPP  374 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~  374 (390)
                      ......|+||++.|..++.++.++ |+|+||..||.+|++.+.+||+||+++....+
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            455789999999999888899999 99999999999999999999999999876543

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

Probab=99.53  E-value=1.1e-14  Score=109.12  Aligned_cols=58  Identities=33%  Similarity=0.852  Sum_probs=51.9

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCCCc
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~~  376 (390)
                      .....+|+||++.|..++.+++++ |+|+||..||.+|++.+.+||+||+++......+
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   69 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTAT   69 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSCC
T ss_pred             CCCCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCcccCC
Confidence            445789999999999999999999 9999999999999999999999999987766554

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

Probab=99.48  E-value=1.4e-14  Score=109.35  Aligned_cols=52  Identities=29%  Similarity=0.760  Sum_probs=42.6

Q ss_pred             CCCcccccccccCC-----------CCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCC
Q 043654          320 DDNTCPICLAEYKP-----------KETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPAR  371 (390)
Q Consensus       320 ~~~~C~ICl~~~~~-----------~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~  371 (390)
                      ++..|+||+++|.+           ++.+++++.|+|+||.+||++||+.+.+||+||+++..
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            45678888887754           45566776799999999999999999999999998753

>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=99.43  E-value=9e-14  Score=96.71  Aligned_cols=51  Identities=29%  Similarity=0.828  Sum_probs=44.1

Q ss_pred             CCCCcccccccccCCCC-cEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCC
Q 043654          319 PDDNTCPICLAEYKPKE-TLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPA  370 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~-~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~  370 (390)
                      ..+.+|+||+++|..++ .++.++ |+|+||..||.+|++.+.+||+||+++.
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            35689999999997654 567777 9999999999999999999999999764

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

Probab=99.39  E-value=1.3e-13  Score=101.12  Aligned_cols=56  Identities=27%  Similarity=0.663  Sum_probs=47.3

Q ss_pred             CCCCCcccccccccCCC----CcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCC
Q 043654          318 KPDDNTCPICLAEYKPK----ETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPP  374 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~----~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~  374 (390)
                      ..++..|+||++.|.+.    +.+..++ |||+||..||.+|++.+.+||+||+++.....
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   66 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSC
T ss_pred             CCCCCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccChhhe
Confidence            45578999999999763    4556777 99999999999999999999999999876543

>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=99.38  E-value=2.9e-13  Score=107.06  Aligned_cols=50  Identities=26%  Similarity=0.578  Sum_probs=42.9

Q ss_pred             CCCcccccccccCCCC---------------cEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCC
Q 043654          320 DDNTCPICLAEYKPKE---------------TLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPA  370 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~---------------~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~  370 (390)
                      ++..|+||+++|...-               .++.++ |+|.||..||++||+.+.+||+||+++.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            4688999999998541               356677 9999999999999999999999999853

>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=99.38  E-value=4e-13  Score=108.22  Aligned_cols=53  Identities=21%  Similarity=0.517  Sum_probs=43.3

Q ss_pred             CCCcccccccccCCCC---------------cEEEcCCCCCcccHhhHHHHH-----hCCCCCcccCCcCCCCC
Q 043654          320 DDNTCPICLAEYKPKE---------------TLKTIPECTHCFHADCVDEWL-----RLNATCPVCRNSPARLP  373 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~---------------~~~~l~~C~H~FH~~Ci~~wl-----~~~~~CP~CR~~~~~~~  373 (390)
                      .+..|+||+++|..+.               .++.++ |+|+||..||++|+     +.+.+||+||+.+....
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~   96 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKT   96 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCC
Confidence            3569999999997653               344677 99999999999999     45778999999886553

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

Probab=99.37  E-value=3.4e-13  Score=98.27  Aligned_cols=53  Identities=28%  Similarity=0.738  Sum_probs=45.2

Q ss_pred             CCCCCcccccccccCCC----CcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCC
Q 043654          318 KPDDNTCPICLAEYKPK----ETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPAR  371 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~----~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~  371 (390)
                      ..+...|+||++.|...    +.+..++ |+|+||..||.+|++.+.+||+||+++..
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            34578999999999864    3456777 99999999999999999999999998764

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

Probab=99.35  E-value=7.1e-13  Score=99.29  Aligned_cols=56  Identities=25%  Similarity=0.681  Sum_probs=46.0

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCC-----CcccHhhHHHHHhCC--CCCcccCCcCCCCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECT-----HCFHADCVDEWLRLN--ATCPVCRNSPARLPPL  375 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~-----H~FH~~Ci~~wl~~~--~~CP~CR~~~~~~~~~  375 (390)
                      ..++..|+||+++|.+++.+ ++| |+     |.||.+||++||+.+  .+||+||+++......
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~~~   74 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMETKL   74 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCCCS
T ss_pred             CCCCCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCccc
Confidence            44567999999999877776 588 96     999999999999765  5899999998655433

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

Probab=99.35  E-value=2.2e-13  Score=97.72  Aligned_cols=53  Identities=28%  Similarity=0.699  Sum_probs=45.3

Q ss_pred             CCCcccccccccCCC----CcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCC
Q 043654          320 DDNTCPICLAEYKPK----ETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLP  373 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~----~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~  373 (390)
                      ++.+|+||++.+.++    +.+..++ |||+||..||.+|++.+.+||+||+++....
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            467899999999753    4556777 9999999999999999999999999887653

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

Probab=99.35  E-value=6e-13  Score=96.76  Aligned_cols=51  Identities=33%  Similarity=0.867  Sum_probs=43.8

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      ..+..|+||++.+..  .++.++ |||.||..||.+|++.+.+||+||+++...
T Consensus         3 ~~~~~C~IC~~~~~~--~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   53 (68)
T 1chc_A            3 TVAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVESV   53 (68)
T ss_dssp             CCCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCCE
T ss_pred             CCCCCCeeCCccccC--CcEecC-CCCeeHHHHHHHHHhCcCcCcCCChhhHhh
Confidence            346789999999864  356788 999999999999999999999999988644

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

Probab=99.30  E-value=2.8e-12  Score=94.39  Aligned_cols=56  Identities=21%  Similarity=0.451  Sum_probs=46.1

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCCCc
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~~  376 (390)
                      ..+...|+||++.|.+.  +..++ |+|.||..||.+|++.+..||+||+++.......
T Consensus        12 ~~~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   67 (72)
T 2djb_A           12 LTPYILCSICKGYLIDA--TTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPLS   67 (72)
T ss_dssp             CCGGGSCTTTSSCCSSC--EECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSSCSCC
T ss_pred             cCCCCCCCCCChHHHCc--CEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCcccccc
Confidence            34578999999998864  33346 9999999999999999999999999987665544

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

Probab=99.29  E-value=8.5e-13  Score=96.57  Aligned_cols=53  Identities=28%  Similarity=0.755  Sum_probs=45.6

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPL  375 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~  375 (390)
                      ..+...|+||++.+..    ..++ |+|.||..||.+|++.+.+||+||+++......
T Consensus        12 ~~~~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   64 (70)
T 2ecn_A           12 LTDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGANES   64 (70)
T ss_dssp             CCCCCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTCCCCC
T ss_pred             CCCCCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccCCCcc
Confidence            3456899999999876    6678 999999999999999999999999998765543

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

Probab=99.26  E-value=2e-12  Score=94.83  Aligned_cols=51  Identities=27%  Similarity=0.551  Sum_probs=43.5

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      ..+...|+||++.+.+.   ..++ |+|+||..||..|++.+..||+||+.+...
T Consensus        12 ~~~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   62 (71)
T 2d8t_A           12 SLTVPECAICLQTCVHP---VSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPED   62 (71)
T ss_dssp             SSSCCBCSSSSSBCSSE---EEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCHH
T ss_pred             CCCCCCCccCCcccCCC---EEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCHh
Confidence            44568999999998654   5667 999999999999999999999999987543

>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=99.26  E-value=4.6e-13  Score=107.38  Aligned_cols=50  Identities=26%  Similarity=0.604  Sum_probs=1.1

Q ss_pred             CCCcccccccccCCC-------------Cc--EEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCC
Q 043654          320 DDNTCPICLAEYKPK-------------ET--LKTIPECTHCFHADCVDEWLRLNATCPVCRNSPA  370 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~-------------~~--~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~  370 (390)
                      .++.|+||+++|...             +.  +..++ |+|.||..||++||+.+.+||+||+++.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~-C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CC----------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCC-cCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            468999999999752             22  22345 9999999999999999999999999853

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

Probab=99.22  E-value=1.2e-11  Score=94.46  Aligned_cols=54  Identities=22%  Similarity=0.610  Sum_probs=45.7

Q ss_pred             CCCCCcccccccccCCCCc-EEEcCCCCCcccHhhHHHHHhCC---CCCcccCCcCCCC
Q 043654          318 KPDDNTCPICLAEYKPKET-LKTIPECTHCFHADCVDEWLRLN---ATCPVCRNSPARL  372 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~-~~~l~~C~H~FH~~Ci~~wl~~~---~~CP~CR~~~~~~  372 (390)
                      ..+..+|+||++.|...+. .+.++ |||.||..||..|++.+   ..||+||+.+...
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            4457899999999998664 67777 99999999999999875   7899999987554

