Citrus Sinensis ID: 043080

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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-------400-------410-------420-------430-------440-------450-------46
Protein Sequence
MEAEEHEIELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICHLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQVGYNLFGSPTNKEVDILGKSLDSPSQQQIKLYSESRFSGEGKSSPCMKSLEMTAESGDDAMLKLVTSSECSEATANSTAQECGLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERFSDLYAERKEALLKQTSGATQARHRKNRSASFPKLVYASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQPTSLSDLINRINSDMSDDEGSDATENRDGVARTGDLSGDVPEDPENDTNDLEDASSCFLPVDASLDPQDDSDERSSDFP
Secondary Structure (PSIPRED)
cccHHHHHcHHHHHccccccccHHHHHHcccccccccccccHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHcHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccHHHHHcccccEEccccccccHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHcccccccccccccccccccccccccEEccccccccccccccccEEEEcccccccccccHHHHHHccccccccccccccccccEEEcccccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccHHcccHHHHHHHccccEcccccHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHcccccccccccccccccccEEcccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccHHHHHHHccccccccHccccccccHHHcccHHHHHHHccccccccccHHHHHHHHHHcccccccccHccccccccccHcHHHHHHHHHHcHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccEEcccccHHcccccHHHHcccccccccccccccccccEEEEccccHHHHHHHHcccHccccccccccccccccccccccccccccccccccccHHHHcccEEEccccccccccccccccccc
Coil and Loop (DISEMBL)
MEAEEHEIEladkeafsdefkccvclellykpvvlacghISCFWCVYNamnswhesncpvcrnpynhfpsICHLLHFLLKKLYPLTYEKRERQVAEEEKqlghfspqvgynlfgsptnkevdilgksldspsqQQIKLysesrfsgegksspcmkslemtaesgdDAMLKLVTSsecseataNSTAQECglvgndlehkaenwvsvdDLSCAACkkmlfkpvvlncghvfcelclfvpedgnfkcpncqslqpyglpsVCLIIEHFLEERFSDLYAERKEALLKQTsgatqarhrknrsasfpKLVYASLwlgngpkihfgvgcdycgmspiigerykckdcvesigfdlceachnnpakvpgrfnqqhkpehkfeimqptslsdlinrinsdmsddegsdatenrdgvartgdlsgdvpedpendtndledasscflpvdasldpqddsderssdfp
Flexible Loop (DISEMBL)
meaeeheieladkeafsdEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICHLLHFLLKKLYPLTYEKRERQVAEEekqlghfspqvgYNLFGSPTNKEVDILGKSLDSPSQQQIKLysesrfsgegksspCMKSLEMTAESGDDAMLKLVTSSECSEATANSTAQECGLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERFSDLYAERKEALLkqtsgatqarhrknrsasfPKLVYASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQPTSLSDLINRINSDmsddegsdatenrdgvartgdlsgdvpedPENDTNDLEDASSCFLpvdasldpqddsderssdfp
Low Complexity Region (SEG)
MEAEEHEIELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSIChllhfllkklYPLTYEKRERQVAEEEKQLGHFSPQVGYNLFGSPTNKEVDILGKSLDSPSQQQIKLYSESRFSGEGKSSPCMKSLEMTAESGDDAMLKLVTSSECSEATANSTAQECGLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERFSDLYAERKEALLKQTSGATQARHRKNRSASFPKLVYASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQPTSLSDLINRINSDMSDDEGSDATENRDGVARTGDLSGDVPEDPENDTNDLEDASSCFLPVDASLDPQDDSDERSSDFP
Disordered region (IsUnstruct)
**************AFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICHLLHFLLKKLYPLTYEK**************F**QVGYNLFG*************************************************************************ECGLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERFSDLYAER***********************FPKLVYASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNN*****************************************************************************************************
Disordered Region (DISOPRED)
*****************DEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICHLLHFLLKKLYPLT*****************FSPQVGYNLFGSPTNKEVDILGKSLDSPSQQQIKLYSESRFSGEGKSSPCMKSLEMTAESGDDAMLKLV*********ANSTAQECGLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERFSD*********************************YASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPA**********KPEHKFEIMQPTSLSDL********************DGVARTGDLSGDV***************************************
Disordered Region (DISEMBL)
**********ADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICHLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQVGYNLFGSPTNKEVDILGKSLDSPSQQQIKLYSE***********CMKSLEMTAESGDDAMLKLVTS************QECGLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERFSDLYAERKEALLKQ*************SASFPKLVYASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQPTSLSDLINRINSDM***************ARTGDLSGDVPEDPENDTNDLEDASSCFLPVDASLD*************
Disordered Region (DISPRO)
*************EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICHLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQVGYNLFGSPTNK****L*****************************************************************************NWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERFSDLYAERKEALLKQT******************LVYASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQPTSLSDLINRINS************************************************DA****************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEAEEHEIELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICHLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQVGYNLFGSPTNKEVDILGKSLDSPSQQQIKLYSESRFSGEGKSSPCMKSLEMTAESGDDAMLKLVTSSECSEATANSTAQECGLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERFSDLYAERKEALLKQTSGATQARHRKNRSASFPKLVYASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQPTSLSDLINRINSDMSDDEGSDATENRDGVARTGDLSGDVPEDPENDTNDLEDASSCFLPVDASLDPQDDSDERSSDFP
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	458	2.2.26 [Sep-21-2011]
Q8LBL5	410	E3 ubiquitin-protein liga	yes	no	0.816	0.912	0.416	9e-81
Q9D4H7	753	LON peptidase N-terminal	yes	no	0.168	0.102	0.386	2e-05
B8B5U8	321	Probable E3 ubiquitin-pro	N/A	no	0.211	0.302	0.315	6e-05
Q7XI73	321	Probable E3 ubiquitin-pro	no	no	0.211	0.302	0.315	6e-05
O60106	486	LON peptidase N-terminal	yes	no	0.150	0.141	0.353	6e-05
Q9NZS9	450	Bifunctional apoptosis re	yes	no	0.165	0.168	0.341	7e-05
O95714	4834	E3 ubiquitin-protein liga	no	no	0.106	0.010	0.446	0.0001
Q8R079	450	Bifunctional apoptosis re	no	no	0.172	0.175	0.325	0.0001
Q17RB8	773	LON peptidase N-terminal	no	no	0.192	0.113	0.273	0.0001
Q1L5Z9	754	LON peptidase N-terminal	no	no	0.192	0.116	0.273	0.0001

>sp|Q8LBL5|PRT1_ARATH E3 ubiquitin-protein ligase PRT1 OS=Arabidopsis thaliana GN=PRT1 PE=2 SV=2

 Score =  301 bits (770), Expect = 9e-81,   Method: Compositional matrix adjust.
 Identities = 170/408 (41%), Positives = 237/408 (58%), Gaps = 34/408 (8%)

Query: 11  ADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPS 70
           + +E   D+F CCVCLELLYKP+VL+CGH+SCFWCV+ +MN + ES+CP+CR+PY HFPS
Sbjct: 15  SQEEEIPDQFLCCVCLELLYKPIVLSCGHLSCFWCVHKSMNGFRESHCPICRDPYVHFPS 74

Query: 71  ICHLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQVGYNLFGSPTNKEVDILGKSLDS 130
           +C  L+FLLKK+YPL ++KRE QV +EE++   FSPQ+   L  S  +      G SL+ 
Sbjct: 75  VCQKLYFLLKKMYPLAHKKREEQVLKEEQERECFSPQIDLVLDLSVCS------GDSLNV 128

Query: 131 PSQQQIKLYSESRFSGEGKSSPCMKSLEMTAESGDDAMLKLVTSSECSEATANSTAQECG 190
             +Q+++           + S     L  ++  GD   +    + E ++A A +  +   
Sbjct: 129 SDKQKVE-----------ECSNAANLLSSSSSRGDIPCIP--KNQEPTDAKALNVHENEL 175

Query: 191 LVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCL--FVPEDGNFKCPNC 248
           L  N    K    +S DDL C+ACK++L +PVVLNCGHV+CE C+     E    KC  C
Sbjct: 176 LKDN----KVSKQISKDDLLCSACKELLVRPVVLNCGHVYCEGCVVDMAEESEKIKCQEC 231

Query: 249 QSLQPYGLPSVCLIIEHFLEERFSDLYAER----KEALLKQTSGATQARHRKNRSASFPK 304
               P G P VCLI+E  LEE F + Y  R    ++ L   + G  Q+  ++  S S   
Sbjct: 232 NVCDPRGFPKVCLILEQLLEENFPEEYNSRSSKVQKTLAHNSKGNIQSYLKEGPSLSNDN 291

Query: 305 LVYASLWLGN-GPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPG 363
                 WL N G  +HFG GCD CG+ PIIG+RY+CKDC E IG+DLC+ C+  P+KVPG
Sbjct: 292 -NNDDPWLANPGSNVHFGAGCDSCGVYPIIGDRYRCKDCKEEIGYDLCKDCYETPSKVPG 350

Query: 364 RFNQQHKPEHKFEIMQPTSLSDLINRIN---SDMSDDEGSDATENRDG 408
           RFNQQH P+H+ E+ +   +    N I      +  +EG D  E  +G
Sbjct: 351 RFNQQHTPDHRLELARSPQVLINFNSIGILLGPVISNEGMDTDEGEEG 398

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. Functions in the N-end rule pathway of protein degradation, where it specifically recognizes and ubiquitinates proteins with a N-terminal bulky aromatic amino acid. Does not act on aliphatic hydrophobic and basic N-terminal residues containing proteins.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9D4H7|LONF3_MOUSE LON peptidase N-terminal domain and RING finger protein 3 OS=Mus musculus GN=Lonrf3 PE=2 SV=1

 Score = 50.8 bits (120), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 34/88 (38%), Positives = 43/88 (48%), Gaps = 11/88 (12%)

Query: 206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPS------V 259
             DL C+ C ++ ++PV   CGH FC  CL    D N KCP C+ +    LPS      V
Sbjct: 456 ASDLECSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDVLLQCLPSRKYSKNV 515

Query: 260 CL--IIEHFLEERFSD---LYAERKEAL 282
            L  +I  FL E F +   LY E  E L
Sbjct: 516 ILEELIATFLPEEFKERKRLYEEEMEEL 543

Mus musculus (taxid: 10090)

>sp|B8B5U8|BAHL2_ORYSI Probable E3 ubiquitin-protein ligase BAH1-like 1 OS=Oryza sativa subsp. indica GN=OsI_27296 PE=3 SV=1

 Score = 49.3 bits (116), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 35/111 (31%), Positives = 52/111 (46%), Gaps = 14/111 (12%)

Query: 10  LADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAM---------NSWHESNCPV 60
           L D         C +CL+ ++ PV L+CGHI C+ C  +A          ++  +S CP+
Sbjct: 205 LFDSMRVDISLTCSICLDTVFDPVALSCGHIYCYLCSCSAASVTIVDGLKSAERKSKCPL 264

Query: 61  CRNPYNHFPSICHL--LHFLLKKLYPLTYEKRERQVAEEEKQLG--HFSPQ 107
           CR     FP+  HL  L+ LL    P  +EKR +    E  +L   H+  Q
Sbjct: 265 CRQA-GVFPNAVHLDELNMLLSYSCPEYWEKRIQMERVERVRLAKEHWESQ 314

Oryza sativa subsp. indica (taxid: 39946)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q7XI73|BAHL2_ORYSJ Probable E3 ubiquitin-protein ligase BAH1-like 2 OS=Oryza sativa subsp. japonica GN=Os07g0673200 PE=2 SV=1

 Score = 49.3 bits (116), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 35/111 (31%), Positives = 52/111 (46%), Gaps = 14/111 (12%)

Query: 10  LADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAM---------NSWHESNCPV 60
           L D         C +CL+ ++ PV L+CGHI C+ C  +A          ++  +S CP+
Sbjct: 205 LFDSMRVDISLTCSICLDTVFDPVALSCGHIYCYLCSCSAASVTIVDGLKSAERKSKCPL 264

Query: 61  CRNPYNHFPSICHL--LHFLLKKLYPLTYEKRERQVAEEEKQLG--HFSPQ 107
           CR     FP+  HL  L+ LL    P  +EKR +    E  +L   H+  Q
Sbjct: 265 CRQA-GVFPNAVHLDELNMLLSYSCPEYWEKRIQMERVERVRLAKEHWESQ 314

Oryza sativa subsp. japonica (taxid: 39947)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|O60106|YOXA_SCHPO LON peptidase N-terminal domain and RING finger protein C14F5.10c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPBC14F5.10c PE=4 SV=1

 Score = 49.3 bits (116), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 29/82 (35%), Positives = 44/82 (53%), Gaps = 13/82 (15%)

Query: 208 DLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEH-- 265
           +L C  C  ML+ PVV  CGH FC  CL      + +CP C+    +GLPS  +++EH  
Sbjct: 166 ELECQICFGMLYDPVVSPCGHTFCGPCLMQALTQSPQCPTCR----FGLPSP-VVLEHAK 220

Query: 266 ------FLEERFSDLYAERKEA 281
                 FL + + D + ER+++
Sbjct: 221 SHSITTFLRDFYPDNWLERQKS 242

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

>sp|Q9NZS9|BFAR_HUMAN Bifunctional apoptosis regulator OS=Homo sapiens GN=BFAR PE=1 SV=1

 Score = 48.9 bits (115), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 27/79 (34%), Positives = 39/79 (49%), Gaps = 3/79 (3%)

Query: 204 VSVDDLSCAACKKMLFKPVVLNCGHVFCE--LCLFVPEDGNFKCPNCQSLQPYGLPSVCL 261
           +SV + SC  C  +L  P  LNCGH FC   L L+       +CP C+  +  G P V +
Sbjct: 27  ISVSEFSCHCCYDILVNPTTLNCGHSFCRHCLALWWASSKKTECPECRE-KWEGFPKVSI 85

Query: 262 IIEHFLEERFSDLYAERKE 280
           ++   +E+ F D    R E
Sbjct: 86  LLRDAIEKLFPDAIRLRFE 104

Apoptosis regulator. Has anti-apoptotic activity, both for apoptosis triggered via death-receptors and via mitochondrial factors.

Homo sapiens (taxid: 9606)

>sp|O95714|HERC2_HUMAN E3 ubiquitin-protein ligase HERC2 OS=Homo sapiens GN=HERC2 PE=1 SV=2

 Score = 48.5 bits (114), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 25/56 (44%), Positives = 31/56 (55%), Gaps = 7/56 (12%)

Query: 316  PKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEAC----HNNPAKVPGRFNQ 367
            P IH GV CD C M PI G R+KC++C +   FD CE C     +N     GR N+
Sbjct: 2700 PSIHPGVTCDGCQMFPINGSRFKCRNCDD---FDFCETCFKTKKHNTRHTFGRINE 2752

E3 ubiquitin-protein ligase that regulates ubiquitin-dependent retention of repair proteins on damaged chromosomes. Recruited to sites of DNA damage in response to ionizing radiation (IR) and facilitates the assembly of UBE2N and RNF8 promoting DNA damage-induced formation of 'Lys-63'-linked ubiquitin chains. Acts as a mediator of binding specificity between UBE2N and RNF8. Involved in the maintenance of RNF168 levels. E3 ubiquitin-protein ligase that promotes the ubiquitination and proteasomal degradation of XPA which influences the circadian oscillation of DNA excision repair activity.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8R079|BFAR_MOUSE Bifunctional apoptosis regulator OS=Mus musculus GN=Bfar PE=1 SV=1

 Score = 48.5 bits (114), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 27/83 (32%), Positives = 40/83 (48%)

Query: 2  EAEEHEIELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVC 61
          + EEH +  +  +    EF C  C + L  P  L CGH  C  C+     S  ++ CP C
Sbjct: 14 QEEEHPVRSSGPQISVSEFSCHCCYDTLVNPTTLNCGHSFCRHCLALWWMSSKKTECPEC 73

Query: 62 RNPYNHFPSICHLLHFLLKKLYP 84
          R  +  FP +  LL   ++KL+P
Sbjct: 74 REKWEGFPKVNILLRDAIEKLFP 96

Apoptosis regulator. Has anti-apoptotic activity, both for apoptosis triggered via death-receptors and via mitochondrial factors.

