Citrus Sinensis ID: 016260

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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
MGHRHLFGTSQMFESGHDQNWNHLHTEQPYANLARAGTAENGSFLFPGDNMSLEGVHVAPHWNPAPSSSGFTSSHNADVPHYQPDASGPSYDPFLHPSNAGAFYPVPENYVPHAAASNYERQTFHGIEGGGLVDLTMANGRGPHKRKSPGVPSVCDRGSTSRYYGAGSSSDIPIPSEPWQEKPNIDSQHMPWDRVSMAPNYRSSALSIRSEGMQLVAESYSSRHSRPLSAIAWRHSDRSGRSRMSNERYRSLSDEPSLHERFSSEGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSEKE
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccHHHHHHcccccccccccccHHHHHHcccEEEEcccccccccccccccccccccccEEEEccccccccHHHHHHHHHcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccHHHHEHcccHHHcccccccccccccccccccccHHHHHHHHHHcccccccccHHHHHHHHcccEccccccccccccEEEEEHEccccccEEEEcccccccHHHHHHHHHHHHcccccEccEcccccccc
Coil and Loop (DISEMBL)
mghrhlfgtsqmfesghdqnwnhlhteqpyanlaragtaengsflfpgdnmslegvhvaphwnpapsssgftsshnadvphyqpdasgpsydpflhpsnagafypvpenyvphaaasnyerqtfhgieggglvdltmangrgphkrkspgvpsvcdrgstsryygagsssdipipsepwqekpnidsqhmpwdrvsmapnyrsSALSIRSEGMQLVAESYssrhsrplsaIAWRhsdrsgrsrmsneryrslsdepslherfssegfmivdrsplygsrgmldqhrdmrldidNMTYEELLALGERigsvstglSEDLISRCLTESIYCSADQMQEEGNCVICleeyknmddvgtlkscghdyhVTCIKKWLsmknvcpickasvmadseke
Flexible Loop (DISEMBL)
MGHRHLFGTSQMFESGHDQNWNHLHTEQPYANLARAGTAENGSFLFPGDNMSLEGVHVAPHWNPAPSSSGFTSSHNADVPHYQPDASGPSYDPFLHPSNAGAFYPVPENYVPHAAASNYERQTFHGIEGGGLVDLTMANGrgphkrkspgvpsvcdrGSTSRYYGAgsssdipipsepWQEKPNIDSQHMPWDRVSMAPNYRSSALSIRSEGMQLVAESyssrhsrplsaiawrhsdrsgrsrmsneryrslsdepslherfssegfmivdrSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSEKE
Low Complexity Region (SEG)
MGHRHLFGTSQMFESGHDQNWNHLHTEQPYANLARAGTAENGSFLFPGDNMSLEGVHVAPHWNPAPSSSGFTSSHNADVPHYQPDASGPSYDPFLHPSNAGAFYPVPENYVPHAAASNYERQTFHGIEGGGLVDLTMANGRGPHKRKSPGVPSVCDRGSTSRYYGAGSSSDIPIPSEPWQEKPNIDSQHMPWDRVSMAPNYRSSALSIRSEGMQLVAESYSSRHSRPLSAIAWRHSDRSGRSRMSNERYRSLSDEPSLHERFSSEGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSEKE
Disordered region (IsUnstruct)
**********************HL*****YANLARA*****GSFLFPGD***LEGVHV*****************************************AGAFYPVPENYVPHAAASNYERQTFHGIEGGGLVDLT**********************************************************************************************************************************FMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV*******
Disordered Region (DISOPRED)
***************************************************************************************************************************************************************************************************************************************************************************MIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTES************NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA**M******
Disordered Region (DISEMBL)
MGHRHLFGTSQMFESGHDQNWNHLHTEQPYANLARAGTAENGSFLFPGDNMSLEGVHVAPHWNPAPSSSGFTSSHNADVPHYQPDASGPSYDPFLHPSNAGAFYPVPENYVPHAAASNYERQTFHGIEGGGLVDLTMANGR*************CDRGSTSRYYGAGSSSDIPIPSEPWQEKPNIDSQHMPWDRVSMAPNYRSSALSIRSEGMQLV**********PLSAIAWR**********************SLHERFSSEGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKAS********
Disordered Region (DISPRO)
************FESGHDQNWNHLHTEQPYANLARAGTAENGSFLFPGDNMSLEGVHVAPHWNPAPSSSGF*S*HNADVP********************GAFYPVPENYV**A****YERQTFHGIEGGGLV****ANGRGP***KSPGVP************************************************************************SRPLSAIAWRHSDRSGRSRMSNERYRSLSDEPSLHERFSSEGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKAS********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGHRHLFGTSQMFESGHDQNWNHLHTEQPYANLARAGTAENGSFLFPGDNMSLEGVHVAPHWNPAPSSSGFTSSHNADVPHYQPDASGPSYDPFLHPSNAGAFYPVPENYVPHAAASNYERQTFHGIEGGGLVDLTMANGRGPHKRKSPGVPSVCDRGSTSRYYGAGSSSDIPIPSEPWQEKPNIDSQHMPWDRVSMAPNYRSSALSIRSEGMQLVAESYSSRHSRPLSAIAWRHSDRSGRSRMSNERYRSLSDEPSLHERFSSEGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSEKE
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	392	2.2.26 [Sep-21-2011]
Q9LT17	340	E3 ubiquitin ligase BIG B	no	no	0.244	0.282	0.402	6e-14
Q8L649	248	E3 ubiquitin ligase BIG B	no	no	0.25	0.395	0.425	2e-13
P87237	821	Uncharacterized RING fing	yes	no	0.301	0.143	0.32	2e-10
E9QAU8	347	RING finger protein 165 O	yes	no	0.227	0.256	0.313	2e-09
Q08CG8	448	RING finger protein 44 OS	no	no	0.239	0.209	0.32	2e-09
Q6ZSG1	346	RING finger protein 165 O	yes	no	0.227	0.257	0.313	3e-09
Q7L0R7	432	RING finger protein 44 OS	no	no	0.239	0.217	0.32	5e-09
Q5R476	986	E3 ubiquitin-protein liga	yes	no	0.242	0.096	0.317	6e-09
Q9C1X4	513	Uncharacterized RING fing	no	no	0.186	0.142	0.381	7e-09
Q8BI21	518	RING finger protein 38 OS	no	no	0.257	0.194	0.318	7e-09

>sp|Q9LT17|BBR_ARATH E3 ubiquitin ligase BIG BROTHER-related OS=Arabidopsis thaliana GN=BBR PE=2 SV=1

 Score = 79.0 bits (193), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 39/97 (40%), Positives = 57/97 (58%), Gaps = 1/97 (1%)

Query: 289 RLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYK 348
            +D D ++YEELLALG+ +G+ S GLS D I+   ++      +Q     +CVIC  +Y+
Sbjct: 237 EMDPDELSYEELLALGDIVGTESRGLSADTIASLPSKRYKEGDNQNGTNESCVICRLDYE 296

Query: 349 NMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
           + +D+  L  C H YH  CI  WL +  VCP+C A V
Sbjct: 297 DDEDL-ILLPCKHSYHSECINNWLKINKVCPVCSAEV 332

E3 ubiquitin-ligase probably involved in organ size regulation.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q8L649|BB_ARATH E3 ubiquitin ligase BIG BROTHER OS=Arabidopsis thaliana GN=BB PE=1 SV=1

 Score = 77.0 bits (188), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 43/101 (42%), Positives = 58/101 (57%), Gaps = 3/101 (2%)

Query: 290 LDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTESI-YCSADQMQEEGN-CVICLEEY 347
           +D D MTYEEL+ LGE +G+ S GLS++LI    T+   + S    +  G  CVIC  +Y
Sbjct: 145 IDPDTMTYEELVELGEAVGTESRGLSQELIETLPTKKYKFGSIFSRKRAGERCVICQLKY 204

Query: 348 KNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD 388
           K  +    L  C H YH  CI KWLS+  VCP+C + V  +
Sbjct: 205 KIGERQMNLP-CKHVYHSECISKWLSINKVCPVCNSEVFGE 244

E3 ubiquitin-ligase that limits organ size, and possibly seed size, in a dose-dependent manner. Negatively regulates the duration of cell proliferation in leaves and petals independently of the major phytohormones (e.g. auxin, cytokinin, gibberellin, brassinosteroids, ethylene, abscisic acid, jasmonic acid), probably by targeting growth stimulators for degradation.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P87237|YC0C_SCHPO Uncharacterized RING finger protein C4G3.12c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPCC4G3.12c PE=4 SV=1

 Score = 67.4 bits (163), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 40/125 (32%), Positives = 61/125 (48%), Gaps = 7/125 (5%)

Query: 275 LYGSRGMLDQHR----DMRLDIDNMTYEELLALGERIGSVSTGL-SEDLISRCLTESIYC 329
           +Y   G+  +H      + L  DN  YE+LLAL   +G     + S + + R      Y 
Sbjct: 696 IYVFGGLFPEHHPVLSTVSLFSDNPMYEDLLALTTYLGPAKKPVASHEDVKRSGGLFAYF 755

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKA-SVMA 387
               +    +C+ICLE Y N D    L++C H +H  CI +WL+   N CP+C+A  V  
Sbjct: 756 DDASLSSADSCLICLETYTNGDICRKLQACKHFFHQACIDQWLTTGNNSCPLCRAHGVTT 815

Query: 388 DSEKE 392
            +E+E
Sbjct: 816 QAEEE 820

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

>sp|E9QAU8|RN165_MOUSE RING finger protein 165 OS=Mus musculus GN=Rnf165 PE=2 SV=1

 Score = 63.9 bits (154), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 32/102 (31%), Positives = 49/102 (48%), Gaps = 13/102 (12%)

Query: 296 TYEELLALGERIGSVSTGLSEDLISRCLTESIYCSADQMQEEGN------------CVIC 343
           +YEELL L +R+G+V+ G  ++ I R      Y        +G             C IC
Sbjct: 239 SYEELLQLEDRLGNVTRGAVQNTIERFTFPHKYKKRRPQDSKGKKDEGEESDTDEKCTIC 298

Query: 344 LEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
           L   ++ +DV  L  C H +H  C+ +WL+M   CPIC+  +
Sbjct: 299 LSMLEDGEDVRRL-PCMHLFHQLCVDQWLAMSKKCPICRVDI 339

Mus musculus (taxid: 10090)

>sp|Q08CG8|RNF44_DANRE RING finger protein 44 OS=Danio rerio GN=rnf44 PE=2 SV=1

 Score = 63.9 bits (154), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 32/100 (32%), Positives = 53/100 (53%), Gaps = 6/100 (6%)

Query: 288 MRLDIDNM---TYEELLALGERIGSVST-GLSEDLISRCLTESIYCSADQMQEEGNCVIC 343
           + LD+D++    YE LL L ER+G     GL++  I + L    +   +   E+  CV+C
Sbjct: 341 LDLDVDDVEMENYEALLNLAERLGEAKPRGLTKADIEQ-LPSYRFNLENHQSEQTLCVVC 399

Query: 344 LEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 383
             ++++   +  L  C H++H  C+ KWL     CPIC+A
Sbjct: 400 FSDFESRQLLRVLP-CNHEFHAKCVDKWLKTNRTCPICRA 438

Danio rerio (taxid: 7955)

>sp|Q6ZSG1|RN165_HUMAN RING finger protein 165 OS=Homo sapiens GN=RNF165 PE=1 SV=1

 Score = 63.2 bits (152), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 32/102 (31%), Positives = 49/102 (48%), Gaps = 13/102 (12%)

Query: 296 TYEELLALGERIGSVSTGLSEDLISRCLTESIYCSADQMQEEGN------------CVIC 343
           +YEELL L +R+G+V+ G  ++ I R      Y        +G             C IC
Sbjct: 238 SYEELLQLEDRLGNVTRGAVQNTIERFTFPHKYKKRRPQDGKGKKDEGEESDTDEKCTIC 297

Query: 344 LEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
           L   ++ +DV  L  C H +H  C+ +WL+M   CPIC+  +
Sbjct: 298 LSMLEDGEDVRRL-PCMHLFHQLCVDQWLAMSKKCPICRVDI 338

Homo sapiens (taxid: 9606)

>sp|Q7L0R7|RNF44_HUMAN RING finger protein 44 OS=Homo sapiens GN=RNF44 PE=2 SV=1

 Score = 62.8 bits (151), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 32/100 (32%), Positives = 51/100 (51%), Gaps = 6/100 (6%)

Query: 288 MRLDIDNM---TYEELLALGERIGSVST-GLSEDLISRCLTESIYCSADQMQEEGNCVIC 343
           + LD+D++    YE LL L ER+G     GL++  I + L    +       E+  CV+C
Sbjct: 325 LDLDVDDVEMENYEALLNLAERLGDAKPRGLTKADIEQ-LPSYRFNPDSHQSEQTLCVVC 383

Query: 344 LEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 383
             +++    +  L  C H++H  C+ KWL     CPIC+A
Sbjct: 384 FSDFEARQLLRVLP-CNHEFHTKCVDKWLKANRTCPICRA 422

Homo sapiens (taxid: 9606)

>sp|Q5R476|RN111_PONAB E3 ubiquitin-protein ligase Arkadia OS=Pongo abelii GN=RNF111 PE=2 SV=1

 Score = 62.4 bits (150), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 34/107 (31%), Positives = 50/107 (46%), Gaps = 12/107 (11%)

Query: 297 YEELLALGERIGSVSTGLSEDLISRCL------TESIYCS-----ADQMQEEGNCVICLE 345
           +EEL+ L ER+G+V+ G S+  I RC          ++C        +   E  C ICL 
Sbjct: 880 FEELIHLEERLGNVNRGASQGTIERCTYPHKYKKRKLHCKQDGEEGTEEDTEEKCTICLS 939

Query: 346 EYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSEKE 392
             +  +DV  L  C H +H  C+ +WL     CPIC+  + A    E
Sbjct: 940 ILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSE 985

Acts in the NODAL pathway of mesoderm patterning during embryonic development. Acts downstream AXIN1 as an E3 ubiquitin-protein ligase which promotes the ubiquitination of inhibitory SMADs such as SMAD7, induces their proteasomal degradation and thereby enhances the transcriptional activity of TGF-beta and BMP. Activates Smad3/Smad4-dependent transcription by triggering signal-induced SnoN degradation.

Pongo abelii (taxid: 9601)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9C1X4|YKW3_SCHPO Uncharacterized RING finger protein P32A8.03c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAP32A8.03c PE=4 SV=1

 Score = 62.0 bits (149), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 29/76 (38%), Positives = 43/76 (56%), Gaps = 3/76 (3%)

Query: 316 EDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK 375
           ED+I++   +      + + EEG C IC+E +K  DDV  L  C H +H  CIK WL + 
Sbjct: 374 EDVIAKMKVQKP--PKELIDEEGECTICMEMFKINDDVIQLP-CKHYFHENCIKPWLRVN 430

Query: 376 NVCPICKASVMADSEK 391
             C IC+A V  +S++
Sbjct: 431 GTCAICRAPVDPNSQQ 446

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

>sp|Q8BI21|RNF38_MOUSE RING finger protein 38 OS=Mus musculus GN=Rnf38 PE=2 SV=1

 Score = 62.0 bits (149), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 35/110 (31%), Positives = 57/110 (51%), Gaps = 9/110 (8%)

Query: 288 MRLDIDN---MTYEELLALGERIGSVST-GLSEDLISRCLTESIYCSADQMQEEGNCVIC 343
             LD+++     YE LL L ER+G     GL++  I + L    +  ++   E+  CV+C
Sbjct: 411 FELDVEDGEVENYEALLNLAERLGEAKPRGLTKADIEQ-LPSYRFNPSNHQSEQTLCVVC 469

Query: 344 LEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA---SVMADSE 390
           + ++++   +  L  C H++H  C+ KWL     CPIC+A    V  DSE
Sbjct: 470 MCDFESRQLLRVLP-CNHEFHAKCVDKWLKGNRTCPICRADASEVHRDSE 518

Mus musculus (taxid: 10090)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	392
356572425	549	PREDICTED: uncharacterized protein LOC10	0.494	0.353	0.681	4e-80
4240031	472	DNA binding zinc finger protein (Pspzf)	0.492	0.408	0.702	3e-79
147858806	532	hypothetical protein VITISV_014889 [Viti	0.456	0.336	0.745	1e-78
225439928	546	PREDICTED: uncharacterized protein LOC10	0.451	0.324	0.745	1e-78
558545	549	protein containing C-terminal RING-finge	0.492	0.351	0.693	2e-78
255557042	547	protein binding protein, putative [Ricin	0.484	0.347	0.703	6e-78
356548234	550	PREDICTED: uncharacterized protein LOC10	0.459	0.327	0.725	2e-76
357510627	643	RING finger protein [Medicago truncatula	0.494	0.301	0.658	3e-76
356505204	551	PREDICTED: uncharacterized protein LOC10	0.492	0.350	0.666	5e-75
356537533	516	PREDICTED: uncharacterized protein LOC54	0.469	0.356	0.63	4e-69

>gi|356572425|ref|XP_003554369.1| PREDICTED: uncharacterized protein LOC100803627 [Glycine max]

 Score =  304 bits (779), Expect = 4e-80,   Method: Compositional matrix adjust.
 Identities = 137/201 (68%), Positives = 174/201 (86%), Gaps = 7/201 (3%)

Query: 198 APNYRSSALSIR------SEGMQLVAESYSSRHSRPLSAIAWRHSDRSGRSRMSNERYRS 251
            P +R+S+ S+R       +G+ +VAESYSSRH RPLS I WR+ DR+GRSR+S+ERYRS
Sbjct: 349 TPTFRASS-SLRLGHVTSDDGLPMVAESYSSRHPRPLSTIGWRNGDRNGRSRISSERYRS 407

Query: 252 LSDEPSLHERFSSEGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVS 311
           L++E  LH+RFSSEGFM+V+R+ +YGSR MLDQHRDMR+D+DNM+YEELLALGERIG V+
Sbjct: 408 LTEESGLHDRFSSEGFMVVERASVYGSRNMLDQHRDMRMDVDNMSYEELLALGERIGYVN 467

Query: 312 TGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKW 371
           TG+SEDL+S+CLTE+IYCS++Q ++EGNCVICLEEYKNMDDVGTL++CGHDYHV+CIKKW
Sbjct: 468 TGVSEDLLSKCLTETIYCSSEQSEDEGNCVICLEEYKNMDDVGTLQTCGHDYHVSCIKKW 527

Query: 372 LSMKNVCPICKASVMADSEKE 392
           LSMK +CPICK S + +  K+
Sbjct: 528 LSMKKLCPICKVSALPEDTKD 548

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|4240031|dbj|BAA74802.1| DNA binding zinc finger protein (Pspzf) [Pisum sativum]

 Score =  301 bits (772), Expect = 3e-79,   Method: Compositional matrix adjust.
 Identities = 137/195 (70%), Positives = 168/195 (86%), Gaps = 2/195 (1%)

Query: 200 NYRSSALSIRSEGMQLVAESYSSRHSRPLSAIAWRHSDRSGRSRMSNERYRSLSDEPSLH 259
           N R S       G+ +VAE YSSRH RPL+ + WR+ DR+GRSR+S+ERYRSL+DE  LH
Sbjct: 277 NLRMSHAVPSDNGLPMVAEGYSSRHPRPLTTVGWRNGDRNGRSRISSERYRSLADEAGLH 336

Query: 260 ERFSSE--GFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSED 317
            RFSSE  GFMIV+R+ LYGSR +LDQHRDMR+D+DNM+YEELLALGERIG V+TGLSED
Sbjct: 337 ARFSSEVPGFMIVERASLYGSRNILDQHRDMRMDVDNMSYEELLALGERIGQVNTGLSED 396

Query: 318 LISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNV 377
           ++S+CLTE+IYCS+DQ Q+EG+CVICLEEYKNMDDVGTLK+CGHDYHV+CIKKWLSMK +
Sbjct: 397 VLSKCLTETIYCSSDQCQDEGSCVICLEEYKNMDDVGTLKTCGHDYHVSCIKKWLSMKKL 456

Query: 378 CPICKASVMADSEKE 392
           CPICK+SV+ + +K+
Sbjct: 457 CPICKSSVLPEDKKD 471

Source: Pisum sativum

Species: Pisum sativum

Genus: Pisum

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147858806|emb|CAN80846.1| hypothetical protein VITISV_014889 [Vitis vinifera]

 Score =  300 bits (767), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 135/181 (74%), Positives = 159/181 (87%)

Query: 211 EGMQLVAESYSSRHSRPLSAIAWRHSDRSGRSRMSNERYRSLSDEPSLHERFSSEGFMIV 270
           EG+QLVAE+YSSRHSRP S + WR+SDR+GRSR+SNER+RSLSDE  + ER +SEG MIV
Sbjct: 350 EGLQLVAENYSSRHSRPFSTVGWRNSDRNGRSRISNERFRSLSDEAGVRERLASEGLMIV 409

Query: 271 DRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTESIYCS 330
           DRS LYGSR + DQHR+MRLD+DNM+YEELLALGERIG+V+TGLSED++S+CLTE+IYCS
Sbjct: 410 DRSALYGSRNLFDQHREMRLDVDNMSYEELLALGERIGNVNTGLSEDMMSKCLTETIYCS 469

Query: 331 ADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSE 390
           +DQ+QEEG CVICL+EYKNMDDVGTL +C HDYHV CIKKWL MKN CPICKA  + D  
Sbjct: 470 SDQLQEEGACVICLDEYKNMDDVGTLSACRHDYHVDCIKKWLLMKNSCPICKAPALPDHM 529

Query: 391 K 391
           K
Sbjct: 530 K 530

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225439928|ref|XP_002280200.1| PREDICTED: uncharacterized protein LOC100263731 [Vitis vinifera] gi|297741578|emb|CBI32710.3| unnamed protein product [Vitis vinifera]

 Score =  300 bits (767), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 135/181 (74%), Positives = 159/181 (87%)

Query: 211 EGMQLVAESYSSRHSRPLSAIAWRHSDRSGRSRMSNERYRSLSDEPSLHERFSSEGFMIV 270
           EG+QLVAE+YSSRHSRP S + WR+SDR+GRSR+SNER+RSLSDE  + ER +SEG MIV
Sbjct: 364 EGLQLVAENYSSRHSRPFSTVGWRNSDRNGRSRISNERFRSLSDEAGVRERLASEGLMIV 423

Query: 271 DRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTESIYCS 330
           DRS LYGSR + DQHR+MRLD+DNM+YEELLALGERIG+V+TGLSED++S+CLTE+IYCS
Sbjct: 424 DRSALYGSRNLFDQHREMRLDVDNMSYEELLALGERIGNVNTGLSEDMMSKCLTETIYCS 483

Query: 331 ADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSE 390
           +DQ+QEEG CVICL+EYKNMDDVGTL +C HDYHV CIKKWL MKN CPICKA  + D  
Sbjct: 484 SDQLQEEGACVICLDEYKNMDDVGTLSACRHDYHVDCIKKWLLMKNSCPICKAPALPDHM 543

Query: 391 K 391
           K
Sbjct: 544 K 544

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|558545|emb|CAA85321.1| protein containing C-terminal RING-finger [Lotus japonicus] gi|1771195|emb|CAA70734.1| RING-finger protein [Lotus japonicus]

 Score =  299 bits (765), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 138/199 (69%), Positives = 170/199 (85%), Gaps = 6/199 (3%)

Query: 198 APNYRSSA------LSIRSEGMQLVAESYSSRHSRPLSAIAWRHSDRSGRSRMSNERYRS 251
           AP +R+S+      ++   +G+ +VAESYSSRH RPLS+I WR+SDR+GR+R+S+ERYRS
Sbjct: 348 APTFRASSSTHLGHVTPLDDGLPMVAESYSSRHQRPLSSIGWRNSDRNGRARISSERYRS 407

Query: 252 LSDEPSLHERFSSEGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVS 311
           L++E  LH R S E FMIVDR+ +YGSR MLDQHRDMR+DIDNM+YEELLALGERIG V+
Sbjct: 408 LANEAGLHGRISPEVFMIVDRASMYGSRNMLDQHRDMRMDIDNMSYEELLALGERIGHVN 467

Query: 312 TGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKW 371
           TGLSED  S+C+TE+IYCS++Q Q+EG+CVICLEEYKNMDDVGTLK+CGHDYHV CIKKW
Sbjct: 468 TGLSEDSFSQCMTETIYCSSEQGQDEGSCVICLEEYKNMDDVGTLKTCGHDYHVNCIKKW 527

Query: 372 LSMKNVCPICKASVMADSE 390
           LSMK +CPICKASVM + +
Sbjct: 528 LSMKKLCPICKASVMPEDK 546

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255557042|ref|XP_002519554.1| protein binding protein, putative [Ricinus communis] gi|223541417|gb|EEF42968.1| protein binding protein, putative [Ricinus communis]

 Score =  297 bits (761), Expect = 6e-78,   Method: Compositional matrix adjust.
 Identities = 140/199 (70%), Positives = 172/199 (86%), Gaps = 9/199 (4%)

Query: 201 YRSSALSIR-------SEGMQLVAESYSSRHSRPLSAIAWRHSDRSGRSRMSNERYRSLS 253
           +R+S+ ++R       ++GMQLVAE+  SR  R  S IAWR+SDR+GRSR+S +RYRS+S
Sbjct: 351 FRASSSTLRLGHVAPSNDGMQLVAET--SRQPRLSSTIAWRNSDRNGRSRVSYDRYRSVS 408

Query: 254 DEPSLHERFSSEGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTG 313
           +EP LH+RF+SEG+M+VDRS  YG R M+DQHRDMRLD+DNM+YEELLALGERIG VSTG
Sbjct: 409 NEPGLHDRFASEGYMVVDRSTSYGPRNMVDQHRDMRLDVDNMSYEELLALGERIGCVSTG 468

Query: 314 LSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS 373
           LSEDLIS+CLTE++YCS+   Q+EGNCVICLEEYK+MDDVG+LK+CGHDYHV+CIKKWLS
Sbjct: 469 LSEDLISKCLTETVYCSSGLSQDEGNCVICLEEYKDMDDVGSLKACGHDYHVSCIKKWLS 528

Query: 374 MKNVCPICKASVMADSEKE 392
           MKN+CPICKAS MAD+ KE
Sbjct: 529 MKNLCPICKASAMADNMKE 547

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356548234|ref|XP_003542508.1| PREDICTED: uncharacterized protein LOC100786013 [Glycine max]

 Score =  292 bits (747), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 132/182 (72%), Positives = 159/182 (87%)

Query: 211 EGMQLVAESYSSRHSRPLSAIAWRHSDRSGRSRMSNERYRSLSDEPSLHERFSSEGFMIV 270
           +G+ +VAESYSSRH RPL+ + W+ +DR GRSR+ ++RYRSL+DE  L+ERF+SEGFMIV
Sbjct: 368 DGLHMVAESYSSRHPRPLTTVGWQSNDRHGRSRIPSDRYRSLADEVGLNERFNSEGFMIV 427

Query: 271 DRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTESIYCS 330
           DR+ L GSR MLDQHRDMR+DIDNM+YEELLALGERIG VSTGLSEDLIS+ LTE+IYCS
Sbjct: 428 DRTSLNGSRNMLDQHRDMRMDIDNMSYEELLALGERIGHVSTGLSEDLISKYLTETIYCS 487

Query: 331 ADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSE 390
           ++Q QEE  C ICLEEYKNMDDVGTLK+CGHDYHV CI+KWLSMK VCPICK S ++++ 
Sbjct: 488 SEQSQEEETCAICLEEYKNMDDVGTLKACGHDYHVGCIRKWLSMKKVCPICKVSALSEAN 547

Query: 391 KE 392
           K+
Sbjct: 548 KD 549

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357510627|ref|XP_003625602.1| RING finger protein [Medicago truncatula] gi|355500617|gb|AES81820.1| RING finger protein [Medicago truncatula]