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

Probab=99.21  E-value=1.4e-11  Score=91.09  Aligned_cols=53  Identities=26%  Similarity=0.585  Sum_probs=43.0

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC--CCCcccCCcCCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN--ATCPVCRNSPARLP  373 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~--~~CP~CR~~~~~~~  373 (390)
                      ..+...|+||++.|.++   .+++.|||.||..||..|++.+  ..||+||+++....
T Consensus        12 ~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2yur_A           12 IPDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD   66 (74)
T ss_dssp             SCGGGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTT
T ss_pred             CCCCCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcc
Confidence            34578999999999865   3465599999999999999765  68999999865443

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

Probab=99.20  E-value=1.2e-11  Score=90.55  Aligned_cols=51  Identities=22%  Similarity=0.521  Sum_probs=42.9

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC--CCCcccCCcCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN--ATCPVCRNSPAR  371 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~--~~CP~CR~~~~~  371 (390)
                      .+...+|+||.+.+..++...   .|+|.||..||.+||+.+  .+||+||+++..
T Consensus        12 ~~~i~~C~IC~~~i~~g~~C~---~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           12 PDAVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSSSCBCSSSCCBCSSSEECS---SSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             cCCCCcCcchhhHcccCCccC---CCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            455689999999999775443   499999999999999887  889999988643

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

Probab=99.19  E-value=1.7e-11  Score=88.54  Aligned_cols=51  Identities=22%  Similarity=0.483  Sum_probs=42.4

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHH-hCCCCCcccCCcCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWL-RLNATCPVCRNSPARL  372 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl-~~~~~CP~CR~~~~~~  372 (390)
                      ..+...|+||++.+.++.   .++ |||+||..||.+|+ +.+..||+||+++...
T Consensus        12 ~~~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           12 VEDKYKCEKCHLVLCSPK---QTE-CGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCCCEECTTTCCEESSCC---CCS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             CCcCCCCCCCChHhcCee---ECC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            345689999999998663   366 99999999999999 4567899999988654

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

Probab=99.18  E-value=1.6e-11  Score=92.47  Aligned_cols=49  Identities=22%  Similarity=0.543  Sum_probs=42.5

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPA  370 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~  370 (390)
                      ......|+||++.|..+   .+++ |+|+||..||.+|++....||+||+++.
T Consensus        12 ~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           12 EEIPFRCFICRQAFQNP---VVTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCCSBCSSSCSBCCSE---EECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCCcCCCchhcCe---eEcc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            34567999999998754   4577 9999999999999999999999999986

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

Probab=99.17  E-value=2.6e-11  Score=89.28  Aligned_cols=51  Identities=29%  Similarity=0.626  Sum_probs=42.2

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHh---CCCCCcccCCcCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLR---LNATCPVCRNSPARL  372 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~---~~~~CP~CR~~~~~~  372 (390)
                      ..+...|+||++.|.+.   ..++ |||.||..||..|++   .+..||+||+++...
T Consensus        17 ~~~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   70 (73)
T 2ysl_A           17 LQEEVICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN   70 (73)
T ss_dssp             CCCCCBCTTTCSBCSSE---EECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCC
T ss_pred             CccCCEeccCCcccCCe---EEcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcc
Confidence            34578999999998853   4567 999999999999996   456899999988654

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

Probab=99.16  E-value=1.9e-11  Score=87.93  Aligned_cols=56  Identities=25%  Similarity=0.513  Sum_probs=44.1

Q ss_pred             CCCccccccc-ccCCCCcE-EEcCCCCCcccHhhHHHHHhC-CCCCcccCCcCCCCCCCc
Q 043654          320 DDNTCPICLA-EYKPKETL-KTIPECTHCFHADCVDEWLRL-NATCPVCRNSPARLPPLP  376 (390)
Q Consensus       320 ~~~~C~ICl~-~~~~~~~~-~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~~~~~~~~~  376 (390)
                      ++..|+||++ .|..+... ..++ |||+||..||++|+.+ +..||+||+++......+
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~   60 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRV   60 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCCEE
T ss_pred             CCCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCcccccccee
Confidence            3578999999 77766543 3466 9999999999999754 467999999987665444

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

Probab=99.15  E-value=1.4e-11  Score=101.61  Aligned_cols=56  Identities=27%  Similarity=0.655  Sum_probs=47.5

Q ss_pred             CCCCcccccccccCCC----CcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCCC
Q 043654          319 PDDNTCPICLAEYKPK----ETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPL  375 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~----~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~  375 (390)
                      .+...|+||++.|.++    +.++.++ |||+||..||.+|++.+.+||+||+.+......
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l~   64 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH   64 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCEE
T ss_pred             CCCCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCcccccc
Confidence            4568999999999764    4557777 999999999999999999999999998766543

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

Probab=99.13  E-value=3.9e-11  Score=89.59  Aligned_cols=53  Identities=21%  Similarity=0.450  Sum_probs=44.4

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC-CCCCcccCCcCCCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRNSPARLPP  374 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~~~~~~~  374 (390)
                      ..+...|+||++.|.++   .+++ |||.||+.||.+|++. +.+||+||+++.....
T Consensus         5 ~~~~~~C~IC~~~~~~P---v~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l   58 (78)
T 1t1h_A            5 FPEYFRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHAGL   58 (78)
T ss_dssp             CSSSSSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCC
T ss_pred             CcccCCCCCccccccCC---EEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCChhhC
Confidence            34578999999998765   4467 9999999999999987 7889999999876543

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

Probab=99.11  E-value=1e-10  Score=88.57  Aligned_cols=53  Identities=30%  Similarity=0.590  Sum_probs=44.2

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC------CCCCcccCCcCCCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL------NATCPVCRNSPARLPP  374 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~------~~~CP~CR~~~~~~~~  374 (390)
                      ..+...|+||++.|..+   .+++ |+|.||..||..|++.      ...||+||+.+.....
T Consensus        16 ~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~   74 (85)
T 2ecw_A           16 IKEEVTCPICLELLKEP---VSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNL   74 (85)
T ss_dssp             CCTTTSCTTTCSCCSSC---EECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCC
T ss_pred             CccCCCCcCCChhhCcc---eeCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhC
Confidence            34568999999998865   3677 9999999999999977      6789999999876543

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

Probab=99.11  E-value=2.1e-11  Score=101.55  Aligned_cols=48  Identities=29%  Similarity=0.823  Sum_probs=42.1

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      +..|+||++.|..+   ..++ |||.||..||..|+..+.+||+||+++...
T Consensus        53 ~~~C~iC~~~~~~~---~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           53 ELQCIICSEYFIEA---VTLN-CAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HSBCTTTCSBCSSE---EEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             cCCCcccCcccCCc---eECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            46899999998754   5677 999999999999999999999999988544

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

Probab=99.09  E-value=1.2e-10  Score=88.24  Aligned_cols=54  Identities=30%  Similarity=0.612  Sum_probs=44.4

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC------CCCCcccCCcCCCCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL------NATCPVCRNSPARLPPL  375 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~------~~~CP~CR~~~~~~~~~  375 (390)
                      ..+...|+||++.+.+.   ..++ |+|.||..||..|++.      ...||+||+.+......
T Consensus        16 ~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~   75 (85)
T 2ecv_A           16 VKEEVTCPICLELLTQP---LSLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIR   75 (85)
T ss_dssp             CCCCCCCTTTCSCCSSC---BCCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCC
T ss_pred             ccCCCCCCCCCcccCCc---eeCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcC
Confidence            34568999999999765   3467 9999999999999977      78899999998765433

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

Probab=99.08  E-value=1.3e-10  Score=82.85  Aligned_cols=44  Identities=32%  Similarity=0.705  Sum_probs=37.2

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHh---CCCCCccc
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLR---LNATCPVC  365 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~---~~~~CP~C  365 (390)
                      ..++..|+||++.|.++   .+++ |||+||..||.+|++   .+..||+|
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            34578999999999865   4567 999999999999997   45689998

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

Probab=99.07  E-value=3.2e-11  Score=90.23  Aligned_cols=51  Identities=27%  Similarity=0.592  Sum_probs=43.0

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC-------CCCCcccCCcCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-------NATCPVCRNSPARL  372 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~-------~~~CP~CR~~~~~~  372 (390)
                      ..+...|+||++.|.++   ..++ |||.||..||..|++.       ...||+||+++...
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            34578999999999865   3467 9999999999999976       66899999998754

>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=99.07  E-value=5.9e-11  Score=93.11  Aligned_cols=51  Identities=24%  Similarity=0.550  Sum_probs=42.1

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC-CCCcccCCcCCCCC
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN-ATCPVCRNSPARLP  373 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~-~~CP~CR~~~~~~~  373 (390)
                      +...|+||++.|..+  +..++ |||.||..||.+|++.+ ..||+||+++....
T Consensus        21 ~~~~C~IC~~~~~~p--~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (100)
T 3lrq_A           21 EVFRCFICMEKLRDA--RLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRE   72 (100)
T ss_dssp             HHTBCTTTCSBCSSE--EECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCccCCccccCc--cccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCHHH
Confidence            367899999999753  33366 99999999999999887 69999999985543