Mus musculus (taxid: 10090)

>sp|Q17RB8|LONF1_HUMAN LON peptidase N-terminal domain and RING finger protein 1 OS=Homo sapiens GN=LONRF1 PE=2 SV=2

 Score = 48.1 bits (113), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 26/95 (27%), Positives = 46/95 (48%), Gaps = 7/95 (7%)

Query: 19  EFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPS-----ICH 73
           +F+C +C+ L ++PV   CGH  C  C+   ++  H   CP+C+     + +     +  
Sbjct: 476 DFECSLCMRLFFEPVTTPCGHSFCKNCLERCLD--HAPYCPLCKESLKEYLADRRYCVTQ 533

Query: 74  LLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQV 108
           LL  L+ K  P    +R++   EE  +L H +  V
Sbjct: 534 LLEELIVKYLPDELSERKKIYDEETAELSHLTKNV 568

Homo sapiens (taxid: 9606)

>sp|Q1L5Z9|LONF2_HUMAN LON peptidase N-terminal domain and RING finger protein 2 OS=Homo sapiens GN=LONRF2 PE=2 SV=3

 Score = 48.1 bits (113), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 26/95 (27%), Positives = 47/95 (49%), Gaps = 7/95 (7%)

Query: 19  EFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPS-----ICH 73
           +F+C +C+ LL++PV   CGH  C  C+   ++  H  +CP+C++  +   +     I  
Sbjct: 446 DFECALCMRLLFEPVTTPCGHTFCLKCLERCLD--HAPHCPLCKDKLSELLASRNFNITV 503

Query: 74  LLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQV 108
           L   L+ +  P     R+R   EE  +L + +  V
Sbjct: 504 LAEELIFRYLPDELSDRKRIYDEEMSELSNLTRDV 538

Homo sapiens (taxid: 9606)

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	458
224072665	469	predicted protein [Populus trichocarpa]	0.930	0.908	0.496	1e-111
255554142	424	conserved hypothetical protein [Ricinus	0.783	0.846	0.512	1e-105
225465447	470	PREDICTED: E3 ubiquitin-protein ligase P	0.855	0.834	0.430	2e-89
297744343	451	unnamed protein product [Vitis vinifera]	0.810	0.822	0.430	6e-84
356566399	421	PREDICTED: E3 ubiquitin-protein ligase P	0.877	0.954	0.423	1e-83
118486134	469	unknown [Populus trichocarpa]	0.868	0.848	0.413	2e-82
255560167	399	conserved hypothetical protein [Ricinus	0.770	0.884	0.416	2e-82
224065338	382	predicted protein [Populus trichocarpa]	0.768	0.921	0.45	2e-80
356524509	394	PREDICTED: E3 ubiquitin-protein ligase P	0.834	0.969	0.396	2e-80
297831360	417	hypothetical protein ARALYDRAFT_479998 [	0.810	0.889	0.408	1e-79

>gi|224072665|ref|XP_002303829.1| predicted protein [Populus trichocarpa] gi|222841261|gb|EEE78808.1| predicted protein [Populus trichocarpa]

 Score =  409 bits (1051), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 221/445 (49%), Positives = 292/445 (65%), Gaps = 19/445 (4%)

Query: 7   EIELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN 66
           E  + ++E F DEF+C VCL+LLYKPVVL CGH+SCFWCV+ +MN   ES+CP+CR+ +N
Sbjct: 38  EDNVREEEDFLDEFQCSVCLDLLYKPVVLGCGHLSCFWCVFYSMNGLRESHCPICRHQFN 97

Query: 67  HFPSICHLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQVGYNLFGSPTNKEVDILGK 126
           HFPS+C LLHFLL K+YP+ Y++RER+V EEEK+ G FSPQ  ++ FGS + +E+D    
Sbjct: 98  HFPSVCQLLHFLLMKMYPIAYKRREREVGEEEKKGGRFSPQFVHHPFGSHSGEELDFPSY 157

Query: 127 SLDSPSQQQIKLYSESRFSGEGKSSPCMKSLEMTAESGDDAMLKLVTSSECSEATANSTA 186
           S   P   Q KL    +                 A   ++  +   T S  S+ T N+  
Sbjct: 158 SQHFPIHPQNKLCYFPK---------------AIAHREENMKIVPSTLSSRSDGTTNAAI 202

Query: 187 QECGLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCP 246
           + C L+G +  H  +   SV DL CA CKK+LF+PVVLNCGHV+CE C+  P  G  +C 
Sbjct: 203 ENCNLIGTEFGHGIKTQASVADLLCAECKKLLFQPVVLNCGHVYCESCIASPMQGIPRCQ 262

Query: 247 NCQSLQPYGLPSVCLIIEHFLEERFSDLYAERKEALLKQT--SGATQARHRKNRSASFPK 304
            CQSL P G+PSVCL++EHFLEE+FS++YAER+EA  KQT  S + Q +    +S+S P 
Sbjct: 263 ICQSLHPNGIPSVCLVLEHFLEEQFSEIYAERREAFAKQTDCSSSAQTQQLATQSSSVPA 322

Query: 305 LVYASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGR 364
            VY+S   GNGPK+H  VGCD CGM PIIGERYKCKDC E IGFD+CE+C+NNP++V GR
Sbjct: 323 KVYSSWIFGNGPKVHIRVGCDSCGMIPIIGERYKCKDCSEEIGFDMCESCYNNPSEVSGR 382

Query: 365 FNQQHKPEHKFEIMQPTSLSDLINRINSDMSDDEGSDATENRDGVARTGDLSGDVPEDPE 424
           FNQQHKPEH FEI+ P  + + I  +N D SDD      +  D +A+   LS D  +D E
Sbjct: 383 FNQQHKPEHNFEIVPPRGIGEFIYMLNLDQSDDTDDSDDDGHDFLAQV--LSDDALQDVE 440

Query: 425 NDTNDLEDASSCFLPVDASLDPQDD 449
           + +NDL + S+  L VD + D +DD
Sbjct: 441 DGSNDLLEVSALVLSVDVAPDQEDD 465

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255554142|ref|XP_002518111.1| conserved hypothetical protein [Ricinus communis] gi|223542707|gb|EEF44244.1| conserved hypothetical protein [Ricinus communis]

 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 190/371 (51%), Positives = 253/371 (68%), Gaps = 12/371 (3%)

Query: 50  MNSWHESNCPVCRNPYNHFPSICHLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQVG 109
           MN WHESNCPVCR+PYNHFP++C LLHFLL K+YP+ Y++RE+QV EEEKQ+GHFSPQ  
Sbjct: 1   MNFWHESNCPVCRHPYNHFPNVCRLLHFLLLKMYPIAYKRREKQVGEEEKQMGHFSPQFD 60

Query: 110 YNLFGSPTNKEVDILGKSLDSPSQQQIKLYSESRFSGEGKSSPCMKSLEMTAESGDDAML 169
           +++FGS +N++VD+  KS+ SP+    + YS+  FS + KSS    SLE T    D    
Sbjct: 61  HHVFGSHSNQDVDVPNKSVLSPTDVMAQDYSDDCFSRQTKSSSLPNSLEATKHINDTIDA 120

Query: 170 KLVTSSECSEATANSTAQECGLVGNDLEHKA--ENWVSVDDLSCAACKKMLFKPVVLNCG 227
              T    SE + ++  ++C L G +LE +   +  VSV DL CA CK +LF+P+VLNCG
Sbjct: 121 TPSTLYRSSEGSGSTATEKCSLTGEELEDRTLKQCSVSVSDLQCAECKNLLFRPLVLNCG 180

Query: 228 HVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERFSDLYAERKEALLKQT- 286
           HV+CE C+  P     +C  CQSL P G P +CL++E FLE+ F  +YA+R+E LLKQT 
Sbjct: 181 HVYCETCICTPMAETPRCGICQSLHPNGFPGICLLLEQFLEKHFPKIYAKRREGLLKQTD 240

Query: 287 -------SGATQARHRKNRSASFPKLVYASLWLGNGPKIHFGVGCDYCGMSPIIGERYKC 339
                   G+TQ +H+  RS+ FP  +++S   GNGPK+H+ VGCD CGMSPIIGERYKC
Sbjct: 241 CLAAKRQEGSTQVQHQAKRSSMFPSSIFSSWLFGNGPKVHYAVGCDSCGMSPIIGERYKC 300

Query: 340 KDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQPTSLSDLINRINSDMSDDEG 399
           KDC+E +GFDLCEAC+N P  + GRFNQQHKPEH FE + P  L  L  R++S+ ++D  
Sbjct: 301 KDCMEKMGFDLCEACYNKPWAISGRFNQQHKPEHTFENV-PPGLPQLGLRLSSE-NEDGF 358

Query: 400 SDATENRDGVA 410
           +D  +  D VA
Sbjct: 359 NDPEDEEDFVA 369

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225465447|ref|XP_002266086.1| PREDICTED: E3 ubiquitin-protein ligase PRT1-like [Vitis vinifera]

 Score =  335 bits (860), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 173/402 (43%), Positives = 251/402 (62%), Gaps = 10/402 (2%)

Query: 4   EEHEIELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRN 63
           E+  ++ AD +  S  F CCVCL+LLYKP+VLACGHISCFWCV+ +M+  HES+CP+CRN
Sbjct: 6   EDQFLDGADSDEISRSFTCCVCLDLLYKPIVLACGHISCFWCVHYSMDGAHESHCPICRN 65

Query: 64  PYNHFPSICHLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQVGYNLFGSPTNKEVDI 123
           PY+HFP+IC +LHF+L K+YP+ Y++RE+Q  E E++   FSP+      GS T K++ I
Sbjct: 66  PYSHFPTICQMLHFMLLKMYPVAYKRREKQTLEREEETRCFSPRFDAYGGGSHTYKKLKI 125

Query: 124 LGKSLD-SPSQQQIKLYSESRFSGEGKSSPCMKSLEMTAESGDDAMLKLVTSSECSEATA 182
                D S +  + KL  +S  +   K    +   +  +   D  +     +S  +   A
Sbjct: 126 EADPADPSITVFEFKLCPDSSSNRVKKHFADLMQRQPVSLPQDFVIPISKQTSGGNPQGA 185

Query: 183 NSTAQECGLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGN 242
               +E  ++ N+L+   E  +S+ D+ C ACK++LF+PVVLNCGHV+CE C  +P D  
Sbjct: 186 TLADEENVVLKNNLDQTCEQ-LSIADVQCTACKQLLFRPVVLNCGHVYCETCFNIPVDER 244

Query: 243 FKCPNCQSLQPYGLPSVCLIIEHFLEERFSDLYAERKEAL-LKQ-------TSGATQARH 294
           F+C  CQ L P G P VCL +++FLEE+F + YA R+EA+ LK        ++ +  +  
Sbjct: 245 FRCKVCQVLHPSGFPKVCLELDNFLEEQFPEEYALRREAVQLKAVHLHDAPSTWSKNSGI 304

Query: 295 RKNRSASFPKLVYASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEAC 354
           +  + +S PK  Y++    NGPKIH   GCD CGM PI+G+RY+CKDC E IGFDLC  C
Sbjct: 305 QGFKWSSVPKEEYSTWLRDNGPKIHPCAGCDSCGMYPIVGDRYRCKDCKEKIGFDLCGDC 364

Query: 355 HNNPAKVPGRFNQQHKPEHKFEIMQPTSLSDLINRINSDMSD 396
           +N  +K+PGRFNQQH PEHKFE++      +++  +   + D
Sbjct: 365 YNTNSKLPGRFNQQHTPEHKFELVNWKLKQEMMRLMVEQLGD 406

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297744343|emb|CBI37313.3| unnamed protein product [Vitis vinifera]

 Score =  317 bits (813), Expect = 6e-84,   Method: Compositional matrix adjust.
 Identities = 164/381 (43%), Positives = 238/381 (62%), Gaps = 10/381 (2%)

Query: 25  CLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICHLLHFLLKKLYP 84
           C +LLYKP+VLACGHISCFWCV+ +M+  HES+CP+CRNPY+HFP+IC +LHF+L K+YP
Sbjct: 8   CRDLLYKPIVLACGHISCFWCVHYSMDGAHESHCPICRNPYSHFPTICQMLHFMLLKMYP 67

Query: 85  LTYEKRERQVAEEEKQLGHFSPQVGYNLFGSPTNKEVDILGKSLD-SPSQQQIKLYSESR 143
           + Y++RE+Q  E E++   FSP+      GS T K++ I     D S +  + KL  +S 
Sbjct: 68  VAYKRREKQTLEREEETRCFSPRFDAYGGGSHTYKKLKIEADPADPSITVFEFKLCPDSS 127

Query: 144 FSGEGKSSPCMKSLEMTAESGDDAMLKLVTSSECSEATANSTAQECGLVGNDLEHKAENW 203
            +   K    +   +  +   D  +     +S  +   A    +E  ++ N+L+   E  
Sbjct: 128 SNRVKKHFADLMQRQPVSLPQDFVIPISKQTSGGNPQGATLADEENVVLKNNLDQTCEQ- 186

Query: 204 VSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLII 263
           +S+ D+ C ACK++LF+PVVLNCGHV+CE C  +P D  F+C  CQ L P G P VCL +
Sbjct: 187 LSIADVQCTACKQLLFRPVVLNCGHVYCETCFNIPVDERFRCKVCQVLHPSGFPKVCLEL 246

Query: 264 EHFLEERFSDLYAERKEAL-LKQ-------TSGATQARHRKNRSASFPKLVYASLWLGNG 315
           ++FLEE+F + YA R+EA+ LK        ++ +  +  +  + +S PK  Y++    NG
Sbjct: 247 DNFLEEQFPEEYALRREAVQLKAVHLHDAPSTWSKNSGIQGFKWSSVPKEEYSTWLRDNG 306

Query: 316 PKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKF 375
           PKIH   GCD CGM PI+G+RY+CKDC E IGFDLC  C+N  +K+PGRFNQQH PEHKF
Sbjct: 307 PKIHPCAGCDSCGMYPIVGDRYRCKDCKEKIGFDLCGDCYNTNSKLPGRFNQQHTPEHKF 366

Query: 376 EIMQPTSLSDLINRINSDMSD 396
           E++      +++  +   + D
Sbjct: 367 ELVNWKLKQEMMRLMVEQLGD 387

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356566399|ref|XP_003551419.1| PREDICTED: E3 ubiquitin-protein ligase PRT1-like [Glycine max]

 Score =  316 bits (810), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 182/430 (42%), Positives = 249/430 (57%), Gaps = 28/430 (6%)

Query: 8   IELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH 67
           +E  + E   D F CCVCL+LLYKP+VL+CGHI CFWCVYN+MN   ES CPVCRN Y H
Sbjct: 11  LEDNEHEEIPDSFVCCVCLDLLYKPIVLSCGHICCFWCVYNSMNCLRESQCPVCRNQYYH 70