 Score =  291 bits (746), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 135/205 (65%), Positives = 172/205 (83%), Gaps = 11/205 (5%)

Query: 198 APNYRSSALSIR-------SEGMQLVAESYSSRHSRPLSAIAWRHSDRSGRSRMSNERYR 250
            P YR+S+ S+R         G+ +VAE Y SRH RPL+ + WR+SDR+GRSR+S+ERYR
Sbjct: 439 TPAYRASS-SLRLGQATPSDNGLPMVAEGYPSRHPRPLNTVGWRNSDRNGRSRISSERYR 497

Query: 251 SLSDEPSLHERFSSE---GFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERI 307
           SL+D+ +LH R SS    GFMIV+R+ LYGSR +LDQHR+MR+DIDNM+YEELLALGERI
Sbjct: 498 SLADQAALHARLSSSEVPGFMIVERASLYGSRNVLDQHREMRMDIDNMSYEELLALGERI 557

Query: 308 GSVSTGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTC 367
           G V+TGLSED++S+C+TE+IYCS+DQ Q+EG+CVICLEEYKNMDDVGTLK+CGHDYHV+C
Sbjct: 558 GQVNTGLSEDVLSKCVTETIYCSSDQCQDEGSCVICLEEYKNMDDVGTLKTCGHDYHVSC 617

Query: 368 IKKWLSMKNVCPICKASVMADSEKE 392
           IKKWLSMK +CPICK+S + + +K+
Sbjct: 618 IKKWLSMKKLCPICKSSALPEDKKD 642

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356505204|ref|XP_003521382.1| PREDICTED: uncharacterized protein LOC100780416 [Glycine max]

 Score =  288 bits (736), Expect = 5e-75,   Method: Compositional matrix adjust.
 Identities = 134/201 (66%), Positives = 171/201 (85%), Gaps = 8/201 (3%)

Query: 198 APNYRSSALSIRS------EGMQLVAESYSSRHSRPLSAIAWRHSDRSGRSRMSNERYRS 251
            P +R+S+ S+RS      +G+ +VAESYSSR  RPLS I  R+ DR+GRSR+S+ERYRS
Sbjct: 352 TPTFRASS-SLRSGQVTSDDGLPMVAESYSSRLPRPLSTIGRRNGDRNGRSRISSERYRS 410

Query: 252 LSDEPSLHERFSSEGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVS 311
           L+ E  LH+RFSSEGFM+V+R+ +YGSR MLDQHRDMR+D+DNM+YEELLALGERIG V+
Sbjct: 411 LA-ESGLHDRFSSEGFMVVERASVYGSRNMLDQHRDMRMDVDNMSYEELLALGERIGYVN 469

Query: 312 TGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKW 371
           TG+SED +++CLTE+IYCS++Q Q+EGNCVICLEEYKNMDDVGTLK+CGHDYHV+CIKKW
Sbjct: 470 TGISEDSLNKCLTETIYCSSEQSQDEGNCVICLEEYKNMDDVGTLKTCGHDYHVSCIKKW 529

Query: 372 LSMKNVCPICKASVMADSEKE 392
           LS++ +CPICK S + +  K+
Sbjct: 530 LSLRKLCPICKVSALPEDTKD 550

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356537533|ref|XP_003537281.1| PREDICTED: uncharacterized protein LOC547939 [Glycine max]

 Score =  268 bits (685), Expect = 4e-69,   Method: Compositional matrix adjust.
 Identities = 126/200 (63%), Positives = 158/200 (79%), Gaps = 16/200 (8%)

Query: 198 APNYRSSA------LSIRSEGMQLVAESYSSRHSRPLSAIAWRHSDRSGRSRMSNERYRS 251
            P +R+S+      ++   +G+ +V+ESYSSR  RPL+ + W++++R+GRSR+ ++RYRS
Sbjct: 325 TPTFRASSSLRLGRVAPSDDGLHMVSESYSSRQPRPLTTVGWQNNNRNGRSRIPSDRYRS 384

Query: 252 LSDEPSLHERFSSEGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVS 311
           L DE          GFMIVDR+ LYG R MLD+HRDMR+DIDNM+YEELLALGERIG VS
Sbjct: 385 LDDE----------GFMIVDRTSLYGPRNMLDRHRDMRMDIDNMSYEELLALGERIGHVS 434

Query: 312 TGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKW 371
           TGLSEDLIS+ LTE+IYCS++Q QEE  C ICLEEYKNMDDVGTLK+CGHDYHV CI+KW
Sbjct: 435 TGLSEDLISKYLTETIYCSSEQSQEEEACAICLEEYKNMDDVGTLKACGHDYHVGCIRKW 494

Query: 372 LSMKNVCPICKASVMADSEK 391
           LSMK VCPICKAS + + +K
Sbjct: 495 LSMKKVCPICKASALPEDKK 514

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	392
TAIR|locus:2124271	666	MBR2 "MED25 BINDING RING-H2 PR	0.5	0.294	0.399	3.5e-35
TAIR|locus:2159634	525	AT5G10650 [Arabidopsis thalian	0.591	0.441	0.360	1.7e-31
TAIR|locus:2160031	691	AT5G42940 [Arabidopsis thalian	0.408	0.231	0.423	3.3e-31
TAIR|locus:2028225	645	AT1G45180 [Arabidopsis thalian	0.479	0.291	0.395	3.9e-31
TAIR|locus:2027804	367	AT1G73760 [Arabidopsis thalian	0.301	0.321	0.470	6.8e-30
TAIR|locus:2149378	520	AT5G24870 [Arabidopsis thalian	0.686	0.517	0.336	2.2e-29
TAIR|locus:2125284	497	AT4G31450 [Arabidopsis thalian	0.318	0.251	0.496	2.2e-28
TAIR|locus:2009660	494	AT1G53190 [Arabidopsis thalian	0.278	0.220	0.450	2.5e-25
TAIR|locus:2030933	368	AT1G17970 [Arabidopsis thalian	0.336	0.358	0.439	9.7e-25
TAIR|locus:2086305	486	AT3G15070 [Arabidopsis thalian	0.295	0.238	0.471	6e-23

TAIR|locus:2124271 MBR2 "MED25 BINDING RING-H2 PROTEIN 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 363 (132.8 bits), Expect = 3.5e-35, Sum P(2) = 3.5e-35
 Identities = 83/208 (39%), Positives = 120/208 (57%)

Query:   183 PNIDSQHMPWDRVSMAPNYRSSALSIRSEGMQLVAESYSSRHSRPLS-AIAWRHSDRSGR 241
             P++ S        S + ++RS     R  G+ L  ++    H R L  ++A   +D  GR
Sbjct:   467 PSVSSNEAAAPSGSSSRSHRSRQ---RRSGLLLERQN-DHLHLRHLGRSLA---ADNDGR 519

Query:   242 SRMSNERYRSLSDEPSLHERFSSEGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELL 301
             +R+ +E  R +       E    E +M+ D     G   M D+HRDMRLD+DNM+YEELL
Sbjct:   520 NRLISE-IRQVLSAMRRGENLRFEDYMVFDPLIYQGMAEMHDRHRDMRLDVDNMSYEELL 578

Query:   302 ALGERIGSVSTGLSEDLISRCLTESIYCS--ADQMQEEGNCVICLEEYKNMDDVGTLKSC 359
             ALGERIG VSTGLSE++I + + +  + S  A   Q+   C +C EEY   DD+GTL  C
Sbjct:   579 ALGERIGDVSTGLSEEVILKVMKQHKHTSSAAGSHQDMEPCCVCQEEYAEGDDLGTL-GC 637

Query:   360 GHDYHVTCIKKWLSMKNVCPICKASVMA 387
             GH++H  C+K+WL +KN+CPICK   ++
Sbjct:   638 GHEFHTACVKQWLMLKNLCPICKTVALS 665

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2159634 AT5G10650 [Arabidopsis thaliana (taxid:3702)]

 Score = 331 (121.6 bits), Expect = 1.7e-31, Sum P(2) = 1.7e-31
 Identities = 96/266 (36%), Positives = 141/266 (53%)

Query:   146 RKSPGVPSVCDRGST-------SRYYGAGSSSDIPIPSEPWQEKPNIDSQHMPWDRVSMA 198
             R++  VPS+ D  +        + Y+G          S   ++ P+  +   P   +S  
Sbjct:   272 RRNRVVPSIRDSSTVVSNGCRRAGYFGRSERLGATASSATSRQMPHPTTPTDPNPSLSFC 331

Query:   199 P-NYRSSALSIRSE--GMQLVAESYSSRHSRPLSAIAWRHSDRSGRSRMSNERYRSLSDE 255
             P N  SS   + S   G    A+  SS  +R        H + +G + +     R   DE
Sbjct:   332 PSNIYSSTGRVHSNMPGSPTEADPSSSLVNRD----GLSHYNMNGIAEVLLALERIEHDE 387

Query:   256 PSLHERFSSEGFMIVDRSPLYGSRGML---DQHRDMRLDIDNMTYEELLALGERIGSVST 312
                +E+ +S     ++ + L+ S GM    DQHRDMRLDIDNM+YEELLALG+++G+VST
Sbjct:   388 ELTYEQLAS-----IETN-LFSS-GMFRFYDQHRDMRLDIDNMSYEELLALGDKMGTVST 440

Query:   313 GLSEDLISRCLTESIYCSADQM-------QEEGNCVICLEEYKNMDDVGTLKSCGHDYHV 365
              LSE+ +SR L +SIY   D+         ++  C IC EEY + D++GT+  C H YHV
Sbjct:   441 ALSEEALSRSLKQSIYQETDETGSISLYKDDDIKCSICQEEYVDGDELGTIP-CQHMYHV 499

Query:   366 TCIKKWLSMKNVCPICKASVMADSEK 391
             +C+++WL MKN CPICK S  A+ EK
Sbjct:   500 SCVQQWLRMKNWCPICKTS--AEEEK 523

GO:0005634 "nucleus" evidence=ISM

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

GO:0006914 "autophagy" evidence=RCA

GO:0007165 "signal transduction" evidence=RCA

GO:0009755 "hormone-mediated signaling pathway" evidence=RCA

GO:0010260 "organ senescence" evidence=RCA

TAIR|locus:2160031 AT5G42940 [Arabidopsis thaliana (taxid:3702)]

 Score = 327 (120.2 bits), Expect = 3.3e-31, Sum P(2) = 3.3e-31
 Identities = 72/170 (42%), Positives = 109/170 (64%)

Query:   227 PLSAIAWRHSDRSGRSRMSNERYRSLSD---EPSLHERFSSEGFMIVDRSPLY-GSRGML 282
             PL A+A   + R GRSR+   + +++ D     + +     E  M+++ S L+ G+ G  
Sbjct:   523 PLRALA--AASR-GRSRLMVSQMQNVLDVMRRDANNNNLRLEDVMLLNHSVLFDGATGH- 578

Query:   283 DQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTESIYCSADQMQEEGN-CV 341
             D++RDMRLD+DNM+YEELLAL ERIG V TG++E+ IS  L +  Y S  +  ++   C 
Sbjct:   579 DRYRDMRLDVDNMSYEELLALEERIGDVCTGVNEETISNRLKQRKYKSNTKSPQDAEPCC 638

Query:   342 ICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSEK 391
             +C EEY   +D+GTL+ CGH++H  CIK+WL  KN+CPICK + +  ++K
Sbjct:   639 VCQEEYTEGEDMGTLE-CGHEFHSQCIKEWLKQKNLCPICKTTGLNTAKK 687

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

TAIR|locus:2028225 AT1G45180 [Arabidopsis thaliana (taxid:3702)]

 Score = 349 (127.9 bits), Expect = 3.9e-31, P = 3.9e-31
 Identities = 79/200 (39%), Positives = 114/200 (57%)

Query:   193 DRVSMAPNYRSSALSIRSEGMQLVAESYSSRHSRPLSAIAWRHSDRSGRSRMSNERYRSL 252
             D  S   N  SS    R +G      S+S R       +A   S   GR+RM     R++
Sbjct:   454 DNTSQVHNRASSRAGPR-QGQDATGISHSLR------GLA---STSRGRTRMGASEIRNI 503

Query:   253 SDEPSLHERFSSEGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVST 312
              +          E  M++++S + G+  + D++RDMRLD+DNMTYEELL+L ERIG V T
Sbjct:   504 LEHMRRAGNLRLEDVMLLNQSIMLGAADIHDRYRDMRLDVDNMTYEELLSLEERIGDVCT 563

Query:   313 GLSEDLISRCLTESIYCSADQMQEEGN-CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKW 371
             GL+E+ IS  L +  Y S+ +  +E   C +C EEYK  +++G L+ CGHD+H  CIK+W
Sbjct:   564 GLNEETISNRLKQQKYKSSTRSSQEVEPCCVCQEEYKEEEEIGRLE-CGHDFHSQCIKEW 622

Query:   372 LSMKNVCPICKASVMADSEK 391
             L  KN+CPICK + +  + K
Sbjct:   623 LKQKNLCPICKTTGLNTANK 642

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2027804 AT1G73760 [Arabidopsis thaliana (taxid:3702)]

 Score = 302 (111.4 bits), Expect = 6.8e-30, Sum P(2) = 6.8e-30
 Identities = 56/119 (47%), Positives = 77/119 (64%)

Query:   264 SEGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCL 323
             +E  M+ +   + G     DQ RDMRL++DNMTYE+LL LGERIG V+TGL+E  I  CL
Sbjct:   243 AEMMMMQNGFVMGGVLSSFDQFRDMRLNVDNMTYEQLLELGERIGHVNTGLTEKQIKSCL 302

Query:   324 TESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK 382
              +   C  D    +  C+IC +EY+  D+VG L+ CGH +H+ C+ +WL  KN CP+CK
Sbjct:   303 RKVKPCRQDTTVADRKCIICQDEYEAKDEVGELR-CGHRFHIDCVNQWLVRKNSCPVCK 360

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2149378 AT5G24870 [Arabidopsis thaliana (taxid:3702)]

 Score = 329 (120.9 bits), Expect = 2.2e-29, P = 2.2e-29
 Identities = 100/297 (33%), Positives = 149/297 (50%)

Query:   114 AAASNYERQTFHGIEGGGLVDLTMANG-RGPHKRKSPGVPSVCDRG----STSR---YYG 165
             +++S+   +T   + GG  +     NG      R++  +PSV D      ST R   YYG
Sbjct:   227 SSSSSRGNKTEGSVVGGKNISSPQGNGITMSEPRRNRNLPSVRDNSVVSSSTRRSTGYYG 286

Query:   166 ----AGSSSDIPIPSEPWQEKPNIDSQHMPWDRVSMAPNYRSSALSIRSEGMQLVAESYS 221
                 AG+ + +  P  P +   N  S+     R  +    R  + + R   + +      
Sbjct:   287 RTGRAGAVATLQAPRPPTRADLN-PSRSAEASRSPLNSYSRPISSNGRLRSLMMPGSPSE 345

Query:   222 SRHSRPL-SAIAWRHSDRSGRSRMSNERYRSLSDEPSLHERFSSEGFMIVDRSPLYGSRG 280
             +  SR L +   +R  + +G + +     R   DE   +E+ +    ++     L G   
Sbjct:   346 AGLSRSLMNRDTFRRYNMNGVAEVLLALERIEQDEELTYEQLA----VLETNLFLNGMSS 401

Query:   281 MLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTESIYCSADQMQE---- 336
               DQHRDMRLDIDNM+YEELLAL E++G+VST LSE+ + + L  SIY   D+  +    
Sbjct:   402 FHDQHRDMRLDIDNMSYEELLALEEKMGTVSTALSEEALLKSLKSSIYRPNDESDDICLN 461

Query:   337 ---EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSE 390
                +  C IC EEY + D+VGTL  C H YHV+C ++WL MKN CPICK S  A+S+
Sbjct:   462 KDDDVKCSICQEEYVDGDEVGTLP-CQHKYHVSCAQQWLRMKNWCPICKTS--AESQ 515

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2125284 AT4G31450 [Arabidopsis thaliana (taxid:3702)]

 Score = 319 (117.4 bits), Expect = 2.2e-28, P = 2.2e-28
 Identities = 68/137 (49%), Positives = 86/137 (62%)

Query:   265 EGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLT 324
             E  +I++   L G     DQHRDMRLDIDNM+YEELLAL ERIG+VST L+E+ IS+CL 
Sbjct:   362 EDLLIMETGLLLGGLSFHDQHRDMRLDIDNMSYEELLALEERIGTVSTALTEEAISKCLK 421

Query:   325 ESIYC-----------SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS 373
              SIY            S    +E+  C IC EEY   D+VG L  C H YHV C+++WL 
Sbjct:   422 TSIYQMKPLSYGSITKSPSDNKEDAKCSICQEEYTIGDEVGRLH-CEHTYHVKCVQEWLR 480

Query:   374 MKNVCPICKASVMADSE 390
             +K+ CPICKA+    S+
Sbjct:   481 IKSWCPICKATAETSSK 497

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2009660 AT1G53190 [Arabidopsis thaliana (taxid:3702)]

 Score = 281 (104.0 bits), Expect = 2.5e-25, Sum P(2) = 2.5e-25
 Identities = 55/122 (45%), Positives = 79/122 (64%)

Query:   282 LDQHRDMRLDIDNMTYEELLALGERIGSVSTGLSEDLISRCLTESIYCSADQMQEEGN-- 339
             +D HRDMRLDI+ M+YEELLAL ERIG+V+TGL E+ +   L ++  CS    ++E +  
Sbjct:   374 IDHHRDMRLDIEEMSYEELLALSERIGTVNTGLPEEDVKNHL-KTRTCSGINFEKESSSP 432

Query:   340 ---------CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSE 390
                      C IC E +KN + + TL  CGH+YH  C++KWL +KNVCPICK+  +   +
Sbjct:   433 RTKDLETEPCTICQESFKNEEKIATL-DCGHEYHAECLEKWLIVKNVCPICKSEALVMEK 491

Query:   391 KE 392
             ++
Sbjct:   492 RK 493

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2030933 AT1G17970 [Arabidopsis thaliana (taxid:3702)]

 Score = 282 (104.3 bits), Expect = 9.7e-25, P = 9.7e-25
 Identities = 62/141 (43%), Positives = 86/141 (60%)

Query:   242 SRMSNERYRSLSDEPSLHERFSSEGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELL 301
             SR      RS  D+ +   R    GF ++ R  +  SR   D + ++RLD+D+M+YE+LL
Sbjct:   230 SRCRGHLPRSYPDDLT-EMRMLQNGF-VMGR--ITDSR---DNYHELRLDVDSMSYEQLL 282

Query:   302 ALGERIGSVSTGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGH 361
              LG+RIG V+TGL E  I RCL + I  S      +  C IC +EY+  D+VG L +CGH
Sbjct:   283 ELGDRIGYVNTGLKESEIHRCLGK-IKPSVSHTLVDRKCSICQDEYEREDEVGEL-NCGH 340

Query:   362 DYHVTCIKKWLSMKNVCPICK 382
              +HV C+K+WLS KN CP+CK
Sbjct:   341 SFHVHCVKQWLSRKNACPVCK 361

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2086305 AT3G15070 [Arabidopsis thaliana (taxid:3702)]

 Score = 280 (103.6 bits), Expect = 6.0e-23, P = 6.0e-23
 Identities = 58/123 (47%), Positives = 77/123 (62%)

Query:   276 YGSRGMLDQHRDMRLDIDNMTYEELLALGERIGSVSTGLS-ED---LISRCLTESIYCSA 331
             Y +   +D H+DMRLDI++M+YEELLAL ++IG+V TGLS ED   L+ R  +  I    
Sbjct:   358 YNAVNYVDHHQDMRLDIEDMSYEELLALSDQIGTVKTGLSSEDVKELLKRRTSTRINLEE 417

Query:   332 DQMQ--EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 389
                   E  +C IC E YKN D + TL  C H YH  C+KKWL +KNVCPICK+  +   
Sbjct:   418 GPSTDLETDSCTICQENYKNEDKIATL-DCMHKYHAECLKKWLVIKNVCPICKSEALVIE 476

Query:   390 EKE 392
             +K+
Sbjct:   477 KKK 479

GO:0005737 "cytoplasm" 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	392
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	1e-13
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	4e-12
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	4e-10
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	6e-09
smart00184	40	smart00184, RING, Ring finger	7e-09
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	1e-07
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	2e-07
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	7e-06
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	1e-05
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	1e-05
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	2e-05
pfam12906	47	pfam12906, RINGv, RING-variant domain	0.002
smart00744	49	smart00744, RINGv, The RING-variant domain is a C4	0.002
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	0.003

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

 Score = 64.7 bits (158), Expect = 1e-13
 Identities = 20/47 (42%), Positives = 29/47 (61%), Gaps = 1/47 (2%)

Query: 338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKAS 384
             C ICL+E++  ++V  L  CGH +H  C+ KWL   N CP+C+A 
Sbjct: 1   DECPICLDEFEPGEEVVVL-PCGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

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

 Score = 60.2 bits (146), Expect = 4e-12
 Identities = 21/47 (44%), Positives = 28/47 (59%), Gaps = 4/47 (8%)

Query: 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWL-SMKNVCPICKASV 385
           C ICLEE+    +   L  CGH +  +CI KWL S KN CP+C+  +
Sbjct: 2   CPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 54.4 bits (131), Expect = 4e-10
 Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 3/48 (6%)

Query: 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 383
           EE  C ICL+  ++      L  CGH +   CI ++L  K+ CPIC+ 
Sbjct: 1   EELECPICLDLLRDP---VVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 52.0 bits (125), Expect = 6e-09
 Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 13/58 (22%)

Query: 336 EEGNCVICLEEYKNMDDVGTLKS-----------CGHDYHVTCIKKWLSMKNVCPICK 382
           E+  C IC   +         KS           CGH +H+ CI +WL  +N CP+C+
Sbjct: 18  EDDVCAICRNHF--DGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 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|214546 smart00184, RING, Ring finger

 Score = 51.0 bits (122), Expect = 7e-09
 Identities = 22/43 (51%), Positives = 26/43 (60%), Gaps = 4/43 (9%)

Query: 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNV-CPIC 381
           C ICLEEY  + D   L  CGH +  +CI+KWL   N  CPIC
Sbjct: 1   CPICLEEY--LKDPVILP-CGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 47.1 bits (112), Expect = 1e-07
 Identities = 21/43 (48%), Positives = 24/43 (55%), Gaps = 4/43 (9%)

Query: 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNV-CPIC 381
           C ICLEE K   D  T+  CGH +   CI  WL   NV CP+C
Sbjct: 1   CPICLEEPK---DPVTILPCGHLFCSKCILSWLESGNVTCPLC 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|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

 Score = 52.7 bits (126), Expect = 2e-07
 Identities = 38/163 (23%), Positives = 63/163 (38%), Gaps = 26/163 (15%)

Query: 246 NERYRSLSDEPSLHE---RFSSEGFMIVDRSPLYGSRGMLDQHRDMRLDIDNMTYEELLA 302
           N   R   DE S +        +G  ++  S L+         R + + +    Y    A
Sbjct: 197 NYEARDDDDERSTYLFRLEVCYDGLTLLAYSLLFMY--QFPYVR-VPIYLIRQMYTCFYA 253

Query: 303 LGERIGSVST--GLSEDLISRCLTESIYCSADQMQ---EEGNCVICLEE---------YK 348
           L  RI   +     ++DL       ++Y +A + Q    +  C IC++E          +
Sbjct: 254 LFRRIREHARFRRATKDL------NAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPR 307

Query: 349 NMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSEK 391
            +D       CGH  H+ C+K WL  +  CPIC+  V+ D   
Sbjct: 308 GLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQSS 350

Length = 491

>gnl|CDD|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger)

 Score = 42.4 bits (100), Expect = 7e-06
 Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 8/52 (15%)

Query: 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIK--KWLSMKNVCPICKASV 385
           E+  CVICLE  +N+        CGH     C +  K L  K  CPIC+  +
Sbjct: 1   EDDLCVICLERPRNV----VFLPCGH--LCLCEECAKRLRSKKKCPICRQPI 46

Length = 49

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

 Score = 46.5 bits (110), Expect = 1e-05
 Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 2/47 (4%)

Query: 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWL-SMKNVCPICKASV 385
           C IC+  +   D +  L  C H +HV C+ KWL    N CP+C+ ++
Sbjct: 326 CAICMSNFIKNDRLRVL-PCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

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

 Score = 45.9 bits (109), Expect = 1e-05
 Identities = 18/51 (35%), Positives = 30/51 (58%), Gaps = 4/51 (7%)

Query: 336 EEGNCVICLEE-Y-KNMDDV--GTLKSCGHDYHVTCIKKWLSMKNVCPICK 382
           ++  C IC+E+ Y K + ++  G L +C H + + CI  W   KN CP+C+
Sbjct: 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCR 223

Length = 238

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

 Score = 42.5 bits (100), Expect = 2e-05
 Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 1/35 (2%)

Query: 359 CGHDYHVTCIKKWLSMKNVCPICKAS-VMADSEKE 392
           C H +H  CI +WL  K VCP+ + + V+AD    
Sbjct: 54  CNHAFHDHCIYRWLDTKGVCPLDRQTWVLADGGAI 88

Length = 88

>gnl|CDD|221845 pfam12906, RINGv, RING-variant domain

 Score = 35.8 bits (83), Expect = 0.002
 Identities = 14/50 (28%), Positives = 20/50 (40%), Gaps = 11/50 (22%)

Query: 340 CVICLEEYKNMDDVGTLK---SCGHDY---HVTCIKKWLSMKNV--CPIC 381
           C ICLE     ++   L     C       H +C+++WL       C IC
Sbjct: 1   CRICLEG---EEEDEPLIRPCRCRGSLKYVHQSCLERWLKTSGNTTCEIC 47

Length = 47

>gnl|CDD|128983 smart00744, RINGv, The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins

 Score = 35.3 bits (82), Expect = 0.002
 Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 13/52 (25%)

Query: 340 CVICLEEYKNMDDV-------GTLKSCGHDYHVTCIKKWLSMKN--VCPICK 382
           C IC +E    D +       G+LK      H  C+++W++      C ICK
Sbjct: 2   CRICHDEGDEGDPLVSPCRCKGSLKYV----HQECLERWINESGNKTCEICK 49

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 Classical RING domain: C-x (2) -C-x (9-39)-C-x(1-3)-H-x(2-3)-C-x(2)-C-x(4-48) -C-x(2)-C. Length = 49

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

 Score = 35.9 bits (83), Expect = 0.003
 Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 12/63 (19%)

Query: 334 MQEEGNCVICLEEYKNM--------DDVG-TLKSCGHDYHVTCIKKWL---SMKNVCPIC 381
              +  C IC   +           DD       C H++H+ CI KWL   + K +CP+C
Sbjct: 18  TPSDDVCGICRVSFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMC 77