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

Probab=99.03  E-value=1.3e-10  Score=90.84  Aligned_cols=49  Identities=20%  Similarity=0.577  Sum_probs=41.6

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      ...|+||++.|.++  +..++ |||.||..||..|++.+..||+||+.+...
T Consensus        22 ~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   70 (99)
T 2y43_A           22 LLRCGICFEYFNIA--MIIPQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTEP   70 (99)
T ss_dssp             HTBCTTTCSBCSSE--EECTT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCGG
T ss_pred             CCCcccCChhhCCc--CEECC-CCCHhhHHHHHHHHHCCCCCCCCCCcCChh
Confidence            57899999998853  33336 999999999999999999999999988653

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

Probab=99.02  E-value=1.7e-10  Score=80.78  Aligned_cols=44  Identities=32%  Similarity=0.834  Sum_probs=36.6

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHH---hCCCCCccc
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWL---RLNATCPVC  365 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl---~~~~~CP~C  365 (390)
                      ..+...|+||++.+.++   .+++ |+|+||..||.+|+   +.+..||+|
T Consensus        12 ~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           12 LQVEASCSVCLEYLKEP---VIIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCCCCBCSSSCCBCSSC---CCCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cccCCCCccCCcccCcc---EeCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34568999999999876   3467 99999999999995   456789998

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

Probab=99.02  E-value=6.7e-11  Score=97.43  Aligned_cols=54  Identities=28%  Similarity=0.710  Sum_probs=45.2

Q ss_pred             CCCCcccccccccCCC----CcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCC
Q 043654          319 PDDNTCPICLAEYKPK----ETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLP  373 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~----~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~  373 (390)
                      .+...|+||++.|.+.    .....++ |||+||..||++|++.+++||+||+++....
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            3467899999999753    3445666 9999999999999999999999999886543

>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=99.01  E-value=2.1e-10  Score=91.19  Aligned_cols=50  Identities=22%  Similarity=0.586  Sum_probs=42.9

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      +...|+||++.|.+  .+..++ |||.||..||..|++.+..||+||..+...
T Consensus        14 ~~~~C~IC~~~~~~--p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           14 PHLMCVLCGGYFID--ATTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             GGTBCTTTSSBCSS--EEEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             CcCCCccCChHHhC--cCEeCC-CCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            46799999999875  344447 999999999999999999999999998764

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

Probab=99.00  E-value=3.7e-10  Score=87.00  Aligned_cols=50  Identities=28%  Similarity=0.642  Sum_probs=41.4

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC--CCCcccCCcCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN--ATCPVCRNSPA  370 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~--~~CP~CR~~~~  370 (390)
                      ..+...|+||++.|.++   ..++.|||.||..||..|+..+  ..||+||.++.
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            45678999999999865   3555599999999999999643  58999999874

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

Probab=98.99  E-value=4.8e-10  Score=83.45  Aligned_cols=59  Identities=22%  Similarity=0.462  Sum_probs=45.1

Q ss_pred             CCCCCcccccccccCCCCc-EEEcCCCCCcccHhhHHHHHh-CCCCCcccCCcCCCCCCCcc
Q 043654          318 KPDDNTCPICLAEYKPKET-LKTIPECTHCFHADCVDEWLR-LNATCPVCRNSPARLPPLPA  377 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~-~~~l~~C~H~FH~~Ci~~wl~-~~~~CP~CR~~~~~~~~~~~  377 (390)
                      ..++.+|+||++.+...+. +..++ |||.||..|+..|++ .+..||+||+++........
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~~~   68 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVYK   68 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSSCCC
T ss_pred             cccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCCchhhc
Confidence            3457899999999865432 23345 999999999999984 46789999999987665443

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

Probab=98.97  E-value=3.8e-10  Score=92.08  Aligned_cols=48  Identities=29%  Similarity=0.596  Sum_probs=41.0

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCC-CCcccCCcCCC
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNA-TCPVCRNSPAR  371 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~-~CP~CR~~~~~  371 (390)
                      +...|+||++.|..+   ..++ |||.||..||..|+..+. .||+||+++..
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            357899999999854   4567 999999999999998554 89999999876

>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=98.94  E-value=4.3e-10  Score=96.43  Aligned_cols=49  Identities=43%  Similarity=0.823  Sum_probs=41.4

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC-CCCCcccCCcCCC
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRNSPAR  371 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~~~~  371 (390)
                      ....|+||++.|.+  .+..++ |||.||..||..|++. +..||+||.++..
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            45799999999885  344457 9999999999999987 7889999998854

>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=98.94  E-value=5.4e-10  Score=89.32  Aligned_cols=50  Identities=30%  Similarity=0.632  Sum_probs=41.6

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCC---CCcccCCcCCCCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNA---TCPVCRNSPARLPP  374 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~---~CP~CR~~~~~~~~  374 (390)
                      ...|+||++.|..+   ..++ |||.||..||..|+..+.   .||+||.++.....
T Consensus        21 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~   73 (112)
T 1jm7_A           21 ILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL   73 (112)
T ss_dssp             HTSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTC
T ss_pred             CCCCcccChhhcCe---EECC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhc
Confidence            56899999998765   3467 999999999999998654   89999998876543

>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=98.88  E-value=6.4e-10  Score=89.89  Aligned_cols=52  Identities=27%  Similarity=0.552  Sum_probs=43.4

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCC-CCcccCCcCCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNA-TCPVCRNSPARLP  373 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~-~CP~CR~~~~~~~  373 (390)
                      ..+...|+||++.+..+   ..++ |||.||..||.+|++.+. +||+||.++....
T Consensus        15 ~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (118)
T 3hct_A           15 LESKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (118)
T ss_dssp             CCGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCcCChhhcCe---EECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCHHh
Confidence            44578999999998865   4567 999999999999997765 9999999986643

>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=98.87  E-value=1e-09  Score=78.45  Aligned_cols=51  Identities=24%  Similarity=0.356  Sum_probs=41.1

Q ss_pred             CCCCCcccccccccCCCCcEE-EcCCCCCc-ccHhhHHHHHhCCCCCcccCCcCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLK-TIPECTHC-FHADCVDEWLRLNATCPVCRNSPAR  371 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~-~l~~C~H~-FH~~Ci~~wl~~~~~CP~CR~~~~~  371 (390)
                      ..++..|+||++.+.+.  +. .+| |||. |+.+|+..|++.+..||+||+++..
T Consensus         5 ~~~~~~C~IC~~~~~~~--~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   57 (64)
T 2vje_A            5 LNAIEPCVICQGRPKNG--CIVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPIQM   57 (64)
T ss_dssp             CGGGSCCTTTSSSCSCE--EEEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCCCE
T ss_pred             CCCcCCCCcCCCCCCCE--EEECCC-CCChhhHHHHHHHHHHcCCcCCCcCcchhc
Confidence            34567999999986543  22 238 9999 8999999999999999999998753

>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=98.86  E-value=1.6e-09  Score=91.25  Aligned_cols=49  Identities=22%  Similarity=0.522  Sum_probs=41.8

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCC-CCcccCCcCCCC
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNA-TCPVCRNSPARL  372 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~-~CP~CR~~~~~~  372 (390)
                      +...|+||++.|.++   .+++ |||.||..||..|++... .||+||.++...
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            357899999998764   4477 999999999999998754 899999998766

>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=98.85  E-value=1.7e-09  Score=84.53  Aligned_cols=54  Identities=17%  Similarity=0.155  Sum_probs=46.2

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCCCc
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~~  376 (390)
                      .....|+||++.|.++   .+++ |||.|++.||.+|+..+.+||+||.++......+
T Consensus        27 p~~~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~p   80 (100)
T 2kre_A           27 PDEFRDPLMDTLMTDP---VRLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTESMLEP   80 (100)
T ss_dssp             STTTBCTTTCSBCSSE---EEET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSEE
T ss_pred             cHhhCCcCccCcccCC---eECC-CCCEEchHHHHHHHHcCCCCCCCCCCCChhhceE
Confidence            4578999999999877   4567 9999999999999998999999999987654443

>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=98.84  E-value=1.1e-09  Score=88.07  Aligned_cols=49  Identities=24%  Similarity=0.521  Sum_probs=41.6

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC-CCCCcccCCcCCCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRNSPARLP  373 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~~~~~~  373 (390)
                      ...|+||++.+.++   ..++ |||.||..||.+|++. +.+||+||.++....
T Consensus        23 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           23 SISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCcHhcCc---EEcC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            57899999998754   3467 9999999999999987 778999999986543

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

Probab=98.84  E-value=1.9e-09  Score=81.73  Aligned_cols=52  Identities=15%  Similarity=0.119  Sum_probs=44.9

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPP  374 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~  374 (390)
                      .....|+||++.|.++   .+++ |||.|++.||.+|+..+.+||+||.++.....
T Consensus        12 p~~~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l   63 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTDP---VRLP-SGTVMDRSIILRHLLNSPTDPFNRQMLTESML   63 (85)
T ss_dssp             CTTTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGC
T ss_pred             chheECcccCchhcCC---eECC-CCCEECHHHHHHHHhcCCCCCCCcCCCChHhc
Confidence            4578999999999876   4567 99999999999999989999999998865443