Query: 68  FPSICHLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQVGYNLFGSPTNKEVDILGKS 127
           FP++C LLHFLL K+Y   Y++RE Q  EEEKQ G +SPQ     F   T +     G S
Sbjct: 71  FPTVCQLLHFLLLKIYTAAYKRRENQTLEEEKQSGFYSPQ-----FDPDTCESQAKFGHS 125

Query: 128 LDSPSQQQIKLYSESRFSGEGKSSPCMKSLEMTAESGDDAMLKLVTSSEC--SEATANST 185
               S   + L S S   G   +S C++     A  GDD  +     S+   + A     
Sbjct: 126 GIPSSSSNLNLTSNSCNVG---TSECLEQSGSAANEGDDGTIYYDGESDIIGTPAKGKKM 182

Query: 186 AQECGLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKC 245
            QE        E   +  +SV D++C  CK++LF PVVLNCGHV+C+ C+   +D   +C
Sbjct: 183 PQE--------ELSVQRKLSVADVTCTMCKQLLFHPVVLNCGHVYCQTCVINIDDEMLRC 234

Query: 246 PNCQSLQPYGLPSVCLIIEHFLEERFSDLYAERKEAL-LKQTSGATQARHRKNRSASF-- 302
             CQS  P GLP VCL ++HFLEE+F + Y +R++A+ LKQ     + +     S S   
Sbjct: 235 KVCQSPHPRGLPKVCLELDHFLEEQFPEEYGQRRDAIELKQ----IKVKPDTPSSCSLDN 290

Query: 303 -PKLVYASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKV 361
             ++     W    PK+H GVGCD+CGM PIIG+RY+C DC E +GFDLC  C+ + +K+
Sbjct: 291 GKRVENIDWWSDPDPKVHIGVGCDFCGMFPIIGDRYRCIDCKEKMGFDLCGDCYASRSKL 350

Query: 362 PGRFNQQHKPEHKFEIMQPTSLSDLINRINSDMSDDEGSDATENRDGVARTGDLSGDVPE 421
           PGRFNQQH  EHKF+++ P  + +++ R+ +     EGS   E+   +  T D    + +
Sbjct: 351 PGRFNQQHTSEHKFKLVPPNIIHNMMLRL-ATAQLGEGSIDLESIANIEVTSD-GAALFD 408

Query: 422 DPENDTNDLE 431
           D E++ ND E
Sbjct: 409 DGEDNHNDSE 418

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118486134|gb|ABK94910.1| unknown [Populus trichocarpa]

 Score =  313 bits (801), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 179/433 (41%), Positives = 250/433 (57%), Gaps = 35/433 (8%)

Query: 13  KEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSIC 72
           +E FSD F+C VCL+LLYKP+VL+CGHISCFWCV+ +M+   ESNCP+CR+PYNHFP+IC
Sbjct: 30  EEEFSDSFRCSVCLDLLYKPIVLSCGHISCFWCVHKSMSGLRESNCPICRHPYNHFPTIC 89

Query: 73  HLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQVGYNLFGS------PTNKEVDILGK 126
            +LHFLL KLYP+ Y +RE Q  EEE ++G FSPQ GY    S      P +++      
Sbjct: 90  QMLHFLLFKLYPMVYTRREEQTLEEEMEMGFFSPQFGYKECNSDLKHHHPRDRK-----H 144

Query: 127 SLDSPSQQQIKLYSESRFSGEGKSSPCMKSLEMTAESGDDAMLKLVTSSECSEATANSTA 186
           +LDS        +    F G  +    +KS+ M  ++   ++   V    C     +S  
Sbjct: 145 ALDSC------FFRNGEFCGSTQQIESVKSVSMI-QAPTMSIPNKVCDENCCMIKPDSVE 197

Query: 187 QECGLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCP 246
           +    +  D  ++    VS+ D+ C+ CK++LF PVVLNCGHV+CE C+  P +    C 
Sbjct: 198 E--NNLPEDKSNRNCKQVSIADVQCSTCKQLLFHPVVLNCGHVYCETCI-GPVNEMLTCQ 254

Query: 247 NCQSLQPYGLPSVCLIIEHFLEERFSDLYAERKEALLKQ---------TSGATQARHRKN 297
            CQSL P G P VCL  +HFLEE F   YA R EA+  +          + +T+A  +  
Sbjct: 255 VCQSLHPRGFPKVCLEFDHFLEEYFPTEYAMRIEAVQAKQVPVKFQHPITCSTKASEKSF 314

Query: 298 RSASFPKLVYASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNN 357
           +S+S       S       K+H GVGCD CG+ PI+G+RYKCKDCVE IGFDLC  C+N 
Sbjct: 315 QSSSATTRENLSWRADPHSKVHVGVGCDSCGVYPIVGDRYKCKDCVEEIGFDLCGDCYNT 374

Query: 358 PAKVPGRFNQQHKPEHKFEIMQPTSLSDLINRINSDMSDDEGSDAT-ENRDGVARTGD-- 414
            +K PGRFNQQH  EHKFE+++   + +++ R+ +   D   + A  ++  G++      
Sbjct: 375 CSKRPGRFNQQHTSEHKFELVKSNIIHNIMLRLVTGQLDSASAFANHDDASGISENESPA 434

Query: 415 --LSGDVPEDPEN 425
             LSGD  +   N
Sbjct: 435 PILSGDAQDSSRN 447

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255560167|ref|XP_002521101.1| conserved hypothetical protein [Ricinus communis] gi|223539670|gb|EEF41252.1| conserved hypothetical protein [Ricinus communis]

 Score =  312 bits (800), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 175/420 (41%), Positives = 243/420 (57%), Gaps = 67/420 (15%)

Query: 10  LADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFP 69
           + + E   D F CC+CL+LL+KP+VLACGH+SCFWCV+ +M+   ES CP+CR+PYNHFP
Sbjct: 1   MVESEKIPDSFLCCICLDLLFKPIVLACGHVSCFWCVHKSMSGRRESCCPICRHPYNHFP 60

Query: 70  SICHLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQVGYNLFGSPTNKEVDILGKSLD 129
           ++  +LH LL  +YP+ Y++RE  +  EEKQ+G+FSPQ  Y    SP N+E D L     
Sbjct: 61  TVSQMLHALLFNIYPIAYKRREELILAEEKQMGYFSPQFDYTACQSPENQEYDHLKDH-- 118

Query: 130 SPSQQQIKLYSESRFSGEGKSSPCMKSLEMTAESGDDAMLKLVTSSECSEATANSTAQEC 189
                                    + L  T+          + S  CSE  +    +  
Sbjct: 119 -------------------------EHLSTTS----------LESDSCSETCSTREGEPK 143

Query: 190 GLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCL--FVPEDGNFKCPN 247
           G             +S+ D+ CAACK+++F+PV LNCG  +CE C+   V E+G  +C  
Sbjct: 144 G---------KSKRLSITDVLCAACKQLVFRPVFLNCGQGYCESCISCSVDENGMLRCQV 194

Query: 248 CQSLQPYGLPSVCLIIEHFLEERFSDLYAERKEAL-LKQTSGATQ---ARHRKNRS-ASF 302
           C SL P G P VCL ++HFLE++F   YA R++A+ LKQ +   +   +  +K  S +S 
Sbjct: 195 CHSLHPTGFPKVCLELDHFLEDQFPRDYAMRRDAVELKQANIKIENPISSGKKGFSFSSM 254

Query: 303 PKLVYASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVP 362
           PK   + L      K+HFGVGCD+CG+ PIIG+RY+CKDCVE IGFDLC  C+N  +K P
Sbjct: 255 PKEELSHL------KLHFGVGCDFCGIYPIIGDRYRCKDCVEKIGFDLCGDCYNTRSKRP 308

Query: 363 GRFNQQHKPEHKFEIMQPTSLSDLINRINSDMSDDEGSDATENRDGVARTGDLSGDVPED 422
           GRFNQQH PEHKFE +   +   +I R+   M+D  G+ +      +A  GDLS DVPE+
Sbjct: 309 GRFNQQHTPEHKFEHVDSINGRRVIRRL---MNDQFGNTSPV----LANPGDLS-DVPEN 360

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224065338|ref|XP_002301781.1| predicted protein [Populus trichocarpa] gi|222843507|gb|EEE81054.1| predicted protein [Populus trichocarpa]

 Score =  306 bits (784), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 171/380 (45%), Positives = 229/380 (60%), Gaps = 28/380 (7%)

Query: 13  KEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSIC 72
           +E FSD F+C VCL+LLYKP+VL+CGHISCFWCV+ +M+   ESNCP+CR+PYNHFP+IC
Sbjct: 17  EEEFSDSFRCSVCLDLLYKPIVLSCGHISCFWCVHKSMSGLRESNCPICRHPYNHFPTIC 76

Query: 73  HLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQVGYNLFGS------PTNKEVDILGK 126
            +LHFLL KLYP+ Y +RE Q  EEE ++G FSPQ GY    S      P +++      
Sbjct: 77  QMLHFLLFKLYPMVYTRREEQTLEEEMEMGFFSPQFGYKECNSDLKHHHPRDRK-----H 131

Query: 127 SLDSPSQQQIKLYSESRFSGEGKSSPCMKSLEMTAESGDDAMLKLVTSSECSEATANSTA 186
           +LDS        +    F G  +    +KS+ M  ++   ++   V    C     +S  
Sbjct: 132 ALDS------CFFRNGEFCGSTQQIESVKSVSMI-QAPTMSIPNKVCDENCCMIKPDSVE 184

Query: 187 QECGLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCP 246
           +    +  D  ++    VS+ D+ C+ CK++LF PVVLNCGHV+CE C+  P +    C 
Sbjct: 185 E--NNLPEDKSNRNCKQVSIADVQCSTCKQLLFHPVVLNCGHVYCETCI-GPVNEMLTCQ 241

Query: 247 NCQSLQPYGLPSVCLIIEHFLEERFSDLYAERKEALLKQT-------SGATQARHRKNRS 299
            CQSL P G P VCL  +HFLEE F   YA R EA+  +         G+T+A  +  +S
Sbjct: 242 VCQSLHPRGFPKVCLEFDHFLEEYFPTEYAMRIEAVQAKQLPLNHPLPGSTKASEKSFQS 301

Query: 300 ASFPKLVYASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPA 359
           +S       S       K+H GVGCD CG+ PI+G+RYKCKDCVE IGFDLC  C+N  +
Sbjct: 302 SSATTRENLSWRADPHSKVHVGVGCDSCGVYPIVGDRYKCKDCVEEIGFDLCGDCYNTCS 361

Query: 360 KVPGRFNQQHKPEHKFEIMQ 379
           K PGRFNQQH  EHKFE+++
Sbjct: 362 KRPGRFNQQHTSEHKFELVK 381

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356524509|ref|XP_003530871.1| PREDICTED: E3 ubiquitin-protein ligase PRT1-like [Glycine max]

 Score =  305 bits (782), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 173/436 (39%), Positives = 237/436 (54%), Gaps = 54/436 (12%)

Query: 1   MEAEEHEIELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPV 60
           ME  EHE          D F CCVCL+LLYKP+VL+CGH+ CFWCVYN+M+   ES CPV
Sbjct: 11  MEDNEHE-------EMPDSFVCCVCLDLLYKPIVLSCGHMCCFWCVYNSMSCLRESQCPV 63

Query: 61  CRNPYNHFPSICHLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQVGYNLFGSPTNKE 120
           CRN Y HFP++C LLHFLL K+Y   Y++RE Q  EEEK+ G +SPQ        P   E
Sbjct: 64  CRNQYYHFPTVCQLLHFLLLKIYTAAYKRRESQTLEEEKKSGFYSPQF------DPDTCE 117

Query: 121 VDILGKSLDSPSQQQIKLYSESRFSGEGKSSPCMKSLEMTAESGDDAMLKLVTSSEC--S 178
                              S+++F   G           TA  GD+  +      +   +
Sbjct: 118 -------------------SQAKFGHSGS----------TANEGDEGTIFSNREPDIIGT 148

Query: 179 EATANSTAQECGLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVP 238
            A      QE        E   +  +SV D++C  CK++LF PVVLNCGHV+C++C+   
Sbjct: 149 PAKGKKLPQE--------ELSLQQKLSVADVTCTMCKQLLFHPVVLNCGHVYCQICVINI 200

Query: 239 EDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERFSDLYAERKEALLKQTSGATQARHRKNR 298
           +D   +C  CQS  P GLP VCL ++HFLEE+F + Y +R++A+  Q             
Sbjct: 201 DDEMLRCKVCQSPHPRGLPKVCLELDHFLEEQFPEEYGQRRDAIELQQIKVKPDTPSSCS 260

Query: 299 SASFPKLVYASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNP 358
                K      W     K+H GVGCD+CGM PIIG+RY+C DC E +GFDLC  C+ + 
Sbjct: 261 LDGGKKPENTDWWSDPDSKVHIGVGCDFCGMFPIIGDRYRCIDCKEKMGFDLCGDCYASR 320

Query: 359 AKVPGRFNQQHKPEHKFEIMQPTSLSDLINRINSDMSDDEGSDATENRDGVARTGDLSGD 418
           +K+PGRFNQQH  EHKF+++QP  + +++ R+ +     EGS   E+   +  T D    
Sbjct: 321 SKLPGRFNQQHTSEHKFKLVQPNIIHNIMLRL-ATAQLGEGSIDLESIGNIEVTSD-GAA 378

Query: 419 VPEDPENDTNDLEDAS 434
           +  D E++ ND E A+
Sbjct: 379 LFGDGEDNHNDSEAAN 394

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297831360|ref|XP_002883562.1| hypothetical protein ARALYDRAFT_479998 [Arabidopsis lyrata subsp. lyrata] gi|297329402|gb|EFH59821.1| hypothetical protein ARALYDRAFT_479998 [Arabidopsis lyrata subsp. lyrata]

 Score =  303 bits (776), Expect = 1e-79,   Method: Compositional matrix adjust.
 Identities = 169/414 (40%), Positives = 234/414 (56%), Gaps = 43/414 (10%)

Query: 13  KEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSIC 72
           +E   D+F CCVCLELLYKP+VL+CGH+SCFWCV+ +MN + ES+CP+CR+PY HFPS+C
Sbjct: 17  EEEIPDQFLCCVCLELLYKPIVLSCGHLSCFWCVHKSMNGFRESHCPICRDPYVHFPSVC 76

Query: 73  HLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQVGYNLFGSPTNKEVDILGKSLDSPS 132
             L+FLLKK+YPL ++KRE QV +EE++L  FSPQ+   L  +         G SL+   
Sbjct: 77  QKLYFLLKKMYPLAHKKREEQVLKEEQELDCFSPQIDVVLEETKVKDVSVCSGDSLNVSD 136

Query: 133 QQQI----KLYSESRFSGEGKSSPCMKSLEMTAESGDDAMLKLVTSSECSEATANSTAQE 188
           +Q++       +    S     SPC+ S +   +                       AQ 
Sbjct: 137 KQKVDECSNAANLLSSSSSRGGSPCIPSNQEPTD-----------------------AQT 173

Query: 189 CGLVGNDL--EHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCL--FVPEDGNFK 244
             +  N+L   +K  N +S DDL C+ACK++L +PVVLNCGHV+CE C+     E    K
Sbjct: 174 LNVHENELPKNNKVSNQISKDDLLCSACKELLVRPVVLNCGHVYCEGCVVDMAEESEKIK 233