Query: 382 KAS 384
           + +
Sbjct: 78  RQT 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	392
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.51
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.41
PHA02929	238	N1R/p28-like protein; Provisional	99.2
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.17
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.16
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.02
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.94
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.89
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.88
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.87
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.84
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.78
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.78
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.75
PHA02926	242	zinc finger-like protein; Provisional	98.74
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.71
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.67
PF14634	44	zf-RING_5: zinc-RING finger domain	98.59
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.54
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.54
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.53
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.49
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.47
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.27
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.27
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.25
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.24
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.22
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.14
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.11
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.06
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.05
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.99
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.94
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.93
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.9
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	97.89
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.87
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.78
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.73
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.71
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.51
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.46
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.37
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.34
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.09
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	96.91
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.85
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	96.81
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.71
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.66
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.44
KOG2660	331	consensus Locus-specific chromosome binding protei	96.39
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.22
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	96.16
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.15
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.12
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.11
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	95.71
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	95.55
PHA02862	156	5L protein; Provisional	95.55
COG5152	259	Uncharacterized conserved protein, contains RING a	95.5
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	95.5
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	95.41
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.35
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.14
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.09
PHA03096	284	p28-like protein; Provisional	95.01
KOG1002	791	consensus Nucleotide excision repair protein RAD16	94.94
PF04641	260	Rtf2: Rtf2 RING-finger	94.76
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	94.69
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	94.58
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	94.46
COG5236	493	Uncharacterized conserved protein, contains RING Z	94.05
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.03
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	93.92
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	93.85
KOG1940	276	consensus Zn-finger protein [General function pred	93.84
COG5175	480	MOT2 Transcriptional repressor [Transcription]	92.72
COG5222	427	Uncharacterized conserved protein, contains RING Z	92.66
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	92.43
KOG1001	674	consensus Helicase-like transcription factor HLTF/	91.97
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	91.77
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	91.75
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	91.63
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	91.62
KOG1609	323	consensus Protein involved in mRNA turnover and st	91.34
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	91.3
KOG0298	1394	consensus DEAD box-containing helicase-like transc	90.28
KOG3002	299	consensus Zn finger protein [General function pred	90.22
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	90.16
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	89.42
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	89.2
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	87.56
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	86.67
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	86.3
KOG3053	293	consensus Uncharacterized conserved protein [Funct	86.11
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	86.09
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	85.28
KOG0825	1134	consensus PHD Zn-finger protein [General function	84.5
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	84.17
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	83.93
KOG3899	381	consensus Uncharacterized conserved protein [Funct	83.38
KOG1829	580	consensus Uncharacterized conserved protein, conta	81.42
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	81.39
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	81.31
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	80.71

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

Probab=99.51  E-value=1.4e-14  Score=145.19  Aligned_cols=76  Identities=33%  Similarity=0.799  Sum_probs=58.6

Q ss_pred             CCCCHHHHHhhcccceeecccccCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCC-CccccccccCCC
Q 016260          312 TGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNV-CPICKASVMADS  389 (392)
Q Consensus       312 tGLSee~I~kll~~~~~~~s~~~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kns-CPICR~~l~~~~  389 (392)
                      ..+.+..+++++..... ...+......|+||||+|+.+|+++.| ||+|.||..||++||..+.+ ||+||+++..+.
T Consensus       205 ~r~~k~~l~~~p~~~f~-~~~~~~~~~~CaIClEdY~~GdklRiL-PC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~  281 (348)
T KOG4628|consen  205 NRLIKRLLKKLPVRTFT-KGDDEDATDTCAICLEDYEKGDKLRIL-PCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS  281 (348)
T ss_pred             hhhHHHHHhhCCcEEec-cccccCCCceEEEeecccccCCeeeEe-cCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence            45667777776554432 222222225899999999999999998 89999999999999998755 999999887654

>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=99.41  E-value=6.8e-14  Score=100.34  Aligned_cols=44  Identities=48%  Similarity=1.199  Sum_probs=39.6

Q ss_pred             CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccc
Q 016260          338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK  382 (392)
Q Consensus       338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR  382 (392)
                      +.|+||+++|..++.+..+ +|+|.||.+||.+||+.+++||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l-~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKL-PCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEE-TTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEc-cCCCeeCHHHHHHHHHhCCcCCccC
Confidence            3699999999988888888 6999999999999999999999997

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.20  E-value=9.8e-12  Score=119.51  Aligned_cols=76  Identities=21%  Similarity=0.547  Sum_probs=55.1

Q ss_pred             CCCCCHHHHHhhcccceeecc-cccCCCCccceecccccCCC----ceEEcccCCccccHHHHHHHHhcCCCCccccccc
Q 016260          311 STGLSEDLISRCLTESIYCSA-DQMQEEGNCVICLEEYKNMD----DVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV  385 (392)
Q Consensus       311 ~tGLSee~I~kll~~~~~~~s-~~~~ed~~C~ICLEdf~~ge----~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l  385 (392)
                      +.+.+...+..++........ .....+..|+||++.+.+++    .++++++|+|.||..||.+|++.+.+||+||..+
T Consensus       147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~  226 (238)
T PHA02929        147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF  226 (238)
T ss_pred             hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence            345577777666554322111 12234688999999987653    2456778999999999999999999999999976


Q ss_pred             c
Q 016260          386 M  386 (392)
Q Consensus       386 ~  386 (392)
                      .
T Consensus       227 ~  227 (238)
T PHA02929        227 I  227 (238)
T ss_pred             e
Confidence            4

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

Probab=99.17  E-value=1.3e-11  Score=121.39  Aligned_cols=52  Identities=33%  Similarity=0.933  Sum_probs=47.0

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHh-cCCCCccccccccCC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-MKNVCPICKASVMAD  388 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk-~knsCPICR~~l~~~  388 (392)
                      ...+|+||+++|..+++++++ ||.|.||..||++|+. .++.||+||.++++.
T Consensus       322 ~GveCaICms~fiK~d~~~vl-PC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPPp  374 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVL-PCDHRFHVGCVDKWLLGYSNKCPVCRTAIPPP  374 (374)
T ss_pred             CCceEEEEhhhhcccceEEEe-ccCceechhHHHHHHhhhcccCCccCCCCCCC
Confidence            347899999999999998888 8999999999999998 688999999999863

>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=99.16  E-value=2.1e-11  Score=97.20  Aligned_cols=47  Identities=36%  Similarity=0.947  Sum_probs=37.3

Q ss_pred             CCCccceecccccCC---------CceEEcccCCccccHHHHHHHHhcCCCCcccc
Q 016260          336 EEGNCVICLEEYKNM---------DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK  382 (392)
Q Consensus       336 ed~~C~ICLEdf~~g---------e~v~~LlpCgH~FH~~CI~kWLk~knsCPICR  382 (392)
                      .++.|+||++.+.+.         +....+.+|+|.||..||.+||+.+++||+||
T Consensus        18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            455699999999432         23445558999999999999999999999998

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 ....

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

Probab=99.02  E-value=1.7e-10  Score=112.84  Aligned_cols=52  Identities=31%  Similarity=0.772  Sum_probs=45.2

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      .....+|.|||+....+    ..+||||+||+.||..|+..+..||+||..+.+.+
T Consensus       236 ~~a~~kC~LCLe~~~~p----SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSNP----SATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             CCCCCceEEEecCCCCC----CcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            34567899999998776    45599999999999999999999999999987764

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

Probab=98.94  E-value=4.9e-10  Score=112.76  Aligned_cols=52  Identities=37%  Similarity=0.989  Sum_probs=42.4

Q ss_pred             cCCCCccceeccc-ccCC--------C-ceEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          334 MQEEGNCVICLEE-YKNM--------D-DVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       334 ~~ed~~C~ICLEd-f~~g--------e-~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      ...|..|.||+|+ +..+        + +..+| ||||.+|..|++.|+.++.+|||||.++.
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL-pCGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL-PCGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccc-cccceeeHHHHHHHHHhccCCCcccCccc
Confidence            3467889999999 4433        1 23455 89999999999999999999999999953

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.89  E-value=1.1e-09  Score=102.31  Aligned_cols=50  Identities=32%  Similarity=0.802  Sum_probs=40.2

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc----------------CCCCccccccccCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM----------------KNVCPICKASVMAD  388 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~----------------knsCPICR~~l~~~  388 (392)
                      .++..|+||++.++++    ++++|||.||..||.+|+..                +..||+||..+...
T Consensus        16 ~~~~~CpICld~~~dP----VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~   81 (193)
T PLN03208         16 GGDFDCNICLDQVRDP----VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA   81 (193)
T ss_pred             CCccCCccCCCcCCCc----EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence            4567899999998765    33489999999999999852                24699999988654

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

Probab=98.88  E-value=7.9e-10  Score=105.29  Aligned_cols=52  Identities=37%  Similarity=0.768  Sum_probs=41.5

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc---CCCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM---KNVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~---knsCPICR~~l~~~~  389 (392)
                      ......|.||||.-+++  |  ++.|||.||+.||.+||..   ++.||+||..|..++
T Consensus        44 ~~~~FdCNICLd~akdP--V--vTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~   98 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDP--V--VTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT   98 (230)
T ss_pred             CCCceeeeeeccccCCC--E--EeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence            34567899999998765  3  4469999999999999976   345999999886543

>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=98.87  E-value=1.5e-09  Score=75.07  Aligned_cols=44  Identities=45%  Similarity=1.156  Sum_probs=36.2

Q ss_pred             ccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccccc
Q 016260          339 NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASV  385 (392)
Q Consensus       339 ~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l  385 (392)
                      .|+||++.+.   ....+++|+|.||..|++.|++. ...||+||..+
T Consensus         1 ~C~iC~~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR---EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh---CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            5999999983   23344479999999999999997 67799999864

>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=98.84  E-value=1.6e-09  Score=79.81  Aligned_cols=46  Identities=35%  Similarity=0.859  Sum_probs=38.0

Q ss_pred             CCccceecccccCCCceEEcccCCcc-ccHHHHHHHHhcCCCCcccccccc
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      +..|.||++....   +..+ ||+|. ||..|+.+|++.+..||+||+++.
T Consensus         2 ~~~C~iC~~~~~~---~~~~-pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLL-PCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEE-TTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCc---eEEe-CCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            5789999998654   4444 89999 999999999999999999999874

...

>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=98.78  E-value=4e-09  Score=73.99  Aligned_cols=39  Identities=38%  Similarity=1.049  Sum_probs=32.2

Q ss_pred             cceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccc
Q 016260          340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPIC  381 (392)
Q Consensus       340 C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPIC  381 (392)
                      |+||++.+.+   ..++++|||.||..||.+|++.+..||+|
T Consensus         1 C~iC~~~~~~---~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD---PVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS---EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC---cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            8999999886   33344899999999999999998899998

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

Probab=98.78  E-value=4.5e-09  Score=86.56  Aligned_cols=51  Identities=33%  Similarity=0.782  Sum_probs=40.7

Q ss_pred             CCCccceecccccC--------C-CceEEcccCCccccHHHHHHHHhc---CCCCcccccccc
Q 016260          336 EEGNCVICLEEYKN--------M-DDVGTLKSCGHDYHVTCIKKWLSM---KNVCPICKASVM  386 (392)
Q Consensus       336 ed~~C~ICLEdf~~--------g-e~v~~LlpCgH~FH~~CI~kWLk~---knsCPICR~~l~  386 (392)
                      .++.|.||...|..        + +...++..|+|.||..||.+||..   +..||+||++..
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            47889999999873        2 223455589999999999999985   467999999764

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

Probab=98.75  E-value=4.3e-09  Score=97.00  Aligned_cols=51  Identities=31%  Similarity=0.692  Sum_probs=42.5

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA  387 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~  387 (392)
                      .....|+|||+.+...  +.+-+.|||+||..||+..|+....||+|++.|..
T Consensus       129 ~~~~~CPiCl~~~sek--~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~  179 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEK--VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH  179 (187)
T ss_pred             ccccCCCceecchhhc--cccccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence            3447899999999864  43445899999999999999999999999987643

>PHA02926 zinc finger-like protein; Provisional

Probab=98.74  E-value=5.4e-09  Score=99.46  Aligned_cols=51  Identities=35%  Similarity=0.818  Sum_probs=40.9

Q ss_pred             CCCCccceecccccCC-----CceEEcccCCccccHHHHHHHHhcC------CCCccccccc
Q 016260          335 QEEGNCVICLEEYKNM-----DDVGTLKSCGHDYHVTCIKKWLSMK------NVCPICKASV  385 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~g-----e~v~~LlpCgH~FH~~CI~kWLk~k------nsCPICR~~l  385 (392)
                      ..+.+|+||+|..-.+     ...+.|.+|+|.||..||.+|.+.+      ..||+||..+
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f  229 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF  229 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence            4568899999987432     1356788999999999999999753      4599999875

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

Probab=98.71  E-value=5.1e-09  Score=111.04  Aligned_cols=50  Identities=32%  Similarity=0.934  Sum_probs=43.4

Q ss_pred             CCCccceecccccCCCc--eEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          336 EEGNCVICLEEYKNMDD--VGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~--v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      .+..|+||+|++..+..  ..+| +|+|+||..|+++||+++++||+||..+.
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er~qtCP~CR~~~~  341 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFERQQTCPTCRTVLY  341 (543)
T ss_pred             cCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence            47889999999998654  4555 89999999999999999999999999543

>smart00504 Ubox Modified RING finger domain

Probab=98.67  E-value=1.8e-08  Score=76.30  Aligned_cols=48  Identities=25%  Similarity=0.441  Sum_probs=41.0

Q ss_pred             CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      ..|+||++.+.++    ++.+|||+|+..||.+|++.+..||+|+..+..++
T Consensus         2 ~~Cpi~~~~~~~P----v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~   49 (63)
T smart00504        2 FLCPISLEVMKDP----VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHED   49 (63)
T ss_pred             cCCcCCCCcCCCC----EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence            5799999999875    33489999999999999998889999999875443

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

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.59  E-value=3e-08  Score=71.41  Aligned_cols=44  Identities=39%  Similarity=0.899  Sum_probs=36.0

Q ss_pred             ccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccc
Q 016260          339 NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA  383 (392)
Q Consensus       339 ~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~  383 (392)
                      .|.||++.|.. +....+++|||+||..||.++......||+||+
T Consensus         1 ~C~~C~~~~~~-~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSE-ERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccC-CCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            49999999943 334556699999999999999856678999985

>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=98.54  E-value=4.1e-08  Score=68.91  Aligned_cols=39  Identities=41%  Similarity=1.095  Sum_probs=32.8

Q ss_pred             cceecccccCCCceEEcccCCccccHHHHHHHHh--cCCCCccc
Q 016260          340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS--MKNVCPIC  381 (392)
Q Consensus       340 C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk--~knsCPIC  381 (392)
                      |+||++.+..+.   .+++|+|.||..||.+|++  ....||+|
T Consensus         1 C~iC~~~~~~~~---~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPV---ILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEE---EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCC---EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999988652   3458999999999999999  35569998

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=98.54  E-value=4.2e-08  Score=70.55  Aligned_cols=38  Identities=32%  Similarity=0.871  Sum_probs=29.0

Q ss_pred             cceecccccCCCceEEcccCCccccHHHHHHHHhcC----CCCccc
Q 016260          340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK----NVCPIC  381 (392)
Q Consensus       340 C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k----nsCPIC  381 (392)
                      |+||++.|.++    +.++|||.|+..||.+|.+..    ..||+|
T Consensus         1 CpiC~~~~~~P----v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP----VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE----EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc----cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999976    334899999999999999763    359998

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.53  E-value=5.7e-08  Score=99.75  Aligned_cols=51  Identities=29%  Similarity=0.694  Sum_probs=43.3

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD  388 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~  388 (392)
                      ......|+||++.|..+    ++++|+|.||..||..|+.....||+||..+...
T Consensus        23 Le~~l~C~IC~d~~~~P----vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        23 LDTSLRCHICKDFFDVP----VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES   73 (397)
T ss_pred             cccccCCCcCchhhhCc----cCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence            44567899999999865    3458999999999999999888899999987654

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

>smart00184 RING Ring finger

Probab=98.49  E-value=1.1e-07  Score=63.52  Aligned_cols=38  Identities=58%  Similarity=1.282  Sum_probs=31.2

Q ss_pred             cceecccccCCCceEEcccCCccccHHHHHHHHh-cCCCCccc
Q 016260          340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-MKNVCPIC  381 (392)
Q Consensus       340 C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk-~knsCPIC  381 (392)
                      |+||++...   .+..+ +|+|.||..||+.|++ .+..||+|
T Consensus         1 C~iC~~~~~---~~~~~-~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELK---DPVVL-PCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCC---CcEEe-cCCChHHHHHHHHHHHhCcCCCCCC
Confidence            889998833   34445 8999999999999998 56679998

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)

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

Probab=98.47  E-value=7.6e-08  Score=78.41  Aligned_cols=35  Identities=31%  Similarity=0.736  Sum_probs=30.4

Q ss_pred             ceEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          352 DVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       352 ~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      .......|.|.||..||.+||..++.||+||++..
T Consensus        47 C~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          47 CPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             ceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            44555579999999999999999999999999754

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

Probab=98.27  E-value=4.9e-07  Score=65.66  Aligned_cols=35  Identities=26%  Similarity=0.664  Sum_probs=22.4

Q ss_pred             cceecccccCCCceEEcccCCccccHHHHHHHHhcC
Q 016260          340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK  375 (392)
Q Consensus       340 C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k  375 (392)
                      |+||.+ |...+...++++|||+|+.+||+++++..
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~   35 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS   35 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence            899999 87766655555899999999999999853

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

Probab=98.27  E-value=4.3e-07  Score=88.34  Aligned_cols=51  Identities=31%  Similarity=0.787  Sum_probs=42.4

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHH-HHhcCCC-CccccccccCCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKK-WLSMKNV-CPICKASVMADS  389 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~k-WLk~kns-CPICR~~l~~~~  389 (392)
                      ..+.+|.||++....+    ..++|||+||..||.. |-+.+.. ||+||+.+.+++
T Consensus       213 ~~d~kC~lC~e~~~~p----s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         213 LADYKCFLCLEEPEVP----SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             ccccceeeeecccCCc----ccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            4578899999987754    3448999999999999 9888776 999999887654

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

Probab=98.25  E-value=2.5e-07  Score=74.84  Aligned_cols=52  Identities=29%  Similarity=0.692  Sum_probs=40.4

Q ss_pred             CCCCccceecccccC---------CCceEEcccCCccccHHHHHHHHhc---CCCCcccccccc
Q 016260          335 QEEGNCVICLEEYKN---------MDDVGTLKSCGHDYHVTCIKKWLSM---KNVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~---------ge~v~~LlpCgH~FH~~CI~kWLk~---knsCPICR~~l~  386 (392)
                      ..++.|-||.-.|..         ++...++..|.|.||..||.+||..   +..||+||++..
T Consensus        18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            456689999988864         3334455579999999999999965   345999999764

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

Probab=98.24  E-value=5.1e-07  Score=94.32  Aligned_cols=49  Identities=29%  Similarity=0.699  Sum_probs=39.6

Q ss_pred             CCccceecccccCCCceEEcccCCccccHHHHHHHHhcC-----CCCccccccccCCC
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK-----NVCPICKASVMADS  389 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k-----nsCPICR~~l~~~~  389 (392)
                      +..|+|||+....+    .++.|||+||..||.+++...     ..||+|+..|-..+
T Consensus       186 ~~~CPICL~~~~~p----~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd  239 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP----VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD  239 (513)
T ss_pred             CCcCCcccCCCCcc----cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence            67899999987654    444699999999999988653     45999999887654

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

Probab=98.22  E-value=5.3e-07  Score=93.82  Aligned_cols=52  Identities=27%  Similarity=0.758  Sum_probs=40.9

Q ss_pred             CCCccceecccccCCC----c---------eEEcccCCccccHHHHHHHHh-cCCCCccccccccC
Q 016260          336 EEGNCVICLEEYKNMD----D---------VGTLKSCGHDYHVTCIKKWLS-MKNVCPICKASVMA  387 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge----~---------v~~LlpCgH~FH~~CI~kWLk-~knsCPICR~~l~~  387 (392)
                      ....|+||+.++..-.    +         -..++||.|+||..|+++|.. .|-.||+||+.+++
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            4457999999885411    1         134569999999999999998 56689999999875

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

Probab=98.14  E-value=5.8e-07  Score=90.12  Aligned_cols=51  Identities=31%  Similarity=0.698  Sum_probs=44.6

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCCC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSE  390 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~~  390 (392)
                      .-..|-||.+.|..+    +++||+|.||.-||.+.|..+..||.|+.++.....
T Consensus        22 ~lLRC~IC~eyf~ip----~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~L   72 (442)
T KOG0287|consen   22 DLLRCGICFEYFNIP----MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDL   72 (442)
T ss_pred             HHHHHhHHHHHhcCc----eeccccchHHHHHHHHHhccCCCCCceecccchhhh
Confidence            346899999999976    666999999999999999999999999998876554

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

Probab=98.11  E-value=2.2e-06  Score=63.71  Aligned_cols=42  Identities=29%  Similarity=0.735  Sum_probs=31.9

Q ss_pred             ccceecccccCCCceEEcccCC-----ccccHHHHHHHHhcC--CCCcccc
Q 016260          339 NCVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSMK--NVCPICK  382 (392)
Q Consensus       339 ~C~ICLEdf~~ge~v~~LlpCg-----H~FH~~CI~kWLk~k--nsCPICR  382 (392)
                      .|.||++ ..+++...+. ||.     |.+|..||.+|+..+  ..||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~-PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVS-PCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEe-ccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899999 3334444455 785     889999999999654  4799995

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

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

Probab=98.06  E-value=1.5e-06  Score=79.63  Aligned_cols=45  Identities=36%  Similarity=0.854  Sum_probs=38.6

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA  383 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~  383 (392)
                      .+...|+||++.|..+    ++++|+|.||..||..++.....||.||.
T Consensus        11 ~~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   11 QEELTCPICLEYFREP----VLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             cccccChhhHHHhhcC----ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            4567899999999987    44589999999999999985567999993

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

Probab=98.05  E-value=2e-06  Score=68.38  Aligned_cols=48  Identities=23%  Similarity=0.436  Sum_probs=36.7

Q ss_pred             CCccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccccccCC
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMAD  388 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~~  388 (392)
                      ...|+||.+.+.++    ++++|||.|...||.+||.. ...||+|+..+...
T Consensus         4 ~f~CpIt~~lM~dP----Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    4 EFLCPITGELMRDP----VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSES   52 (73)
T ss_dssp             GGB-TTTSSB-SSE----EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred             ccCCcCcCcHhhCc----eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence            46799999999976    33489999999999999998 78899999887654

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 ....

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

Probab=97.99  E-value=3.7e-06  Score=71.69  Aligned_cols=49  Identities=31%  Similarity=0.764  Sum_probs=38.1

Q ss_pred             CCCccceecccc-------------cCCCceEEcccCCccccHHHHHHHHhcCCCCcccccc
Q 016260          336 EEGNCVICLEEY-------------KNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKAS  384 (392)
Q Consensus       336 ed~~C~ICLEdf-------------~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~  384 (392)
                      ..+.|+||..-+             ...|.+.....|.|.||..||.+||++++.||+|.++
T Consensus        45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e  106 (114)
T KOG2930|consen   45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE  106 (114)
T ss_pred             eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence            445677765443             2344566666899999999999999999999999775

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

Probab=97.94  E-value=5e-06  Score=83.84  Aligned_cols=47  Identities=34%  Similarity=0.703  Sum_probs=39.5

Q ss_pred             CCCccceecccccCCCceEEcccCCcc-ccHHHHHHHHhcCCCCcccccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      ...+|.|||.+-++   +.+| ||.|. .|..|.+..--+.+.|||||+.+.
T Consensus       289 ~gkeCVIClse~rd---t~vL-PCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  289 SGKECVICLSESRD---TVVL-PCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             CCCeeEEEecCCcc---eEEe-cchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            35689999999775   3445 99999 999999988778899999999874

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

Probab=97.93  E-value=2.2e-06  Score=94.66  Aligned_cols=54  Identities=22%  Similarity=0.780  Sum_probs=40.8

Q ss_pred             ccCCCCccceecccccCCC-c--eEEcccCCccccHHHHHHHHhc--CCCCcccccccc
Q 016260          333 QMQEEGNCVICLEEYKNMD-D--VGTLKSCGHDYHVTCIKKWLSM--KNVCPICKASVM  386 (392)
Q Consensus       333 ~~~ed~~C~ICLEdf~~ge-~--v~~LlpCgH~FH~~CI~kWLk~--knsCPICR~~l~  386 (392)
                      .....++|+||...+..-+ +  -.++..|+|.||..||.+|++.  ++.||+||.++.
T Consensus      1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            3456789999998876211 1  1234479999999999999986  467999998874

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

Probab=97.90  E-value=2.8e-06  Score=67.46  Aligned_cols=50  Identities=26%  Similarity=0.752  Sum_probs=23.9

Q ss_pred             CCccceecccccCCCce--EEc--ccCCccccHHHHHHHHhc----C-------CCCcccccccc
Q 016260          337 EGNCVICLEEYKNMDDV--GTL--KSCGHDYHVTCIKKWLSM----K-------NVCPICKASVM  386 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v--~~L--lpCgH~FH~~CI~kWLk~----k-------nsCPICR~~l~  386 (392)
                      +..|.||.+.+...+++  .+.  ..|+..||..||.+||..    +       ..||.|+++|.
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            46899999987633322  222  268999999999999963    1       13999999874

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

Probab=97.89  E-value=3.5e-06  Score=82.40  Aligned_cols=52  Identities=31%  Similarity=0.688  Sum_probs=42.8

Q ss_pred             cCCCCccceecccccCCC-------ceEEcccCCccccHHHHHHHHh--cCCCCcccccccc
Q 016260          334 MQEEGNCVICLEEYKNMD-------DVGTLKSCGHDYHVTCIKKWLS--MKNVCPICKASVM  386 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge-------~v~~LlpCgH~FH~~CI~kWLk--~knsCPICR~~l~  386 (392)
                      ..++..|+||-..+...+       ++.+| .|+|+||..||+-|-.  .+.+||.||..+.
T Consensus       221 hl~d~vCaVCg~~~~~s~~eegvienty~L-sCnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKL-SCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             CCCcchhHhhcchheeecchhhhhhhheee-ecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            346788999998887654       57777 7999999999999985  4678999998764

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

Probab=97.87  E-value=5.5e-06  Score=81.85  Aligned_cols=46  Identities=26%  Similarity=0.647  Sum_probs=40.6

Q ss_pred             CCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      -..|-||-+-|..+    .+++|||.||.-||...|..+..||+||.+..
T Consensus        25 ~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~   70 (391)
T COG5432          25 MLRCRICDCRISIP----CETTCGHTFCSLCIRRHLGTQPFCPVCREDPC   70 (391)
T ss_pred             HHHhhhhhheeecc----eecccccchhHHHHHHHhcCCCCCccccccHH
Confidence            46799999998865    66699999999999999999999999998654

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

Probab=97.78  E-value=2.9e-06  Score=85.50  Aligned_cols=51  Identities=33%  Similarity=0.626  Sum_probs=41.5

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccccccCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMAD  388 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~~  388 (392)
                      ..+..|+|||+.++..   +..+.|.|.||.+||.+-|+. ++.||.||+.+...
T Consensus        41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            3467899999998852   334479999999999999986 67899999987653

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

Probab=97.73  E-value=1e-05  Score=80.20  Aligned_cols=55  Identities=27%  Similarity=0.806  Sum_probs=44.1

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHh-----------------------cCCCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-----------------------MKNVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk-----------------------~knsCPICR~~l~~~~  389 (392)
                      ......|+|||--|.+++...+. +|-|.||..|+.++|.                       .+..||+||..|..+.
T Consensus       112 n~p~gqCvICLygfa~~~~ft~T-~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~  189 (368)
T KOG4445|consen  112 NHPNGQCVICLYGFASSPAFTVT-ACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE  189 (368)
T ss_pred             CCCCCceEEEEEeecCCCceeee-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence            34568899999999999877766 8999999999988771                       1224999999886554

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

Probab=97.71  E-value=1.5e-05  Score=80.75  Aligned_cols=51  Identities=31%  Similarity=0.875  Sum_probs=40.3

Q ss_pred             CCCCccceecccccCCC----ceEEcccCCccccHHHHHHHHh--c-----CCCCccccccc
Q 016260          335 QEEGNCVICLEEYKNMD----DVGTLKSCGHDYHVTCIKKWLS--M-----KNVCPICKASV  385 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge----~v~~LlpCgH~FH~~CI~kWLk--~-----knsCPICR~~l  385 (392)
                      ..+..|.||++...+..    ..++|++|.|.||..||.+|-.  +     .+.||+||...
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            45788999999987643    1456678999999999999983  3     46799999753