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

Probab=98.83  E-value=1.2e-09  Score=75.88  Aligned_cols=48  Identities=27%  Similarity=0.546  Sum_probs=40.5

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLP  373 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~  373 (390)
                      .+...|+||++.|..+   ++++ |+|.||..||..|   ...||+||+++....
T Consensus         4 ~~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             ccCCCceEeCCccCCe---EEcC-CCCcccHHHHccC---CCCCCcCCcEeecCC
Confidence            4568899999999875   5677 9999999999884   678999999887654

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

Probab=98.82  E-value=6.9e-10  Score=89.22  Aligned_cols=48  Identities=25%  Similarity=0.649  Sum_probs=40.9

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC-CCCCcccCCcCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRNSPA  370 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~~~  370 (390)
                      .++..|+||++.|..+   ..++ |||.||..||..|+.. +..||+||+.+.
T Consensus        13 ~~~~~C~iC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           13 LSECQCGICMEILVEP---VTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             HHHHBCTTTCSBCSSC---EECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCCCccCCcccCce---eEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            3467899999998865   4567 9999999999999976 678999999875

>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=3.9e-09  Score=82.16  Aligned_cols=54  Identities=17%  Similarity=0.107  Sum_probs=45.8

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCC-CcccHhhHHHHHhCCCCCcccCCcCCCCCCCc
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECT-HCFHADCVDEWLRLNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~-H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~~  376 (390)
                      .++..|+||++.|.++   .+++ || |.|++.||.+||..+.+||+||.++......+
T Consensus        20 p~~~~CpI~~~~m~dP---V~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L~p   74 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDP---VVLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRP   74 (98)
T ss_dssp             CTTTBCTTTCSBCSSE---EECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEE
T ss_pred             cHhcCCcCccccccCC---eECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCChhhceE
Confidence            3478999999999876   4566 99 99999999999998999999999987654443

>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=98.74  E-value=3.5e-09  Score=75.43  Aligned_cols=51  Identities=16%  Similarity=0.350  Sum_probs=40.4

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCc-ccHhhHHHHHhCCCCCcccCCcCCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHC-FHADCVDEWLRLNATCPVCRNSPAR  371 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~-FH~~Ci~~wl~~~~~CP~CR~~~~~  371 (390)
                      .....|+||++...+. .+..+| |||. |+..|+..|.+.+..||+||+++..
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            3467899999985532 122238 9998 9999999999888999999998753

>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=98.71  E-value=3.6e-09  Score=85.31  Aligned_cols=47  Identities=23%  Similarity=0.569  Sum_probs=40.0

Q ss_pred             CCCcccccccccCCCCcEEEc-CCCCCcccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          320 DDNTCPICLAEYKPKETLKTI-PECTHCFHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l-~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      +...|+||++.|..+   ..+ + |||.||..||..|+.  ..||+||..+...
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            367999999999865   345 6 999999999999997  8899999998544

>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=98.71  E-value=7e-09  Score=99.47  Aligned_cols=48  Identities=29%  Similarity=0.678  Sum_probs=41.4

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHh-CCCCCcccCCcCCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLR-LNATCPVCRNSPARL  372 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~-~~~~CP~CR~~~~~~  372 (390)
                      ...|+||++.+..   ...+| |||.||..|+..|+. .+.+||+||+++...
T Consensus       332 ~~~C~ICle~~~~---pv~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSBCC---EEEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCCCC---eEEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            4799999999754   46678 999999999999998 788999999987654

>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=98.70  E-value=2.8e-09  Score=88.78  Aligned_cols=50  Identities=16%  Similarity=0.385  Sum_probs=41.7

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCC-CCcccCCcCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNA-TCPVCRNSPAR  371 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~-~CP~CR~~~~~  371 (390)
                      ..+...|+||++.|.++   ..++ |||.||..||..|++... .||+||.++..
T Consensus        28 l~~~~~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           28 LEAKYLCSACRNVLRRP---FQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             CCGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             CCcCcCCCCCChhhcCc---EECC-CCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            34578999999999876   4466 999999999999998664 89999998643

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

Probab=98.64  E-value=6.5e-09  Score=96.75  Aligned_cols=53  Identities=25%  Similarity=0.636  Sum_probs=40.8

Q ss_pred             CCCCCcccccccccCCCCcEE----EcCCCCCcccHhhHHHHHhCC-----------CCCcccCCcCC
Q 043654          318 KPDDNTCPICLAEYKPKETLK----TIPECTHCFHADCVDEWLRLN-----------ATCPVCRNSPA  370 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~----~l~~C~H~FH~~Ci~~wl~~~-----------~~CP~CR~~~~  370 (390)
                      .....+|+||++.+.++..+.    ..++|+|.||..||.+|+++.           .+||+||+++.
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            346789999999998733221    223599999999999999652           36999999875

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=98.62  E-value=2.4e-08  Score=70.16  Aligned_cols=48  Identities=27%  Similarity=0.606  Sum_probs=37.5

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCC--C---cccHhhHHHHHhC--CCCCcccCCcCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECT--H---CFHADCVDEWLRL--NATCPVCRNSPA  370 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~--H---~FH~~Ci~~wl~~--~~~CP~CR~~~~  370 (390)
                      .+...|.||+++.  ++.+ ++| |.  |   .||..||++|+..  +.+||+||+++.
T Consensus         4 ~~~~~CrIC~~~~--~~~l-~~P-C~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEEL--GNER-FRA-CGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEEC--SCCC-CCS-CCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCC--CCce-ecC-cCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            4567899999983  3333 577 65  4   9999999999954  678999999764

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

Probab=98.62  E-value=6.8e-09  Score=76.47  Aligned_cols=43  Identities=23%  Similarity=0.667  Sum_probs=36.9

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCc-ccHhhHHHHHhCCCCCcccCCcCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHC-FHADCVDEWLRLNATCPVCRNSPAR  371 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~-FH~~Ci~~wl~~~~~CP~CR~~~~~  371 (390)
                      +..|+||++.+.+   ...+| |||. ||..|+..|    ..||+||+++..
T Consensus        24 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCCCC---EEEcC-CCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            5689999998664   35678 9999 999999999    889999998754

>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=1.6e-08  Score=78.19  Aligned_cols=51  Identities=25%  Similarity=0.501  Sum_probs=40.1

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC------CCCcc--cCCc-CCCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN------ATCPV--CRNS-PARL  372 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~------~~CP~--CR~~-~~~~  372 (390)
                      .....|+||++.|.++   .+++.|||+|++.||.+||..+      .+||+  |+.. +...
T Consensus         5 ~~~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~   64 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKS   64 (94)
T ss_dssp             SSCCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGG
T ss_pred             CcEeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHh
Confidence            4568999999999865   3343499999999999999754      48999  9866 5433

>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=98.52  E-value=2.9e-08  Score=85.39  Aligned_cols=52  Identities=27%  Similarity=0.544  Sum_probs=43.2

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC-CCCcccCCcCCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN-ATCPVCRNSPARLP  373 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~-~~CP~CR~~~~~~~  373 (390)
                      ..+...|+||++.|.++   ..++ |||+|+..||.+|++.. ..||+||.++....
T Consensus        15 ~~~~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (170)
T 3hcs_A           15 LESKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (170)
T ss_dssp             CCGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCChhhcCc---EECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcchhh
Confidence            45578999999999865   4467 99999999999999764 48999999886643

>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=98.48  E-value=6.3e-08  Score=74.70  Aligned_cols=49  Identities=24%  Similarity=0.710  Sum_probs=40.7

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC--------CCCCcc--cCCc
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL--------NATCPV--CRNS  368 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~--------~~~CP~--CR~~  368 (390)
                      .+..+|+||++++..++.++..+ |+|.|+.+|+..+++.        ...||.  ||..
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            34678999999998776666667 9999999999999853        236999  9987

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.45  E-value=1.4e-07  Score=68.10  Aligned_cols=50  Identities=24%  Similarity=0.585  Sum_probs=39.9

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCc-ccHhhHHHHHhCCCCCcccCCcCCCCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHC-FHADCVDEWLRLNATCPVCRNSPARLPPL  375 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~-FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~  375 (390)
                      ..+...|+||++...   .+..+| |+|. |+..|+..    ...||+||+++.....+
T Consensus        12 ~~~~~~C~IC~~~~~---~~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~~~~i   62 (68)
T 2ea5_A           12 EENSKDCVVCQNGTV---NWVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQESFAL   62 (68)
T ss_dssp             CCCSSCCSSSSSSCC---CCEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCCEECC
T ss_pred             CCCCCCCCCcCcCCC---CEEEEC-CCChhhhHHHHhc----CCCCCCCCcchhceEEe
Confidence            345689999999854   457788 9999 99999984    57899999998765433

>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=98.44  E-value=1e-07  Score=88.41  Aligned_cols=54  Identities=17%  Similarity=0.183  Sum_probs=44.3