Query: 245 CPNCQSLQPYGLPSVCLIIEHFLEERFSDLYAERKEALLKQTSGATQARHRKNRSASFPK 304
           C  C    P G P VCLI+E  LEE F + +  R   + K+ +  ++   + +     P 
Sbjct: 234 CLECNVCDPRGFPKVCLILEQLLEENFPEEHKSRTSGIQKRLAHNSKGNFQSHLKEG-PS 292

Query: 305 LVYAS----LWLGN-GPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPA 359
           L   +     WL N G  +HF  GCD CG+ PIIG+RY+CKDC E IG+DLC+ C+  P+
Sbjct: 293 LSNDNNDDLPWLANPGSNVHFEAGCDSCGVYPIIGDRYRCKDCKEEIGYDLCKDCYETPS 352

Query: 360 KVPGRFNQQHKPEHKFEIMQPTSLSDLINRIN-----SDMSDDEGSDATENRDG 408
           KVPGRFNQQH P+H+ E+ +   +    N I      SD+S  E  D  E  +G
Sbjct: 353 KVPGRFNQQHTPDHRLELARAPQVLINFNSIGILLGPSDIS-TEAMDTDEGEEG 405

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	458
TAIR|locus:2087278	410	PRT1 "proteolysis 1" [Arabidop	0.563	0.629	0.376	1.1e-80
ZFIN|ZDB-GENE-101021-4	605	lonrf1 "LON peptidase N-termin	0.349	0.264	0.255	7.8e-10
UNIPROTKB|F1NWA3	579	F1NWA3 "Uncharacterized protei	0.222	0.176	0.354	1.8e-09
UNIPROTKB|F1PSB6	765	LONRF3 "Uncharacterized protei	0.349	0.209	0.294	1.1e-08
TAIR|locus:2035025	491	AT1G18660 [Arabidopsis thalian	0.157	0.146	0.381	1.6e-08
UNIPROTKB|F1P3J6	597	Gga.40071 "Uncharacterized pro	0.187	0.144	0.333	2.1e-08
MGI|MGI:1921615	753	Lonrf3 "LON peptidase N-termin	0.401	0.244	0.278	3e-08
UNIPROTKB|H3BRQ5	109	BFAR "Bifunctional apoptosis r	0.165	0.697	0.341	1e-07
UNIPROTKB|F1P5G6	753	LONRF2 "Uncharacterized protei	0.331	0.201	0.25	2.2e-07
UNIPROTKB|G3MWZ9	844	TRIM34 "Uncharacterized protei	0.104	0.056	0.396	2.6e-07

TAIR|locus:2087278 PRT1 "proteolysis 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 489 (177.2 bits), Expect = 1.1e-80, Sum P(2) = 1.1e-80
 Identities = 104/276 (37%), Positives = 148/276 (53%)

Query:   145 SGEGKSSPCMKSLEMTAESGDDAMLKLVTSSECSEATANSTAQECGLVGNDL--EHKAEN 202
             S + K   C  +  + + S     +  +  ++  E T    A+   +  N+L  ++K   
Sbjct:   129 SDKQKVEECSNAANLLSSSSSRGDIPCIPKNQ--EPT---DAKALNVHENELLKDNKVSK 183

Query:   203 WVSVDDLSCAACKKMLFKPVVLNCGHVFCELCL--FVPEDGNFKCPNCQSLQPYGLPSVC 260
              +S DDL C+ACK++L +PVVLNCGHV+CE C+     E    KC  C    P G P VC
Sbjct:   184 QISKDDLLCSACKELLVRPVVLNCGHVYCEGCVVDMAEESEKIKCQECNVCDPRGFPKVC 243

Query:   261 LIIEHFLEERFSDLYAER----KEALLKQTSGATQARHRKNRSASFPKLVYASLWLGN-G 315
             LI+E  LEE F + Y  R    ++ L   + G  Q+  ++  S S         WL N G
Sbjct:   244 LILEQLLEENFPEEYNSRSSKVQKTLAHNSKGNIQSYLKEGPSLSNDNN-NDDPWLANPG 302

Query:   316 PKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKF 375
               +HFG GCD CG+ PIIG+RY+CKDC E IG+DLC+ C+  P+KVPGRFNQQH P+H+ 
Sbjct:   303 SNVHFGAGCDSCGVYPIIGDRYRCKDCKEEIGYDLCKDCYETPSKVPGRFNQQHTPDHRL 362

Query:   376 EIMQPTSLSDLINRIN---SDMSDDEGSDATENRDG 408
             E+ +   +    N I      +  +EG D  E  +G
Sbjct:   363 ELARSPQVLINFNSIGILLGPVISNEGMDTDEGEEG 398

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0000151 "ubiquitin ligase complex" evidence=TAS

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

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

ZFIN|ZDB-GENE-101021-4 lonrf1 "LON peptidase N-terminal domain and ring finger 1" [Danio rerio (taxid:7955)]

 Score = 134 (52.2 bits), Expect = 7.8e-10, Sum P(2) = 7.8e-10
 Identities = 45/176 (25%), Positives = 75/176 (42%)

Query:   130 SPSQQQIKLYSESRFSGEGKSSPCMKSLEMTAESGDDAMLKLV-------TSSECSEATA 182
             SPS    + YS +  + EG+S     + +M   S  +  L L        T+ +  E   
Sbjct:   229 SPSCTDAQRYSHT--NAEGQSDSGQNTTKMKLGSSSECCLSLCQAVSFLPTAEDDEELMM 286

Query:   183 NSTAQECGLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGN 242
                 +    V +       + ++V D  C  C ++ ++PV   CGH FC+ C+    D N
Sbjct:   287 KREEKHNRGVCSVGRESCLSVLTVSDFECPLCIRLFYEPVTTPCGHTFCKNCIERSLDHN 346

Query:   243 FKCPNC-QSLQPYGLP---SVCLIIEHFLEERFSDLYAERK---EALLKQTSGATQ 291
              +CP C Q LQ Y      +  ++++  +   F    AERK   EA + + S  T+
Sbjct:   347 LRCPLCKQPLQEYFKNRKYNPTVLLQEIMSRLFPQQLAERKQVHEAEMAELSNLTK 402

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|F1NWA3 F1NWA3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 146 (56.5 bits), Expect = 1.8e-09, Sum P(2) = 1.8e-09
 Identities = 39/110 (35%), Positives = 55/110 (50%)

Query:   175 SECSEATANSTAQECGLVGNDLEHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELC 234
             S  S+  AN   +E   + N L    E  +S+ DL C+ C +M F+PV   CGH FC+ C
Sbjct:   256 SSASDPPANE--EETAAMDNLLP--LEELLSISDLECSLCIRMFFEPVTTPCGHTFCKEC 311

Query:   235 LFVPEDGNFKCPNC-QSLQPY---GLPSVCLIIEHFLEERFSDLYAERKE 280
             L    D    CP C QSL+ Y   G  S  ++++  +   F    AER+E
Sbjct:   312 LERCLDHRPNCPLCKQSLREYLKAGSYSPTVLLQDIMLAAFPAQLAERRE 361

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1PSB6 LONRF3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 128 (50.1 bits), Expect = 1.1e-08, Sum P(2) = 1.1e-08
 Identities = 53/180 (29%), Positives = 78/180 (43%)

Query:    89 KRERQVAEEEK-QLGHFSPQ----VGYNLFGSPTNK-EVDILGKSLDSPSQQ-QIKLYSE 141
             KR R  A+ E  +L H S Q     G +  GS  N  +V+  G+  D   Q  + K  + 
Sbjct:   352 KRARSEAQRENPELPHCSSQEEAAAGGDC-GSLANPVKVEGEGQQGDQEGQAGEEKGDAA 410

Query:   142 SRFSGEGKSSPCMKSLEMTAESGDDAMLKLVTSSECSEATANSTAQECGLVGNDLEHKAE 201
             S  +   K+  C +      ++G     ++ T +   +  A+  A+    V   L     
Sbjct:   411 SAEATSAKAGKCQEKKRKHCQTGTQDP-EVPTKASKPDPPADQEARAAVSVPLPL----- 464

Query:   202 NWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCL 261
              +V   DL CA C ++ ++PV   CGH FC  CL    D N KCP C+     GL S CL
Sbjct:   465 -FVDASDLECALCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKD----GL-SQCL 518

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

TAIR|locus:2035025 AT1G18660 [Arabidopsis thaliana (taxid:3702)]

 Score = 160 (61.4 bits), Expect = 1.6e-08, P = 1.6e-08
 Identities = 29/76 (38%), Positives = 42/76 (55%)

Query:   207 DDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLI---I 263
             DD  C  C K+L++P    CGH FC  CLF   D   KCP C+++  +  P  C +   +
Sbjct:   192 DDFDCTVCLKLLYEPATTPCGHTFCRSCLFQSMDRGNKCPLCRTVI-FMTPRTCAVSVTL 250

Query:   264 EHFLEERFSDLYAERK 279
              + +E+ F + YAERK
Sbjct:   251 NNIIEKNFPEEYAERK 266

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006508 "proteolysis" evidence=IEA

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

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

UNIPROTKB|F1P3J6 Gga.40071 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 133 (51.9 bits), Expect = 2.1e-08, Sum P(2) = 2.1e-08
 Identities = 30/90 (33%), Positives = 47/90 (52%)

Query:   202 NWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNC-QSLQPYGLP--- 257
             N + V D  C+ C ++ F+PV   CGH FC+ CL    D   +CP C +SL+ Y      
Sbjct:   294 NLIDVSDFECSLCMRLFFEPVTTPCGHTFCKGCLERCLDHAPQCPLCKESLKEYLASRKY 353

Query:   258 SVCLIIEHFLEERFSDLYAERKEALLKQTS 287
             S+  ++E  + +  SD   ERK    ++T+
Sbjct:   354 SITELLEELIMKYLSDELYERKRIHAEETA 383

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

MGI|MGI:1921615 Lonrf3 "LON peptidase N-terminal domain and ring finger 3" [Mus musculus (taxid:10090)]

 Score = 135 (52.6 bits), Expect = 3.0e-08, Sum P(2) = 3.0e-08
 Identities = 58/208 (27%), Positives = 85/208 (40%)

Query:    89 KRERQVAEEEK-QLGHFSPQVGYNLFGSPTNKEVDILGKSLDSPSQQQIKLYSESRFSGE 147
             K  R  A+ E  +L H S Q G       ++      GK + S   ++     E R +  
Sbjct:   346 KSARSEAQRENLELPHCSNQEGAAAAEESSSLANSAQGK-VSSKEDRKKDQEGEDRDAAS 404

Query:   148 GKSSPCM--KSLEMTAESGDDAMLKLVTSSECSEATANSTAQECGLVGNDLEHKAENWVS 205
              ++  C   K      E+ +D  L    S +  +  A   A+       DL +   ++  
Sbjct:   405 VRTGKCQEKKRNRCQIETQEDTELPNKVSKQ--DFPAEQGAKP------DLSNPLGSF-D 455

Query:   206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPS------V 259
               DL C+ C ++ ++PV   CGH FC  CL    D N KCP C+ +    LPS      V
Sbjct:   456 ASDLECSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNAKCPLCKDVLLQCLPSRKYSKNV 515

Query:   260 CL--IIEHFLEERFSD---LYAERKEAL 282
              L  +I  FL E F +   LY E  E L
Sbjct:   516 ILEELIATFLPEEFKERKRLYEEEMEEL 543

GO:0003674 "molecular_function" evidence=ND

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0006508 "proteolysis" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|H3BRQ5 BFAR "Bifunctional apoptosis regulator" [Homo sapiens (taxid:9606)]

 Score = 130 (50.8 bits), Expect = 1.0e-07, P = 1.0e-07
 Identities = 27/79 (34%), Positives = 38/79 (48%)

Query:   204 VSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFV--PEDGNFKCPNCQSLQPYGLPSVCL 261
             +SV + SC  C  +L  P  LNCGH FC  CL +        +CP C+     G P V +
Sbjct:    27 ISVSEFSCHCCYDILVNPTTLNCGHSFCRHCLALWWASSKKTECPECREKWE-GFPKVSI 85

Query:   262 IIEHFLEERFSDLYAERKE 280
             ++   +E+ F D    R E
Sbjct:    86 LLRDAIEKLFPDAIRLRFE 104

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1P5G6 LONRF2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 127 (49.8 bits), Expect = 2.2e-07, Sum P(2) = 2.2e-07
 Identities = 40/160 (25%), Positives = 70/160 (43%)

Query:    93 QVAEEEKQLGHFSPQVGYNLFGSPTNKEVDILGKSLDSPSQQQI--KLYSESRFS-GEGK 149
             Q A E+  +   S    + L  +P+ +E D+  +S DSP+   +  + + +S+ S G   
Sbjct:   344 QSAAEDSSIAGSSKDTVFRLTKNPS-QEPDVF-RSTDSPASHNVLDRYFEDSKKSLGAIL 401

Query:   150 SSPCMKSLEMTAESGDDAMLKLVTSSECSEATANSTAQECGLVGNDLEHKAENWVSVDDL 209
             SS     L+    S    +  L   S+  +  A+   +   +  +++       V   D 
Sbjct:   402 SSLPGAGLKRKLSSDMRDIQSLDVPSKIPKKDADVLPENAVVTSSEIP---TTLVDASDF 458

Query:   210 SCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQ 249
              C+ C ++ ++PV   CGH FC  CL    D N  CP C+
Sbjct:   459 ECSLCMRLFYEPVTTPCGHTFCLKCLERCLDHNPHCPLCK 498

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|G3MWZ9 TRIM34 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 101 (40.6 bits), Expect = 2.6e-07, Sum P(2) = 2.6e-07
 Identities = 21/53 (39%), Positives = 29/53 (54%)

Query:    18 DEFKCCVCLELLYKPVVLACGHISCFWCVY----NAMNSWH-ESNCPVCRNPY 65
             DE  C +CLELL +P+ + CGH  C  C+      +M     +S CPVC+  Y
Sbjct:    39 DEVTCPICLELLTEPLSIDCGHSFCQACITADNKESMPGQEGQSRCPVCQTSY 91

GO:0005737 "cytoplasm" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8LBL5	PRT1_ARATH	6, ., 3, ., 2, ., -	0.4166	0.8165	0.9121	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	0.691

---

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	458
cd02338	49	cd02338, ZZ_PCMF_like, Zinc finger, ZZ type	3e-09
cd02249	46	cd02249, ZZ, Zinc finger, ZZ type	4e-07
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	5e-07
cd02341	48	cd02341, ZZ_ZZZ3, Zinc finger, ZZ type	1e-06
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	3e-06
cd02339	45	cd02339, ZZ_Mind_bomb, Zinc finger, ZZ type	3e-05
smart00184	40	smart00184, RING, Ring finger	7e-05
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	9e-05
cd02344	45	cd02344, ZZ_HERC2, Zinc finger, ZZ type	2e-04
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	4e-04
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	5e-04
smart00184	40	smart00184, RING, Ring finger	7e-04
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	8e-04
pfam00569	46	pfam00569, ZZ, Zinc finger, ZZ type	8e-04
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	9e-04
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	0.001
pfam13445	55	pfam13445, zf-RING_LisH, RING-type zinc-finger, Li	0.001
cd02334	49	cd02334, ZZ_dystrophin, Zinc finger, ZZ type	0.001
cd02335	49	cd02335, ZZ_ADA2, Zinc finger, ZZ type	0.001
cd02340	43	cd02340, ZZ_NBR1_like, Zinc finger, ZZ type	0.001
COG5152	259	COG5152, COG5152, Uncharacterized conserved protei	0.002
COG5222	427	COG5222, COG5222, Uncharacterized conserved protei	0.002
PLN03208	193	PLN03208, PLN03208, E3 ubiquitin-protein ligase RM	0.003