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

Probab=97.51  E-value=3.9e-05  Score=79.48  Aligned_cols=50  Identities=28%  Similarity=0.731  Sum_probs=38.9

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      .+...|+||||-+.....-.+...|.|.||..|+.+|-  ..+||+||-...
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             ccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence            45678999999988754322333699999999999995  468999998665

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

Probab=97.46  E-value=2.2e-05  Score=85.60  Aligned_cols=50  Identities=18%  Similarity=0.480  Sum_probs=42.7

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      ....|+||+..+.++...... +|+|.||..||..|-+.-.+||+||.++.
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k-~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~  171 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEK-HTAHYFCEECVGSWSRCAQTCPVDRGEFG  171 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhcccc-ccccccHHHHhhhhhhhcccCchhhhhhh
Confidence            346799999999887555444 89999999999999999999999999764

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

Probab=97.37  E-value=6.4e-05  Score=57.60  Aligned_cols=46  Identities=30%  Similarity=0.733  Sum_probs=35.6

Q ss_pred             CCccceecccccCCCceEEcccCCcc-ccHHHHHHHHh-cCCCCcccccccc
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLS-MKNVCPICKASVM  386 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk-~knsCPICR~~l~  386 (392)
                      +.+|.||+|.-.+.    +|-.|||. .|..|-.+.++ .+..||+||+++.
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            47899999886643    34469998 89999655554 6889999999874

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

Probab=97.34  E-value=5.8e-05  Score=59.45  Aligned_cols=51  Identities=25%  Similarity=0.633  Sum_probs=25.7

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCCCC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSEK  391 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~~k  391 (392)
                      .-..|++|.+.++++   ..+..|.|+||..||..-+.  ..||+|+.++-..+.|
T Consensus         6 ~lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~   56 (65)
T PF14835_consen    6 ELLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQ   56 (65)
T ss_dssp             HTTS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS--
T ss_pred             HhcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHH
Confidence            346899999998875   23448999999999988554  4599999988666543

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

Probab=97.09  E-value=0.0004  Score=75.85  Aligned_cols=51  Identities=25%  Similarity=0.662  Sum_probs=40.3

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccccccCCCC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMADSE  390 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~~~~  390 (392)
                      .-..|+.|-.-+++.    +++.|+|+||..||..-+.. ...||.|-+.+-+.+.
T Consensus       642 ~~LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv  693 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDV  693 (698)
T ss_pred             hceeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence            346899999777653    34479999999999999965 5779999988766553

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

Probab=96.91  E-value=0.00036  Score=71.79  Aligned_cols=47  Identities=32%  Similarity=0.791  Sum_probs=37.2

Q ss_pred             CccceecccccCCCceEEcccCCccccHHHHHHHHhc--CCCCccccccccCC
Q 016260          338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--KNVCPICKASVMAD  388 (392)
Q Consensus       338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~--knsCPICR~~l~~~  388 (392)
                      ..|-||-|.-+   .|.+- ||||..|..|+..|-..  .+.||.||.+|.-.
T Consensus       370 eLCKICaendK---dvkIE-PCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt  418 (563)
T KOG1785|consen  370 ELCKICAENDK---DVKIE-PCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT  418 (563)
T ss_pred             HHHHHhhccCC---Ccccc-cccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence            45999987644   34444 89999999999999854  56799999998654

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

Probab=96.85  E-value=0.00055  Score=65.93  Aligned_cols=54  Identities=20%  Similarity=0.477  Sum_probs=44.5

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc--------CCCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--------KNVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~--------knsCPICR~~l~~~~  389 (392)
                      ...+.-|..|-..+..+|+++.  -|-|.||.+|+..|-..        .-.||-|..+|+++.
T Consensus        47 sDY~pNC~LC~t~La~gdt~RL--vCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~  108 (299)
T KOG3970|consen   47 SDYNPNCRLCNTPLASGDTTRL--VCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI  108 (299)
T ss_pred             cCCCCCCceeCCccccCcceee--hhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence            3445679999999999988864  49999999999999854        224999999998865

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

Probab=96.81  E-value=0.00073  Score=69.91  Aligned_cols=49  Identities=22%  Similarity=0.743  Sum_probs=41.0

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA  387 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~  387 (392)
                      ..+..|.||...+..+    +.+||||.||..||.+-+.....||+||..+..
T Consensus        82 ~sef~c~vc~~~l~~p----v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP----VVTPCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCC----ccccccccccHHHHHHHhccCCCCccccccccc
Confidence            4567899999888865    333999999999999988878889999998763

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

Probab=96.71  E-value=0.0008  Score=69.32  Aligned_cols=53  Identities=25%  Similarity=0.672  Sum_probs=43.8

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      ..++..|+||...+.++-..   ..|+|.||..||.+|+..+..||.|+..+....
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~---~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~   70 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQT---TTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE   70 (391)
T ss_pred             CcccccCccccccccCCCCC---CCCCCcccccccchhhccCcCCcccccccchhh
Confidence            34568999999999987332   279999999999999999999999988775443

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

Probab=96.66  E-value=0.0013  Score=50.47  Aligned_cols=42  Identities=24%  Similarity=0.623  Sum_probs=27.9

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhc--CCCCcc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--KNVCPI  380 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~--knsCPI  380 (392)
                      ....|+|.+..|+++  +... .|+|.|-++.|.+||+.  ...||+
T Consensus        10 ~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence            357899999999975  4444 79999999999999954  345998

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

Probab=96.44  E-value=0.0011  Score=61.02  Aligned_cols=31  Identities=39%  Similarity=0.813  Sum_probs=27.6

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccH
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHV  365 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~  365 (392)
                      ..+..+|.||||++..++++.+| ||-.+||+
T Consensus       174 ~ddkGECvICLEdL~~GdtIARL-PCLCIYHK  204 (205)
T KOG0801|consen  174 KDDKGECVICLEDLEAGDTIARL-PCLCIYHK  204 (205)
T ss_pred             cccCCcEEEEhhhccCCCceecc-ceEEEeec
Confidence            34567899999999999999999 89999996

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

Probab=96.39  E-value=0.00086  Score=67.40  Aligned_cols=49  Identities=22%  Similarity=0.575  Sum_probs=41.1

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      ..-..|.+|---|.+..+|.   -|-|.||..||.+.|...+.||+|...|-
T Consensus        13 n~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih   61 (331)
T KOG2660|consen   13 NPHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIH   61 (331)
T ss_pred             ccceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceecc
Confidence            34578999999888765442   69999999999999999999999987663

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

Probab=96.22  E-value=0.0036  Score=61.85  Aligned_cols=52  Identities=25%  Similarity=0.494  Sum_probs=40.0

Q ss_pred             cccCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc--CCCCcccccccc
Q 016260          332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--KNVCPICKASVM  386 (392)
Q Consensus       332 ~~~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~--knsCPICR~~l~  386 (392)
                      .....+.+|++|.+.-..+   -+..+|+|+||.-||..-+..  .-+||.|-.++.
T Consensus       234 s~~t~~~~C~~Cg~~PtiP---~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  234 STGTSDTECPVCGEPPTIP---HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             ccccCCceeeccCCCCCCC---eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            3445678999999886655   233379999999999887754  357999988775

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

Probab=96.16  E-value=0.0016  Score=64.84  Aligned_cols=90  Identities=23%  Similarity=0.386  Sum_probs=51.6

Q ss_pred             cCCCCCCCHHHHHHhhhhcCCCCCCCC--HHHHHhhcccceeecc----cccCCCCccceecccccCCCceEEcccCCcc
Q 016260          289 RLDIDNMTYEELLALGERIGSVSTGLS--EDLISRCLTESIYCSA----DQMQEEGNCVICLEEYKNMDDVGTLKSCGHD  362 (392)
Q Consensus       289 rlDiDnmsyEeLlaL~Erig~v~tGLS--ee~I~kll~~~~~~~s----~~~~ed~~C~ICLEdf~~ge~v~~LlpCgH~  362 (392)
                      -+++++++-.+|++...+-...-.|-.  .+.+.+....-+....    .....+..|.||++...+   ...| +|||.
T Consensus       246 l~d~Eg~~v~qLke~l~~d~vsy~gCcek~el~d~vtrl~k~~~g~~~~~s~~~~~LC~ICmDaP~D---CvfL-eCGHm  321 (350)
T KOG4275|consen  246 LLDEEGLTVRQLKEILDDDFVSYKGCCEKYELDDRVTRLYKGNDGEQHSRSLATRRLCAICMDAPRD---CVFL-ECGHM  321 (350)
T ss_pred             ccccccchHHHhhhhhhccCCcccchhHHHHHHHHHHHHHhcccccccccchhHHHHHHHHhcCCcc---eEEe-ecCcE
Confidence            356677777777777766544444433  2222222111111000    111225679999988664   4344 89997


Q ss_pred             -ccHHHHHHHHhcCCCCcccccccc
Q 016260          363 -YHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       363 -FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                       -|.+|=+.    -+.|||||+.|.
T Consensus       322 VtCt~CGkr----m~eCPICRqyi~  342 (350)
T KOG4275|consen  322 VTCTKCGKR----MNECPICRQYIV  342 (350)
T ss_pred             Eeehhhccc----cccCchHHHHHH
Confidence             67888544    348999998764

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

Probab=96.15  E-value=0.0038  Score=63.59  Aligned_cols=49  Identities=29%  Similarity=0.581  Sum_probs=40.5

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA  387 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~  387 (392)
                      .++..|+||.-.-..    .+..||+|.-|+.||.+-|...+.|=.||..+.+
T Consensus       420 sEd~lCpICyA~pi~----Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  420 SEDNLCPICYAGPIN----AVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             cccccCcceecccch----hhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            567889999865332    2445999999999999999999999999998763

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.12  E-value=0.0047  Score=60.34  Aligned_cols=53  Identities=17%  Similarity=0.329  Sum_probs=47.2

Q ss_pred             CCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      ...|+||.+.+.+...+.+|.||||+|+.+|+.+.++.-..||+|-.++...+
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd  273 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD  273 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence            45799999999998888888899999999999999998899999988876654

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

Probab=96.11  E-value=0.002  Score=66.32  Aligned_cols=47  Identities=26%  Similarity=0.591  Sum_probs=38.0

Q ss_pred             CCccceecccccCCCceEEcccCCccccHHHHHHHHhcC--CCCccccc
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK--NVCPICKA  383 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k--nsCPICR~  383 (392)
                      +.-|..|-+-+...++-..-+||.|+||..|+...|.++  .+||.||+
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            457999999998766544445999999999999999764  56999994

>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=95.71  E-value=0.0043  Score=55.43  Aligned_cols=36  Identities=28%  Similarity=0.613  Sum_probs=28.9

Q ss_pred             CCccceecccccCCCceEEcccCC------ccccHHHHHHHHh
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCG------HDYHVTCIKKWLS  373 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCg------H~FH~~CI~kWLk  373 (392)
                      ..+|.||++.+.+.+-|+.+ +|+      |.||.+|+++|-+
T Consensus        26 ~~EC~IC~~~I~~~~GvV~v-t~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYV-TDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEE-ecCCeehHHHHHHHHHHHHHHh
Confidence            56899999999984445555 576      8999999999943

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.

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

Probab=95.55  E-value=0.0065  Score=67.46  Aligned_cols=49  Identities=39%  Similarity=0.837  Sum_probs=39.5

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC--C-----CCcccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK--N-----VCPICKAS  384 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k--n-----sCPICR~~  384 (392)
                      ...+|.||++.+.....+-....|-|+||..||++|-+..  .     .||.|+..
T Consensus       190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            4568999999998877776666799999999999999651  1     29999843

>PHA02862 5L protein; Provisional

Probab=95.55  E-value=0.01  Score=53.77  Aligned_cols=45  Identities=27%  Similarity=0.721  Sum_probs=33.7

Q ss_pred             CCccceecccccCCCceEEcccCC-----ccccHHHHHHHHhc--CCCCcccccccc
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSM--KNVCPICKASVM  386 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCg-----H~FH~~CI~kWLk~--knsCPICR~~l~  386 (392)
                      ...|-||.++-.+.  +   -||.     -..|.+|+.+|+..  +..|++|+.+..
T Consensus         2 ~diCWIC~~~~~e~--~---~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~   53 (156)
T PHA02862          2 SDICWICNDVCDER--N---NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN   53 (156)
T ss_pred             CCEEEEecCcCCCC--c---ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence            35799999985432  2   2665     46899999999975  556999998753

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

Probab=95.50  E-value=0.0054  Score=58.26  Aligned_cols=43  Identities=23%  Similarity=0.643  Sum_probs=36.5

Q ss_pred             CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccc
Q 016260          338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKAS  384 (392)
Q Consensus       338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~  384 (392)
                      ..|.||-++|+.+    +.+.|||.||..|.-+-.+....|-+|-+.
T Consensus       197 F~C~iCKkdy~sp----vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~  239 (259)
T COG5152         197 FLCGICKKDYESP----VVTECGHSFCSLCAIRKYQKGDECGVCGKA  239 (259)
T ss_pred             eeehhchhhccch----hhhhcchhHHHHHHHHHhccCCcceecchh
Confidence            4699999999976    444799999999988877778889999764

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

Probab=95.50  E-value=0.0096  Score=69.18  Aligned_cols=50  Identities=30%  Similarity=0.729  Sum_probs=37.2

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC----------CCCcccccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK----------NVCPICKASVM  386 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k----------nsCPICR~~l~  386 (392)
                      .++.|.||..+--...-...| .|+|+||..|...-|.+.          -+||+|+..|.
T Consensus      3485 ~DDmCmICFTE~L~AAP~IqL-~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQL-DCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             cCceEEEEehhhhCCCcceec-CCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            467799998776555455566 799999999987665432          24999998764

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

Probab=95.41  E-value=0.0095  Score=43.87  Aligned_cols=40  Identities=30%  Similarity=0.844  Sum_probs=27.3

Q ss_pred             cceecccccCCCceEEcccCC-----ccccHHHHHHHHhc--CCCCccc
Q 016260          340 CVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSM--KNVCPIC  381 (392)
Q Consensus       340 C~ICLEdf~~ge~v~~LlpCg-----H~FH~~CI~kWLk~--knsCPIC  381 (392)
                      |-||++.-...+.+ +. ||.     -..|..||.+|+..  +..|++|
T Consensus         1 CrIC~~~~~~~~~l-i~-pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPL-IS-PCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-E-E--SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCCce-ec-ccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            78999987776533 23 675     36899999999975  4569988

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.35  E-value=0.014  Score=53.51  Aligned_cols=48  Identities=25%  Similarity=0.651  Sum_probs=34.4

Q ss_pred             cCCCCccceecccccCCCceEEcccCCc-----cccHHHHHHHHhcC--CCCcccccccc
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGH-----DYHVTCIKKWLSMK--NVCPICKASVM  386 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH-----~FH~~CI~kWLk~k--nsCPICR~~l~  386 (392)
                      ...+..|-||.++...  ...   ||..     ..|.+|+.+|+..+  ..|++|+++..
T Consensus         5 s~~~~~CRIC~~~~~~--~~~---PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~   59 (162)
T PHA02825          5 SLMDKCCWICKDEYDV--VTN---YCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN   59 (162)
T ss_pred             CCCCCeeEecCCCCCC--ccC---CcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence            3456789999988542  222   5543     56999999999764  56999998653

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

Probab=95.14  E-value=0.011  Score=61.29  Aligned_cols=46  Identities=28%  Similarity=0.582  Sum_probs=35.8

Q ss_pred             CCccceecccccCCCceEEcccCCccccHHHHHHHHhc--------CCCCccccc
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--------KNVCPICKA  383 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~--------knsCPICR~  383 (392)
                      ...|.||.++......+..+ ||+|+||+.|++.++..        .-.||-|+.
T Consensus       184 lf~C~ICf~e~~G~~c~~~l-pC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFL-PCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             cccceeeehhhcCcceeeec-ccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            45799999998766666666 89999999999999953        224876654

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

Probab=95.09  E-value=0.012  Score=59.93  Aligned_cols=44  Identities=30%  Similarity=0.671  Sum_probs=30.4

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      ....|.||+++..+   ...+ ||||+-|  |..--.. ...||+||+.|.
T Consensus       304 ~p~lcVVcl~e~~~---~~fv-pcGh~cc--ct~cs~~-l~~CPvCR~rI~  347 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKS---AVFV-PCGHVCC--CTLCSKH-LPQCPVCRQRIR  347 (355)
T ss_pred             CCCceEEecCCccc---eeee-cCCcEEE--chHHHhh-CCCCchhHHHHH
Confidence            34679999999876   3334 8999866  6544332 334999998763

>PHA03096 p28-like protein; Provisional

Probab=95.01  E-value=0.012  Score=58.67  Aligned_cols=37  Identities=35%  Similarity=0.716  Sum_probs=30.3

Q ss_pred             CccceecccccCCC----ceEEcccCCccccHHHHHHHHhc
Q 016260          338 GNCVICLEEYKNMD----DVGTLKSCGHDYHVTCIKKWLSM  374 (392)
Q Consensus       338 ~~C~ICLEdf~~ge----~v~~LlpCgH~FH~~CI~kWLk~  374 (392)
                      ..|.||++......    .-+.|..|.|.||..||..|-..
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~  219 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE  219 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence            67999999987532    34577789999999999999965

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

Probab=94.94  E-value=0.011  Score=62.93  Aligned_cols=51  Identities=25%  Similarity=0.660  Sum_probs=38.1

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc-----CCCCccccccccCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-----KNVCPICKASVMAD  388 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-----knsCPICR~~l~~~  388 (392)
                      ...+..|-+|-+.-++.    +...|.|.||..||+.++..     +.+||+|-..+.-+
T Consensus       533 nk~~~~C~lc~d~aed~----i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  533 NKGEVECGLCHDPAEDY----IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID  588 (791)
T ss_pred             ccCceeecccCChhhhh----HhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence            34567899999876543    23379999999999999853     45699998766443

>PF04641 Rtf2: Rtf2 RING-finger

Probab=94.76  E-value=0.028  Score=54.79  Aligned_cols=53  Identities=17%  Similarity=0.444  Sum_probs=42.0

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD  388 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~  388 (392)
                      .....|+|+..+|........|.+|||+|...||++- +....||+|-.++...
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~  163 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEE  163 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccC
Confidence            3456799999999766667777799999999999997 2345799998876544

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

Probab=94.69  E-value=0.012  Score=58.67  Aligned_cols=44  Identities=23%  Similarity=0.545  Sum_probs=37.9

Q ss_pred             CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccc
Q 016260          338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV  385 (392)
Q Consensus       338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l  385 (392)
                      ..|-||...|..+    +...|+|.||..|..+=++....|.+|-+.+
T Consensus       242 f~c~icr~~f~~p----Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t  285 (313)
T KOG1813|consen  242 FKCFICRKYFYRP----VVTKCGHYFCEVCALKPYQKGEKCYVCSQQT  285 (313)
T ss_pred             ccccccccccccc----hhhcCCceeehhhhccccccCCcceeccccc
Confidence            4599999999976    3447999999999999888888999998765

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

Probab=94.58  E-value=0.023  Score=42.45  Aligned_cols=44  Identities=30%  Similarity=0.635  Sum_probs=23.2

Q ss_pred             cceecccccCCC-ceEEcccCCccccHHHHHHHHh-cCCCCcccccc
Q 016260          340 CVICLEEYKNMD-DVGTLKSCGHDYHVTCIKKWLS-MKNVCPICKAS  384 (392)
Q Consensus       340 C~ICLEdf~~ge-~v~~LlpCgH~FH~~CI~kWLk-~knsCPICR~~  384 (392)
                      |++|.+++...+ .+.-. +|+..++..|...-+. ....||-||++
T Consensus         1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~   46 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREP   46 (48)
T ss_dssp             -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred             CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence            789999995544 34334 6899999999988886 47789999975

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

Probab=94.46  E-value=0.017  Score=47.59  Aligned_cols=34  Identities=32%  Similarity=0.654  Sum_probs=26.6

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHH
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIK  369 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~  369 (392)
                      ..++..|.||-..+... ... ..||+|+||..|++
T Consensus        75 i~~~~~C~vC~k~l~~~-~f~-~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   75 ITESTKCSVCGKPLGNS-VFV-VFPCGHVVHYSCIK  108 (109)
T ss_pred             ECCCCCccCcCCcCCCc-eEE-EeCCCeEEeccccc
Confidence            34567899999998873 344 44999999999985

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 [].

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

Probab=94.05  E-value=0.038  Score=56.43  Aligned_cols=49  Identities=31%  Similarity=0.656  Sum_probs=36.3

Q ss_pred             cccCCCCccceecccccCCCceEEcccCCccccHHHHHH--HHhcCCCCcccccc
Q 016260          332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKK--WLSMKNVCPICKAS  384 (392)
Q Consensus       332 ~~~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~k--WLk~knsCPICR~~  384 (392)
                      +..++...|.||.+.+.-   + .++||+|..|--|..+  -|-.++.||+||.+
T Consensus        56 dtDEen~~C~ICA~~~TY---s-~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE  106 (493)
T COG5236          56 DTDEENMNCQICAGSTTY---S-ARYPCGHQICHACAVRLRALYMQKGCPLCRTE  106 (493)
T ss_pred             ccccccceeEEecCCceE---E-EeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence            344566779999987653   3 3449999999999754  34567889999985

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

Probab=94.03  E-value=0.044  Score=55.48  Aligned_cols=48  Identities=21%  Similarity=0.447  Sum_probs=37.7

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV  385 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l  385 (392)
                      .+...|+||+....++ ++..  --|-+||..||-+.+...+.||+--.++
T Consensus       298 ~~~~~CpvClk~r~Np-tvl~--vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNP-TVLE--VSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             CccccChhHHhccCCC-ceEE--ecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            3456899999998775 3322  3699999999999999999999865543

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

Probab=93.92  E-value=0.036  Score=57.53  Aligned_cols=32  Identities=38%  Similarity=0.926  Sum_probs=25.8

Q ss_pred             EcccCCccccHHHHHHHHhc--CCCCcccccccc
Q 016260          355 TLKSCGHDYHVTCIKKWLSM--KNVCPICKASVM  386 (392)
Q Consensus       355 ~LlpCgH~FH~~CI~kWLk~--knsCPICR~~l~  386 (392)
                      +.+.|+|.|...||.+||.+  +..||.|+..+.
T Consensus        23 vsl~cghlFgs~cie~wl~k~~~~~cp~c~~kat   56 (463)
T KOG1645|consen   23 VSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKAT   56 (463)
T ss_pred             eeecccccccHHHHHHHHhhhhhhhCcccCChhH
Confidence            44489999999999999963  345999987654

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

Probab=93.85  E-value=0.0041  Score=63.99  Aligned_cols=50  Identities=34%  Similarity=0.727  Sum_probs=43.0

Q ss_pred             CCccceecccccCC-CceEEcccCCccccHHHHHHHHhcCCCCccccccccC
Q 016260          337 EGNCVICLEEYKNM-DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA  387 (392)
Q Consensus       337 d~~C~ICLEdf~~g-e~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~  387 (392)
                      ...|+||.+.++.. +++-.+ -|+|.+|.+||.+||..+..||.|+.++.-
T Consensus       196 v~sl~I~~~slK~~y~k~~~~-~~g~~~~~~kL~k~L~~~~kl~~~~rel~~  246 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAI-VCGHIYHHGKLSKWLATKRKLPSCRRELPK  246 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHH-hhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence            46799999999875 566666 699999999999999998899999998854

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

Probab=93.84  E-value=0.029  Score=55.67  Aligned_cols=46  Identities=30%  Similarity=0.594  Sum_probs=39.8

Q ss_pred             CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccc
Q 016260          338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA  383 (392)
Q Consensus       338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~  383 (392)
                      .-|+||.+.+.........++|+|..|..|+.......-.||+|.+
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            3499999999887766566699999999999999888889999988

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=92.72  E-value=0.073  Score=54.30  Aligned_cols=53  Identities=23%  Similarity=0.445  Sum_probs=37.1

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccccccCC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMAD  388 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~~  388 (392)
                      +++-|+.|+|++...++-..-.+||-..|.-|...--+. +..||-||..-..+
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de   66 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE   66 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence            344599999999887764443489988777775543332 56899999865443

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

Probab=92.66  E-value=0.067  Score=53.78  Aligned_cols=46  Identities=28%  Similarity=0.558  Sum_probs=35.2

Q ss_pred             CccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccc-ccc
Q 016260          338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKA-SVM  386 (392)
Q Consensus       338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~-~l~  386 (392)
                      ..|+.|-..+..+-+   .+.|+|.||.+||..-|.. ...||.|.. .|+
T Consensus       275 LkCplc~~Llrnp~k---T~cC~~~fc~eci~~al~dsDf~CpnC~rkdvl  322 (427)
T COG5222         275 LKCPLCHCLLRNPMK---TPCCGHTFCDECIGTALLDSDFKCPNCSRKDVL  322 (427)
T ss_pred             ccCcchhhhhhCccc---CccccchHHHHHHhhhhhhccccCCCcccccch
Confidence            789999888776522   2469999999999988765 567999944 444

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

Probab=92.43  E-value=0.069  Score=59.68  Aligned_cols=44  Identities=27%  Similarity=0.710  Sum_probs=33.3

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV  385 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l  385 (392)
                      ....|.+|--.++.+ .| -- .|+|.||..|+.   .....||.|+.++
T Consensus       839 q~skCs~C~~~LdlP-~V-hF-~CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  839 QVSKCSACEGTLDLP-FV-HF-LCGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeeeecccCCccccc-ee-ee-ecccHHHHHhhc---cCcccCCccchhh
Confidence            346899998888875 22 23 599999999998   3346799998743

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

Probab=91.97  E-value=0.062  Score=59.29  Aligned_cols=45  Identities=33%  Similarity=0.818  Sum_probs=34.4

Q ss_pred             CccceecccccCCCceEEcccCCccccHHHHHHHHhcC--CCCccccccccC
Q 016260          338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK--NVCPICKASVMA  387 (392)
Q Consensus       338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k--nsCPICR~~l~~  387 (392)
                      ..|.||++    .+.+... +|+|.||..|+.+-+...  ..||+||..+..
T Consensus       455 ~~c~ic~~----~~~~~it-~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~  501 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFIT-RCGHDFCVECLKKSIQQSENAPCPLCRNVLKE  501 (674)
T ss_pred             cccccccc----cccceee-cccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence            78999999    2233333 799999999999988653  349999987643

>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=91.77  E-value=0.062  Score=40.25  Aligned_cols=31  Identities=29%  Similarity=0.713  Sum_probs=22.6

Q ss_pred             cCC-ccccHHHHHHHHhcCCCCccccccccCC
Q 016260          358 SCG-HDYHVTCIKKWLSMKNVCPICKASVMAD  388 (392)
Q Consensus       358 pCg-H~FH~~CI~kWLk~knsCPICR~~l~~~  388 (392)
                      .|. |..|..|+...|.....||+|+.+++..
T Consensus        17 ~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen   17 KCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             E-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             eecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            586 9999999999999999999999998753

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.

>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=91.75  E-value=0.081  Score=38.35  Aligned_cols=41  Identities=27%  Similarity=0.659  Sum_probs=23.1

Q ss_pred             cceecccccCCCceEEcccCCccccHHHHHHHHhcCC--CCccc
Q 016260          340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN--VCPIC  381 (392)
Q Consensus       340 C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn--sCPIC  381 (392)
                      |.+|-+....|...... .|.=.+|..|++++++...  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            66787777766433222 4888899999999998755  69988

; PDB: 3NW0_A 2CT0_A.