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC-CCCCcccCCcCCCCCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRNSPARLPPL  375 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~~~~~~~~  375 (390)
                      ......|+||++.|.++   .+++ |||+|++.||..|+.. +.+||+||.++......
T Consensus       205 ~~~~~~c~i~~~~~~dP---v~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~  259 (281)
T 2c2l_A          205 IPDYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLI  259 (281)
T ss_dssp             CCSTTBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCE
T ss_pred             CCcccCCcCcCCHhcCC---eECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCc
Confidence            45678999999999876   4577 9999999999999976 44599999998655443

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

Probab=98.42  E-value=1.1e-07  Score=70.14  Aligned_cols=44  Identities=23%  Similarity=0.602  Sum_probs=36.2

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCc-ccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHC-FHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~-FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      ...|+||++.+.+.   ..+| |||. ||..|+..    ...||+||+++...
T Consensus        25 ~~~C~IC~~~~~~~---~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           25 EKLCKICMDRNIAI---VFVP-CGHLVTCKQCAEA----VDKCPMCYTVITFK   69 (75)
T ss_dssp             HHSCSSSCSSCCCB---CCSS-SCCCCBCHHHHHH----CSBCTTTCCBCCCC
T ss_pred             CCCCCcCCCCCCCE---EEec-CCCHHHHHHHhhC----CCCCccCCceecCc
Confidence            56899999997653   4577 9999 99999964    47899999988664

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

Probab=98.33  E-value=1.7e-07  Score=80.62  Aligned_cols=55  Identities=18%  Similarity=0.195  Sum_probs=44.6

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC-CCCcccCCcCCCCCCCc
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN-ATCPVCRNSPARLPPLP  376 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~-~~CP~CR~~~~~~~~~~  376 (390)
                      ......||||++.|.++   .+++ |||.|.+.||..|+..+ .+||+||.++......|
T Consensus       103 ip~~f~CPI~~elm~DP---V~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~p  158 (179)
T 2f42_A          103 IPDYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIP  158 (179)
T ss_dssp             CCGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEE
T ss_pred             CcHhhcccCccccCCCC---eECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcc
Confidence            45679999999999875   4556 99999999999999764 57999999886554433

>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=98.24  E-value=2.9e-07  Score=64.81  Aligned_cols=53  Identities=9%  Similarity=0.162  Sum_probs=43.1

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCCCc
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~~  376 (390)
                      ...|+|+++.+.++   .+++.+||+|.+.||.+|++++.+||+.+.++......+
T Consensus         3 ~~~CpIs~~~m~dP---V~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~Lip   55 (61)
T 2bay_A            3 HMLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVE   55 (61)
T ss_dssp             -CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCEE
T ss_pred             eEEecCCCCCCCCC---EEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhcEE
Confidence            36799999999865   344239999999999999998889999999987665444

>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=98.22  E-value=4.2e-07  Score=67.64  Aligned_cols=44  Identities=27%  Similarity=0.656  Sum_probs=36.5

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCc-ccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHC-FHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~-FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      ...|+||++.+..   ...+| |||. |+..|+..|    ..||+||+++...
T Consensus        18 ~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           18 AMLCMVCCEEEIN---STFCP-CGHTVCCESCAAQL----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCBCCBCHHHHTTC----SBCTTTCCBCCEE
T ss_pred             CCEeEEeCcccCc---EEEEC-CCCHHHHHHHHHhc----CcCCCCCchhhCe
Confidence            4689999998553   56778 9999 999999987    4999999987554

>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=98.10  E-value=7.7e-07  Score=80.34  Aligned_cols=52  Identities=27%  Similarity=0.552  Sum_probs=41.8

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC--CCCcc--cCCcCCCCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN--ATCPV--CRNSPARLP  373 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~--~~CP~--CR~~~~~~~  373 (390)
                      .....||||++.|.++  |+.+. |||+|++.||.+|++.+  ..||+  ||+.+....
T Consensus       179 ~~el~CPIcl~~f~DP--Vts~~-CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~d  234 (267)
T 3htk_C          179 KIELTCPITCKPYEAP--LISRK-CNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRD  234 (267)
T ss_dssp             BCCSBCTTTSSBCSSE--EEESS-SCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGG
T ss_pred             ceeeECcCccCcccCC--eeeCC-CCCcccHHHHHHHHHhCCCCCCCcccccCcCchhh
Confidence            4568999999999755  44445 99999999999999764  46999  999875543

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

Probab=98.04  E-value=3.3e-06  Score=64.15  Aligned_cols=49  Identities=29%  Similarity=0.552  Sum_probs=40.0

Q ss_pred             cccccccccCCCCcEEEcCCCCCcccHhhHHHHHh-CCCCCcccCCcCCCCCC
Q 043654          323 TCPICLAEYKPKETLKTIPECTHCFHADCVDEWLR-LNATCPVCRNSPARLPP  374 (390)
Q Consensus       323 ~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~-~~~~CP~CR~~~~~~~~  374 (390)
                      -|++|--.+.  ...|++| |+|+|+.+|+..|.+ +.++||+||.++...+.
T Consensus         3 fC~~C~~Pi~--iygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe~   52 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQ   52 (101)
T ss_dssp             BCTTTCSBCS--EEEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEEE
T ss_pred             ecCccCCCeE--EEeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeeeeeEE
Confidence            4777766655  5678999 999999999999984 57899999999866544

>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=97.98  E-value=1.5e-06  Score=82.78  Aligned_cols=44  Identities=27%  Similarity=0.773  Sum_probs=37.4

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCc-ccHhhHHHHHhCCCCCcccCCcCCC
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHC-FHADCVDEWLRLNATCPVCRNSPAR  371 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~-FH~~Ci~~wl~~~~~CP~CR~~~~~  371 (390)
                      ++..|+||++.+..   ...+| |||. ||..|+..|    ..||+||+++..
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            35799999999764   35678 9999 999999998    789999998754

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

Probab=97.63  E-value=5.4e-05  Score=68.24  Aligned_cols=50  Identities=24%  Similarity=0.527  Sum_probs=40.3

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCC--CCcccCCcCCCC
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNA--TCPVCRNSPARL  372 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~--~CP~CR~~~~~~  372 (390)
                      ....|.||.+....+..   -+.|+|.||..|+..|++.+.  .||.|+.+....
T Consensus       179 ~i~~C~iC~~iv~~g~~---C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             TCCBCTTTCSBCSSCEE---CSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCCcCcchhhHHhCCcc---cCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            46899999999887633   334999999999999997654  899999975433

>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1

Probab=95.07  E-value=0.098  Score=38.51  Aligned_cols=57  Identities=23%  Similarity=0.403  Sum_probs=40.2

Q ss_pred             CCCcccccccccCC---CCcEEEcCCCCCcccHhhHHHHH-hCCCCCcccCCcCCCCCCCc
Q 043654          320 DDNTCPICLAEYKP---KETLKTIPECTHCFHADCVDEWL-RLNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       320 ~~~~C~ICl~~~~~---~~~~~~l~~C~H~FH~~Ci~~wl-~~~~~CP~CR~~~~~~~~~~  376 (390)
                      ....|.||-++.-.   ++...--..|+--.++.|.+-=. ..++.||.|++++......|
T Consensus        15 ~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYkr~kgsp   75 (93)
T 1weo_A           15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKRLRGSP   75 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCCCTTCC
T ss_pred             CCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCccccccCCC
Confidence            45799999998643   33222233477778999997655 45789999999997655544

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=94.26  E-value=0.042  Score=38.69  Aligned_cols=50  Identities=16%  Similarity=0.345  Sum_probs=35.6

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC----CCCcccCCcCCC
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN----ATCPVCRNSPAR  371 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~----~~CP~CR~~~~~  371 (390)
                      ......|.||.+.   ++ +..--.|...||..|+++.|...    -.||.|+....+
T Consensus         9 ~~~~~~C~vC~~~---~~-ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~~p   62 (66)
T 2lri_C            9 LAPGARCGVCGDG---TD-VLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDVTP   62 (66)
T ss_dssp             CCTTCCCTTTSCC---TT-CEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCCCC
T ss_pred             CCCCCCcCCCCCC---Ce-EEECCCCCCceecccCCCccCcCCCCCEECccccCCCcc
Confidence            3446789999753   44 44444599999999999988553    359999875433

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=92.59  E-value=0.086  Score=40.24  Aligned_cols=35  Identities=11%  Similarity=0.434  Sum_probs=26.9

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHH
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEW  355 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~w  355 (390)
                      ++..|.||++++.......-+. |+|.|+..|+..+
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            3578999998754444444477 9999999999984

>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=89.47  E-value=0.12  Score=36.00  Aligned_cols=50  Identities=26%  Similarity=0.515  Sum_probs=35.8

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHh-----CCCCCcccCCc
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLR-----LNATCPVCRNS  368 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~-----~~~~CP~CR~~  368 (390)
                      .+...|+||...+.++...+.--.|..-||..|+.--..     ....||.|+..
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            456789999998865544444445999999999865421     35679999764