>gnl|CDD|239078 cd02338, ZZ_PCMF_like, Zinc finger, ZZ type

 Score = 52.3 bits (126), Expect = 3e-09
 Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 8/55 (14%)

Query: 322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFE 376
           V CD CG S   G RYKC  C     +DLC  C+++         ++H  +H  +
Sbjct: 1   VSCDGCGKSNFTGRRYKCLIC---YDYDLCADCYDSGVT-----TERHLFDHPMQ 47

Zinc finger present in potassium channel modulatory factor (PCMF) 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Human potassium channel modulatory factor 1 or FIGC has been shown to possess intrinsic E3 ubiquitin ligase activity and to promote ubiquitination. Length = 49

>gnl|CDD|239069 cd02249, ZZ, Zinc finger, ZZ type

 Score = 46.3 bits (110), Expect = 4e-07
 Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 11/55 (20%)

Query: 324 CDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIM 378
           CD C   PI+G RY C  C +   FDLC +C+    K        H P+H F  +
Sbjct: 3   CDGCLK-PIVGVRYHCLVCED---FDLCSSCYAKGKKG-------HPPDHSFTEI 46

Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins. 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 = 45.9 bits (109), Expect = 5e-07
 Identities = 19/45 (42%), Positives = 27/45 (60%), Gaps = 2/45 (4%)

Query: 21 KCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNP 64
          +C +CLE   +PVVL  CGH+ C  C+   + S   + CP+CR P
Sbjct: 1  ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGK-NTCPLCRTP 44

Length = 45

>gnl|CDD|239081 cd02341, ZZ_ZZZ3, Zinc finger, ZZ type

 Score = 44.7 bits (106), Expect = 1e-06
 Identities = 16/36 (44%), Positives = 20/36 (55%), Gaps = 1/36 (2%)

Query: 322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNN 357
             CD CG+ PI G RY C +C +   FDLC+ C   
Sbjct: 1   FKCDSCGIEPIPGTRYHCSECDDG-DFDLCQDCVVK 35

Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Length = 48

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

 Score = 43.6 bits (103), Expect = 3e-06
 Identities = 20/46 (43%), Positives = 29/46 (63%), Gaps = 3/46 (6%)

Query: 18 DEFKCCVCLELLYKPVVLA-CGHISCFWCVYNAMNSWHESNCPVCR 62
          +E +C +CL+LL  PVVL  CGH+ C  C+   +    +S CP+CR
Sbjct: 1  EELECPICLDLLRDPVVLTPCGHVFCRECILRYLK--KKSKCPICR 44

Length = 45

>gnl|CDD|239079 cd02339, ZZ_Mind_bomb, Zinc finger, ZZ type

 Score = 40.9 bits (96), Expect = 3e-05
 Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 12/53 (22%)

Query: 324 CDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFE 376
           CD C    IIG R+KC +C     +DLC  C++           +H  EH+F 
Sbjct: 3   CDTCRKQGIIGIRWKCAEC---PNYDLCTTCYH---------GDKHDLEHRFY 43

Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has been shown to regulate signaling by the Notch ligand Delta in Drosophila melanogaster. Length = 45

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

 Score = 39.8 bits (93), Expect = 7e-05
 Identities = 17/41 (41%), Positives = 23/41 (56%), Gaps = 2/41 (4%)

Query: 22 CCVCLE-LLYKPVVLACGHISCFWCVYNAMNSWHESNCPVC 61
          C +CLE  L  PV+L CGH  C  C+   + S   + CP+C
Sbjct: 1  CPICLEEYLKDPVILPCGHTFCRSCIRKWLES-GNNTCPIC 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|222279 pfam13639, zf-RING_2, Ring finger domain

 Score = 39.7 bits (93), Expect = 9e-05
 Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 5/46 (10%)

Query: 22 CCVCLELLY---KPVVLACGHISCFWCVYNAMNSWHESNCPVCRNP 64
          C +CL+      + VVL CGH+    C+   +     + CP+CR P
Sbjct: 3  CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLR--SSNTCPLCRAP 46

Length = 46

>gnl|CDD|239084 cd02344, ZZ_HERC2, Zinc finger, ZZ type

 Score = 38.7 bits (90), Expect = 2e-04
 Identities = 20/54 (37%), Positives = 26/54 (48%), Gaps = 12/54 (22%)

Query: 322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKF 375
           V CD C M PI G R+KC++C +   FD CE C            ++H   H F
Sbjct: 1   VTCDGCQMFPINGPRFKCRNCDD---FDFCENCF---------KTRKHNTRHTF 42

Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Length = 45

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

 Score = 37.7 bits (88), Expect = 4e-04
 Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 4/48 (8%)

Query: 18 DEFKCCVCLELLYKPVVLACGH-ISCFWCVYNAMNSWHESNCPVCRNP 64
          ++  C +CLE     V L CGH   C  C   A     +  CP+CR P
Sbjct: 1  EDDLCVICLERPRNVVFLPCGHLCLCEEC---AKRLRSKKKCPICRQP 45

Length = 49

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

 Score = 37.5 bits (87), Expect = 5e-04
 Identities = 19/43 (44%), Positives = 23/43 (53%), Gaps = 1/43 (2%)

Query: 207 DDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNC 248
           ++L C  C  +L  PVVL  CGHVFC  C+        KCP C
Sbjct: 1   EELECPICLDLLRDPVVLTPCGHVFCRECILRYLKKKSKCPIC 43

Length = 45

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

 Score = 36.7 bits (85), Expect = 7e-04
 Identities = 18/40 (45%), Positives = 21/40 (52%), Gaps = 2/40 (5%)

Query: 211 CAACK-KMLFKPVVLNCGHVFCELCLF-VPEDGNFKCPNC 248
           C  C  + L  PV+L CGH FC  C+    E GN  CP C
Sbjct: 1   CPICLEEYLKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 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|227861 COG5574, PEX10, RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 40.6 bits (95), Expect = 8e-04
 Identities = 15/43 (34%), Positives = 21/43 (48%)

Query: 20  FKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCR 62
           +KC +CLE    P    CGH+ C  C+  +        CP+CR
Sbjct: 216 YKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCR 258

Length = 271

>gnl|CDD|144236 pfam00569, ZZ, Zinc finger, ZZ type

 Score = 36.7 bits (85), Expect = 8e-04
 Identities = 20/54 (37%), Positives = 25/54 (46%), Gaps = 8/54 (14%)

Query: 318 IHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKP 371
           IH    C+ C   PIIG RY C  C +   +DLC++C        GR    HK 
Sbjct: 1   IHHVYTCNICKECPIIGFRYHCLRCFD---YDLCQSCFFT-----GRKAGGHKM 46

Zinc finger present in dystrophin, CBP/p300. ZZ in dystrophin binds calmodulin. Putative zinc finger; binding not yet shown. Four to six cysteine residues in its sequence are responsible for coordinating zinc ions, to reinforce the structure. Length = 46

>gnl|CDD|233043 TIGR00599, rad18, DNA repair protein rad18

 Score = 41.1 bits (96), Expect = 9e-04
 Identities = 12/45 (26%), Positives = 23/45 (51%), Gaps = 2/45 (4%)

Query: 20 FKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNP 64
           +C +C +    PV+ +C H  C  C+   +++  +  CP+CR  
Sbjct: 27 LRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSN--QPKCPLCRAE 69

All proteins in this family for which functions are known are involved in nucleotide excision repair.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 397

>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 = 36.3 bits (84), Expect = 0.001
 Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 2/42 (4%)

Query: 211 CAACKKMLFKPVVL-NCGHVFCELCLF-VPEDGNFKCPNCQS 250
           C  C +   +PVVL  CGHVFC  C+    + G   CP C++
Sbjct: 2   CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRT 43

Length = 45

>gnl|CDD|222135 pfam13445, zf-RING_LisH, RING-type zinc-finger, LisH dimerisation motif

 Score = 36.9 bits (86), Expect = 0.001
 Identities = 15/44 (34%), Positives = 20/44 (45%), Gaps = 6/44 (13%)

Query: 209 LSCAACKKMLF----KPVVLNCGHVFCELCL--FVPEDGNFKCP 246
             C   K+++      PV+L CGHV+    L       G FKCP
Sbjct: 11  FVCPISKEVMTDEENPPVMLPCGHVYSRKALEKLAKNGGKFKCP 54

This zinc-finger is the dimerisation motif for LisH proteins, and is also a typical RING-type of plant ubiquitin ligases. Length = 55

>gnl|CDD|239074 cd02334, ZZ_dystrophin, Zinc finger, ZZ type

 Score = 36.6 bits (85), Expect = 0.001
 Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 8/50 (16%)

Query: 324 CDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEH 373
           C+ C   PI G RY+C  C     +DLC++C        GR ++ HK  H
Sbjct: 3   CNICKEFPITGFRYRCLKC---FNYDLCQSCF-----FSGRTSKSHKNSH 44

Zinc finger present in dystrophin and dystrobrevin. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dystrophin attaches actin filaments to an integral membrane glycoprotein complex in muscle cells. The ZZ domain in dystrophin has been shown to be essential for binding to the membrane protein beta-dystroglycan. Length = 49

>gnl|CDD|239075 cd02335, ZZ_ADA2, Zinc finger, ZZ type

 Score = 36.5 bits (85), Expect = 0.001
 Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 8/55 (14%)

Query: 324 CDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIM 378
           CDYC        R KC +C +   FDLC  C +      G    +H+ +H + ++
Sbjct: 3   CDYCSKDITGTIRIKCAECPD---FDLCLECFSA-----GAEIGKHRNDHNYRVV 49

Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Length = 49

>gnl|CDD|239080 cd02340, ZZ_NBR1_like, Zinc finger, ZZ type

 Score = 36.1 bits (84), Expect = 0.001
 Identities = 16/32 (50%), Positives = 20/32 (62%), Gaps = 4/32 (12%)

Query: 324 CDYCGMSPIIGERYKCKDCVESIGFDLCEACH 355
           CD C   PI+G RYKC  C +   +DLCE+C 
Sbjct: 3   CDGCQ-GPIVGVRYKCLVCPD---YDLCESCE 30

Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain. Length = 43

>gnl|CDD|227481 COG5152, COG5152, Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

 Score = 39.7 bits (92), Expect = 0.002
 Identities = 22/62 (35%), Positives = 26/62 (41%), Gaps = 1/62 (1%)

Query: 211 CAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEER 270
           C  CKK    PVV  CGH FC LC         +C  C     YG   V   ++  L +R
Sbjct: 199 CGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGK-ATYGRFWVVSDLQKMLNKR 257

Query: 271 FS 272
            S
Sbjct: 258 KS 259

Length = 259

>gnl|CDD|227547 COG5222, COG5222, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 39.7 bits (92), Expect = 0.002
 Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 2/43 (4%)

Query: 209 LSCAACKKMLFKPV-VLNCGHVFCELCL-FVPEDGNFKCPNCQ 249
           L C  C  +L  P+    CGH FC+ C+     D +FKCPNC 
Sbjct: 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCS 317

Length = 427

>gnl|CDD|178747 PLN03208, PLN03208, E3 ubiquitin-protein ligase RMA2; Provisional

 Score = 38.5 bits (89), Expect = 0.003
 Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 17/77 (22%)

Query: 1  MEAEEHEIELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCV----YNAMNSWHES 56
          +E +E +  L D      +F C +CL+ +  PVV  CGH+ C+ C+    Y + NS    
Sbjct: 3  IEKDEDDTTLVDS---GGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRV 59

Query: 57 N----------CPVCRN 63
          +          CPVC++
Sbjct: 60 DQYDHKREPPKCPVCKS 76

Length = 193

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	458
KOG3039	303	consensus Uncharacterized conserved protein [Funct	99.31
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.27
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.14
cd02344	45	ZZ_HERC2 Zinc finger, ZZ type. Zinc finger present	99.11
cd02334	49	ZZ_dystrophin Zinc finger, ZZ type. Zinc finger pr	99.09
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.08
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.07
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.94
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.94
cd02339	45	ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger pre	98.93
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.86
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.85
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.85
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.85
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.84
cd02341	48	ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present	98.84
cd02338	49	ZZ_PCMF_like Zinc finger, ZZ type. Zinc finger pre	98.84
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.84
cd02340	43	ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger pre	98.8
cd02342	43	ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger pre	98.8
cd02345	49	ZZ_dah Zinc finger, ZZ type. Zinc finger present i	98.79
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.79
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.78
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.76
PF00569	46	ZZ: Zinc finger, ZZ type; InterPro: IPR000433 Zinc	98.74
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.71
KOG2660	331	consensus Locus-specific chromosome binding protei	98.71
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.7
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.68
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.67
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.67
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.66
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.66
cd02343	48	ZZ_EF Zinc finger, ZZ type. Zinc finger present in	98.62
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.6
cd02335	49	ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present	98.58
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.58
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.57
PHA02929	238	N1R/p28-like protein; Provisional	98.57
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.53
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.53
PF14634	44	zf-RING_5: zinc-RING finger domain	98.51
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.51
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.5
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.5
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.5
cd02249	46	ZZ Zinc finger, ZZ type. Zinc finger present in dy	98.5
PF14634	44	zf-RING_5: zinc-RING finger domain	98.48
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.44
PHA02926	242	zinc finger-like protein; Provisional	98.44
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.44
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.42
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.41
PHA02929	238	N1R/p28-like protein; Provisional	98.4
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.37
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.36
smart00291	44	ZnF_ZZ Zinc-binding domain, present in Dystrophin,	98.35
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	98.32
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	98.3
KOG4582	278	consensus Uncharacterized conserved protein, conta	98.29
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.28
KOG4367	699	consensus Predicted Zn-finger protein [Function un	98.26
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.25
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.24
KOG1280	381	consensus Uncharacterized conserved protein contai	98.23
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.21
PHA02926	242	zinc finger-like protein; Provisional	98.11
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.04
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.04
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.98
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	97.95
KOG2660	331	consensus Locus-specific chromosome binding protei	97.94
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	97.94
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.93
COG5152	259	Uncharacterized conserved protein, contains RING a	97.9
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.9
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.9
COG5152	259	Uncharacterized conserved protein, contains RING a	97.86
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.82
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.78
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.77
cd02337	41	ZZ_CBP Zinc finger, ZZ type. Zinc finger present i	97.74
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.73
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	97.67
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	97.62
KOG4286	966	consensus Dystrophin-like protein [Cell motility;	97.6
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	97.57
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	97.45
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	97.4
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	97.38
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.37
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	97.36
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.33
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	97.3
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	97.3
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	97.29
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.27
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.19
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	97.17
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	97.16
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.1
COG5222	427	Uncharacterized conserved protein, contains RING Z	97.1
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.01
KOG0825	1134	consensus PHD Zn-finger protein [General function	96.93
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.69
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	96.66
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.64
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.5
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.22
KOG4301	434	consensus Beta-dystrobrevin [Cytoskeleton]	96.18
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	96.17
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	96.15
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	96.05
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	96.01
KOG4367	699	consensus Predicted Zn-finger protein [Function un	95.94
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	95.87
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	95.85
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	95.82
KOG0457	438	consensus Histone acetyltransferase complex SAGA/A	95.81
cd02336	45	ZZ_RSC8 Zinc finger, ZZ type. Zinc finger present	95.8
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	95.79
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.58
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	95.52
COG5219	1525	Uncharacterized conserved protein, contains RING Z	95.5
KOG1002	791	consensus Nucleotide excision repair protein RAD16	95.49
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	95.38
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	95.35
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	95.34
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	95.28
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	95.21
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	95.11
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	95.11
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	95.05
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	94.79
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	94.78
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	94.76
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	94.76
COG5114	432	Histone acetyltransferase complex SAGA/ADA, subuni	94.74
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	94.72
KOG1940	276	consensus Zn-finger protein [General function pred	94.71
KOG4739	233	consensus Uncharacterized protein involved in syna	94.69
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	94.43
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.43
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	94.34
PF04641	260	Rtf2: Rtf2 RING-finger	94.33
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	94.28
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	94.0
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	93.97
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	93.94
KOG1001	674	consensus Helicase-like transcription factor HLTF/	93.9
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	93.79
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	93.79
KOG4739	233	consensus Uncharacterized protein involved in syna	93.69
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	93.42
KOG3002	299	consensus Zn finger protein [General function pred	93.39
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	93.24
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	93.19
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	93.08
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	92.9
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	92.81
KOG3039	303	consensus Uncharacterized conserved protein [Funct	92.74
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	92.62
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	92.57
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	92.54
KOG3002	299	consensus Zn finger protein [General function pred	92.53
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	92.46
COG5175	480	MOT2 Transcriptional repressor [Transcription]	92.21
PF04641	260	Rtf2: Rtf2 RING-finger	91.67
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	90.96
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	90.69
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	90.57
COG5219	1525	Uncharacterized conserved protein, contains RING Z	90.57
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	90.13
KOG1941	518	consensus Acetylcholine receptor-associated protei	90.07
COG5236	493	Uncharacterized conserved protein, contains RING Z	89.77
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	89.73
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	89.7
KOG1001	674	consensus Helicase-like transcription factor HLTF/	89.69
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	89.67
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	89.55
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	89.02
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	88.94
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	88.9
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	88.9
PF06524	314	NOA36: NOA36 protein; InterPro: IPR010531 This fam	88.82
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	88.78
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	88.75
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	88.51
COG5236	493	Uncharacterized conserved protein, contains RING Z	88.45
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	88.37
KOG4445	368	consensus Uncharacterized conserved protein, conta	87.98
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	87.91
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	87.78
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	87.02
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	87.02
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	86.3
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	85.97
KOG1940	276	consensus Zn-finger protein [General function pred	85.73
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	85.7
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	85.43
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	85.4
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	85.05
COG5175	480	MOT2 Transcriptional repressor [Transcription]	84.84
PF00643	42	zf-B_box: B-box zinc finger; InterPro: IPR000315 Z	83.45
PHA02862	156	5L protein; Provisional	83.1
PHA02825	162	LAP/PHD finger-like protein; Provisional	81.89
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	80.35
PHA03096	284	p28-like protein; Provisional	80.28