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

Probab=91.63  E-value=0.21  Score=51.41  Aligned_cols=29  Identities=31%  Similarity=0.874  Sum_probs=22.2

Q ss_pred             CCccccHHHHHHHHhc-------------CCCCccccccccC
Q 016260          359 CGHDYHVTCIKKWLSM-------------KNVCPICKASVMA  387 (392)
Q Consensus       359 CgH~FH~~CI~kWLk~-------------knsCPICR~~l~~  387 (392)
                      |.-..|.+|+-+|+..             +-.||+||+.+.-
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            5677899999999943             2249999998643

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

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=91.62  E-value=0.11  Score=40.04  Aligned_cols=46  Identities=30%  Similarity=0.510  Sum_probs=32.9

Q ss_pred             CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      ..|..|...-    .++.++||+|+.+..|..-+  +-+-||+|-+.+...+
T Consensus         8 ~~~~~~~~~~----~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    8 QPCVFCGFVG----TKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDD   53 (55)
T ss_pred             eeEEEccccc----cccccccccceeeccccChh--hccCCCCCCCcccCCC
Confidence            4577776542    23456699999999997654  4567999998886544

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

Probab=91.34  E-value=0.13  Score=50.02  Aligned_cols=51  Identities=29%  Similarity=0.688  Sum_probs=36.2

Q ss_pred             CCccceecccccCCCceEEcccCC-----ccccHHHHHHHHhc--CCCCccccccccC
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSM--KNVCPICKASVMA  387 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCg-----H~FH~~CI~kWLk~--knsCPICR~~l~~  387 (392)
                      +..|-||.++.........+.||.     ...|..|+.+|+..  +..|.+|......
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~  135 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN  135 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence            578999999876543211233664     56799999999985  4569999886543

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

Probab=91.30  E-value=0.09  Score=53.07  Aligned_cols=43  Identities=23%  Similarity=0.621  Sum_probs=29.2

Q ss_pred             CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccc
Q 016260          338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV  385 (392)
Q Consensus       338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l  385 (392)
                      -.|.-|--.+..   -+++.||+|+||.+|...  ..-+.||.|-..|
T Consensus        91 HfCd~Cd~PI~I---YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   91 HFCDRCDFPIAI---YGRMIPCKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             EeecccCCccee---eecccccchhhhhhhhhc--CccccCcCcccHH
Confidence            346666544432   346669999999999743  3356899997655

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

Probab=90.28  E-value=0.083  Score=61.34  Aligned_cols=45  Identities=38%  Similarity=0.841  Sum_probs=37.1

Q ss_pred             CCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccc
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKAS  384 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~  384 (392)
                      -..|.||++.+....  ++. .|+|.+|..|+..|+..+..||+|+..
T Consensus      1153 ~~~c~ic~dil~~~~--~I~-~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQG--GIA-GCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred             ccchHHHHHHHHhcC--Cee-eechhHhhhHHHHHHHHhccCcchhhh
Confidence            347999999988432  223 599999999999999999999999853

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

Probab=90.22  E-value=0.16  Score=51.05  Aligned_cols=44  Identities=25%  Similarity=0.652  Sum_probs=35.1

Q ss_pred             CCCCccceecccccCCCceEEcccC--CccccHHHHHHHHhcCCCCcccccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSC--GHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpC--gH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      .+..+|+||.+.+..+    +. .|  ||..|..|-.+   ..+.||.||.++.
T Consensus        46 ~~lleCPvC~~~l~~P----i~-QC~nGHlaCssC~~~---~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   46 LDLLDCPVCFNPLSPP----IF-QCDNGHLACSSCRTK---VSNKCPTCRLPIG   91 (299)
T ss_pred             hhhccCchhhccCccc----ce-ecCCCcEehhhhhhh---hcccCCccccccc
Confidence            3457899999999876    34 57  69999999753   4678999999886

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

Probab=90.16  E-value=0.19  Score=47.41  Aligned_cols=52  Identities=29%  Similarity=0.709  Sum_probs=35.3

Q ss_pred             CCCccceecccccCC---CceEEcccCCccccHHHHHHHHhc----C-------CCCccccccccC
Q 016260          336 EEGNCVICLEEYKNM---DDVGTLKSCGHDYHVTCIKKWLSM----K-------NVCPICKASVMA  387 (392)
Q Consensus       336 ed~~C~ICLEdf~~g---e~v~~LlpCgH~FH~~CI~kWLk~----k-------nsCPICR~~l~~  387 (392)
                      +...|.||...--++   +.+.--..|+--||.-|+..||+.    .       ..||.|..++.-
T Consensus       164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            345688887543332   223333379999999999999963    1       139999988743

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

Probab=89.42  E-value=0.1  Score=57.36  Aligned_cols=53  Identities=32%  Similarity=0.644  Sum_probs=41.3

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCC---CCccccccccCCCCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN---VCPICKASVMADSEK  391 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn---sCPICR~~l~~~~~k  391 (392)
                      .-..+|+||+..+..+    .++.|-|.|+..|+..-|..++   .||+|+..+...+.+
T Consensus        19 ~k~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~   74 (684)
T KOG4362|consen   19 QKILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLR   74 (684)
T ss_pred             hhhccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhcc
Confidence            3467899999999976    4558999999999988776544   599999776554443

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

Probab=89.20  E-value=0.12  Score=56.51  Aligned_cols=44  Identities=25%  Similarity=0.432  Sum_probs=33.1

Q ss_pred             CCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccc
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA  383 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~  383 (392)
                      ...|.||+..|....-..+.+.|||..|..|+.+..  +.+|| |+.
T Consensus        11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~   54 (861)
T KOG3161|consen   11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKR   54 (861)
T ss_pred             HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCc
Confidence            457999998887655444445899999999998764  56788 654

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

Probab=87.56  E-value=0.32  Score=47.75  Aligned_cols=48  Identities=25%  Similarity=0.524  Sum_probs=35.3

Q ss_pred             CCCccceecccc-cCCCc-eEEcccCCccccHHHHHHHHhcC-CCCc--cccc
Q 016260          336 EEGNCVICLEEY-KNMDD-VGTLKSCGHDYHVTCIKKWLSMK-NVCP--ICKA  383 (392)
Q Consensus       336 ed~~C~ICLEdf-~~ge~-v~~LlpCgH~FH~~CI~kWLk~k-nsCP--ICR~  383 (392)
                      .+..|+||..+. -.++. +.+-+.|-|..|.+|+++-|... ..||  -|-+
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k   61 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK   61 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence            356899999874 44543 33443499999999999999875 5699  6744

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=86.67  E-value=0.68  Score=35.55  Aligned_cols=43  Identities=30%  Similarity=0.705  Sum_probs=35.3

Q ss_pred             CCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcc--ccc
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPI--CKA  383 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPI--CR~  383 (392)
                      ...|.+|-+.|..++.+.+.+.|+=.||..|..+    ...|-+  |..
T Consensus         5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~   49 (54)
T PF14446_consen    5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGT   49 (54)
T ss_pred             CccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCC
Confidence            4679999999998888989999999999999755    455655  544

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

Probab=86.30  E-value=0.34  Score=46.22  Aligned_cols=40  Identities=28%  Similarity=0.614  Sum_probs=27.9

Q ss_pred             ccceecccccCCCceEEcccCCcc-ccHHHHHHHHhcCCCCcccccccc
Q 016260          339 NCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       339 ~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      .|-+|-+.    +....++||.|. +|..|-..    ...||+|+....
T Consensus       160 ~Cr~C~~~----~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~  200 (207)
T KOG1100|consen  160 SCRKCGER----EATVLLLPCRHLCLCGICDES----LRICPICRSPKT  200 (207)
T ss_pred             cceecCcC----CceEEeecccceEeccccccc----CccCCCCcChhh
Confidence            38888755    223345599987 89999654    345999987653

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.11  E-value=0.38  Score=47.58  Aligned_cols=49  Identities=24%  Similarity=0.651  Sum_probs=33.5

Q ss_pred             CCCccceecccccCCCceEEcccCC-----ccccHHHHHHHHhcCC--------CCcccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSMKN--------VCPICKAS  384 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCg-----H~FH~~CI~kWLk~kn--------sCPICR~~  384 (392)
                      .+..|=||...=++.-..--.-||.     |-.|..||..|+..|.        .||-|+++
T Consensus        19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE   80 (293)
T KOG3053|consen   19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE   80 (293)
T ss_pred             cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence            3456889997755432221233664     7799999999996533        39999986

>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=86.09  E-value=0.69  Score=42.71  Aligned_cols=35  Identities=31%  Similarity=0.674  Sum_probs=22.2

Q ss_pred             CCCccceecccccCCCceEEcc------c-----CC-ccccHHHHHHHHh
Q 016260          336 EEGNCVICLEEYKNMDDVGTLK------S-----CG-HDYHVTCIKKWLS  373 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~Ll------p-----Cg-H~FH~~CI~kWLk  373 (392)
                      ++..|+||||--.+.  | .|+      .     |. -.-|..||++.-+
T Consensus         1 ed~~CpICme~PHNA--V-LLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    1 EDVTCPICMEHPHNA--V-LLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CCccCceeccCCCce--E-EEEeccccCCccccccCCccchhHHHHHHHH
Confidence            367899999987653  1 111      0     33 2347889998864

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.

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

Probab=85.28  E-value=0.51  Score=52.64  Aligned_cols=25  Identities=36%  Similarity=0.994  Sum_probs=22.4

Q ss_pred             cccCCccccHHHHHHHHhcCCCCcc
Q 016260          356 LKSCGHDYHVTCIKKWLSMKNVCPI  380 (392)
Q Consensus       356 LlpCgH~FH~~CI~kWLk~knsCPI  380 (392)
                      +..|+|+.|.+|.+.|+.....||.
T Consensus      1045 Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1045 CGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             hccccccccHHHHHHHHhcCCcCCC
Confidence            3469999999999999999999985

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

Probab=84.50  E-value=0.57  Score=52.47  Aligned_cols=51  Identities=14%  Similarity=0.236  Sum_probs=34.0

Q ss_pred             CCccceecccccCCCc---eEEcccCCccccHHHHHHHHhc------CCCCccccccccC
Q 016260          337 EGNCVICLEEYKNMDD---VGTLKSCGHDYHVTCIKKWLSM------KNVCPICKASVMA  387 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~---v~~LlpCgH~FH~~CI~kWLk~------knsCPICR~~l~~  387 (392)
                      ...|.||.-++..++.   +..+-.|+|.||..||+.|+.+      +-.|++|...|..
T Consensus        96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~s  155 (1134)
T KOG0825|consen   96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGS  155 (1134)
T ss_pred             ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhh
Confidence            4456666666665332   2222249999999999999954      2348999876644

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

Probab=84.17  E-value=0.43  Score=49.44  Aligned_cols=39  Identities=26%  Similarity=0.660  Sum_probs=29.3

Q ss_pred             CCCccceecccccCCC-ceEEcccCCccccHHHHHHHHhcC
Q 016260          336 EEGNCVICLEEYKNMD-DVGTLKSCGHDYHVTCIKKWLSMK  375 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge-~v~~LlpCgH~FH~~CI~kWLk~k  375 (392)
                      ....|.||..+....+ ... ...|+|.||..|+++.+..+
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~iev~  184 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIEVK  184 (384)
T ss_pred             ccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhhhh
Confidence            4578999995555543 344 44799999999999998754

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

Probab=83.93  E-value=0.46  Score=53.65  Aligned_cols=37  Identities=19%  Similarity=0.449  Sum_probs=28.6

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHH
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWL  372 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWL  372 (392)
                      ...++.|.||...+...  .-.+.||||.||.+||.+-.
T Consensus       814 ~ep~d~C~~C~~~ll~~--pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLIK--PFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             ecCccchHHhcchhhcC--cceeeeccchHHHHHHHHHH
Confidence            35678999999888764  33344899999999997765

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.38  E-value=0.62  Score=46.94  Aligned_cols=29  Identities=17%  Similarity=0.551  Sum_probs=23.1

Q ss_pred             CCccccHHHHHHHHh-------------cCCCCccccccccC
Q 016260          359 CGHDYHVTCIKKWLS-------------MKNVCPICKASVMA  387 (392)
Q Consensus       359 CgH~FH~~CI~kWLk-------------~knsCPICR~~l~~  387 (392)
                      |....|.+|+.+|+.             .+-+||+||+.+.-
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci  366 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI  366 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence            778899999999983             24469999997643

>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]

Probab=81.42  E-value=0.64  Score=50.64  Aligned_cols=42  Identities=19%  Similarity=0.644  Sum_probs=28.3

Q ss_pred             CCccceeccc-----ccCCCceEEcccCCccccHHHHHHHHhcCCCCcccc
Q 016260          337 EGNCVICLEE-----YKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK  382 (392)
Q Consensus       337 d~~C~ICLEd-----f~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR  382 (392)
                      ...|.||...     |+ .+++.++..|+++||+.|++.   .+..||.|-
T Consensus       511 gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~  557 (580)
T KOG1829|consen  511 GFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRCE  557 (580)
T ss_pred             eeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence            3468888433     22 345566668999999999754   234499993

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

Probab=81.39  E-value=1.1  Score=40.33  Aligned_cols=54  Identities=26%  Similarity=0.498  Sum_probs=36.3

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHh---cCCCCccccccccCCC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS---MKNVCPICKASVMADS  389 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk---~knsCPICR~~l~~~~  389 (392)
                      ...+|-||.|.-.+..=+.----||-..|.-|-....+   ....||+||..+...+
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence            45689999998665321111114898899887655444   3567999999987654

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

Probab=81.31  E-value=0.88  Score=44.56  Aligned_cols=35  Identities=29%  Similarity=0.740  Sum_probs=27.0

Q ss_pred             CceEEcccCCccccHHHHHHHHhcC-CCCccccccc
Q 016260          351 DDVGTLKSCGHDYHVTCIKKWLSMK-NVCPICKASV  385 (392)
Q Consensus       351 e~v~~LlpCgH~FH~~CI~kWLk~k-nsCPICR~~l  385 (392)
                      +.+.+.+.|||.+|..|+.+.+... ..||.||...
T Consensus        19 ~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen   19 DHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             ccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            3333444799999999998888764 4599999983

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

Probab=80.71  E-value=1.2  Score=50.28  Aligned_cols=50  Identities=24%  Similarity=0.577  Sum_probs=37.1

Q ss_pred             CCCCccceecccccCCCceEEcccCCc-----cccHHHHHHHHhc--CCCCcccccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGH-----DYHVTCIKKWLSM--KNVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH-----~FH~~CI~kWLk~--knsCPICR~~l~  386 (392)
                      .++..|-||..+=..++.+.-  ||+.     ..|.+|+.+|+.-  +..|-+|+.++.
T Consensus        10 ~d~~~CRICr~e~~~d~pLfh--PCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~   66 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDPLFH--PCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK   66 (1175)
T ss_pred             ccchhceeecCCCCCCCcCcc--cccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence            456789999988665555432  5663     4899999999975  456999998764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	392
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		6e-07
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		2e-06
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		4e-05
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		2e-04
2ecl_A	81	Solution Structure Of The Ring Domain Of The Human		3e-04

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

Iteration: 1
 Score = 51.6 bits (122), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/47 (40%), Positives = 31/47 (65%), Gaps = 1/47 (2%)
Query: 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 386
           C +CLE++K  D++G +  C H +H  C+ KWL ++ VCP+C   V+
Sbjct: 18  CAVCLEDFKPRDELG-ICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL 63

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 30/53 (56%)
Query: 334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM 386
           M +   C +CL E ++ ++   L  CGH +H  C+  WL   + CP+C+ +V+
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 383
           +   E+  CV+C+ ++++   +  L  C H++H  C+ KWL     CPIC+A
Sbjct: 18  NHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRA 68

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSEKE 392
           C ICL   +  +DV  L  C H +H  C+ +WL     CPIC+  + A    E
Sbjct: 17  CTICLSILEEGEDVRRL-PCMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSE 68

>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring-Box Protein 2 Length = 81

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 26/54 (48%)
Query: 329 CSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICK 382
           C+  ++Q    C+ C  E K  D V     C H +H  C+  W+   N CP+C+
Sbjct: 18  CAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	392
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	2e-17
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	5e-17
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	7e-16
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-15
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-14
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	4e-14
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	5e-14
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	5e-14
2ect_A	78	Ring finger protein 126; metal binding protein, st	5e-14
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-13
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-12
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	2e-12
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	4e-12
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-10
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	1e-10
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	3e-09
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	4e-09
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	5e-09
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	6e-09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	6e-09
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-05
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-08
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	1e-08
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	5e-08
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	1e-07
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	4e-07
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	5e-07
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	8e-07
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	1e-06
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-06
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	3e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	4e-06
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	4e-06
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	5e-06
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	6e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	6e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	1e-05
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	2e-05
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	2e-05
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	2e-05
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	5e-05
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	7e-05
2ea5_A	68	Cell growth regulator with ring finger domain prot	1e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	1e-04
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	1e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	1e-04
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	1e-04
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	2e-04
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	3e-04
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	5e-04
3nw0_A	238	Non-structural maintenance of chromosomes element	6e-04
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	8e-04

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

 Score = 75.6 bits (186), Expect = 2e-17
 Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 1/59 (1%)

Query: 333 QMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSEK 391
           ++     C +CLE++K  D++G    C H +H  C+ KWL ++ VCP+C   V+  ++ 
Sbjct: 11  ELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQL 68

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

 Score = 74.3 bits (183), Expect = 5e-17
 Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 2/75 (2%)

Query: 315 SEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM 374
           S     + L    +   +   E+  CV+C+ ++++   +  L  C H++H  C+ KWL  
Sbjct: 2   SSGSSGQ-LPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVL-PCNHEFHAKCVDKWLKA 59

Query: 375 KNVCPICKASVMADS 389
              CPIC+A     S
Sbjct: 60  NRTCPICRADSGPSS 74

>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 = 70.9 bits (174), Expect = 7e-16
 Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 1/57 (1%)

Query: 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSEKE 392
            E  C ICL   +  +DV  L  C H +H  C+ +WL     CPIC+  + A    E
Sbjct: 13  TEEKCTICLSILEEGEDVRRL-PCMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSE 68

>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 = 69.2 bits (170), Expect = 2e-15
 Identities = 16/49 (32%), Positives = 21/49 (42%)

Query: 337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
              C ICLE+      V  +  CGH  H TC ++ L     CP+C    
Sbjct: 5   SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53

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

 Score = 66.7 bits (163), Expect = 2e-14
 Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 4/53 (7%)

Query: 334 MQEEG-NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
           M      C ICLE+     +      C H +   CI +W+     CP+CK  V
Sbjct: 1   MATVAERCPICLED---PSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50

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

 Score = 65.9 bits (161), Expect = 4e-14
 Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 5/61 (8%)

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 389
              Q+ +E  C IC++   ++     L  C H +   CI KW      CPIC+  +   +
Sbjct: 8   RVKQLTDEEECCICMDGRADL----IL-PCAHSFCQKCIDKWSDRHRNCPICRLQMTGAN 62

Query: 390 E 390
           E
Sbjct: 63  E 63

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

 Score = 65.3 bits (160), Expect = 5e-14
 Identities = 17/52 (32%), Positives = 29/52 (55%)

Query: 334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
           M +   C +CL E ++ ++   L  CGH +H  C+  WL   + CP+C+ +V
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

 Score = 66.2 bits (162), Expect = 5e-14
 Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 1/50 (2%)

Query: 336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
           +E  C IC  EY   D    L  C H +H  C+  WL     CP+C+   
Sbjct: 39  QEMCCPICCSEYVKGDVATEL-PCHHYFHKPCVSIWLQKSGTCPVCRCMF 87

>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 = 65.9 bits (161), Expect = 5e-14
 Identities = 17/63 (26%), Positives = 30/63 (47%), Gaps = 1/63 (1%)

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 389
           + + +     C +C E+Y   + V  L  C H +H +CI  WL   + CP+C+ S+   +
Sbjct: 8   TEEHVGSGLECPVCKEDYALGESVRQL-PCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN 66

Query: 390 EKE 392
              
Sbjct: 67  TAT 69

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

 Score = 64.2 bits (156), Expect = 2e-13
 Identities = 17/55 (30%), Positives = 26/55 (47%)

Query: 329 CSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKA 383
           C+  ++Q    C+ C  E K  D V     C H +H  C+  W+   N CP+C+ 
Sbjct: 18  CAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQ 72

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

 Score = 61.1 bits (148), Expect = 2e-12
 Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 3/50 (6%)

Query: 339 NCVICLEEYKNMDDVG---TLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
           +C IC++ Y  +   G       CGH +   C++  L   N CP C+  +
Sbjct: 17  SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66

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

 Score = 60.9 bits (148), Expect = 2e-12
 Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 3/57 (5%)

Query: 336 EEGNCVICLEEYKNM---DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 389
              +C IC++ Y  +     +     CGH +   C++  L   N CP C+  +    
Sbjct: 2   AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 58

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

 Score = 60.2 bits (146), Expect = 4e-12
 Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 3/54 (5%)

Query: 339 NCVICLEEYKN---MDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 389
           +C IC++ Y        +     CGH +   C++  L   N CP C+  +    
Sbjct: 12  SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 65

>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 = 57.2 bits (138), Expect = 1e-10
 Identities = 16/61 (26%), Positives = 28/61 (45%), Gaps = 4/61 (6%)

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMAD 388
           S + + E   C IC+E+   + D      C      +CI++WL+  +  CP C+A +   
Sbjct: 15  SVESIAEVFRCFICMEK---LRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR 71

Query: 389 S 389
            
Sbjct: 72  E 72

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

 Score = 55.9 bits (135), Expect = 1e-10
 Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 3/54 (5%)

Query: 332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
            ++     C IC      + D  T+  C H +  +CI +     N CP C   V
Sbjct: 10  SELTPYILCSICKGY---LIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVV 60

>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 = 53.3 bits (128), Expect = 3e-09
 Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 3/54 (5%)

Query: 332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
            ++     CV+C   +    D  T+  C H +  TCI ++L     CPIC   V
Sbjct: 10  TELNPHLMCVLCGGYFI---DATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60

>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 = 53.3 bits (127), Expect = 4e-09
 Identities = 23/94 (24%), Positives = 35/94 (37%), Gaps = 25/94 (26%)

Query: 309 SVSTGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDD--------------VG 354
           S S+G  E +I +   E       ++  E +C+IC+E+                    VG
Sbjct: 3   SGSSGEPEQVIRKYTEEL------KVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVG 56

Query: 355 TLKSCGHDYHVTCIKKWLSMKN-----VCPICKA 383
            L  C H +H+ C+       N      CP CK 
Sbjct: 57  RLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKT 90

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

 Score = 51.8 bits (124), Expect = 5e-09
 Identities = 11/46 (23%), Positives = 18/46 (39%), Gaps = 4/46 (8%)

Query: 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
           C IC + ++  + V T   C H +  +C  +       C IC    
Sbjct: 18  CFICRQAFQ--NPVVT--KCRHYFCESCALEHFRATPRCYICDQPT 59

>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 = 56.3 bits (135), Expect = 6e-09
 Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 5/63 (7%)

Query: 324 TESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWL-SMKNVCPICK 382
            E      +       C IC E  K++     ++ CGH    +C+  W  S    CP C+
Sbjct: 319 QEQYELYCEMGSTFQLCKICAENDKDV----KIEPCGHLMCTSCLTSWQESEGQGCPFCR 374

Query: 383 ASV 385
             +
Sbjct: 375 CEI 377

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

 Score = 53.2 bits (127), Expect = 6e-09
 Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 3/55 (5%)

Query: 331 ADQMQEEGNCVICLEEYKNMDDVG---TLKSCGHDYHVTCIKKWLSMKNVCPICK 382
                   +C IC++ Y  +   G       CGH +   C++  L   N CP C+
Sbjct: 1   GAMGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 55

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

 Score = 43.6 bits (102), Expect = 1e-05
 Identities = 14/71 (19%), Positives = 26/71 (36%), Gaps = 3/71 (4%)

Query: 318 LISRCLTESIYCSADQMQEEGNCVICLEEYKNM---DDVGTLKSCGHDYHVTCIKKWLSM 374
              + +    Y          +C IC++ Y  +     +     CGH +   C++  L  
Sbjct: 53  TCRKKINHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN 112

Query: 375 KNVCPICKASV 385
            N CP C+  +
Sbjct: 113 ANTCPTCRKKI 123

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

 Score = 51.3 bits (123), Expect = 1e-08
 Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 3/56 (5%)

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
               + +   C IC E +     +  +  C H+Y   CI+K+LS K  CP C  +V
Sbjct: 15  VMKTIDDLLRCGICFEYFN--IAM-IIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV 67

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

 Score = 52.7 bits (126), Expect = 1e-08
 Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 4/61 (6%)

Query: 325 ESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKAS 384
           E +    D ++ E  C+IC E +          +C H +   CI +W+  K  CPIC+  
Sbjct: 52  EVLSHMNDVLENELQCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKD 107

Query: 385 V 385
           +
Sbjct: 108 I 108

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

 Score = 48.7 bits (116), Expect = 5e-08
 Identities = 12/59 (20%), Positives = 20/59 (33%), Gaps = 4/59 (6%)

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD 388
           +         C ICL+       V     C H +   C+K    +   C +C+  +  D
Sbjct: 8   NTAPSLTVPECAICLQTCV--HPVSL--PCKHVFCYLCVKGASWLGKRCALCRQEIPED 62

>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 = 48.7 bits (115), Expect = 1e-07
 Identities = 13/53 (24%), Positives = 19/53 (35%)

Query: 329 CSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPIC 381
           C    M     C        + +       C H +H  CI +WL  + VCP+ 
Sbjct: 43  CRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 95

>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 = 46.1 bits (109), Expect = 4e-07
 Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 5/46 (10%)

Query: 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWL--SMKNVCPICKA 383
           C IC      +    + ++CG   H+ C+ K+   + +  CP C  
Sbjct: 18  CNICHSL---LIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCND 60

>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 Length = 79

 Score = 45.9 bits (109), Expect = 5e-07
 Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 7/54 (12%)

Query: 332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
            +++E   C++C EE  N     T   CGH   V C      +++ CP+C++ V
Sbjct: 13  RKLKEAMLCMVCCEEEINS----TFCPCGH--TVCCESCAAQLQS-CPVCRSRV 59

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

 Score = 45.5 bits (107), Expect = 8e-07
 Identities = 13/56 (23%), Positives = 24/56 (42%), Gaps = 1/56 (1%)

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNV-CPICKAS 384
           S D  ++   C +C+E  +  D      +CG+     C  +  + +N  CP C+  
Sbjct: 4   SPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 59

>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 = 46.4 bits (110), Expect = 1e-06
 Identities = 10/56 (17%), Positives = 21/56 (37%), Gaps = 5/56 (8%)

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
           + D++++   C  C    +   +   L  C H +   C+   +     CP+C    
Sbjct: 15  ALDRLEKLLRCSRCTNILR---EPVCLGGCEHIFCSNCVSDCIGTG--CPVCYTPA 65

>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 = 45.6 bits (107), Expect = 2e-06
 Identities = 13/55 (23%), Positives = 19/55 (34%)

Query: 327 IYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPIC 381
             C    M     C        + +       C H +H  CI +WL  + VCP+ 
Sbjct: 52  AICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 106

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 75

 Score = 43.6 bits (103), Expect = 3e-06
 Identities = 15/54 (27%), Positives = 25/54 (46%), Gaps = 7/54 (12%)

Query: 332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
            ++QEE  C IC++    +        CGH   VTC +   ++   CP+C   +
Sbjct: 20  RRLQEEKLCKICMDRNIAI----VFVPCGH--LVTCKQCAEAVDK-CPMCYTVI 66

>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 = 45.0 bits (106), Expect = 4e-06
 Identities = 11/56 (19%), Positives = 21/56 (37%), Gaps = 5/56 (8%)

Query: 331 ADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWL-SMKNVCPICKASV 385
             +++E   C+ C E         T   C H+    C+ +   +    CP C+  +
Sbjct: 46  LSKVEETFQCICCQELVF---RPITT-VCQHNVCKDCLDRSFRAQVFSCPACRYDL 97

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

 Score = 44.0 bits (104), Expect = 4e-06
 Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 5/57 (8%)