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=86.53  E-value=0.47  Score=32.60  Aligned_cols=47  Identities=19%  Similarity=0.586  Sum_probs=33.5

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC----CCCCcccCCc
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL----NATCPVCRNS  368 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~----~~~CP~CR~~  368 (390)
                      ...+..|.||...   + .+..--.|...||..|+..-+..    .-.||.|+..
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---G-EIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             SCCCSSCTTTSCC---S-SEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCCccCCCC---C-cEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            4557889999873   3 44444458999999999986533    3359999753

>2l2t_A Receptor tyrosine-protein kinase ERBB-4; transmembrane dimer, membrane domain, membrane protei; NMR {Homo sapiens}

Probab=85.24  E-value=1.1  Score=28.55  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=9.6

Q ss_pred             hhhhhHH-HHHHHHHHHHHHhhhh
Q 043654          242 IMVGAGV-PTMLCLLGLACIICAK  264 (390)
Q Consensus       242 i~i~~~i-~~~l~~~~i~~~i~~~  264 (390)
                      |+.++.. +++++++++..+++.|
T Consensus        12 IA~gVVgGv~~v~ii~~~~~~~~R   35 (44)
T 2l2t_A           12 IAAGVIGGLFILVIVGLTFAVYVR   35 (44)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEeehHHHHHHHHHHHHHHHHhh
Confidence            4444433 3333344444444444

>2klu_A T-cell surface glycoprotein CD4; cell membrane, disulfide bond, HOST- virus interaction, immune response, immunoglobulin domain, lipoprotein; NMR {Homo sapiens}

Probab=83.79  E-value=1.3  Score=30.61  Aligned_cols=20  Identities=25%  Similarity=0.541  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHhhhhcc
Q 043654          247 GVPTMLCLLGLACIICAKLN  266 (390)
Q Consensus       247 ~i~~~l~~~~i~~~i~~~~r  266 (390)
                      +++.++++.++.++.+.+.+
T Consensus        16 g~~~lll~~glcI~ccvkcr   35 (70)
T 2klu_A           16 GVAGLLLFIGLGIFFSVRSR   35 (70)
T ss_dssp             HHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHHHHhhHHH
Confidence            33444555555555555433

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=83.65  E-value=0.47  Score=40.49  Aligned_cols=49  Identities=24%  Similarity=0.589  Sum_probs=35.8

Q ss_pred             CCcccccccccCCCCc---EEEcCCCCCcccHhhHHH------HHh-----CCCCCcccCCcC
Q 043654          321 DNTCPICLAEYKPKET---LKTIPECTHCFHADCVDE------WLR-----LNATCPVCRNSP  369 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~---~~~l~~C~H~FH~~Ci~~------wl~-----~~~~CP~CR~~~  369 (390)
                      +..|+||...|.+++.   .+.--.|..-||..|+.-      -+.     ....||.|+..-
T Consensus         2 G~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~   64 (183)
T 3lqh_A            2 GNFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERH   64 (183)
T ss_dssp             CCBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSS
T ss_pred             cCcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCC
Confidence            3469999999988763   455556999999999842      121     167899998753

>2jwa_A Receptor tyrosine-protein kinase ERBB-2; transmembrane helix dimer, protein kinase receptor membrane domain, ATP-binding, glycoprotein; NMR {Homo sapiens} PDB: 2ks1_A

Probab=83.47  E-value=1.1  Score=28.44  Aligned_cols=14  Identities=29%  Similarity=0.441  Sum_probs=6.9

Q ss_pred             HHHHHHHHHHhhhh
Q 043654          251 MLCLLGLACIICAK  264 (390)
Q Consensus       251 ~l~~~~i~~~i~~~  264 (390)
                      +++++++..++|.|
T Consensus        23 l~vi~~l~~~~~~R   36 (44)
T 2jwa_A           23 LVVVLGVVFGILIK   36 (44)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhee
Confidence            44444455555554

>2ks1_B Epidermal growth factor receptor; ERBB1, ERBB2, transmembrane, heterodimer, complex, tyrosine receptor, bicelles, transferase; NMR {Homo sapiens}

Probab=82.52  E-value=2.2  Score=27.10  Aligned_cols=12  Identities=8%  Similarity=0.155  Sum_probs=5.1

Q ss_pred             HHHHHHHHhhhh
Q 043654          253 CLLGLACIICAK  264 (390)
Q Consensus       253 ~~~~i~~~i~~~  264 (390)
                      ++++++.+++.|
T Consensus        25 ~ii~~~~~~~~R   36 (44)
T 2ks1_B           25 LVVALGIGLFMR   36 (44)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh
Confidence            333444444444

>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=80.99  E-value=1.7  Score=31.59  Aligned_cols=36  Identities=22%  Similarity=0.620  Sum_probs=23.8

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHH
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEW  355 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~w  355 (390)
                      ...+..|.||- .|..++...- ..|+-+||..|+.+-
T Consensus        12 ~~~D~~C~VC~-~~t~~~l~pC-RvC~RvfH~~CL~r~   47 (89)
T 1wil_A           12 VVNDEMCDVCE-VWTAESLFPC-RVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTTC-CCCSSCCSSC-SSSSSCCCHHHHHHH
T ss_pred             CCCCcccCccc-cccccceecc-ccccccccHhhcccc
Confidence            34678999995 2333322111 138899999999996

---

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	390
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-16
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	4e-10
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	4e-09
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	2e-08
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	3e-07
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	3e-07
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	6e-07
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	1e-06
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	2e-06
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	2e-04
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	2e-04
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	3e-04
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	4e-04

>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 = 71.1 bits (174), Expect = 1e-16
 Identities = 23/49 (46%), Positives = 32/49 (65%)

Query: 320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNS 368
           D   C +CLAE +  E  + +P C H FHA+CVD WL  ++TCP+CR +
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLT 52

>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 = 53.4 bits (128), Expect = 4e-10
 Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 3/43 (6%)

Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
           CPICL +            C H F   C+  W+R N TCP+C+
Sbjct: 8   CPICLEDPSNYSM---ALPCLHAFCYVCITRWIRQNPTCPLCK 47

>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 = 50.9 bits (121), Expect = 4e-09
 Identities = 12/61 (19%), Positives = 17/61 (27%), Gaps = 14/61 (22%)

Query: 320 DDNTCPICLAEYKPKETLKTIPE--------------CTHCFHADCVDEWLRLNATCPVC 365
             + C IC              +              C H FH  C+  WL+    CP+ 
Sbjct: 20  VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 79

Query: 366 R 366
            
Sbjct: 80  N 80

>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 = 48.2 bits (114), Expect = 2e-08
 Identities = 15/49 (30%), Positives = 17/49 (34%), Gaps = 2/49 (4%)

Query: 320 DDNTCPICLAEYKPKETLKTIP-ECTHCFHADCVDEWLRLN-ATCPVCR 366
           DD  CP C        +LK +   C H     CVD         CP C 
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECG 50

>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 = 44.7 bits (105), Expect = 3e-07
 Identities = 10/46 (21%), Positives = 15/46 (32%), Gaps = 1/46 (2%)

Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRNS 368
           CP+C+   +  +       C +     C        N  CP CR  
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 48

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.4 bits (107), Expect = 3e-07
 Identities = 12/48 (25%), Positives = 14/48 (29%), Gaps = 5/48 (10%)

Query: 320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN-ATCPVCR 366
               C IC    K  +       C H     C+  W       CP CR
Sbjct: 22  TFQLCKICAENDKDVKIEP----CGHLMCTSCLTSWQESEGQGCPFCR 65

>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 = 44.1 bits (103), Expect = 6e-07
 Identities = 11/50 (22%), Positives = 16/50 (32%), Gaps = 3/50 (6%)

Query: 320 DDNTCPICLAEYK-PKETLKTIPECTHCFHADCVDEWLRLN--ATCPVCR 366
           D   C IC  E    +             H  C+  WL ++    C +C 
Sbjct: 5   DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICG 54

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.0 bits (105), Expect = 1e-06
 Identities = 12/73 (16%), Positives = 24/73 (32%), Gaps = 19/73 (26%)

Query: 313 SRRLPKPDDNTCPICL--------------AEYKPKETLKTIPECTHCFHADCVDEWLR- 357
           +  L    +  C IC+              ++      +  + +C+H FH  C+      
Sbjct: 17  TEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCN 76

Query: 358 ----LNATCPVCR 366
                +  CP C+
Sbjct: 77  GNKDGSLQCPSCK 89

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.9 bits (101), Expect = 2e-06
 Identities = 15/56 (26%), Positives = 22/56 (39%), Gaps = 8/56 (14%)

Query: 323 TCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLPAA 378
            C  C AE K  + L     C H   + C++        CP+C+ +P  L     A
Sbjct: 8   RCQQCQAEAKCPKLLP----CLHTLCSGCLEAS---GMQCPICQ-APWPLGADTPA 55

>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 = 38.5 bits (89), Expect = 2e-04
 Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 7/49 (14%)

Query: 323 TCPICLAEYKPKETLKTIPECTHCFHADCVDEWL---RLNATCPVCRNS 368
            CPICL   K   + K    C H F   C+ + L   +  + CP+C+N 
Sbjct: 23  ECPICLELIKEPVSTK----CDHIFCKFCMLKLLNQKKGPSQCPLCKND 67