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.31  E-value=5.2e-12  Score=115.67  Aligned_cols=108  Identities=12%  Similarity=0.008  Sum_probs=71.7

Q ss_pred             CcccccccccccCCCchhhhhhhhccccccccccchhhhcCCCCCchhhhh-hccCCCCCcccccccccCCCce---Ec-
Q 043080          150 SSPCMKSLEMTAESGDDAMLKLVTSSECSEATANSTAQECGLVGNDLEHKA-ENWVSVDDLSCAACKKMLFKPV---VL-  224 (458)
Q Consensus       150 ~~~~~~~~ps~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~C~iC~~~~~~pv---~l-  224 (458)
                      ++|+....|.+.....++|..-+..+.++.....+.+..+.|+..+-.... ........+.||||...|.+.+   +| 
T Consensus       162 sFWlPs~tP~A~atklekP~~~v~CP~s~kplklkdL~~VkFT~l~s~~~et~l~a~s~ryiCpvtrd~LtNt~~ca~Lr  241 (303)
T KOG3039|consen  162 SFWLPSLTPTAAATKLEKPSTTVVCPVSGKPLKLKDLFAVKFTPLNSEETETKLIAASKRYICPVTRDTLTNTTPCAVLR  241 (303)
T ss_pred             ceecCccCchhhhhcccCCCceeeccCCCCccchhhcceeeeeecCCchhhhhhhhhccceecccchhhhcCccceEEec
Confidence            366655566554444444444444444443334556777777665532222 1122337899999999999753   23 


Q ss_pred             ccCchhhHhhhhhccCCCCCCCCCccCCCCCCc
Q 043080          225 NCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLP  257 (458)
Q Consensus       225 ~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~  257 (458)
                      +|||+||..|++.++...+.||+|..++..+.+
T Consensus       242 ~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdi  274 (303)
T KOG3039|consen  242 PSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDI  274 (303)
T ss_pred             cCCcEeeHHHHHHhccccccccCCCCcCcccce
Confidence            999999999999999999999999998876543

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

Probab=99.27  E-value=2.1e-12  Score=88.67  Aligned_cols=40  Identities=38%  Similarity=0.861  Sum_probs=32.2

Q ss_pred             cccccccccCcEEccCCChhhHHhHHHHHhcCCC--CCCCCC
Q 043080           22 CCVCLELLYKPVVLACGHISCFWCVYNAMNSWHE--SNCPVC   61 (458)
Q Consensus        22 C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~--~~CP~C   61 (458)
                      |+||+++|.+||+++|||+||+.||.+++.....  ..||.|
T Consensus         1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999999999999999999999999986544  479987

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

Probab=99.14  E-value=1.6e-11  Score=84.34  Aligned_cols=38  Identities=42%  Similarity=1.031  Sum_probs=30.3

Q ss_pred             cccccccCCCceEcccCchhhHhhhhhccCC----CCCCCCC
Q 043080          211 CAACKKMLFKPVVLNCGHVFCELCLFVPEDG----NFKCPNC  248 (458)
Q Consensus       211 C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~----~~~CP~C  248 (458)
                      ||||+++|++||+|+|||+||..||.++++.    ...||.|
T Consensus         1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999999999999999999999999872    2689987

>cd02344 ZZ_HERC2 Zinc finger, ZZ type

Probab=99.11  E-value=6.6e-11  Score=81.59  Aligned_cols=45  Identities=44%  Similarity=1.043  Sum_probs=41.1

Q ss_pred             cccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEc
Q 043080          322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIM  378 (458)
Q Consensus       322 v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~  378 (458)
                      |.||.|...||.|.||+|..|.   +||||+.|+...         .|...|.|..|
T Consensus         1 V~Cd~C~~~pI~G~RykC~~C~---dyDLC~~Cf~~~---------~H~~~H~F~ri   45 (45)
T cd02344           1 VTCDGCQMFPINGPRFKCRNCD---DFDFCENCFKTR---------KHNTRHTFGRI   45 (45)
T ss_pred             CCCCCCCCCCCccCeEECCCCC---CccchHHhhCCC---------CcCCCCceeeC
Confidence            5799999999999999999999   999999999985         58899988764

Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.

>cd02334 ZZ_dystrophin Zinc finger, ZZ type

Probab=99.09  E-value=8.7e-11  Score=82.86  Aligned_cols=48  Identities=35%  Similarity=0.855  Sum_probs=43.4

Q ss_pred             cccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceE
Q 043080          322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEI  377 (458)
Q Consensus       322 v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~  377 (458)
                      |.||.|...||.|.||+|+.|.   +||||..|+..+     +..+.|..+|+|++
T Consensus         1 ~~Cd~C~~~pi~g~RykC~~C~---d~DLC~~Cf~~g-----~~~~~H~~~Hp~~e   48 (49)
T cd02334           1 AKCNICKEFPITGFRYRCLKCF---NYDLCQSCFFSG-----RTSKSHKNSHPMKE   48 (49)
T ss_pred             CCCCCCCCCCceeeeEECCCCC---CcCchHHHHhCC-----CcCCCCCCCCCeec
Confidence            5799999999999999999999   999999999986     45568999999976

Zinc finger present in dystrophin and dystrobrevin. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dystrophin attaches actin filaments to an integral membrane glycoprotein complex in muscle cells. The ZZ domain in dystrophin has been shown to be essential for binding to the membrane protein beta-dystroglycan.

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.08  E-value=1.1e-10  Score=105.34  Aligned_cols=66  Identities=30%  Similarity=0.685  Sum_probs=51.8

Q ss_pred             CCccchhcchhhhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcC--------------CCCCCCCCCCCCC
Q 043080            1 MEAEEHEIELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSW--------------HESNCPVCRNPYN   66 (458)
Q Consensus         1 ~e~~~~~~~~~~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~--------------~~~~CP~Cr~~~~   66 (458)
                      |+.++.+++...+ .....+.|+||++.+.+||+++|||+||..||..|+...              +...||+||..+.
T Consensus         1 ~~~~~~~~~~~~~-~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is   79 (193)
T PLN03208          1 MEIEKDEDDTTLV-DSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS   79 (193)
T ss_pred             CCcccccccceec-cCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence            5566666554444 344579999999999999999999999999999997531              2457999999886


Q ss_pred             C
Q 043080           67 H   67 (458)
Q Consensus        67 ~   67 (458)
                      .
T Consensus        80 ~   80 (193)
T PLN03208         80 E   80 (193)
T ss_pred             h
Confidence            3

>smart00504 Ubox Modified RING finger domain

Probab=99.07  E-value=9.9e-11  Score=88.06  Aligned_cols=62  Identities=13%  Similarity=0.096  Sum_probs=55.3

Q ss_pred             CcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHHHH
Q 043080          208 DLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEE  269 (458)
Q Consensus       208 ~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~  269 (458)
                      ++.||||++++.+||+++|||+||+.|+..|+.....||.|+..+....+..+..|++.++.
T Consensus         1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~~i~~   62 (63)
T smart00504        1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKSAIQE   62 (63)
T ss_pred             CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHHHHHh
Confidence            47899999999999999999999999999999888899999999977777778888777653

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

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

Probab=98.94  E-value=5.8e-10  Score=81.77  Aligned_cols=59  Identities=25%  Similarity=0.580  Sum_probs=34.6

Q ss_pred             CCcccccccccCCCceEc-ccCchhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHH
Q 043080          207 DDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFL  267 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~  267 (458)
                      .-+.|++|..+|+.||.+ .|.|+||..|+...+.  ..||+|+.+.....+++|..|++|+
T Consensus         6 ~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~NrqLd~~i   65 (65)
T PF14835_consen    6 ELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQINRQLDSMI   65 (65)
T ss_dssp             HTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS----HHHHHHH
T ss_pred             HhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHhhhhhhccC
Confidence            467899999999999976 9999999999988765  3599999999888899999999875

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.94  E-value=8.6e-10  Score=111.22  Aligned_cols=68  Identities=25%  Similarity=0.512  Sum_probs=61.8

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHHHHhhh
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERFS  272 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~~~  272 (458)
                      ++..+.|+||+++|..|++++|||+||..|+..++.....||+|+..+....+..|..|.+|++.|..
T Consensus        23 Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~~iVe~~~~   90 (397)
T TIGR00599        23 LDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSEIVESFKN   90 (397)
T ss_pred             cccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccchHHHHHHHHHHH
Confidence            45678999999999999999999999999999998877789999999887778899999999998854

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

>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type

Probab=98.93  E-value=1e-09  Score=76.09  Aligned_cols=44  Identities=41%  Similarity=0.941  Sum_probs=40.0

Q ss_pred             cccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceE
Q 043080          322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEI  377 (458)
Q Consensus       322 v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~  377 (458)
                      +.||.|+..+|.|.||+|..|.   +||||+.|+...         .|++.|+|..
T Consensus         1 i~Cd~C~~~~i~G~RykC~~C~---dyDLC~~C~~~~---------~H~~~H~f~r   44 (45)
T cd02339           1 IICDTCRKQGIIGIRWKCAECP---NYDLCTTCYHGD---------KHDLEHRFYR   44 (45)
T ss_pred             CCCCCCCCCCcccCeEECCCCC---CccchHHHhCCC---------CCCCCCCEEe
Confidence            4699999999999999999999   999999999864         5899999876

Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has been shown to regulate signaling by the Notch ligand Delta in Drosophila melanogaster.

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.86  E-value=3e-09  Score=107.37  Aligned_cols=62  Identities=19%  Similarity=0.632  Sum_probs=53.1

Q ss_pred             cchhcchhhhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080            4 EEHEIELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus         4 ~~~~~~~~~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      +|..-....++.|+..+.|+||+++|..||+++|||+||..||..++..  ...||+|+..+..
T Consensus        11 Dw~~t~~~~l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~--~~~CP~Cr~~~~~   72 (397)
T TIGR00599        11 DWLTTPIPSLYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSN--QPKCPLCRAEDQE   72 (397)
T ss_pred             hhccCCcccccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhC--CCCCCCCCCcccc
Confidence            3444455667899999999999999999999999999999999999874  3479999998864

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

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

Probab=98.85  E-value=1.4e-09  Score=104.07  Aligned_cols=64  Identities=20%  Similarity=0.608  Sum_probs=56.1

Q ss_pred             CccchhcchhhhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080            2 EAEEHEIELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus         2 e~~~~~~~~~~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      +.+|..-...++..|...++|-||.++|.-|+.++|||+||.-||..++.  ....||.|+..++.
T Consensus         6 ~Sdw~~tsipslk~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~--~~p~CP~C~~~~~E   69 (442)
T KOG0287|consen    6 ESDWPPTSIPSLKTLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLS--YKPQCPTCCVTVTE   69 (442)
T ss_pred             cccCCCccCchhhhhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhc--cCCCCCceecccch
Confidence            44566666778889999999999999999999999999999999999998  55689999998863

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

Probab=98.85  E-value=1.1e-09  Score=104.75  Aligned_cols=66  Identities=23%  Similarity=0.436  Sum_probs=61.7

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHHHHhh
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERF  271 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~~  271 (458)
                      ..-|+|.||.++|..|+.+||||+||.-||..++.....||.|+..+....++-|..|..|+..|-
T Consensus        21 D~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~~   86 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIVKSLN   86 (442)
T ss_pred             HHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHHHHHH
Confidence            356899999999999999999999999999999999999999999999888999999999999874

>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=98.85  E-value=1.4e-09  Score=73.53  Aligned_cols=38  Identities=42%  Similarity=1.024  Sum_probs=32.4

Q ss_pred             cccccccccCc-EEccCCChhhHHhHHHHHhcCCCCCCCCC
Q 043080           22 CCVCLELLYKP-VVLACGHISCFWCVYNAMNSWHESNCPVC   61 (458)
Q Consensus        22 C~IC~~~l~~P-v~~~CgH~FC~~Ci~~~~~~~~~~~CP~C   61 (458)
                      |+||++.+.+| +.++|||+||+.||.+++..  ...||+|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~--~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK--NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC--TSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHC--cCCCcCC
Confidence            89999999999 56999999999999999885  4689987

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

Probab=98.84  E-value=2e-09  Score=83.45  Aligned_cols=65  Identities=15%  Similarity=0.150  Sum_probs=55.3

Q ss_pred             CCcccccccccCCCceEcccCchhhHhhhhhccCC-CCCCCCCccCCCCCCchhhHHHHHHHHHhh
Q 043080          207 DDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDG-NFKCPNCQSLQPYGLPSVCLIIEHFLEERF  271 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~-~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~~  271 (458)
                      +.|.|||+++++.+||++++||+|++.+|..|+.. ...||.|+..+....+..|..|++.++.|.
T Consensus         3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~~   68 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEEWC   68 (73)
T ss_dssp             GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHHHH
T ss_pred             cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHHHH
Confidence            57899999999999999999999999999999996 899999999998888999999999999985

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 ....