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWL--SMKNVCPICKAS 384
             D + +E  C+IC +      D   +  CG+ Y   CI+  L  S ++ CP C  +
Sbjct: 6   EDDPIPDELLCLICKDIMT---DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN 59

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

 Score = 42.9 bits (101), Expect = 5e-06
 Identities = 13/59 (22%), Positives = 24/59 (40%), Gaps = 5/59 (8%)

Query: 332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN-VCPICKASVMADS 389
             ++++  C  C           T   CGH +  +C+   LS  +  C  C+ S++ D 
Sbjct: 10  KTVEDKYKCEKCHLVLC--SPKQT--ECGHRFCESCMAALLSSSSPKCTACQESIVKDK 64

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

 Score = 46.8 bits (110), Expect = 6e-06
 Identities = 14/65 (21%), Positives = 19/65 (29%), Gaps = 15/65 (23%)

Query: 336 EEGNCVICLEEY----KNMDDVGTLKSCGHDYHVTCIKKWL-----------SMKNVCPI 380
           EE  C IC        +          C    H  C+++W                 CP 
Sbjct: 307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPF 366

Query: 381 CKASV 385
           CKA +
Sbjct: 367 CKAKL 371

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

 Score = 42.8 bits (101), Expect = 6e-06
 Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWL--SMKNVCPICKASV 385
             D + +E  C+IC +     D V  +  CG+ Y   CI+  L  S ++ CP C  + 
Sbjct: 8   EDDPIPDELLCLICKDIMT--DAV-VIPCCGNSYCDECIRTALLESDEHTCPTCHQND 62

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

 Score = 42.8 bits (101), Expect = 1e-05
 Identities = 16/59 (27%), Positives = 24/59 (40%), Gaps = 3/59 (5%)

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN---VCPICKASV 385
           + D ++E   C IC+E +        L  CGH     C++K L+       CP C    
Sbjct: 8   NLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKIT 66

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

 Score = 42.2 bits (99), Expect = 2e-05
 Identities = 10/46 (21%), Positives = 21/46 (45%), Gaps = 5/46 (10%)

Query: 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK----NVCPIC 381
           C +CL EY  ++ + T+  C   +   C+K+++ +         I 
Sbjct: 8   CKLCLGEYP-VEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAIS 52

>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* Length = 63

 Score = 41.4 bits (97), Expect = 2e-05
 Identities = 11/55 (20%), Positives = 20/55 (36%), Gaps = 3/55 (5%)

Query: 332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYH-VTCIKKWLSMKNVCPICKASV 385
           D       C +C +  ++ + +      GH      C ++       CPICK  +
Sbjct: 2   DCQNLLKPCSLCEKRPRDGNII--HGRTGHLVTCFHCARRLKKAGASCPICKKEI 54

>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 = 43.4 bits (102), Expect = 2e-05
 Identities = 20/58 (34%), Positives = 25/58 (43%), Gaps = 6/58 (10%)

Query: 330 SADQMQEEGNCVICLEEYKN-MDDVGTLKSCGHDYHVTCIKKWLSMKN-VCPICKASV 385
           S   +  E  C ICL+  KN M    T K C H +   CI   L   N  CP C+  +
Sbjct: 47  SPRSLHSELMCPICLDMLKNTM----TTKECLHRFCADCIITALRSGNKECPTCRKKL 100

>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 Length = 64

 Score = 39.8 bits (93), Expect = 5e-05
 Identities = 16/57 (28%), Positives = 21/57 (36%), Gaps = 3/57 (5%)

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYH-VTCIKKWLSMKNVCPICKASV 385
           S+  +     CVIC    KN          GH     TC KK       CP+C+  +
Sbjct: 1   SSLPLNAIEPCVICQGRPKNG--CIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPI 55

>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 = 39.5 bits (92), Expect = 7e-05
 Identities = 11/52 (21%), Positives = 19/52 (36%), Gaps = 2/52 (3%)

Query: 336 EEGNCVICL-EEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNV-CPICKASV 385
           ++  C  C   +Y+N      +  CGH    +C+          CP C   +
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 68

 Score = 39.0 bits (91), Expect = 1e-04
 Identities = 12/54 (22%), Positives = 18/54 (33%), Gaps = 7/54 (12%)

Query: 332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
              +   +CV+C     N      L  C H     C       +  CP+C+  V
Sbjct: 10  PSEENSKDCVVCQNGTVNW----VLLPCRH--TCLCDGCVKYFQQ-CPMCRQFV 56

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

 Score = 41.1 bits (96), Expect = 1e-04
 Identities = 12/55 (21%), Positives = 23/55 (41%), Gaps = 5/55 (9%)

Query: 332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWL-SMKNVCPICKASV 385
            ++++   CV C E       V T   C H+    C+++   +    CP C+  +
Sbjct: 73  KKLEQSFMCVCCQELVY--QPVTT--ECFHNVCKDCLQRSFKAQVFSCPACRHDL 123

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

 Score = 40.5 bits (95), Expect = 1e-04
 Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)

Query: 334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNV---CPICKASV 385
           MQ+   C ICLE  K  + V T   C H +   C+ K L+ K     CP+CK  +
Sbjct: 18  MQKILECPICLELIK--EPVST--KCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI 68

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

 Score = 38.9 bits (91), Expect = 1e-04
 Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 7/59 (11%)

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKK-WLSMKNV--CPICKASV 385
             +++QEE  C ICL+  +    V T+  CGH++ + CI +   +      CP+CK SV
Sbjct: 13  FVNKLQEEVICPICLDILQ--KPV-TI-DCGHNFCLKCITQIGETSCGFFKCPLCKTSV 67

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

 Score = 39.9 bits (93), Expect = 1e-04
 Identities = 16/57 (28%), Positives = 23/57 (40%), Gaps = 5/57 (8%)

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNV-CPICKASV 385
            A     E  C IC+E     + V TL  C H     C +  +   ++ CP C+  V
Sbjct: 8   DAIPSLSECQCGICMEILV--EPV-TL-PCNHTLCKPCFQSTVEKASLCCPFCRRRV 60

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

 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 7/55 (12%)

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKK-WLSMKNV--CPIC 381
           + + +Q E +C +CLE  K  + V  +  CGH++   CI + W  ++    CP+C
Sbjct: 8   ALENLQVEASCSVCLEYLK--EPV-II-ECGHNFCKACITRWWEDLERDFPCPVC 58

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3 Length = 60

 Score = 37.8 bits (88), Expect = 3e-04
 Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 11/58 (18%)

Query: 333 QMQEEGNCVICLEEYKNMDDV-----GTLKSCGHDYHVTCIKKWLSMK--NVCPICKA 383
           + ++   C IC EE  N         G L++     H +C+  WL++     C IC  
Sbjct: 2   EDEDVPVCWICNEELGNERFRACGCTGELENV----HRSCLSTWLTISRNTACQICGV 55

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

 Score = 37.7 bits (88), Expect = 5e-04
 Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 10/57 (17%)

Query: 334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKK-WLSMKNV-----CPICKAS 384
           ++EE  C ICLE  K  + V +   C H +   CI   + S +N      CP+C+  
Sbjct: 16  IKEEVTCPICLELLK--EPV-SA-DCNHSFCRACITLNYESNRNTDGKGNCPVCRVP 68

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

 Score = 40.1 bits (93), Expect = 6e-04
 Identities = 13/66 (19%), Positives = 25/66 (37%), Gaps = 6/66 (9%)

Query: 321 RCLTESIYCSADQMQEE-GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM--KNV 377
           R + E      +   +    C IC   +  +    + ++CG   H+ C+ K+     +  
Sbjct: 163 RAILEMEQYIRETYPDAVKICNIC---HSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPR 219

Query: 378 CPICKA 383
           CP C  
Sbjct: 220 CPHCND 225

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

 Score = 36.6 bits (85), Expect = 8e-04
 Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 7/55 (12%)

Query: 330 SADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKK-WLSMKNV--CPIC 381
             +++QEE  C ICL+  +    V T+  CGH++ + CI +   +      CP+C
Sbjct: 13  FVNKLQEEVICPICLDILQ--KPV-TI-DCGHNFCLKCITQIGETSCGFFKCPLC 63

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	392
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.62
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.5
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.45
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.45
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.44
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.44
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.41
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.41
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.37
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.37
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.34
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.3
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.28
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.28
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.25
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.23
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.22
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.21
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.21
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.2
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.19
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.17
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.17
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.16
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.15
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.14
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.13
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.12
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.11
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.11
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.09
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.09
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.05
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.04
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.04
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.02
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.01
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.0
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.0
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.0
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.97
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.96
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.93
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.91
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.89
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.86
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.85
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.85
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.83
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.82
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.81
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.8
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.77
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.75
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.74
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.71
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.7
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.64
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.6
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.59
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.56
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.45
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.43
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.42
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.39
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.37
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.3
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.28
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.2
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.19
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.81
3nw0_A	238	Non-structural maintenance of chromosomes element	97.37
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.64
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	93.0
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	92.71
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	87.08
1we9_A	64	PHD finger family protein; structural genomics, PH	86.38
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	86.06
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	86.03
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	82.39
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	81.64

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

Probab=99.62  E-value=3.7e-16  Score=126.44  Aligned_cols=80  Identities=24%  Similarity=0.472  Sum_probs=65.7

Q ss_pred             CCCCCCCCHHHHHhhcccceeecccccCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccC
Q 016260          308 GSVSTGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA  387 (392)
Q Consensus       308 g~v~tGLSee~I~kll~~~~~~~s~~~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~  387 (392)
                      +....+++++.|..++.............+..|+||+++|..++.+..+ +|+|.||..||.+||+.+..||+||+.+.+
T Consensus        11 ~~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l-~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           11 MVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATEL-PCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEE-TTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             CcCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEec-CCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            3456789999999987665443333445677899999999998888777 799999999999999999999999999865


Q ss_pred             C
Q 016260          388 D  388 (392)
Q Consensus       388 ~  388 (392)
                      +
T Consensus        90 ~   90 (91)
T 2l0b_A           90 P   90 (91)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.50  E-value=1.1e-14  Score=113.07  Aligned_cols=56  Identities=32%  Similarity=0.885  Sum_probs=49.2

Q ss_pred             ccCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          333 QMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       333 ~~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      ...++..|+||+++|..++.+..+ +|+|.||..||.+||+.+..||+||+.+.+..
T Consensus        19 ~~~~~~~C~IC~~~~~~~~~~~~l-~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~   74 (75)
T 1x4j_A           19 HQSEQTLCVVCMCDFESRQLLRVL-PCNHEFHAKCVDKWLKANRTCPICRADSGPSS   74 (75)
T ss_dssp             CSSSCCEETTTTEECCBTCEEEEE-TTTEEEETTHHHHHHHHCSSCTTTCCCCCCCC
T ss_pred             ccCCCCCCeECCcccCCCCeEEEE-CCCCHhHHHHHHHHHHcCCcCcCcCCcCCCCC
Confidence            345667899999999998888777 79999999999999999999999999987653

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

Probab=99.45  E-value=2.9e-14  Score=103.79  Aligned_cols=52  Identities=31%  Similarity=0.952  Sum_probs=46.3

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      .++..|+||++.+..++.+..++.|+|.||..||.+|++.+.+||+||+.+.
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            3467899999999998888877459999999999999999999999999874

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

Probab=99.45  E-value=6.8e-14  Score=107.87  Aligned_cols=55  Identities=35%  Similarity=0.958  Sum_probs=48.2

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      ...+..|+||++.|..++.+.++ +|+|.||..||.+|++.+..||+||+.+....
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2ep4_A           12 LNLHELCAVCLEDFKPRDELGIC-PCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA   66 (74)
T ss_dssp             CCCSCBCSSSCCBCCSSSCEEEE-TTTEEEEHHHHHHHHHHCSBCTTTCCBCSSCC
T ss_pred             CCCCCCCcCCCcccCCCCcEEEc-CCCCEecHHHHHHHHHcCCcCCCcCccccccc
Confidence            34567899999999998888777 89999999999999999999999999986543

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

Probab=99.44  E-value=6.5e-14  Score=109.00  Aligned_cols=56  Identities=30%  Similarity=0.794  Sum_probs=48.9

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSE  390 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~~  390 (392)
                      ...+..|+||++.|..++.+..+ +|+|.||..||.+|++.+..||+||+.+...+.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~-~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   67 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQL-PCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNT   67 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEEC-TTSCEEETTTTHHHHTTTCSCTTTCCCCCCSCS
T ss_pred             CCCCCCCeeCCccccCCCCEEEe-CCCCeecHHHHHHHHHcCCcCcCcCCccCCccc
Confidence            34567899999999988877777 899999999999999999999999999876543

>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=99.44  E-value=1e-13  Score=105.55  Aligned_cols=55  Identities=35%  Similarity=0.822  Sum_probs=47.7

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      ...+..|+||++.|..++.+..+ +|+|.||..||.+|++.+..||+||+.+....
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~-~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRL-PCMHLFHQVCVDQWLITNKKCPICRVDIEAQL   65 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEEC-TTSCEEEHHHHHHHHHHCSBCTTTCSBSCSCC
T ss_pred             CCCCCCCeeCCccccCCCcEEEe-CCCCHHHHHHHHHHHHcCCCCcCcCccccCcC
Confidence            34567899999999888777777 89999999999999999999999999986543

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

Probab=99.41  E-value=1.8e-13  Score=113.67  Aligned_cols=68  Identities=28%  Similarity=0.598  Sum_probs=49.3

Q ss_pred             CHHHHHhhcccceeecccccCCCCccceecccccCCC--------------ceEEcccCCccccHHHHHHHH-----hcC
Q 016260          315 SEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNMD--------------DVGTLKSCGHDYHVTCIKKWL-----SMK  375 (392)
Q Consensus       315 See~I~kll~~~~~~~s~~~~ed~~C~ICLEdf~~ge--------------~v~~LlpCgH~FH~~CI~kWL-----k~k  375 (392)
                      .++.+.+++....      ...+..|+||++.|..+.              .+..+++|+|.||..||.+||     ..+
T Consensus         9 p~~~i~~~~~~~~------~~~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~   82 (114)
T 1v87_A            9 PEQVIRKYTEELK------VAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGS   82 (114)
T ss_dssp             HHHHHHHHEEECS------SCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSC
T ss_pred             hHHHHHHHHHhcc------CCCCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCC
Confidence            4566666543221      224568999999997653              344466999999999999999     446


Q ss_pred             CCCccccccccCC
Q 016260          376 NVCPICKASVMAD  388 (392)
Q Consensus       376 nsCPICR~~l~~~  388 (392)
                      .+||+||+.+...
T Consensus        83 ~~CP~CR~~~~~~   95 (114)
T 1v87_A           83 LQCPSCKTIYGEK   95 (114)
T ss_dssp             CBCTTTCCBSSSC
T ss_pred             CcCCCCCCccCCC
Confidence            7899999987543

>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=99.41  E-value=1.2e-13  Score=100.30  Aligned_cols=51  Identities=31%  Similarity=0.677  Sum_probs=44.1

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      .+..|+||++.+..++...++++|+|.||..||.+|++.+..||+||+.+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            457899999999776655555589999999999999999999999999874

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

Probab=99.37  E-value=1.5e-13  Score=109.07  Aligned_cols=52  Identities=29%  Similarity=0.724  Sum_probs=42.1

Q ss_pred             CCCccceeccccc-----------CCCceEEcccCCccccHHHHHHHHhcCCCCccccccccC
Q 016260          336 EEGNCVICLEEYK-----------NMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA  387 (392)
Q Consensus       336 ed~~C~ICLEdf~-----------~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~  387 (392)
                      ++..|+||++.|.           .++.++++++|+|.||..||.+||+.+++||+||+++..
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            4556777777764           445577776799999999999999999999999998754

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

Probab=99.37  E-value=2.1e-13  Score=103.74  Aligned_cols=57  Identities=23%  Similarity=0.612  Sum_probs=46.7

Q ss_pred             cCCCCccceecccccCC---CceEEcccCCccccHHHHHHHHhcCCCCccccccccCCCC
Q 016260          334 MQEEGNCVICLEEYKNM---DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSE  390 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~g---e~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~~  390 (392)
                      ..++..|+||++.+.++   ....++++|+|.||..||.+|++.+..||+||+.+...+.
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   66 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSC
T ss_pred             CCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhhe
Confidence            34567899999999764   2333445899999999999999999999999999876654

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

Probab=99.34  E-value=4e-13  Score=101.29  Aligned_cols=54  Identities=24%  Similarity=0.661  Sum_probs=44.1

Q ss_pred             cCCCCccceecccccCC---CceEEcccCCccccHHHHHHHHhcCCCCccccccccC
Q 016260          334 MQEEGNCVICLEEYKNM---DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA  387 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~g---e~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~  387 (392)
                      ..+...|+||++.|.++   ....++++|+|.||..||.+|++.+..||+||+.+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            34567899999999864   2233444899999999999999999999999998753

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 4f52_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A

Probab=99.30  E-value=1.4e-12  Score=109.63  Aligned_cols=52  Identities=27%  Similarity=0.687  Sum_probs=43.4

Q ss_pred             CCCCccceecccccCC--------------CceEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          335 QEEGNCVICLEEYKNM--------------DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~g--------------e~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      .++..|+||++.|...              +.+.++++|+|.||..||.+||+.+.+||+||+.+.
T Consensus        35 ~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           35 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            4678899999999864              223455589999999999999999999999999853

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

Probab=99.28  E-value=1.2e-12  Score=97.22  Aligned_cols=54  Identities=24%  Similarity=0.669  Sum_probs=44.2

Q ss_pred             CCCccceecccccCC---CceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          336 EEGNCVICLEEYKNM---DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       336 ed~~C~ICLEdf~~g---e~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      ++..|+||++.+..+   ....++++|+|.||..||.+|++.+..||+||+.+...+
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   58 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   58 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccc
Confidence            357899999999763   223334489999999999999999999999999987654

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

Probab=99.28  E-value=3.2e-12  Score=100.80  Aligned_cols=56  Identities=29%  Similarity=0.598  Sum_probs=46.1

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC---CCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK---NVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k---nsCPICR~~l~~~~  389 (392)
                      ..+...|+||++.|...+...++++|+|.||..||.+|++.+   ..||+||+.+...+
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   70 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS   70 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSS
T ss_pred             ccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchh
Confidence            445678999999999876534445899999999999999876   78999999886554

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

Probab=99.25  E-value=4.6e-12  Score=97.54  Aligned_cols=53  Identities=25%  Similarity=0.505  Sum_probs=44.5

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      ..++..|+||++.+.++   ..+++|+|.||..||.+|++.+..||+||+.+...+
T Consensus        12 ~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   64 (72)
T 2djb_A           12 LTPYILCSICKGYLIDA---TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ   64 (72)
T ss_dssp             CCGGGSCTTTSSCCSSC---EECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSC
T ss_pred             cCCCCCCCCCChHHHCc---CEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCccc
Confidence            34567899999999863   344489999999999999999999999999986654

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

Probab=99.23  E-value=3e-12  Score=98.28  Aligned_cols=50  Identities=22%  Similarity=0.526  Sum_probs=42.5

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA  387 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~  387 (392)
                      ..++..|+||++.+.++   ..+ +|+|.||..||.+|+..+..||+||+.+..
T Consensus        12 ~~~~~~C~IC~~~~~~~---~~~-~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           12 SLTVPECAICLQTCVHP---VSL-PCKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSSCCBCSSSSSBCSSE---EEE-TTTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCCccCCcccCCC---EEc-cCCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            34567899999998754   344 899999999999999999999999998754

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

Probab=99.22  E-value=2.9e-12  Score=97.64  Aligned_cols=51  Identities=29%  Similarity=0.839  Sum_probs=43.7

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      ..++..|+||++.+..    ..+ +|+|.||..||.+|+..+..||+||+.+...+
T Consensus        12 ~~~~~~C~IC~~~~~~----~~~-~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           12 LTDEEECCICMDGRAD----LIL-PCAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCCSSSCCSCCS----EEE-TTTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             CCCCCCCeeCCcCccC----ccc-CCCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            3456789999999886    344 89999999999999999999999999987654

>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=99.21  E-value=6.2e-13  Score=113.90  Aligned_cols=52  Identities=27%  Similarity=0.687  Sum_probs=1.7

Q ss_pred             CCCCccceecccccCC--------------CceEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          335 QEEGNCVICLEEYKNM--------------DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~g--------------e~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      ..++.|+||+++|...              +.+.++++|+|.||..||.+||+.+.+||+||+++.
T Consensus        46 ~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           46 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CCC---------------------------------------------------------------
T ss_pred             CCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            4568899999999752              223344589999999999999999999999999853

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

Probab=99.21  E-value=8.6e-12  Score=99.79  Aligned_cols=54  Identities=22%  Similarity=0.612  Sum_probs=44.5

Q ss_pred             cCCCCccceecccccCCCceEEcccCC-----ccccHHHHHHHHhcC--CCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCG-----HDYHVTCIKKWLSMK--NVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCg-----H~FH~~CI~kWLk~k--nsCPICR~~l~~~~  389 (392)
                      ..++..|.||+++|..++.+ ++ ||.     |.||..||++||..+  .+||+||..+....
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l-~~-pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPL-IT-PCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCE-EC-SSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCCeEcCccccCCCee-Ee-ccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            44567899999999877665 45 896     999999999999875  48999999986543

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

Probab=99.20  E-value=9.2e-12  Score=95.26  Aligned_cols=53  Identities=36%  Similarity=0.702  Sum_probs=43.3

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHh---cCCCCccccccccCCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS---MKNVCPICKASVMADSE  390 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk---~knsCPICR~~l~~~~~  390 (392)
                      ..++..|+||++.+.+   ...+ +|+|.||..||.+|++   .+..||+||+.+..++.
T Consensus        17 ~~~~~~C~IC~~~~~~---~~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~   72 (73)
T 2ysl_A           17 LQEEVICPICLDILQK---PVTI-DCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAI   72 (73)
T ss_dssp             CCCCCBCTTTCSBCSS---EEEC-TTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCCC
T ss_pred             CccCCEeccCCcccCC---eEEc-CCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcccC
Confidence            3456789999999885   3344 8999999999999997   35679999999876654

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

Probab=99.19  E-value=1e-11  Score=93.88  Aligned_cols=49  Identities=35%  Similarity=0.838  Sum_probs=41.5

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA  387 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~  387 (392)
                      .+..|+||++.+.++  +..+ +|+|.||..||.+|++.+..||+||+.+..
T Consensus         4 ~~~~C~IC~~~~~~~--~~~~-~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            4 VAERCPICLEDPSNY--SMAL-PCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCSC--EEET-TTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCeeCCccccCC--cEec-CCCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            457899999998753  3444 899999999999999999999999998753

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

Probab=99.17  E-value=1.5e-11  Score=95.37  Aligned_cols=52  Identities=25%  Similarity=0.637  Sum_probs=42.3

Q ss_pred             cCCCCccceecccccCCCceEEccc-CCccccHHHHHHHHhcC--CCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKS-CGHDYHVTCIKKWLSMK--NVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~Llp-CgH~FH~~CI~kWLk~k--nsCPICR~~l~~~~  389 (392)
                      ..++..|+||++.|.++   ..+ + |+|.||..||.+|++.+  ..||+||+.+...+
T Consensus        12 ~~~~~~C~IC~~~~~~p---~~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2yur_A           12 IPDELLCLICKDIMTDA---VVI-PCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD   66 (74)
T ss_dssp             SCGGGSCSSSCCCCTTC---EEC-SSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTT
T ss_pred             CCCCCCCcCCChHHhCC---eEc-CCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcc
Confidence            34567899999999865   234 7 99999999999999865  68999999865443

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

Probab=99.17  E-value=1.4e-11  Score=96.75  Aligned_cols=48  Identities=21%  Similarity=0.491  Sum_probs=41.4

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      .....|+||++.+.++   .+ ++|+|.||..||.+|++....||+||+.+.
T Consensus        13 ~~~~~C~IC~~~~~~p---~~-~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQNP---VV-TKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCSE---EE-CTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcCe---eE-ccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            4467899999999764   23 489999999999999998899999999875

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

Probab=99.16  E-value=1.5e-11  Score=92.94  Aligned_cols=51  Identities=24%  Similarity=0.568  Sum_probs=42.0

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHh-cCCCCccccccccCCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-MKNVCPICKASVMADS  389 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk-~knsCPICR~~l~~~~  389 (392)
                      .++..|+||++.+.++.    .++|||.||..||.+|+. .+..||+||+.+..++
T Consensus        13 ~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSPK----QTECGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             CCCEECTTTCCEESSCC----CCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             CcCCCCCCCChHhcCee----ECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            45678999999998752    238999999999999995 5678999999987654

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

Probab=99.15  E-value=9e-12  Score=107.63  Aligned_cols=48  Identities=35%  Similarity=0.888  Sum_probs=41.5

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMA  387 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~  387 (392)
                      ++..|+||++.|.++   ..+ +|||.||..||.+|+..+..||+||+.+..
T Consensus        52 ~~~~C~iC~~~~~~~---~~~-~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           52 NELQCIICSEYFIEA---VTL-NCAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HHSBCTTTCSBCSSE---EEE-TTSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             ccCCCcccCcccCCc---eEC-CCCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            456899999999864   344 899999999999999999999999998854

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

Probab=99.14  E-value=2e-11  Score=92.04  Aligned_cols=54  Identities=20%  Similarity=0.495  Sum_probs=43.8

Q ss_pred             CCccceecc-cccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccccccCCCC
Q 016260          337 EGNCVICLE-EYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMADSE  390 (392)
Q Consensus       337 d~~C~ICLE-df~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~~~~  390 (392)
                      +..|+||++ .+..+....++++|||.||..||.+|+.. ...||+||+.+...+.
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   58 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccccc
Confidence            568999999 78877655455589999999999999765 4679999999876543

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

Probab=99.13  E-value=3.5e-11  Score=93.64  Aligned_cols=52  Identities=31%  Similarity=0.645  Sum_probs=43.1

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc------CCCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM------KNVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~------knsCPICR~~l~~~~  389 (392)
                      ..++..|+||++.+..+   ..+ +|+|.||..||.+|+..      ...||+||+.+..++
T Consensus        16 ~~~~~~C~IC~~~~~~p---~~~-~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecw_A           16 IKEEVTCPICLELLKEP---VSA-DCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGN   73 (85)
T ss_dssp             CCTTTSCTTTCSCCSSC---EEC-TTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTC
T ss_pred             CccCCCCcCCChhhCcc---eeC-CCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHh
Confidence            34567899999999865   234 89999999999999987      667999999986554

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

Probab=99.12  E-value=3.6e-11  Score=93.37  Aligned_cols=52  Identities=29%  Similarity=0.553  Sum_probs=43.2

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~~~  389 (392)
                      ..++..|+||++.+.++   ..+ +|||.||..||.+|+.. +..||+||+.+...+
T Consensus         5 ~~~~~~C~IC~~~~~~P---v~~-~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~   57 (78)
T 1t1h_A            5 FPEYFRCPISLELMKDP---VIV-STGQTYERSSIQKWLDAGHKTCPKSQETLLHAG   57 (78)
T ss_dssp             CSSSSSCTTTSCCCSSE---EEE-TTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC
T ss_pred             CcccCCCCCccccccCC---EEc-CCCCeecHHHHHHHHHHCcCCCCCCcCCCChhh
Confidence            34578899999999864   334 89999999999999987 778999999886543

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

Probab=99.11  E-value=4.6e-11  Score=92.97  Aligned_cols=52  Identities=31%  Similarity=0.724  Sum_probs=43.2

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc------CCCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM------KNVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~------knsCPICR~~l~~~~  389 (392)
                      ..++..|+||++.+.++   ..+ +|+|.||..||.+|+..      ...||+||+.+..++
T Consensus        16 ~~~~~~C~IC~~~~~~p---~~~-~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecv_A           16 VKEEVTCPICLELLTQP---LSL-DCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN   73 (85)
T ss_dssp             CCCCCCCTTTCSCCSSC---BCC-SSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSS
T ss_pred             ccCCCCCCCCCcccCCc---eeC-CCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHh
Confidence            34567899999999864   234 89999999999999987      778999999887554