>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 = 38.2 bits (88), Expect = 2e-04
 Identities = 12/44 (27%), Positives = 17/44 (38%), Gaps = 5/44 (11%)

Query: 323 TCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
            C  C    +    L     C H F ++CV +   +   CPVC 
Sbjct: 24  RCSRCTNILREPVCL---GGCEHIFCSNCVSDC--IGTGCPVCY 62

>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 = 37.2 bits (86), Expect = 3e-04
 Identities = 12/45 (26%), Positives = 17/45 (37%), Gaps = 5/45 (11%)

Query: 323 TCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCR 366
           +C IC               C H F   C+   L++  + CP CR
Sbjct: 25  SCQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCR 65

>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 = 37.4 bits (86), Expect = 4e-04
 Identities = 11/55 (20%), Positives = 21/55 (38%), Gaps = 9/55 (16%)

Query: 320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWL--------RLNATCPVCR 366
             + C +CL EY  ++    I +C   F   C+ +++            +CP   
Sbjct: 4   GSSGCKLCLGEYPVEQMTT-IAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	390
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.7
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.53
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.45
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.42
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.37
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.35
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.32
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.27
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.19
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.11
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.06
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.03
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.89
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.83
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.82
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.65
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.45
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	95.25
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	91.24
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	90.87
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	83.63
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	82.81
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	81.95
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	80.78
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	80.04

>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=99.70  E-value=2.5e-18  Score=117.81  Aligned_cols=52  Identities=44%  Similarity=0.993  Sum_probs=47.7

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPA  370 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~  370 (390)
                      +++.+|+||+++|..++.+++++.|+|.||.+||++|++.+.+||+||+++.
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            4567899999999999999988779999999999999999999999999874

>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=99.53  E-value=2.7e-15  Score=107.49  Aligned_cols=50  Identities=34%  Similarity=0.883  Sum_probs=43.4

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCC
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARL  372 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~  372 (390)
                      ..++|+||++.|.+  .++.++ |+|.||..||.+|++.+.+||+||+++...
T Consensus         4 ~~d~C~IC~~~~~~--~~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~~   53 (68)
T d1chca_           4 VAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVESV   53 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCCE
T ss_pred             CCCCCccCCcCccC--CcEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchHhh
Confidence            45789999999864  456778 999999999999999999999999987643

>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=99.45  E-value=8.1e-15  Score=98.93  Aligned_cols=49  Identities=20%  Similarity=0.453  Sum_probs=40.8

Q ss_pred             CcccccccccCCCCcE-EEcCCCCCcccHhhHHHHHhC-CCCCcccCCcCCC
Q 043654          322 NTCPICLAEYKPKETL-KTIPECTHCFHADCVDEWLRL-NATCPVCRNSPAR  371 (390)
Q Consensus       322 ~~C~ICl~~~~~~~~~-~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~~~~  371 (390)
                      .+|+||+++|..++.+ +.++ |||.||.+||++|++. +.+||+||+++.+
T Consensus         1 leCpICl~~~~~~~~~~~~~~-CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSS-SSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecC-CCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            3799999999877654 4456 9999999999999976 4579999998764

>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=99.42  E-value=5.4e-14  Score=105.88  Aligned_cols=50  Identities=26%  Similarity=0.578  Sum_probs=42.3

Q ss_pred             CCCcccccccccCCCC---------------cEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCC
Q 043654          320 DDNTCPICLAEYKPKE---------------TLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPA  370 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~---------------~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~  370 (390)
                      .+++|+||++++....               .+..++ |+|+||..||++||+.+.+||+||++..
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            4567999999887532               356677 9999999999999999999999999864

>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=99.37  E-value=1.9e-13  Score=96.61  Aligned_cols=53  Identities=26%  Similarity=0.546  Sum_probs=41.8

Q ss_pred             CCCcccccccccCCC-C-cEEEcCCCCCcccHhhHHHHHhC-CCCCcccCCcCCCCC
Q 043654          320 DDNTCPICLAEYKPK-E-TLKTIPECTHCFHADCVDEWLRL-NATCPVCRNSPARLP  373 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~-~-~~~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~~~~~~  373 (390)
                      ++..|+||++++..+ + .+.+++ |||.||.+||..|++. +..||+||+.+....
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            467999999986443 3 345566 9999999999999965 567999999886544

>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=99.35  E-value=2.8e-13  Score=107.22  Aligned_cols=54  Identities=20%  Similarity=0.493  Sum_probs=42.1

Q ss_pred             CCCCcccccccccCCC---------------CcEEEcCCCCCcccHhhHHHHHhC-----CCCCcccCCcCCCCC
Q 043654          319 PDDNTCPICLAEYKPK---------------ETLKTIPECTHCFHADCVDEWLRL-----NATCPVCRNSPARLP  373 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~---------------~~~~~l~~C~H~FH~~Ci~~wl~~-----~~~CP~CR~~~~~~~  373 (390)
                      ..+..|+||+++|...               ..+++++ |+|+||.+||+.||+.     +.+||+||+.+..+.
T Consensus        23 ~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~   96 (114)
T d1v87a_          23 APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKT   96 (114)
T ss_dssp             CCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCS
T ss_pred             cccccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccCc
Confidence            3467899999998642               2356666 9999999999999964     347999999875553

>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=99.32  E-value=6e-13  Score=97.79  Aligned_cols=50  Identities=30%  Similarity=0.703  Sum_probs=41.9

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC-CCCCcccCCcCCCCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRNSPARLPP  374 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~~~~~~~  374 (390)
                      ...|+||++.+..   .++++ |||.||.+||..|++. ++.||+||+++.....
T Consensus        23 ~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~   73 (79)
T d1fbva4          23 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP   73 (79)
T ss_dssp             TTBCTTTSSSBCC---EECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCC
T ss_pred             CCCCccCCCcCCC---eEEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccCCce
Confidence            4579999998764   57788 9999999999999975 5789999999976544

>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=99.27  E-value=4.5e-13  Score=91.67  Aligned_cols=50  Identities=10%  Similarity=0.186  Sum_probs=42.3

Q ss_pred             cccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCCC
Q 043654          323 TCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPL  375 (390)
Q Consensus       323 ~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~  375 (390)
                      .|+||++.++++   .+++.|||+||++||.+||+++.+||+||+++......
T Consensus         2 ~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dLi   51 (56)
T d2baya1           2 LCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIV   51 (56)
T ss_dssp             CCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCE
T ss_pred             CCccCCchHHhc---CccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhce
Confidence            699999998754   34555999999999999999999999999988765443

>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=99.19  E-value=2.1e-12  Score=87.96  Aligned_cols=50  Identities=28%  Similarity=0.587  Sum_probs=41.7

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCCCc
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~~  376 (390)
                      +..+|+||++.|.+.   +++| |||+||..||+.|   +.+||+||+++......+
T Consensus         5 ~~l~C~IC~~~~~~p---~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~~~   54 (56)
T d1bora_           5 QFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGADTP   54 (56)
T ss_dssp             CCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCSSCC
T ss_pred             CCCCCcccCcccCCC---EEec-CCCHHhHHHHHcC---CCcCcCCCCcccCCCCCC
Confidence            346999999999865   5678 9999999999876   678999999998766554

>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=99.11  E-value=1.6e-11  Score=91.00  Aligned_cols=49  Identities=24%  Similarity=0.521  Sum_probs=40.8

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC-CCCCcccCCcCCCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRNSPARLP  373 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~~~~~~  373 (390)
                      ...|+||++.+.++   .+++ |||.|++.||.+|++. +..||+||.++....
T Consensus        23 ~l~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~   72 (86)
T d1rmda2          23 SISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (86)
T ss_dssp             HTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CcCCccCCcchhcc---eecC-CCChhhHHHHHHHHhhCCCcCcccCCCCChhh
Confidence            46899999998754   5677 9999999999999964 568999999876443

>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=99.06  E-value=4.2e-11  Score=92.57  Aligned_cols=49  Identities=31%  Similarity=0.671  Sum_probs=40.8

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC---CCCcccCCcCCCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN---ATCPVCRNSPARLP  373 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~---~~CP~CR~~~~~~~  373 (390)
                      ...|+||++.|.++   ..++ |||.||..||..|++.+   ..||+||+++....
T Consensus        21 ~l~CpIC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (103)
T d1jm7a_          21 ILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (103)
T ss_dssp             HTSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             CcCCCccCchhCCe---EEcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhh
Confidence            46899999999865   3467 99999999999999664   47999999886544

>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=99.03  E-value=7.3e-11  Score=81.68  Aligned_cols=49  Identities=24%  Similarity=0.481  Sum_probs=38.0

Q ss_pred             CCCCcccccccccCCCCcEEEcC----CCCCcccHhhHHHHHh--CCCCCcccCCcCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIP----ECTHCFHADCVDEWLR--LNATCPVCRNSPA  370 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~----~C~H~FH~~Ci~~wl~--~~~~CP~CR~~~~  370 (390)
                      .+...|+||++++....   +.|    .|+|.||..||..|++  .+.+||+||+++.
T Consensus         4 ed~~~C~IC~~~~~~~~---~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNER---FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCC---CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCce---eEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            45678999999986542   223    2469999999999984  4678999999864