>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type

Probab=98.84  E-value=3.4e-09  Score=74.41  Aligned_cols=47  Identities=38%  Similarity=0.934  Sum_probs=41.4

Q ss_pred             ccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEc
Q 043080          323 GCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIM  378 (458)
Q Consensus       323 ~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~  378 (458)
                      .||.|+..||.|.||+|++|.+ .+||||+.|+..+.        .|...|+|..|
T Consensus         2 ~Cd~C~~~pI~G~R~~C~~C~~-~d~DlC~~C~~~~~--------~H~~~H~~~~i   48 (48)
T cd02341           2 KCDSCGIEPIPGTRYHCSECDD-GDFDLCQDCVVKGE--------SHQEDHWLVKI   48 (48)
T ss_pred             CCCCCCCCccccceEECCCCCC-CCCccCHHHHhCcC--------CCCCCCceeeC
Confidence            6999999999999999999974 56999999999863        59999999864

Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.

>cd02338 ZZ_PCMF_like Zinc finger, ZZ type

Probab=98.84  E-value=2.9e-09  Score=75.58  Aligned_cols=48  Identities=38%  Similarity=0.840  Sum_probs=42.4

Q ss_pred             cccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceE
Q 043080          322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEI  377 (458)
Q Consensus       322 v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~  377 (458)
                      |.||.|+..||.|.||+|+.|.   +||||..|+..+.     ..+.|.+.|+|..
T Consensus         1 i~C~~C~~~~i~g~R~~C~~C~---d~dlC~~Cf~~~~-----~~~~H~~~H~~~~   48 (49)
T cd02338           1 VSCDGCGKSNFTGRRYKCLICY---DYDLCADCYDSGV-----TTERHLFDHPMQC   48 (49)
T ss_pred             CCCCCCcCCCcEEeeEEeCCCC---CCccchhHHhCCC-----cCCCCCCCCCEEE
Confidence            5799999999999999999999   9999999999863     3458999999875

Zinc finger present in potassium channel modulatory factor (PCMF) 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Human potassium channel modulatory factor 1 or FIGC has been shown to possess intrinsic E3 ubiquitin ligase activity and to promote ubiquitination.

>smart00504 Ubox Modified RING finger domain

Probab=98.84  E-value=3.6e-09  Score=79.47  Aligned_cols=46  Identities=28%  Similarity=0.459  Sum_probs=42.0

Q ss_pred             CCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           19 EFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        19 ~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      ++.||||++++.+||.++|||+||+.||..|+..  ...||+|+..+.
T Consensus         1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~--~~~cP~~~~~~~   46 (63)
T smart00504        1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLS--HGTDPVTGQPLT   46 (63)
T ss_pred             CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHH--CCCCCCCcCCCC
Confidence            4789999999999999999999999999999985  457999999875

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

>cd02340 ZZ_NBR1_like Zinc finger, ZZ type

Probab=98.80  E-value=4.7e-09  Score=72.20  Aligned_cols=43  Identities=49%  Similarity=1.013  Sum_probs=38.4

Q ss_pred             cccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEc
Q 043080          322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIM  378 (458)
Q Consensus       322 v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~  378 (458)
                      |.||.|+. +|.|.||+|+.|.   +||||..|+...         .| +.|+|..+
T Consensus         1 v~Cd~C~~-~i~G~ry~C~~C~---d~dLC~~C~~~~---------~H-~~H~f~~~   43 (43)
T cd02340           1 VICDGCQG-PIVGVRYKCLVCP---DYDLCESCEAKG---------VH-PEHAMLKI   43 (43)
T ss_pred             CCCCCCCC-cCcCCeEECCCCC---CccchHHhhCcC---------CC-CCCCEEeC
Confidence            57999998 9999999999999   999999999986         47 99998753

Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.

>cd02342 ZZ_UBA_plant Zinc finger, ZZ type

Probab=98.80  E-value=2.7e-09  Score=71.70  Aligned_cols=34  Identities=44%  Similarity=0.932  Sum_probs=32.1

Q ss_pred             cccCCCCCCCCCCcceeccCCccccCCCcchhhhcCC
Q 043080          322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNP  358 (458)
Q Consensus       322 v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~  358 (458)
                      +.||.|++.||+|.||+|..|.   +||||+.|+...
T Consensus         1 I~CDgCg~~PI~G~RykC~~C~---dyDLC~~C~~~~   34 (43)
T cd02342           1 IQCDGCGVLPITGPRYKSKVKE---DYDLCTICFSRM   34 (43)
T ss_pred             CCCCCCCCCcccccceEeCCCC---CCccHHHHhhhh
Confidence            5799999999999999999999   999999998875

Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.

>cd02345 ZZ_dah Zinc finger, ZZ type

Probab=98.79  E-value=4.6e-09  Score=74.48  Aligned_cols=49  Identities=27%  Similarity=0.647  Sum_probs=42.8

Q ss_pred             cccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEc
Q 043080          322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIM  378 (458)
Q Consensus       322 v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~  378 (458)
                      +.|+.|...+|.|.||+|+.|.   +||||..|+..+     +..+.|.+.|+|.++
T Consensus         1 ~~C~~C~~~~i~g~R~~C~~C~---dydLC~~Cf~~~-----~~~~~H~~~H~~~~~   49 (49)
T cd02345           1 LSCSACRKQDISGIRFPCQVCR---DYSLCLGCYTKG-----RETKRHNSLHIMYEL   49 (49)
T ss_pred             CcCCCCCCCCceEeeEECCCCC---CcCchHHHHhCC-----CcCCCCCCCCCcccC
Confidence            3699999889999999999999   999999999975     444589999998763

Zinc finger present in Drosophila dah and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dah (discontinuous actin hexagon) is a membrane associated protein essential for cortical furrow formation in Drosophila.

>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=98.79  E-value=3e-09  Score=72.74  Aligned_cols=40  Identities=38%  Similarity=0.906  Sum_probs=36.9

Q ss_pred             cccccccccCcE-EccCCChhhHHhHHHHHhcCCCCCCCCC
Q 043080           22 CCVCLELLYKPV-VLACGHISCFWCVYNAMNSWHESNCPVC   61 (458)
Q Consensus        22 C~IC~~~l~~Pv-~~~CgH~FC~~Ci~~~~~~~~~~~CP~C   61 (458)
                      |+||++.+..|+ +++|||.||..||.+|+...+...||+|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999999999 7999999999999999997667789987

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 ....

>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=1.8e-09  Score=73.08  Aligned_cols=38  Identities=45%  Similarity=0.950  Sum_probs=33.4

Q ss_pred             cccccccCCCc-eEcccCchhhHhhhhhccCCCCCCCCC
Q 043080          211 CAACKKMLFKP-VVLNCGHVFCELCLFVPEDGNFKCPNC  248 (458)
Q Consensus       211 C~iC~~~~~~p-v~l~CgH~fC~~Cl~~~~~~~~~CP~C  248 (458)
                      |+||++.+.+| +.++|||+||..|+.++++....||+|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            89999999999 567999999999999998888899987

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.76  E-value=6.6e-09  Score=94.01  Aligned_cols=50  Identities=34%  Similarity=0.650  Sum_probs=43.4

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccC----------------CCCCCCCCccCCCCC
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED----------------GNFKCPNCQSLQPYG  255 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~----------------~~~~CP~Cr~~~~~~  255 (458)
                      .+.+.|+||++.+.+|++++|||+||..||..|+.                ....||+||..+...
T Consensus        16 ~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~   81 (193)
T PLN03208         16 GGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA   81 (193)
T ss_pred             CCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence            35789999999999999999999999999998853                246899999988654

>PF00569 ZZ: Zinc finger, ZZ type; InterPro: IPR000433 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.74  E-value=2.2e-09  Score=75.24  Aligned_cols=38  Identities=53%  Similarity=1.176  Sum_probs=31.5

Q ss_pred             cccccccCCCCCCCCCCcceeccCCccccCCCcchhhhcCC
Q 043080          318 IHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNP  358 (458)
Q Consensus       318 ~h~~v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~  358 (458)
                      +|.++.|+.|+..+|.|.||+|+.|.   +||||..|+..+
T Consensus         1 ~h~~~~C~~C~~~~i~g~Ry~C~~C~---d~dLC~~C~~~g   38 (46)
T PF00569_consen    1 IHHGYTCDGCGTDPIIGVRYHCLVCP---DYDLCEDCFSKG   38 (46)
T ss_dssp             -CSSCE-SSS-SSSEESSEEEESSSS---S-EEEHHHHHH-
T ss_pred             CCCCeECcCCCCCcCcCCeEECCCCC---CCchhhHHHhCc
Confidence            36789999999999999999999999   999999999986

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents ZZ-type zinc finger domains, named because of their ability to bind two zinc ions []. These domains contain 4-6 Cys residues that participate in zinc binding (plus additional Ser/His residues), including a Cys-X2-Cys motif found in other zinc finger domains. These zinc fingers are thought to be involved in protein-protein interactions. The structure of the ZZ domain shows that it belongs to the family of cross-brace zinc finger motifs that include the PHD, RING, and FYVE domains []. ZZ-type zinc finger domains are found in: Transcription factors P300 and CBP. Plant proteins involved in light responses, such as Hrb1. E3 ubiquitin ligases MEX and MIB2 (6.3.2 from EC). Dystrophin and its homologues. Single copies of the ZZ zinc finger occur in the transcriptional adaptor/coactivator proteins P300, in cAMP response element-binding protein (CREB)-binding protein (CBP) and ADA2. CBP provides several binding sites for transcriptional coactivators. The site of interaction with the tumour suppressor protein p53 and the oncoprotein E1A with CBP/P300 is a Cys-rich region that incorporates two zinc-binding motifs: ZZ-type and TAZ2-type. The ZZ-type zinc finger of CBP contains two twisted anti-parallel beta-sheets and a short alpha-helix, and binds two zinc ions []. One zinc ion is coordinated by four cysteine residues via 2 Cys-X2-Cys motifs, and the third zinc ion via a third Cys-X-Cys motif and a His-X-His motif. The first zinc cluster is strictly conserved, whereas the second zinc cluster displays variability in the position of the two His residues. In Arabidopsis thaliana (Mouse-ear cress), the hypersensitive to red and blue 1 (Hrb1) protein, which regulating both red and blue light responses, contains a ZZ-type zinc finger domain []. ZZ-type zinc finger domains have also been identified in the testis-specific E3 ubiquitin ligase MEX that promotes death receptor-induced apoptosis []. MEX has four putative zinc finger domains: one ZZ-type, one SWIM-type and two RING-type. The region containing the ZZ-type and RING-type zinc fingers is required for interaction with UbcH5a and MEX self-association, whereas the SWIM domain was critical for MEX ubiquitination. In addition, the Cys-rich domains of dystrophin, utrophin and an 87kDa post-synaptic protein contain a ZZ-type zinc finger with high sequence identity to P300/CBP ZZ-type zinc fingers. In dystrophin and utrophin, the ZZ-type zinc finger lies between a WW domain (flanked by and EF hand) and the C-terminal coiled-coil domain. Dystrophin is thought to act as a link between the actin cytoskeleton and the extracellular matrix, and perturbations of the dystrophin-associated complex, for example, between dystrophin and the transmembrane glycoprotein beta-dystroglycan, may lead to muscular dystrophy. Dystrophin and its autosomal homologue utrophin interact with beta-dystroglycan via their C-terminal regions, which are comprised of a WW domain, an EF hand domain and a ZZ-type zinc finger domain []. The WW domain is the primary site of interaction between dystrophin or utrophin and dystroglycan, while the EF hand and ZZ-type zinc finger domains stabilise and strengthen this interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1TOT_A 2DIP_A 2FC7_A 2E5R_A.

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

Probab=98.71  E-value=6.9e-09  Score=95.49  Aligned_cols=52  Identities=35%  Similarity=0.857  Sum_probs=45.3

Q ss_pred             CCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCC-CCCCCCCCCCCCC
Q 043080           17 SDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHE-SNCPVCRNPYNHF   68 (458)
Q Consensus        17 ~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~-~~CP~Cr~~~~~~   68 (458)
                      -..|.|.||++...+||++.|||.||.-||.+|+..... ..||+|+..+...
T Consensus        45 ~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~   97 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID   97 (230)
T ss_pred             CCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence            457889999999999999999999999999999986544 4589999988754

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

Probab=98.71  E-value=1.4e-08  Score=97.95  Aligned_cols=89  Identities=18%  Similarity=0.306  Sum_probs=70.1

Q ss_pred             hhhcCCCCCccccccccccCcEE-ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCCCc-----hhHHHHHHHHHHchH
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVV-LACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPS-----ICHLLHFLLKKLYPL   85 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~-~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~-----~~~~l~~~l~~~~~~   85 (458)
                      -+..+...++|.+|.+||+++.+ +.|.|+||++||..++..  ...||.|...+.+...     ....++.++.+++|.
T Consensus         8 k~~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~--~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKLVPg   85 (331)
T KOG2660|consen    8 KLTELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE--SKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKLVPG   85 (331)
T ss_pred             hhhhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHH--hccCCccceeccCccccccCCcchHHHHHHHHHcch
Confidence            35678899999999999999999 579999999999999985  5689999988865442     344589999999998


Q ss_pred             HHHHHHHHHHHHHHHhC
Q 043080           86 TYEKRERQVAEEEKQLG  102 (458)
Q Consensus        86 ~~~~r~~~~~~e~~~~~  102 (458)
                      .++...+......+..+
T Consensus        86 l~erE~k~~rdFy~~~~  102 (331)
T KOG2660|consen   86 LQEREMKRRRDFYKSRP  102 (331)
T ss_pred             HHHHHHHHHHHHHHhCC
Confidence            77655444444444443

>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=98.70  E-value=7.8e-09  Score=73.97  Aligned_cols=46  Identities=33%  Similarity=0.857  Sum_probs=40.1

Q ss_pred             CCccccccccccCcEEccCCCh-hhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           19 EFKCCVCLELLYKPVVLACGHI-SCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        19 ~~~C~IC~~~l~~Pv~~~CgH~-FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +..|.||++...+++.++|||. ||..|+.+++.  ....||+||+.+.
T Consensus         2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~--~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLK--RKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH--TTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCceEEeCCCChHHHHHHhHHhcc--cCCCCCcCChhhc
Confidence            4679999999999999999999 99999999988  5668999999875

...

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

Probab=98.68  E-value=7.3e-09  Score=71.13  Aligned_cols=37  Identities=35%  Similarity=0.856  Sum_probs=23.4

Q ss_pred             cccccccccC----cEEccCCChhhHHhHHHHHhcC--CCCCCC
Q 043080           22 CCVCLELLYK----PVVLACGHISCFWCVYNAMNSW--HESNCP   59 (458)
Q Consensus        22 C~IC~~~l~~----Pv~~~CgH~FC~~Ci~~~~~~~--~~~~CP   59 (458)
                      ||||.+ +..    |+.|+|||+||+.||.+++...  +.++||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 877    9999999999999999998854  456777

>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A

Probab=98.67  E-value=5.1e-09  Score=72.81  Aligned_cols=40  Identities=40%  Similarity=0.890  Sum_probs=33.7

Q ss_pred             cccccccccc---CcEEccCCChhhHHhHHHHHhcCCCCCCCCCC
Q 043080           21 KCCVCLELLY---KPVVLACGHISCFWCVYNAMNSWHESNCPVCR   62 (458)
Q Consensus        21 ~C~IC~~~l~---~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr   62 (458)
                      .|+||++.+.   .++.++|||.||..||.+|++.  ..+||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~--~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR--NNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH--SSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh--CCcCCccC
Confidence            5999999994   4566999999999999999986  35899996

...