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

Probab=99.11  E-value=2.1e-11  Score=102.11  Aligned_cols=54  Identities=24%  Similarity=0.676  Sum_probs=44.5

Q ss_pred             CCCccceecccccCC---CceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          336 EEGNCVICLEEYKNM---DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       336 ed~~C~ICLEdf~~g---e~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      ++..|+||++.|.++   ....++++|||.||..||.+||+.+..||+||+.+....
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   62 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTC
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccc
Confidence            467899999999864   233344489999999999999999999999999886543

>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=99.09  E-value=2.1e-11  Score=100.02  Aligned_cols=52  Identities=27%  Similarity=0.711  Sum_probs=42.9

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC-CCCccccccccCCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK-NVCPICKASVMADS  389 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k-nsCPICR~~l~~~~  389 (392)
                      .++..|+||++.|..+   ..+++|||.||..||.+|+..+ ..||+||+.+..++
T Consensus        20 ~~~~~C~IC~~~~~~p---~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (100)
T 3lrq_A           20 AEVFRCFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRE   72 (100)
T ss_dssp             HHHTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCccCCccccCc---cccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHH
Confidence            3567899999999853   3425899999999999999987 68999999986543

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

Probab=99.09  E-value=1.7e-11  Score=94.91  Aligned_cols=52  Identities=37%  Similarity=0.650  Sum_probs=42.7

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc-------CCCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-------KNVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-------knsCPICR~~l~~~~  389 (392)
                      ..++..|+||++.|.++   ..+ +|||.||..||.+|+..       ...||+||+.+..++
T Consensus         9 ~~~~~~C~IC~~~~~~p---~~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~   67 (79)
T 2egp_A            9 VQEEVTCPICLELLTEP---LSL-DCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEH   67 (79)
T ss_dssp             CCCCCEETTTTEECSSC---CCC-SSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSG
T ss_pred             cccCCCCcCCCcccCCe---eEC-CCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhh
Confidence            34567899999999865   234 89999999999999986       567999999886543

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

Probab=99.05  E-value=1.2e-10  Score=87.10  Aligned_cols=44  Identities=36%  Similarity=0.781  Sum_probs=36.7

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHh---cCCCCccc
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS---MKNVCPIC  381 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk---~knsCPIC  381 (392)
                      ..++..|+||++.+.++   .++ +|+|.||..||.+|++   .+..||+|
T Consensus        17 ~~~~~~C~IC~~~~~~p---~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQKP---VTI-DCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSSC---EEC-TTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchhCCe---EEe-CCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            34567899999999864   344 8999999999999998   45689998

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

Probab=99.04  E-value=5.4e-11  Score=96.69  Aligned_cols=50  Identities=34%  Similarity=0.743  Sum_probs=42.4

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD  388 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~  388 (392)
                      ++..|+||++.|.++   ..+++|||.||..||.+|+..+..||+||+.+...
T Consensus        21 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   70 (99)
T 2y43_A           21 DLLRCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEP   70 (99)
T ss_dssp             HHTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGG
T ss_pred             CCCCcccCChhhCCc---CEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChh
Confidence            457899999999863   33448999999999999999989999999988643

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

Probab=99.04  E-value=1.3e-10  Score=92.86  Aligned_cols=49  Identities=27%  Similarity=0.670  Sum_probs=40.6

Q ss_pred             cCCCCccceecccccCCCceEEccc-CCccccHHHHHHHHhcC--CCCcccccccc
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKS-CGHDYHVTCIKKWLSMK--NVCPICKASVM  386 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~Llp-CgH~FH~~CI~kWLk~k--nsCPICR~~l~  386 (392)
                      ..++..|+||++.|.++   ..+ + |||.||..||.+|+...  ..||+||+.+.
T Consensus        10 ~~~~~~C~IC~~~~~~p---~~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           10 IPDELLCLICKDIMTDA---VVI-PCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCTTTEETTTTEECSSC---EEC-TTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CCcCCCCCCCChhhcCc---eEC-CCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            44678899999999865   234 7 99999999999999754  58999999873

>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=99.02  E-value=7.9e-11  Score=97.26  Aligned_cols=52  Identities=29%  Similarity=0.668  Sum_probs=43.7

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD  388 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~  388 (392)
                      ..++..|+||++.+.++   ..+++|||.||..||.+|+..+..||+||+.+...
T Consensus        12 ~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           12 LNPHLMCVLCGGYFIDA---TTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             HGGGTBCTTTSSBCSSE---EEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             cCCcCCCccCChHHhCc---CEeCCCCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            34578899999999863   33348999999999999999999999999988653

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

Probab=99.01  E-value=1.7e-10  Score=84.26  Aligned_cols=44  Identities=36%  Similarity=0.982  Sum_probs=36.1

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHh---cCCCCccc
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS---MKNVCPIC  381 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk---~knsCPIC  381 (392)
                      ..++..|+||++.+.++    ++++|+|.||..||.+|+.   .+..||+|
T Consensus        12 ~~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           12 LQVEASCSVCLEYLKEP----VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCCCCBCSSSCCBCSSC----CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cccCCCCccCCcccCcc----EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34567899999999875    2348999999999999954   46789998

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

Probab=99.00  E-value=7.9e-11  Score=98.58  Aligned_cols=55  Identities=24%  Similarity=0.665  Sum_probs=44.9

Q ss_pred             CCCCccceecccccCC---CceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          335 QEEGNCVICLEEYKNM---DDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~g---e~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      .+...|+||++.|...   ....++++|+|.||..||++||+.+++||+||+.+..++
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            4567899999999763   223344489999999999999999999999999987544

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

Probab=99.00  E-value=1.6e-10  Score=95.00  Aligned_cols=49  Identities=35%  Similarity=0.668  Sum_probs=40.8

Q ss_pred             CCccceecccccCCCceEEcccCCccccHHHHHHHHhcCC---CCccccccccCCC
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN---VCPICKASVMADS  389 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn---sCPICR~~l~~~~  389 (392)
                      ...|+||++.+.++    +.++|||.||..||.+|+..+.   .||+||+.+...+
T Consensus        21 ~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (112)
T 1jm7_A           21 ILECPICLELIKEP----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (112)
T ss_dssp             HTSCSSSCCCCSSC----CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             CCCCcccChhhcCe----EECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhh
Confidence            56899999999865    2238999999999999998754   7999999887554

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

Probab=99.00  E-value=1.2e-10  Score=98.40  Aligned_cols=49  Identities=22%  Similarity=0.482  Sum_probs=41.0

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCC-CCccccccccC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN-VCPICKASVMA  387 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn-sCPICR~~l~~  387 (392)
                      .++..|+||++.|.++   ..+ +|||.||..||.+|+..+. .||+||+.+..
T Consensus        50 ~~~~~C~IC~~~~~~p---~~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELVFRP---ITT-VCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBCSSE---EEC-TTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             ccCCCCCcCChHHcCc---EEe-eCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            3457899999999864   334 8999999999999998654 89999999865

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

Probab=98.97  E-value=3.6e-10  Score=89.58  Aligned_cols=51  Identities=22%  Similarity=0.537  Sum_probs=42.0

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC--CCCccccccccCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK--NVCPICKASVMAD  388 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k--nsCPICR~~l~~~  388 (392)
                      .....|.||.+.+..++..   ..|+|.||..||.+||+.+  .+||+||++...+
T Consensus        13 ~~i~~C~IC~~~i~~g~~C---~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~   65 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE   65 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEEC---SSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSC
T ss_pred             CCCCcCcchhhHcccCCcc---CCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCC
Confidence            3457899999999865433   2799999999999999987  7899999987543

>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=98.96  E-value=2.9e-10  Score=100.50  Aligned_cols=49  Identities=35%  Similarity=0.682  Sum_probs=41.0

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccccccC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMA  387 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~  387 (392)
                      ++..|+||++.|.++   ..+++|||.||..||.+|+.. +..||+||..+..
T Consensus        53 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           53 SELMCPICLDMLKNT---MTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHHBCTTTSSBCSSE---EEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCcccChHhhCc---CEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            456899999999863   334489999999999999997 7789999998853

>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=98.93  E-value=3.3e-10  Score=99.90  Aligned_cols=49  Identities=22%  Similarity=0.477  Sum_probs=41.4

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCC-CCccccccccCC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN-VCPICKASVMAD  388 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn-sCPICR~~l~~~  388 (392)
                      +...|+||++.|.++   .++ +|+|.||..||.+|+.... .||+||..+...
T Consensus        77 ~~~~C~IC~~~~~~p---v~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQP---VTT-ECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSSE---EEC-TTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             cCCEeecCChhhcCC---EEc-CCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            457899999999864   234 8999999999999998764 799999998755

>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=98.91  E-value=3.1e-10  Score=95.37  Aligned_cols=51  Identities=24%  Similarity=0.597  Sum_probs=42.4

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCC-CCccccccccCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN-VCPICKASVMAD  388 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn-sCPICR~~l~~~  388 (392)
                      ..++..|+||++.+..+   ..+ +|||.||..||.+|++.+. .||+||+.+...
T Consensus        15 ~~~~~~C~IC~~~~~~p---~~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           15 LESKYECPICLMALREA---VQT-PCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             CCGGGBCTTTCSBCSSE---EEC-TTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCcCChhhcCe---EEC-CcCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            34567899999999865   334 8999999999999998765 899999988653

>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=98.89  E-value=1.6e-10  Score=96.27  Aligned_cols=48  Identities=29%  Similarity=0.608  Sum_probs=40.3

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCcccccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~  386 (392)
                      .++..|+||++.+..+   ..+ +|||.||..||.+|+.. +..||+||+.+.
T Consensus        13 ~~~~~C~iC~~~~~~p---~~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           13 LSECQCGICMEILVEP---VTL-PCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             HHHHBCTTTCSBCSSC---EEC-TTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCCCccCCcccCce---eEc-CCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            3467899999999864   344 89999999999999976 668999999874

>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=98.86  E-value=6.2e-10  Score=92.83  Aligned_cols=50  Identities=24%  Similarity=0.536  Sum_probs=41.7

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccccccCCC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMADS  389 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~~~  389 (392)
                      ++..|+||++.+.++   ..+ +|||.||..||.+|+.. ...||+||+.+...+
T Consensus        22 ~~~~C~IC~~~~~~p---~~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           22 KSISCQICEHILADP---VET-SCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HHTBCTTTCSBCSSE---EEC-TTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCcHhcCc---EEc-CCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            457899999999864   334 89999999999999987 678999999886543

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

Probab=98.85  E-value=1.5e-09  Score=86.22  Aligned_cols=56  Identities=20%  Similarity=0.408  Sum_probs=42.1

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccccccCCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMADS  389 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~~~  389 (392)
                      ..++..|+||++.+...+.....++|||.||..||.+|+.. ...||+||+.+....
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             cccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            34667899999998654433221259999999999999854 567999999886543

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

Probab=98.85  E-value=1.2e-09  Score=87.50  Aligned_cols=50  Identities=10%  Similarity=-0.009  Sum_probs=42.9

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMAD  388 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~  388 (392)
                      .+...|+||++.+.++    ++++|||.|+..||.+|+..+.+||+||..+...
T Consensus        12 p~~~~CpI~~~~m~dP----V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   61 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTDP----VRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTES   61 (85)
T ss_dssp             CTTTBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             chheECcccCchhcCC----eECCCCCEECHHHHHHHHhcCCCCCCCcCCCChH
Confidence            3567899999999975    3348999999999999999888999999987643

>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=98.83  E-value=1.7e-09  Score=89.46  Aligned_cols=51  Identities=10%  Similarity=-0.005  Sum_probs=43.5

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      .+...|+||++.+.++    ++++|||.|+..||.+||..+.+||+||..+..++
T Consensus        27 p~~~~CpI~~~~m~dP----V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~   77 (100)
T 2kre_A           27 PDEFRDPLMDTLMTDP----VRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTESM   77 (100)
T ss_dssp             STTTBCTTTCSBCSSE----EEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTS
T ss_pred             cHhhCCcCccCcccCC----eECCCCCEEchHHHHHHHHcCCCCCCCCCCCChhh
Confidence            3567899999999976    33479999999999999998889999999886544

>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=98.82  E-value=2e-09  Score=88.78  Aligned_cols=51  Identities=12%  Similarity=0.021  Sum_probs=43.6

Q ss_pred             CCCCccceecccccCCCceEEcccCC-ccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCG-HDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCg-H~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      .++..|+||++.+.++    ++++|| |.|+..||.+||..+.+||+||+.+..++
T Consensus        20 p~~~~CpI~~~~m~dP----V~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~   71 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDP----VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQ   71 (98)
T ss_dssp             CTTTBCTTTCSBCSSE----EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTT
T ss_pred             cHhcCCcCccccccCC----eECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhh
Confidence            3567899999999976    334899 99999999999998889999999886543

>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=98.81  E-value=1.6e-09  Score=82.41  Aligned_cols=49  Identities=31%  Similarity=0.514  Sum_probs=40.3

Q ss_pred             CCCccceecccccCCCceEEcccCCcc-ccHHHHHHHHhcCCCCcccccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      ++..|.||++...+.  +...+||||. ||..|+.+|++.+..||+||+.+.
T Consensus         7 ~~~~C~IC~~~~~~~--~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            7 AIEPCVICQGRPKNG--CIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGSCCTTTSSSCSCE--EEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CcCCCCcCCCCCCCE--EEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            467899999987753  3222389999 899999999998899999999874

>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=98.80  E-value=1.3e-09  Score=95.27  Aligned_cols=49  Identities=22%  Similarity=0.480  Sum_probs=41.0

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCC-CCcccccccc
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN-VCPICKASVM  386 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn-sCPICR~~l~  386 (392)
                      ..++..|+||++.+.++   ..+ +|||.||..||.+|+.... .||+||.++.
T Consensus        28 l~~~~~C~IC~~~~~~p---v~~-~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           28 LEAKYLCSACRNVLRRP---FQA-QCGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             CCGGGBCTTTCSBCSSE---EEC-TTSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             CCcCcCCCCCChhhcCc---EEC-CCCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            34567899999999875   234 8999999999999998765 7999999764

>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=98.77  E-value=1.5e-09  Score=91.00  Aligned_cols=49  Identities=18%  Similarity=0.508  Sum_probs=40.5

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      +...|+||++.|.++   ..+.+|||.||..||..|+.  ..||+||..+...+
T Consensus        21 ~~~~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~   69 (117)
T 1jm7_B           21 KLLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQD   69 (117)
T ss_dssp             HTTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSS
T ss_pred             hCCCCCCCChHhhCc---cEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCcccc
Confidence            467899999999875   22328999999999999997  78999999985443

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

Probab=98.75  E-value=2.1e-09  Score=79.41  Aligned_cols=48  Identities=27%  Similarity=0.435  Sum_probs=39.1

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      .+...|+||++.|.++    ++++|+|.||..||.+|   ...||+||+.+..+.
T Consensus         4 ~~~~~C~IC~~~~~~p----~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCP----KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCCSSCSSSCSSCBCC----SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             ccCCCceEeCCccCCe----EEcCCCCcccHHHHccC---CCCCCcCCcEeecCC
Confidence            4567899999999875    33489999999999884   568999999986543

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

Probab=98.74  E-value=3.6e-09  Score=106.85  Aligned_cols=47  Identities=30%  Similarity=0.748  Sum_probs=39.9

Q ss_pred             CCccceecccccCCCceEEcccCCccccHHHHHHHHh-cCCCCccccccccC
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-MKNVCPICKASVMA  387 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk-~knsCPICR~~l~~  387 (392)
                      ...|+||++.+.+   +.. ++|||.||..||.+|+. .+..||+||+.+..
T Consensus       332 ~~~C~ICle~~~~---pv~-lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          332 FQLCKICAENDKD---VKI-EPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG  379 (389)
T ss_dssp             SSBCTTTSSSBCC---EEE-ETTCCEECHHHHHHHHHHTCSBCTTTCCBCCE
T ss_pred             CCCCCccCcCCCC---eEE-eCCCChhhHHHHHHHHhcCCCCCCCCCCccCC
Confidence            4689999999865   333 48999999999999998 67889999998754

>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=98.71  E-value=4.9e-09  Score=79.48  Aligned_cols=49  Identities=20%  Similarity=0.399  Sum_probs=40.2

Q ss_pred             CCCccceecccccCCCceEEcccCCcc-ccHHHHHHHHhcCCCCcccccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      .+..|.||++...+.  +...+||||. ||..|+.+|.+....||+||+.+.
T Consensus         6 ~~~~C~IC~~~~~~~--~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            6 LLKPCSLCEKRPRDG--NIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGSBCTTTSSSBSCE--EEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             cCCCCcccCCcCCCe--EEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            456899999987653  3333489998 999999999988889999999874

>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=98.70  E-value=5.9e-09  Score=97.26  Aligned_cols=50  Identities=14%  Similarity=0.216  Sum_probs=41.3

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC-CCCccccccccCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK-NVCPICKASVMAD  388 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k-nsCPICR~~l~~~  388 (392)
                      .....|+||++.+.++    ++++|||.||..||.+|+... .+||+||..+...
T Consensus       206 ~~~~~c~i~~~~~~dP----v~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~  256 (281)
T 2c2l_A          206 PDYLCGKISFELMREP----CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQE  256 (281)
T ss_dssp             CSTTBCTTTCSBCSSE----EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             CcccCCcCcCCHhcCC----eECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchh
Confidence            4567899999999976    334899999999999999864 4599999988543

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

Probab=98.64  E-value=4.4e-09  Score=81.87  Aligned_cols=43  Identities=28%  Similarity=0.682  Sum_probs=36.2

Q ss_pred             CCCccceecccccCCCceEEcccCCcc-ccHHHHHHHHhcCCCCcccccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      ++..|+||++.+.+   +..+ ||||. ||..|+.+|    ..||+||+.+.
T Consensus        23 ~~~~C~iC~~~~~~---~~~~-pCgH~~~C~~C~~~~----~~CP~Cr~~i~   66 (74)
T 4ic3_A           23 EEKLCKICMDRNIA---IVFV-PCGHLVTCKQCAEAV----DKCPMCYTVIT   66 (74)
T ss_dssp             HHTBCTTTSSSBCC---EEEE-TTCCBCCCHHHHTTC----SBCTTTCCBCS
T ss_pred             cCCCCCCCCCCCCC---EEEc-CCCChhHHHHhhhcC----ccCCCcCcCcc
Confidence            45689999998875   3344 89999 999999999    78999999875

>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=98.60  E-value=1.2e-08  Score=90.47  Aligned_cols=51  Identities=24%  Similarity=0.602  Sum_probs=42.2

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC-CCCccccccccCC
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK-NVCPICKASVMAD  388 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k-nsCPICR~~l~~~  388 (392)
                      ..++..|+||++.+.++   ..+ +|||.||..||.+|+..+ ..||+||..+...
T Consensus        15 ~~~~~~C~IC~~~~~~p---v~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           15 LESKYECPICLMALREA---VQT-PCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             CCGGGBCTTTCSBCSSE---EEC-TTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCChhhcCc---EEC-CCCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            44567899999999875   334 899999999999999875 4899999988653

>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=98.59  E-value=1.3e-08  Score=82.66  Aligned_cols=47  Identities=30%  Similarity=0.553  Sum_probs=37.9

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC------CCCcc--cccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK------NVCPI--CKAS  384 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k------nsCPI--CR~~  384 (392)
                      ..+..|+||++.|.++   +++..|||.|+..||.+||..+      ..||+  |++.
T Consensus         5 ~~~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SSCCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CcEeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            4567899999999975   2332499999999999999764      47999  9865

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

Probab=98.56  E-value=1.2e-08  Score=101.88  Aligned_cols=53  Identities=26%  Similarity=0.624  Sum_probs=40.9

Q ss_pred             CCCCccceecccccCCCc----eEEcccCCccccHHHHHHHHhcC-----------CCCccccccccC
Q 016260          335 QEEGNCVICLEEYKNMDD----VGTLKSCGHDYHVTCIKKWLSMK-----------NVCPICKASVMA  387 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~----v~~LlpCgH~FH~~CI~kWLk~k-----------nsCPICR~~l~~  387 (392)
                      ....+|+||++.+....+    +...++|+|.||..||.+||+..           ..||.||+++..
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            356789999999987332    23334799999999999999752           459999998753

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

Probab=98.45  E-value=6.4e-08  Score=75.19  Aligned_cols=43  Identities=26%  Similarity=0.670  Sum_probs=35.0

Q ss_pred             CCccceecccccCCCceEEcccCCcc-ccHHHHHHHHhcCCCCccccccccC
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVMA  387 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk~knsCPICR~~l~~  387 (392)
                      +..|+||++.+.+.    +++||+|. ||..|+.+    ...||+||+.+..
T Consensus        25 ~~~C~IC~~~~~~~----~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           25 EKLCKICMDRNIAI----VFVPCGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHSCSSSCSSCCCB----CCSSSCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCCcCCCCCCCE----EEecCCCHHHHHHHhhC----CCCCccCCceecC
Confidence            45799999998754    34489999 99999965    3789999998854

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

Probab=98.43  E-value=7.1e-08  Score=88.07  Aligned_cols=50  Identities=16%  Similarity=0.220  Sum_probs=41.3

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC-CCCccccccccCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK-NVCPICKASVMAD  388 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k-nsCPICR~~l~~~  388 (392)
                      .+...|+||++.+.++    ++++|||.|+..||.+||... .+||+|+..+...
T Consensus       104 p~~f~CPI~~elm~DP----V~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~  154 (179)
T 2f42_A          104 PDYLCGKISFELMREP----CITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQD  154 (179)
T ss_dssp             CGGGBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cHhhcccCccccCCCC----eECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChh
Confidence            4567899999999975    334899999999999999874 4699999987543

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=98.42  E-value=1.2e-07  Score=71.85  Aligned_cols=48  Identities=29%  Similarity=0.755  Sum_probs=36.6

Q ss_pred             CCCCccceecccccCCCceEEcccCC--c---cccHHHHHHHHhc--CCCCcccccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCG--H---DYHVTCIKKWLSM--KNVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCg--H---~FH~~CI~kWLk~--knsCPICR~~l~  386 (392)
                      .+...|.||+++..  +.+ ++ ||.  +   .||..||.+||..  +.+||+||..+.
T Consensus         4 ~~~~~CrIC~~~~~--~~l-~~-PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEELG--NER-FR-ACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECS--CCC-CC-SCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCCC--Cce-ec-CcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            34568999999843  333 34 765  4   8999999999975  567999999875

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.39  E-value=1.9e-07  Score=71.92  Aligned_cols=45  Identities=29%  Similarity=0.665  Sum_probs=35.9

Q ss_pred             CCCCccceecccccCCCceEEcccCCcc-ccHHHHHHHHhcCCCCccccccccC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVMA  387 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk~knsCPICR~~l~~  387 (392)
                      .++..|.||++...+   + +++||+|. ||..|+..    ...||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~---~-v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVN---W-VLLPCRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CCSSCCSSSSSSCCC---C-EETTTTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCCCcCcCCCC---E-EEECCCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            346789999998764   3 44599999 99999984    4789999998753

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

Probab=98.37  E-value=1.1e-07  Score=76.61  Aligned_cols=48  Identities=25%  Similarity=0.646  Sum_probs=38.4

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC--------CCCcc--cccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK--------NVCPI--CKAS  384 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k--------nsCPI--CR~~  384 (392)
                      +...|+||++++..++.+ .+.+|+|.||..||.+++..+        ..||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~-~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMT-TIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEE-EETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccce-EcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            356899999999876444 444799999999999999641        35999  9987

>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=98.30  E-value=8.6e-08  Score=75.84  Aligned_cols=43  Identities=33%  Similarity=0.763  Sum_probs=34.9

Q ss_pred             CCCccceecccccCCCceEEcccCCcc-ccHHHHHHHHhcCCCCcccccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      ++..|.||++.+.+   +. ++||||. ||..|+.+|    ..||+||+.+.
T Consensus        17 ~~~~C~IC~~~~~~---~v-~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   60 (79)
T 2yho_A           17 EAMLCMVCCEEEIN---ST-FCPCGHTVCCESCAAQL----QSCPVCRSRVE   60 (79)
T ss_dssp             HHTBCTTTSSSBCC---EE-EETTCBCCBCHHHHTTC----SBCTTTCCBCC
T ss_pred             CCCEeEEeCcccCc---EE-EECCCCHHHHHHHHHhc----CcCCCCCchhh
Confidence            35689999998764   33 4489999 999999887    38999999774

>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=98.28  E-value=1.8e-07  Score=70.88  Aligned_cols=49  Identities=10%  Similarity=0.127  Sum_probs=41.2

Q ss_pred             CccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      ..|+||++.+.++  + ++.+|||.|...||.+||+.+..||++++.+..++
T Consensus         4 ~~CpIs~~~m~dP--V-~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~   52 (61)
T 2bay_A            4 MLCAISGKVPRRP--V-LSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   52 (61)
T ss_dssp             CCCTTTCSCCSSE--E-EETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             EEecCCCCCCCCC--E-EeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhh
Confidence            5799999999975  3 23279999999999999998888999999886544

>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=98.20  E-value=4.2e-07  Score=87.60  Aligned_cols=51  Identities=24%  Similarity=0.437  Sum_probs=40.9

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC--CCCcc--ccccccCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK--NVCPI--CKASVMAD  388 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k--nsCPI--CR~~l~~~  388 (392)
                      ..+..|+||++.|.++  |. .+.|||.||..||.+|+..+  ..||+  |++.+...
T Consensus       179 ~~el~CPIcl~~f~DP--Vt-s~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~  233 (267)
T 3htk_C          179 KIELTCPITCKPYEAP--LI-SRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMR  233 (267)
T ss_dssp             BCCSBCTTTSSBCSSE--EE-ESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGG
T ss_pred             ceeeECcCccCcccCC--ee-eCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchh
Confidence            3567899999999875  33 33799999999999999864  46999  99977543

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.19  E-value=2.2e-07  Score=92.35  Aligned_cols=43  Identities=30%  Similarity=0.754  Sum_probs=36.4

Q ss_pred             CCCccceecccccCCCceEEcccCCcc-ccHHHHHHHHhcCCCCcccccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHD-YHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~-FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      ++..|+||++.+.+   +..+ ||||. ||..|+..|    ..||+||+.+.
T Consensus       294 ~~~~C~IC~~~~~~---~v~l-pCgH~~fC~~C~~~~----~~CP~CR~~i~  337 (345)
T 3t6p_A          294 EERTCKVCMDKEVS---VVFI-PCGHLVVCQECAPSL----RKCPICRGIIK  337 (345)
T ss_dssp             TTCBCTTTSSSBCC---EEEE-TTCCEEECTTTGGGC----SBCTTTCCBCC
T ss_pred             CCCCCCccCCcCCc---eEEc-CCCChhHhHHHHhcC----CcCCCCCCCcc
Confidence            56789999999875   3344 89999 999999988    68999999874

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

Probab=97.81  E-value=1.1e-05  Score=67.29  Aligned_cols=45  Identities=24%  Similarity=0.470  Sum_probs=36.0

Q ss_pred             ccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCcccccccc
Q 016260          339 NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVM  386 (392)
Q Consensus       339 ~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~  386 (392)
                      .|.+|--.+..   -+++.||+|+||.+|+..|.++ .+.||+|+..|.
T Consensus         3 fC~~C~~Pi~i---ygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIKV---YGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCSE---EEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             ecCccCCCeEE---EeeeccccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            48888766664   3345599999999999999865 578999999874

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

Probab=97.37  E-value=7.5e-05  Score=70.61  Aligned_cols=49  Identities=22%  Similarity=0.535  Sum_probs=39.2