>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=98.89  E-value=2.1e-10  Score=87.54  Aligned_cols=49  Identities=22%  Similarity=0.472  Sum_probs=39.5

Q ss_pred             CCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCC
Q 043654          321 DNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPP  374 (390)
Q Consensus       321 ~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~  374 (390)
                      ...|+||++.|..+  +...+ |||.||..||.+|+.  ..||.||.++.....
T Consensus        22 ~l~C~IC~~~~~~p--v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~l   70 (97)
T d1jm7b_          22 LLRCSRCTNILREP--VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWIQDL   70 (97)
T ss_dssp             TTSCSSSCSCCSSC--BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSCSSC
T ss_pred             cCCCccCCchhhcC--ceeCC-CCCchhHHHHHHHHh--ccccccCCcCchhhC
Confidence            56899999999865  33345 999999999999984  459999998765543

>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=98.83  E-value=1e-09  Score=79.98  Aligned_cols=54  Identities=22%  Similarity=0.496  Sum_probs=44.5

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC-CCCcccCCcCCCCCCCc
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN-ATCPVCRNSPARLPPLP  376 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~-~~CP~CR~~~~~~~~~~  376 (390)
                      .++..|+||++.|.++   .+++ |||.|++.||.+|++.+ ..||.||.++......+
T Consensus         6 P~~l~CpIc~~~m~dP---V~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~p   60 (78)
T d1t1ha_           6 PEYFRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTP   60 (78)
T ss_dssp             SSSSSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEE
T ss_pred             CccCCCcCcCchhhCc---eEcc-CCCcchHHHHHHHHHHCCCCCCcccccCCcccccc
Confidence            4578999999999876   4567 99999999999999764 67999999987654433

>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=98.82  E-value=1.1e-09  Score=80.25  Aligned_cols=52  Identities=17%  Similarity=0.186  Sum_probs=43.0

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC-CCCCcccCCcCCCCCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRNSPARLPP  374 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~~~~~~~  374 (390)
                      .++..|+||++-|.++   .+++ |||.|++.||.+|+.. +.+||.||.++.....
T Consensus         5 P~~l~CpIc~~l~~dP---v~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l   57 (80)
T d2c2la2           5 PDYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQL   57 (80)
T ss_dssp             CSTTBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGC
T ss_pred             CccccCcCcCchhhhh---cccC-CcCeecHHHHHHHHhcCCccCCCcccccccccc
Confidence            4578999999999876   3567 9999999999999965 5679999998765443

>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=98.65  E-value=1.2e-08  Score=77.45  Aligned_cols=54  Identities=17%  Similarity=0.117  Sum_probs=45.3

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCCCCCcccCCcCCCCCCCc
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPLP  376 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~~~~~~~~~  376 (390)
                      ++..||||++-|.++   .+++.|+|.|.+.||..||+++..||+||+++......+
T Consensus        21 ~~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~p   74 (98)
T d1wgma_          21 DEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRP   74 (98)
T ss_dssp             TTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEE
T ss_pred             HHhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCcccccccccchhhcc
Confidence            478999999999876   467745578999999999999999999999987665444

>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=98.45  E-value=3.3e-08  Score=74.43  Aligned_cols=48  Identities=23%  Similarity=0.632  Sum_probs=38.2

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC--------CCCCcccCC
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL--------NATCPVCRN  367 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~--------~~~CP~CR~  367 (390)
                      ....+|+||++++...+.++.++ |+|.||.+|+..|++.        .-.||.|+-
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            45689999999998766667666 9999999999999843        125998654

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=95.25  E-value=0.042  Score=38.25  Aligned_cols=67  Identities=21%  Similarity=0.371  Sum_probs=45.9

Q ss_pred             CCCCCcccccccccCC---CCcEEEcCCCCCcccHhhHHHHH-hCCCCCcccCCcCCCCCCCcccccccCC
Q 043654          318 KPDDNTCPICLAEYKP---KETLKTIPECTHCFHADCVDEWL-RLNATCPVCRNSPARLPPLPAAAAAADD  384 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~---~~~~~~l~~C~H~FH~~Ci~~wl-~~~~~CP~CR~~~~~~~~~~~~~~~~~~  384 (390)
                      ......|.||-++.-.   ++...--..|+--.++.|.+==. ..++.||.|++++......|....+++|
T Consensus        13 ~~~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr~kgsprv~gDe~e   83 (93)
T d1weoa_          13 NLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKRLRGSPRVEGDEDE   83 (93)
T ss_dssp             CCSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCCCTTCCCCTTSCCC
T ss_pred             hcccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhhhcCCCCCCCCccc
Confidence            3456799999998753   33333333577778999987554 4578899999999877766654443333

>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=91.24  E-value=0.043  Score=34.77  Aligned_cols=44  Identities=27%  Similarity=0.605  Sum_probs=31.2

Q ss_pred             cccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC----CCCcccCC
Q 043654          323 TCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN----ATCPVCRN  367 (390)
Q Consensus       323 ~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~----~~CP~CR~  367 (390)
                      .|.||...-.. +.+..--.|...||..|++.-+...    -.||.||.
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            48888766443 3444455699999999999876442    35999975

>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=90.87  E-value=0.034  Score=37.13  Aligned_cols=50  Identities=26%  Similarity=0.503  Sum_probs=36.6

Q ss_pred             CCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHH-----hCCCCCcccCCc
Q 043654          319 PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWL-----RLNATCPVCRNS  368 (390)
Q Consensus       319 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl-----~~~~~CP~CR~~  368 (390)
                      .....|.||.+....++....--.|+..||..|+..=.     ..+..||.|+..
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            34679999999877766655555699999999996421     124579999864

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.63  E-value=0.48  Score=32.52  Aligned_cols=36  Identities=22%  Similarity=0.647  Sum_probs=26.7

Q ss_pred             CCCCCcccccccccCCCCcEEEcCCCCCcccHhhHHHH
Q 043654          318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEW  355 (390)
Q Consensus       318 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~w  355 (390)
                      ...+..|.|| +.|...+.. .-..|+-+||..|+.+-
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 777765433 22248899999999997

>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=82.81  E-value=0.35  Score=32.53  Aligned_cols=46  Identities=28%  Similarity=0.673  Sum_probs=31.7

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhCC----CCCcccCCcC
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLN----ATCPVCRNSP  369 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~~----~~CP~CR~~~  369 (390)
                      ....|.||.+.   ++ +..--.|...||..|+.+.+...    -.||.|+...
T Consensus         6 ~c~~C~~C~~~---~~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   55 (70)
T d1fp0a1           6 SATICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   55 (70)
T ss_dssp             SSSCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             CCCCCCCCCCc---CE-EEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcC
Confidence            34567777643   43 44444699999999999887443    3499997644

>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=81.95  E-value=0.24  Score=27.46  Aligned_cols=29  Identities=17%  Similarity=0.482  Sum_probs=25.0

Q ss_pred             CcccccccccCCCCcEEEcCCCCCcccHhhH
Q 043654          322 NTCPICLAEYKPKETLKTIPECTHCFHADCV  352 (390)
Q Consensus       322 ~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci  352 (390)
                      ..|+-|...+...|.|+.-.  +++||.+|+
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            46999999999999988874  799999984

>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=80.78  E-value=0.16  Score=33.23  Aligned_cols=46  Identities=24%  Similarity=0.551  Sum_probs=31.9

Q ss_pred             CCCcccccccccCCCCcEEEcCCCCCcccHhhHHHHHhC----CCCCcccCCcC
Q 043654          320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL----NATCPVCRNSP  369 (390)
Q Consensus       320 ~~~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~~wl~~----~~~CP~CR~~~  369 (390)
                      .+..|.||.+.   ++ +..--.|.-.||..|++..+..    .-.||.|+...
T Consensus         8 ~~~~C~~C~~~---g~-lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           8 HMEFCRVCKDG---GE-LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SCSSCTTTCCC---SS-CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CcCCCcCCCCC---Ce-EEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            45679999853   33 3333458999999999876543    33599998654

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.04  E-value=2.7  Score=28.56  Aligned_cols=47  Identities=26%  Similarity=0.493  Sum_probs=32.6

Q ss_pred             CcccccccccCCCCcEEEcCCCCCcccHhhHH--HH-Hh--CCCCCcccCCcC
Q 043654          322 NTCPICLAEYKPKETLKTIPECTHCFHADCVD--EW-LR--LNATCPVCRNSP  369 (390)
Q Consensus       322 ~~C~ICl~~~~~~~~~~~l~~C~H~FH~~Ci~--~w-l~--~~~~CP~CR~~~  369 (390)
                      ..| ||...+...+....--.|.--||..|+.  .. ..  .+..||.|+...
T Consensus        13 v~C-iC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~   64 (79)
T d1wepa_          13 VYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             eEe-ECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCc
Confidence            455 9998776555444555699999999995  22 22  246799998754