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCC--CCccccccccC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN--VCPICKASVMA  387 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn--sCPICR~~l~~  387 (392)
                      ....|.||.+.+..+.   .+..|++.||..|+.+|++.+.  .||.|+.....
T Consensus       179 ~i~~C~iC~~iv~~g~---~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQ---SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             TCCBCTTTCSBCSSCE---ECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CCCcCcchhhHHhCCc---ccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            3568999999988652   2335999999999999998754  79999987543

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=93.00  E-value=0.065  Score=42.92  Aligned_cols=36  Identities=25%  Similarity=0.419  Sum_probs=26.4

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHH-HH
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKK-WL  372 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~k-WL  372 (392)
                      ++..|.||++.+... .+...+.|+|.||..|+.. |.
T Consensus         2 ee~~C~~C~~~~~~~-av~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            2 EKVLCQFCDQDPAQD-AVKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CCCBCTTCCSSSCCB-CCEEETTTTEEECHHHHHHHSC
T ss_pred             CCCCCcCCCCCCCCC-ceEECCcCChHHhHHHCHHHhc
Confidence            357899999875433 2333348999999999998 54

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=92.71  E-value=0.063  Score=41.13  Aligned_cols=48  Identities=21%  Similarity=0.433  Sum_probs=35.0

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCC----CCcccccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN----VCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn----sCPICR~~l~  386 (392)
                      .....|.||.+.    .++...-.|...||..|+...|....    .||.|+....
T Consensus        10 ~~~~~C~vC~~~----~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~~   61 (66)
T 2lri_C           10 APGARCGVCGDG----TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDVT   61 (66)
T ss_dssp             CTTCCCTTTSCC----TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCCC
T ss_pred             CCCCCcCCCCCC----CeEEECCCCCCceecccCCCccCcCCCCCEECccccCCCc
Confidence            345679999743    34545557999999999998886532    3999987653

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=87.08  E-value=0.34  Score=36.21  Aligned_cols=47  Identities=19%  Similarity=0.609  Sum_probs=33.2

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC----CCCcccccc
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK----NVCPICKAS  384 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k----nsCPICR~~  384 (392)
                      ...+..|.||.+.    .++...-.|.-.||..|+..-|...    =.||.|++.
T Consensus         8 ~~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            8 TDHQDYCEVCQQG----GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             SCCCSSCTTTSCC----SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCCccCCCC----CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            3456789999863    3454555788999999998755432    239999765

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=86.38  E-value=0.2  Score=37.36  Aligned_cols=50  Identities=24%  Similarity=0.437  Sum_probs=35.4

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHh-----cCCCCcccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-----MKNVCPICKAS  384 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk-----~knsCPICR~~  384 (392)
                      .+...|+||...+......+..-.|.--||..|+.--..     .+-.||.|+..
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            355679999999875555555557999999999854322     23459999754

>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=86.06  E-value=0.81  Score=37.13  Aligned_cols=36  Identities=14%  Similarity=0.430  Sum_probs=25.2

Q ss_pred             cCCCCccceecccccCCCceEEcccCCccccHHHHHHH
Q 016260          334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKW  371 (392)
Q Consensus       334 ~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kW  371 (392)
                      ...+..|.||- .+...+....- -|+-+||..|+.+-
T Consensus        12 ~~~D~~C~VC~-~~t~~~l~pCR-vC~RvfH~~CL~r~   47 (89)
T 1wil_A           12 VVNDEMCDVCE-VWTAESLFPCR-VCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTTC-CCCSSCCSSCS-SSSSCCCHHHHHHH
T ss_pred             CCCCcccCccc-cccccceeccc-cccccccHhhcccc
Confidence            44678999995 44444333222 48999999999996

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=86.03  E-value=0.23  Score=38.17  Aligned_cols=51  Identities=18%  Similarity=0.324  Sum_probs=35.3

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhc----CCCCccccccccC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM----KNVCPICKASVMA  387 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~----knsCPICR~~l~~  387 (392)
                      +...|.||..... ++.++..-.|.-.||..|+..-+..    .-.||.|+..+..
T Consensus        17 ~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~k   71 (75)
T 2k16_A           17 QIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIKK   71 (75)
T ss_dssp             EEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHCS
T ss_pred             CCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchhh
Confidence            4456999988764 4344445578999999999755432    2349999887643

>1wep_A PHF8; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: g.50.1.2

Probab=82.39  E-value=1.1  Score=34.83  Aligned_cols=49  Identities=20%  Similarity=0.335  Sum_probs=32.6

Q ss_pred             CCccceecccccCCCceEEcccCCccccHHHHHHHHh-----cCCCCcccccccc
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLS-----MKNVCPICKASVM  386 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk-----~knsCPICR~~l~  386 (392)
                      ...| ||...+......+..-.|.--||..|+.--..     ..-.||.|+....
T Consensus        12 ~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~~   65 (79)
T 1wep_A           12 PVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFG   65 (79)
T ss_dssp             CCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSC
T ss_pred             ccEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCcccccC
Confidence            3445 99998864444445557998999999842211     2345999987643

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=81.64  E-value=0.32  Score=36.33  Aligned_cols=48  Identities=21%  Similarity=0.578  Sum_probs=32.4

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC----CCCcccccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK----NVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k----nsCPICR~~l~  386 (392)
                      ..+..|.||.+.   + .+...-.|.-.||..|+..-|...    =.||.|+....
T Consensus         7 ~~~~~C~vC~~~---g-~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~   58 (61)
T 1mm2_A            7 HHMEFCRVCKDG---G-ELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             SSCSSCTTTCCC---S-SCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             CCCCcCCCCCCC---C-CEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCchh
Confidence            456779999852   3 343444688999999998655432    13999977543

---

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	392
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	4e-18
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	6e-13
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	3e-11
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	5e-10
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	7e-10
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	1e-09
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	3e-09
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	1e-08
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	1e-08
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	2e-08
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	2e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-06
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	6e-05
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	3e-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 = 75.3 bits (185), Expect = 4e-18
 Identities = 17/52 (32%), Positives = 29/52 (55%)

Query: 334 MQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
           M +   C +CL E ++ ++   L  CGH +H  C+  WL   + CP+C+ +V
Sbjct: 2   MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 61.1 bits (148), Expect = 6e-13
 Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 3/46 (6%)

Query: 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
           C ICLE+  N         C H +   CI +W+     CP+CK  V
Sbjct: 8   CPICLEDPSNYS---MALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50

>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 = 56.9 bits (137), Expect = 3e-11
 Identities = 15/60 (25%), Positives = 26/60 (43%), Gaps = 7/60 (11%)

Query: 327 IYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK-NVCPICKASV 385
           +YC      +   C IC E  K++     ++ CGH    +C+  W   +   CP C+  +
Sbjct: 15  LYCEMGSTFQL--CKICAENDKDV----KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 68

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.8 bits (126), Expect = 5e-10
 Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 1/47 (2%)

Query: 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNV-CPICKASV 385
           C +C+E  +  D      +CG+     C  +  + +N  CP C+   
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY 49

>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 = 53.2 bits (127), Expect = 7e-10
 Identities = 14/62 (22%), Positives = 20/62 (32%), Gaps = 14/62 (22%)

Query: 336 EEGNCVICLEEYKN--------------MDDVGTLKSCGHDYHVTCIKKWLSMKNVCPIC 381
              NC IC     +               +       C H +H  CI +WL  + VCP+ 
Sbjct: 20  VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLD 79

Query: 382 KA 383
             
Sbjct: 80  NR 81

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.1 bits (124), Expect = 1e-09
 Identities = 9/52 (17%), Positives = 16/52 (30%), Gaps = 2/52 (3%)

Query: 336 EEGNCVICLEEYKNMDDVGTL-KSCGHDYHVTCIKKWLSMK-NVCPICKASV 385
           ++  C  C         +  +   CGH    +C+          CP C   +
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>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 = 50.3 bits (120), Expect = 3e-09
 Identities = 13/46 (28%), Positives = 16/46 (34%), Gaps = 7/46 (15%)

Query: 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASV 385
           C  C  E K       L  C H     C++        CPIC+A  
Sbjct: 9   CQQCQAEAKC----PKLLPCLHTLCSGCLEAS---GMQCPICQAPW 47

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 49.1 bits (116), Expect = 1e-08
 Identities = 13/52 (25%), Positives = 19/52 (36%), Gaps = 3/52 (5%)

Query: 335 QEEGNCVICLEEYKNMDDVG-TLKSCGHDYHVTCIKKWLS--MKNVCPICKA 383
           ++   C IC EE  N             + H +C+  WL+      C IC  
Sbjct: 4   EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 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 = 50.1 bits (119), Expect = 1e-08
 Identities = 18/57 (31%), Positives = 25/57 (43%), Gaps = 7/57 (12%)

Query: 332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN---VCPICKASV 385
           + MQ+   C ICLE  K          C H +   C+ K L+ K     CP+CK  +
Sbjct: 16  NAMQKILECPICLELIKEP----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI 68

>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 = 49.4 bits (117), Expect = 2e-08
 Identities = 11/70 (15%), Positives = 21/70 (30%), Gaps = 5/70 (7%)

Query: 320 SRCLTESIYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCP 379
            R        + D++++   C  C    +       L  C H +   C+   +     CP
Sbjct: 5   GRGAWAHSRAALDRLEKLLRCSRCTNILREPV---CLGGCEHIFCSNCVSDCIGTG--CP 59

Query: 380 ICKASVMADS 389
           +C        
Sbjct: 60  VCYTPAWIQD 69

>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 = 47.3 bits (111), Expect = 2e-07
 Identities = 21/88 (23%), Positives = 29/88 (32%), Gaps = 13/88 (14%)

Query: 309 SVSTGLSEDLISRCLTES--------IYCSADQMQEEGNCVICLEEYKNMDDVGTLKSCG 360
           S S+G  E +I +   E         I C        G   +   +      VG L  C 
Sbjct: 3   SGSSGEPEQVIRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCS 62

Query: 361 HDYHVTCIKKWLSMKNV-----CPICKA 383
           H +H+ C+       N      CP CK 
Sbjct: 63  HAFHLLCLLAMYCNGNKDGSLQCPSCKT 90

>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 = 43.7 bits (103), Expect = 1e-06
 Identities = 13/55 (23%), Positives = 20/55 (36%), Gaps = 5/55 (9%)

Query: 332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWL-SMKNVCPICKASV 385
               +  +C IC     +        SC H +   CI + L  M + CP C+   
Sbjct: 18  AHFVKSISCQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

>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 = 39.7 bits (92), Expect = 6e-05
 Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 9/51 (17%)

Query: 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN--------VCPICK 382
           C +CL EY       T+  C   +   C+K+++ +           CP   
Sbjct: 8   CKLCLGEYPVEQMT-TIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 36.3 bits (83), Expect = 3e-04
 Identities = 4/50 (8%), Positives = 14/50 (28%), Gaps = 3/50 (6%)

Query: 340 CVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS 389
           C I  +                 +  + +++++      PI    +  + 
Sbjct: 3   CAISGK---VPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE 49

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	392
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.61
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.43
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.39
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.34
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.33
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.31
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.22
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.07
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.07
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.06
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.02
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.94
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.88
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.84
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.83
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.62
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.27
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	91.09
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	88.89
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	87.21
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	85.29
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	85.16
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	82.0

>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=99.61  E-value=1e-16  Score=118.26  Aligned_cols=52  Identities=31%  Similarity=0.952  Sum_probs=47.6

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      +++.+|+||+++|..++.+.++++|+|.||..||.+||+.+++||+||+.|+
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            3456799999999999999888789999999999999999999999999875

>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=99.43  E-value=4.7e-14  Score=116.27  Aligned_cols=72  Identities=29%  Similarity=0.582  Sum_probs=52.1

Q ss_pred             CCCCCHHHHHhhcccceeecccccCCCCccceecccccCC--------------CceEEcccCCccccHHHHHHHHhcC-
Q 016260          311 STGLSEDLISRCLTESIYCSADQMQEEGNCVICLEEYKNM--------------DDVGTLKSCGHDYHVTCIKKWLSMK-  375 (392)
Q Consensus       311 ~tGLSee~I~kll~~~~~~~s~~~~ed~~C~ICLEdf~~g--------------e~v~~LlpCgH~FH~~CI~kWLk~k-  375 (392)
                      ..+.+++++.+++....      ...+..|+||++.+...              +.+..+++|+|.||..||.+||+.+ 
T Consensus         5 ss~~pe~v~~~~~e~~~------~~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~   78 (114)
T d1v87a_           5 SSGEPEQVIRKYTEELK------VAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGN   78 (114)
T ss_dssp             SSCCHHHHHHHHEEECS------SCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTC
T ss_pred             CCCCCHHHHHHHHHHhc------ccccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcC
Confidence            45566777777554322      23467899999998542              2345666999999999999999754 


Q ss_pred             ----CCCccccccccCC
Q 016260          376 ----NVCPICKASVMAD  388 (392)
Q Consensus       376 ----nsCPICR~~l~~~  388 (392)
                          .+||+||+.+..+
T Consensus        79 ~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          79 KDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSSCCBCTTTCCBSSSC
T ss_pred             cCCCCccccccchhccC
Confidence                3699999877544

>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=99.39  E-value=4.6e-14  Score=102.45  Aligned_cols=50  Identities=20%  Similarity=0.406  Sum_probs=42.6

Q ss_pred             CccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccccccC
Q 016260          338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMA  387 (392)
Q Consensus       338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~  387 (392)
                      .+|+||+++|..++.+..+++|+|.||..||++|++. ++.||+||+++..
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            3799999999887766566689999999999999986 4569999998864

>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=99.34  E-value=2.2e-13  Score=103.50  Aligned_cols=48  Identities=33%  Similarity=0.806  Sum_probs=41.0

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      ..+.|+||++.+.+.  ++. ++|+|.||..||.+||+.+++||+||+++.
T Consensus         4 ~~d~C~IC~~~~~~~--~~~-~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           4 VAERCPICLEDPSNY--SMA-LPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCCSC--EEE-TTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCccCCcCccCC--cEE-eCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            346799999999753  444 489999999999999999999999999874

>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=99.33  E-value=2.8e-13  Score=102.28  Aligned_cols=54  Identities=17%  Similarity=0.415  Sum_probs=42.8

Q ss_pred             CCCccceecccccC-CCceEEcccCCccccHHHHHHHHhc-CCCCccccccccCCC
Q 016260          336 EEGNCVICLEEYKN-MDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMADS  389 (392)
Q Consensus       336 ed~~C~ICLEdf~~-ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~~~  389 (392)
                      ++..|+||++++.. ++.+..+++|+|.||..||.+||.. +..||+||+.+...+
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            46889999998644 3444445589999999999999965 567999999986554

>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=99.31  E-value=5.6e-13  Score=106.03  Aligned_cols=52  Identities=27%  Similarity=0.645  Sum_probs=42.2

Q ss_pred             CCCCccceecccccCCCc--------------eEEcccCCccccHHHHHHHHhcCCCCcccccccc
Q 016260          335 QEEGNCVICLEEYKNMDD--------------VGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~--------------v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~  386 (392)
                      ..++.|+||++.+.....              ...+++|+|.||..||.+||+.+++||+||++..
T Consensus        19 ~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          19 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            346679999998866331              2345589999999999999999999999999864

>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=99.22  E-value=3.2e-12  Score=99.89  Aligned_cols=48  Identities=29%  Similarity=0.760  Sum_probs=39.7

Q ss_pred             CCccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccccccCC
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMAD  388 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~~  388 (392)
                      ...|+||++.+.+   ++ +++|||.||..||.+||.. ++.||+||+.|...
T Consensus        23 ~~~C~IC~~~~~~---~~-~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~   71 (79)
T d1fbva4          23 FQLCKICAENDKD---VK-IEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT   71 (79)
T ss_dssp             TTBCTTTSSSBCC---EE-CSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCC
T ss_pred             CCCCccCCCcCCC---eE-EeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCC
Confidence            3569999998875   44 4489999999999999975 57799999998653

>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=99.07  E-value=3.5e-11  Score=97.59  Aligned_cols=49  Identities=35%  Similarity=0.661  Sum_probs=40.6

Q ss_pred             CCccceecccccCCCceEEcccCCccccHHHHHHHHhcC---CCCccccccccCCC
Q 016260          337 EGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK---NVCPICKASVMADS  389 (392)
Q Consensus       337 d~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k---nsCPICR~~l~~~~  389 (392)
                      ...|+||++.|.++   ..+ +|||.||..||.+|++.+   ..||+||+.+...+
T Consensus        21 ~l~CpIC~~~~~~p---v~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (103)
T d1jm7a_          21 ILECPICLELIKEP---VST-KCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (103)
T ss_dssp             HTSCSSSCCCCSSC---CBC-TTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             CcCCCccCchhCCe---EEc-CCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhh
Confidence            46799999999875   234 899999999999999764   37999999886554

>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=99.07  E-value=1.9e-11  Score=89.52  Aligned_cols=48  Identities=8%  Similarity=0.107  Sum_probs=41.0

Q ss_pred             ccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          339 NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       339 ~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      .|+||++.++++   ..++.|||.||..||.+||+.++.||+||+++..++
T Consensus         2 ~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~d   49 (56)
T d2baya1           2 LCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   49 (56)
T ss_dssp             CCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             CCccCCchHHhc---CccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHh
Confidence            599999999864   334369999999999999999999999999886554

>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=99.06  E-value=1.3e-11  Score=90.92  Aligned_cols=48  Identities=27%  Similarity=0.472  Sum_probs=39.5

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCCC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADSE  390 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~~  390 (392)
                      +...|+||++.+.++    ++++|||.||..||++|   +..||+||+.+.....
T Consensus         5 ~~l~C~IC~~~~~~p----~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~   52 (56)
T d1bora_           5 QFLRCQQCQAEAKCP----KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGAD   52 (56)
T ss_dssp             CCSSCSSSCSSCBCC----SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCSS
T ss_pred             CCCCCcccCcccCCC----EEecCCCHHhHHHHHcC---CCcCcCCCCcccCCCC
Confidence            346899999999865    34489999999999876   6679999999976554

>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=99.02  E-value=4e-11  Score=95.59  Aligned_cols=50  Identities=24%  Similarity=0.534  Sum_probs=40.7

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC-CCCccccccccCCC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK-NVCPICKASVMADS  389 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k-nsCPICR~~l~~~~  389 (392)
                      +...|+||++.+.++   .++ +|||.||..||.+|++.+ ..||+||.++...+
T Consensus        22 ~~l~C~IC~~~~~~p---v~~-~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~   72 (86)
T d1rmda2          22 KSISCQICEHILADP---VET-SCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (86)
T ss_dssp             HHTBCTTTCSBCSSE---EEC-TTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             cCcCCccCCcchhcc---eec-CCCChhhHHHHHHHHhhCCCcCcccCCCCChhh
Confidence            346799999999864   344 899999999999999754 57999999876543

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.94  E-value=1.8e-10  Score=84.98  Aligned_cols=52  Identities=25%  Similarity=0.506  Sum_probs=38.1

Q ss_pred             CCCCccceecccccCCCceE-EcccCCccccHHHHHHHHhc--CCCCcccccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVG-TLKSCGHDYHVTCIKKWLSM--KNVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~-~LlpCgH~FH~~CI~kWLk~--knsCPICR~~l~  386 (392)
                      ++...|.||++++....... ....|+|.||..||.+|+..  +.+||+||+.+.
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            45678999999987542211 11234699999999999964  557999999864

>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=98.88  E-value=1.6e-10  Score=92.57  Aligned_cols=49  Identities=20%  Similarity=0.554  Sum_probs=39.8

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      +...|+||++.|.++  + .+.+|||.||..||.+|+.  +.||+||..+...+
T Consensus        21 ~~l~C~IC~~~~~~p--v-~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~   69 (97)
T d1jm7b_          21 KLLRCSRCTNILREP--V-CLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQD   69 (97)
T ss_dssp             HTTSCSSSCSCCSSC--B-CCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSS
T ss_pred             hcCCCccCCchhhcC--c-eeCCCCCchhHHHHHHHHh--ccccccCCcCchhh
Confidence            356899999999875  2 3448999999999999985  45999999876544

>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=98.84  E-value=8.7e-10  Score=84.90  Aligned_cols=51  Identities=29%  Similarity=0.542  Sum_probs=42.5

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC-CCCccccccccCCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK-NVCPICKASVMADS  389 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k-nsCPICR~~l~~~~  389 (392)
                      .++..|+||++.+.++   +++ +|||.||..||.+|+..+ ..||+|+..+...+
T Consensus         6 P~~l~CpIc~~~m~dP---V~~-~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~   57 (78)
T d1t1ha_           6 PEYFRCPISLELMKDP---VIV-STGQTYERSSIQKWLDAGHKTCPKSQETLLHAG   57 (78)
T ss_dssp             SSSSSCTTTSCCCSSE---EEE-TTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC
T ss_pred             CccCCCcCcCchhhCc---eEc-cCCCcchHHHHHHHHHHCCCCCCcccccCCccc
Confidence            3578899999999875   344 899999999999999875 56999999886544

>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=98.83  E-value=6.9e-10  Score=85.99  Aligned_cols=50  Identities=14%  Similarity=0.220  Sum_probs=41.5

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhc-CCCCccccccccCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSM-KNVCPICKASVMAD  388 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~-knsCPICR~~l~~~  388 (392)
                      -++..|+||++.+.++    ++++|||.|+..||.+||.. +..||+||..+...
T Consensus         5 P~~l~CpIc~~l~~dP----v~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~   55 (80)
T d2c2la2           5 PDYLCGKISFELMREP----CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQE   55 (80)
T ss_dssp             CSTTBCTTTCSBCSSE----EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             CccccCcCcCchhhhh----cccCCcCeecHHHHHHHHhcCCccCCCcccccccc
Confidence            3567899999999976    23489999999999999975 56799999987543

>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=98.62  E-value=1.1e-08  Score=82.51  Aligned_cols=51  Identities=14%  Similarity=0.028  Sum_probs=42.4

Q ss_pred             CCCCccceecccccCCCceEEcccCC-ccccHHHHHHHHhcCCCCccccccccCCC
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCG-HDYHVTCIKKWLSMKNVCPICKASVMADS  389 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCg-H~FH~~CI~kWLk~knsCPICR~~l~~~~  389 (392)
                      -++..|+||++.+.++   +++ +|+ |.|+..||.+||+.+..||+|++.+..++
T Consensus        20 P~~f~CPI~~~lm~dP---V~~-~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~   71 (98)
T d1wgma_          20 CDEFLDPIMSTLMCDP---VVL-PSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQ   71 (98)
T ss_dssp             CTTTBCTTTCSBCSSE---EEC-TTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTT
T ss_pred             cHHhCCcCchhHHHHH---Hhc-ccccchhhHHHHHHHHHhcCCcccccccccchh
Confidence            3468899999999975   344 565 58999999999999999999999987654

>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=98.27  E-value=9.5e-08  Score=75.20  Aligned_cols=47  Identities=23%  Similarity=0.587  Sum_probs=35.9

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC----C----CCccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK----N----VCPICKA  383 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k----n----sCPICR~  383 (392)
                      ....|+||++++...+.+ .+++|+|.||..||++|++.+    .    .||.|+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~-~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMT-TIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEE-EETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCcCccCCCcccCCceE-EECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            356899999999765444 455899999999999999632    1    4998643

>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=91.09  E-value=0.018  Score=41.40  Aligned_cols=51  Identities=24%  Similarity=0.400  Sum_probs=36.9

Q ss_pred             CCCccceecccccCCCceEEcccCCccccHHHHHHHH---h--cCCCCcccccccc
Q 016260          336 EEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWL---S--MKNVCPICKASVM  386 (392)
Q Consensus       336 ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWL---k--~knsCPICR~~l~  386 (392)
                      ....|.||.+.+..++.++..-.|+..||..|+..=.   .  .+-.||.|+..-.
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~~~   60 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKSG   60 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTTC
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCcCC
Confidence            4568999999887776666666899999999985321   1  1235999976543

>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=88.89  E-value=0.07  Score=36.49  Aligned_cols=44  Identities=23%  Similarity=0.667  Sum_probs=31.4

Q ss_pred             ccceecccccCCCceEEcccCCccccHHHHHHHHhcCC----CCccccc
Q 016260          339 NCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN----VCPICKA  383 (392)
Q Consensus       339 ~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn----sCPICR~  383 (392)
                      .|.||...-.. +.+...-.|...||..|+..-+....    .||.||.
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            58899765443 34445557999999999988765422    3999975

>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=87.21  E-value=0.5  Score=35.00  Aligned_cols=50  Identities=18%  Similarity=0.272  Sum_probs=33.7

Q ss_pred             CccceecccccCCCceEEcccCCccccHHHHH--HHH-hc--CCCCccccccccC
Q 016260          338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIK--KWL-SM--KNVCPICKASVMA  387 (392)
Q Consensus       338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~--kWL-k~--knsCPICR~~l~~  387 (392)
                      ..|.||...+...+..+..-.|.--||..|+.  ... ..  +-.||.|+....+
T Consensus        12 pv~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~gp   66 (79)
T d1wepa_          12 PVYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFGP   66 (79)
T ss_dssp             CCCSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSCS
T ss_pred             CeEeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCcCC
Confidence            45559998876655555555799999999984  222 11  2459999876544

>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=85.29  E-value=0.18  Score=36.82  Aligned_cols=45  Identities=20%  Similarity=0.434  Sum_probs=30.2

Q ss_pred             CccceecccccCCCceEEcccCCccccHHHHHHHHhcCC----CCcccccccc
Q 016260          338 GNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMKN----VCPICKASVM  386 (392)
Q Consensus       338 ~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~kn----sCPICR~~l~  386 (392)
                      ..|.||.+   .+ .+...-.|...||..|+...|....    .||.|+....
T Consensus         8 ~~C~~C~~---~~-~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   56 (70)
T d1fp0a1           8 TICRVCQK---PG-DLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   56 (70)
T ss_dssp             SCCSSSCS---SS-CCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCCCCC---cC-EEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCc
Confidence            44666653   33 4445557999999999998775432    3999976543

>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=85.16  E-value=0.24  Score=38.10  Aligned_cols=38  Identities=16%  Similarity=0.485  Sum_probs=28.5

Q ss_pred             cccCCCCccceecccccCCCceEEcccCCccccHHHHHHH
Q 016260          332 DQMQEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKW  371 (392)
Q Consensus       332 ~~~~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kW  371 (392)
                      ++...+..|.|| +.|...+..... -|+-+||..|+.+-
T Consensus        10 e~v~~D~mC~vC-~v~t~~~l~pCR-vCtRv~H~~CL~r~   47 (89)
T d1wila_          10 EPVVNDEMCDVC-EVWTAESLFPCR-VCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCCSCCCTTT-CCCCSSCCSSCS-SSSSCCCHHHHHHH
T ss_pred             cCCCcCcccccc-Ccccccceecce-eecchhhHHHHHHh
Confidence            345568899999 777766544333 48999999999987

>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=82.00  E-value=0.13  Score=36.49  Aligned_cols=48  Identities=21%  Similarity=0.578  Sum_probs=32.2

Q ss_pred             CCCCccceecccccCCCceEEcccCCccccHHHHHHHHhcC----CCCcccccccc
Q 016260          335 QEEGNCVICLEEYKNMDDVGTLKSCGHDYHVTCIKKWLSMK----NVCPICKASVM  386 (392)
Q Consensus       335 ~ed~~C~ICLEdf~~ge~v~~LlpCgH~FH~~CI~kWLk~k----nsCPICR~~l~  386 (392)
                      ..+..|.||.+.   + ++...-.|.-.||..||...+...    -.||.|+....
T Consensus         7 ~~~~~C~~C~~~---g-~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~~   58 (61)
T d1mm2a_           7 HHMEFCRVCKDG---G-ELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             SSCSSCTTTCCC---S-SCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             CCcCCCcCCCCC---C-eEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCccc
Confidence            344579999742   3 344444788999999997666432    23999976543