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

Probab=98.67  E-value=1.3e-08  Score=89.72  Aligned_cols=49  Identities=35%  Similarity=0.956  Sum_probs=41.9

Q ss_pred             CCCCccccccccccC--cEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           17 SDEFKCCVCLELLYK--PVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        17 ~~~~~C~IC~~~l~~--Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      +..+.||||++-+.+  ||.+.|||+||+.||...++  ....||+||+.++.
T Consensus       129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk--~~~~CP~C~kkIt~  179 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALK--NTNKCPTCRKKITH  179 (187)
T ss_pred             ccccCCCceecchhhccccccccchhHHHHHHHHHHH--hCCCCCCcccccch
Confidence            456899999999874  67799999999999999988  55689999997764

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

Probab=98.66  E-value=1.1e-08  Score=90.05  Aligned_cols=56  Identities=27%  Similarity=0.619  Sum_probs=46.4

Q ss_pred             hhccCCCCCcccccccccCCC--ceEcccCchhhHhhhhhccCCCCCCCCCccCCCCC
Q 043080          200 AENWVSVDDLSCAACKKMLFK--PVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYG  255 (458)
Q Consensus       200 ~~~~~~~~~l~C~iC~~~~~~--pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~  255 (458)
                      +.....+..+.||||+.-+.+  |+.+.|||+||+.||...++....||+|++.+..+
T Consensus       123 v~~~~~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k  180 (187)
T KOG0320|consen  123 VDPLRKEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK  180 (187)
T ss_pred             ccccccccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence            333344566899999998875  66789999999999999999999999999977654

>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=98.66  E-value=7.4e-09  Score=74.11  Aligned_cols=46  Identities=35%  Similarity=0.662  Sum_probs=41.0

Q ss_pred             CcccccccccCCCceEcccCch-hhHhhhhhccCCCCCCCCCccCCC
Q 043080          208 DLSCAACKKMLFKPVVLNCGHV-FCELCLFVPEDGNFKCPNCQSLQP  253 (458)
Q Consensus       208 ~l~C~iC~~~~~~pv~l~CgH~-fC~~Cl~~~~~~~~~CP~Cr~~~~  253 (458)
                      +..|+||++...+++.++|||. ||..|+.+++.....||+||+++.
T Consensus         2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            4679999999999999999999 999999999989999999999764

...

>cd02343 ZZ_EF Zinc finger, ZZ type

Probab=98.62  E-value=3.5e-08  Score=68.72  Aligned_cols=47  Identities=28%  Similarity=0.649  Sum_probs=39.6

Q ss_pred             cccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceE
Q 043080          322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEI  377 (458)
Q Consensus       322 v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~  377 (458)
                      |.||.|.. .+.|.||+|+.|.   +||||..|+..+     +....|..+|+|.-
T Consensus         1 i~CdgC~~-~~~~~RykCl~C~---d~DlC~~Cf~~g-----~~~~~H~~~Hpm~~   47 (48)
T cd02343           1 ISCDGCDE-IAPWHRYRCLQCT---DMDLCKTCFLGG-----VKPEGHEDDHEMVN   47 (48)
T ss_pred             CCCCCCCC-cCCCceEECCCCC---CchhHHHHHhCC-----ccCCCCCCCCCccc
Confidence            46999986 4678999999999   999999999996     44458999998863

Zinc finger present in proteins with an EF_hand motif. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.

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

Probab=98.60  E-value=2.5e-08  Score=93.75  Aligned_cols=74  Identities=23%  Similarity=0.314  Sum_probs=63.4

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHHHHhhhhHHHHHH
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERFSDLYAERK  279 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~~~~~~~~r~  279 (458)
                      ...+.|-||..+|..|+.++|||+||.-||..++.....||+||.......++-+..+..+++.|.......++
T Consensus        23 Ds~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~~s~~~ei~es~~~~r~~l~~   96 (391)
T COG5432          23 DSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRGSSGSREINESHARNRDLLRK   96 (391)
T ss_pred             hhHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHHhhhcccchhHHHHHHhhhhccHHHHH
Confidence            34678999999999999999999999999999999999999999988766677788888888887665555544

>cd02335 ZZ_ADA2 Zinc finger, ZZ type

Probab=98.58  E-value=7.3e-08  Score=68.47  Aligned_cols=48  Identities=33%  Similarity=0.850  Sum_probs=41.9

Q ss_pred             ccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEc
Q 043080          323 GCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIM  378 (458)
Q Consensus       323 ~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~  378 (458)
                      .||.|...++.|.||+|..|.   +||||..|+..+...     +.|.+.|+|+.+
T Consensus         2 ~Cd~C~~~~~~g~r~~C~~C~---d~dLC~~Cf~~g~~~-----~~H~~~H~~~~~   49 (49)
T cd02335           2 HCDYCSKDITGTIRIKCAECP---DFDLCLECFSAGAEI-----GKHRNDHNYRVV   49 (49)
T ss_pred             CCCCcCCCCCCCcEEECCCCC---CcchhHHhhhCcCCC-----CCCCCCCCeEeC
Confidence            599999989988999999999   999999999986443     479999998764

Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.

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

Probab=98.58  E-value=4.1e-08  Score=93.02  Aligned_cols=54  Identities=30%  Similarity=0.695  Sum_probs=46.0

Q ss_pred             cCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCCCc
Q 043080           15 AFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPS   70 (458)
Q Consensus        15 ~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~   70 (458)
                      ..+....|.+|++-..+|..++|||.||.+||.+|....  ..||+||..++....
T Consensus       235 i~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek--~eCPlCR~~~~pskv  288 (293)
T KOG0317|consen  235 IPEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEK--AECPLCREKFQPSKV  288 (293)
T ss_pred             CCCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccc--cCCCcccccCCCcce
Confidence            345678999999999999999999999999999999843  459999998875443

>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A

Probab=98.57  E-value=9.5e-09  Score=71.45  Aligned_cols=40  Identities=38%  Similarity=0.726  Sum_probs=34.8

Q ss_pred             ccccccccCC---CceEcccCchhhHhhhhhccCCCCCCCCCc
Q 043080          210 SCAACKKMLF---KPVVLNCGHVFCELCLFVPEDGNFKCPNCQ  249 (458)
Q Consensus       210 ~C~iC~~~~~---~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr  249 (458)
                      .|+||++.+.   ..+.++|||.||..|+..|++....||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            5999999884   567779999999999999999888999997

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.57  E-value=4.3e-08  Score=92.53  Aligned_cols=50  Identities=30%  Similarity=0.840  Sum_probs=41.1

Q ss_pred             CCCCCccccccccccCc--------EEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           16 FSDEFKCCVCLELLYKP--------VVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        16 l~~~~~C~IC~~~l~~P--------v~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ......|+||++.+.++        +.++|||.||..||..|+.  ...+||+||..+..
T Consensus       171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~--~~~tCPlCR~~~~~  228 (238)
T PHA02929        171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK--EKNTCPVCRTPFIS  228 (238)
T ss_pred             CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh--cCCCCCCCCCEeeE
Confidence            34578999999987653        5578999999999999987  45689999998753

>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=98.53  E-value=2.8e-08  Score=67.90  Aligned_cols=38  Identities=45%  Similarity=1.013  Sum_probs=35.4

Q ss_pred             cccccccCCCce-EcccCchhhHhhhhhccC--CCCCCCCC
Q 043080          211 CAACKKMLFKPV-VLNCGHVFCELCLFVPED--GNFKCPNC  248 (458)
Q Consensus       211 C~iC~~~~~~pv-~l~CgH~fC~~Cl~~~~~--~~~~CP~C  248 (458)
                      |+||.+.+..|+ +++|||.||..|+..++.  ....||+|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999999999 789999999999999987  78889987

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 ....

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

Probab=98.53  E-value=8.8e-08  Score=94.33  Aligned_cols=65  Identities=29%  Similarity=0.714  Sum_probs=54.2

Q ss_pred             CCCCCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHHHHh
Q 043080          204 VSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEER  270 (458)
Q Consensus       204 ~~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~  270 (458)
                      ...+.+.|+||+++|..|++++|||+||..|+..++.....||.||. ... .+..|..+.+++..+
T Consensus         9 ~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~-~~~-~~~~n~~l~~~~~~~   73 (386)
T KOG2177|consen    9 VLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP-PSR-NLRPNVLLANLVERL   73 (386)
T ss_pred             hccccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccCC-chh-ccCccHHHHHHHHHH
Confidence            35578999999999999988899999999999998877789999996 322 455677777777766

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.51  E-value=9e-08  Score=66.49  Aligned_cols=41  Identities=37%  Similarity=0.925  Sum_probs=35.8

Q ss_pred             ccccccccC---CCceEcccCchhhHhhhhhccCCCCCCCCCcc
Q 043080          210 SCAACKKML---FKPVVLNCGHVFCELCLFVPEDGNFKCPNCQS  250 (458)
Q Consensus       210 ~C~iC~~~~---~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~  250 (458)
                      .|++|.+.+   ..|++++|||+||..|+..+......||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            389999988   35788899999999999998877889999985

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

Probab=98.51  E-value=8.6e-08  Score=74.29  Aligned_cols=49  Identities=29%  Similarity=0.471  Sum_probs=39.8

Q ss_pred             CCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      +.|.|||+.+++.+||.+++||+|++.+|..|+.. +...||.++..+..
T Consensus         3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~-~~~~~P~t~~~l~~   51 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQ-NGGTDPFTRQPLSE   51 (73)
T ss_dssp             GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCT-TSSB-TTT-SB-SG
T ss_pred             cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHc-CCCCCCCCCCcCCc
Confidence            57899999999999999999999999999999986 46689999988864

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 ....

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

Probab=98.50  E-value=8.7e-08  Score=90.22  Aligned_cols=61  Identities=21%  Similarity=0.581  Sum_probs=53.0

Q ss_pred             cchhcchhhhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080            4 EEHEIELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus         4 ~~~~~~~~~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +|..-+..++..|...+.|.||..+|.-|+.++|||+||.-||..++.  ....||+||....
T Consensus        10 D~~~T~IPSL~~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~--~qp~CP~Cr~~~~   70 (391)
T COG5432          10 DWNQTKIPSLKGLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLG--TQPFCPVCREDPC   70 (391)
T ss_pred             ccccccCcchhcchhHHHhhhhhheeecceecccccchhHHHHHHHhc--CCCCCccccccHH
Confidence            445556677888889999999999999999999999999999999998  4457999999875

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

Probab=98.50  E-value=2.4e-08  Score=68.54  Aligned_cols=35  Identities=51%  Similarity=1.186  Sum_probs=22.2

Q ss_pred             cccccccCCC----ceEcccCchhhHhhhhhccC----CCCCCC
Q 043080          211 CAACKKMLFK----PVVLNCGHVFCELCLFVPED----GNFKCP  246 (458)
Q Consensus       211 C~iC~~~~~~----pv~l~CgH~fC~~Cl~~~~~----~~~~CP  246 (458)
                      ||||.+ +..    |++|+|||+||+.|+.++..    ..+.||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 887    99999999999999998876    356676

>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=98.50  E-value=1.1e-07  Score=65.65  Aligned_cols=43  Identities=44%  Similarity=1.070  Sum_probs=37.0

Q ss_pred             ccccccccccCcEEcc-CCChhhHHhHHHHHhcCCCCCCCCCCCC
Q 043080           21 KCCVCLELLYKPVVLA-CGHISCFWCVYNAMNSWHESNCPVCRNP   64 (458)
Q Consensus        21 ~C~IC~~~l~~Pv~~~-CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~   64 (458)
                      .|+||++.+..++.+. |||.||..|+..|+.. +...||.|+..
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~-~~~~Cp~C~~~   44 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKS-GKNTCPLCRTP   44 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHh-CcCCCCCCCCc
Confidence            4999999998888755 9999999999999885 46679999875

>cd02249 ZZ Zinc finger, ZZ type

Probab=98.50  E-value=1.4e-07  Score=66.10  Aligned_cols=45  Identities=42%  Similarity=0.979  Sum_probs=39.6

Q ss_pred             ccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEc
Q 043080          323 GCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIM  378 (458)
Q Consensus       323 ~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~  378 (458)
                      .||.|+. +|.|.||+|.+|.   +|+||..|+....       ..|...|.|+.+
T Consensus         2 ~C~~C~~-~i~g~r~~C~~C~---d~dLC~~Cf~~~~-------~~H~~~H~~~~~   46 (46)
T cd02249           2 SCDGCLK-PIVGVRYHCLVCE---DFDLCSSCYAKGK-------KGHPPDHSFTEI   46 (46)
T ss_pred             CCcCCCC-CCcCCEEECCCCC---CCcCHHHHHCcCc-------CCCCCCCCEeEC
Confidence            5999998 9999999999999   9999999999874       358889988763

Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.48  E-value=1.3e-07  Score=65.70  Aligned_cols=41  Identities=34%  Similarity=0.903  Sum_probs=34.6

Q ss_pred             ccccccccc---cCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCC
Q 043080           21 KCCVCLELL---YKPVVLACGHISCFWCVYNAMNSWHESNCPVCRN   63 (458)
Q Consensus        21 ~C~IC~~~l---~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~   63 (458)
                      .|+||.+.+   ..|++++|||+||..|+....  .....||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~--~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK--GKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc--CCCCCCcCCCC
Confidence            389999999   367789999999999999877  35568999985

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

Probab=98.44  E-value=1.1e-07  Score=90.26  Aligned_cols=56  Identities=21%  Similarity=0.470  Sum_probs=49.5

Q ss_pred             hccCCCCCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCCC
Q 043080          201 ENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGL  256 (458)
Q Consensus       201 ~~~~~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~  256 (458)
                      ...+.+....|.+|++...+|-.+||||.||..||..|......||+||..++...
T Consensus       232 ~~~i~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  232 LSSIPEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             CccCCCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            34456677899999999999999999999999999999998888999999887643

>PHA02926 zinc finger-like protein; Provisional

Probab=98.44  E-value=1.6e-07  Score=85.93  Aligned_cols=55  Identities=31%  Similarity=0.747  Sum_probs=43.1

Q ss_pred             hhhcCCCCCccccccccccC---------cEEccCCChhhHHhHHHHHhcC----CCCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYK---------PVVLACGHISCFWCVYNAMNSW----HESNCPVCRNPYN   66 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~---------Pv~~~CgH~FC~~Ci~~~~~~~----~~~~CP~Cr~~~~   66 (458)
                      .+-....+..|+||++...+         ++..+|+|+||..||..|....    ....||+||..+.
T Consensus       163 ~~~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        163 DVYRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             HHHhccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            34555678999999998753         3567999999999999998742    2356999999875

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

Probab=98.44  E-value=7.7e-08  Score=88.64  Aligned_cols=50  Identities=30%  Similarity=0.665  Sum_probs=45.0

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccC---CCCCCCCCccCCCCC
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED---GNFKCPNCQSLQPYG  255 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~---~~~~CP~Cr~~~~~~  255 (458)
                      ...+.|.||++..++||++.|||.||..||.+|+.   ....||+|+..+...
T Consensus        45 ~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~   97 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID   97 (230)
T ss_pred             CCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence            45789999999999999999999999999999987   577899999987654

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

Probab=98.42  E-value=4.7e-08  Score=71.82  Aligned_cols=49  Identities=35%  Similarity=0.920  Sum_probs=28.1

Q ss_pred             hcCCCCCccccccccccCcEE-ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           14 EAFSDEFKCCVCLELLYKPVV-LACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        14 ~~l~~~~~C~IC~~~l~~Pv~-~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +.++.-+.|++|.++|..||. ..|.|+||+.||...+.    ..||+|+.+..
T Consensus         2 ~~le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~----~~CPvC~~Paw   51 (65)
T PF14835_consen    2 ERLEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG----SECPVCHTPAW   51 (65)
T ss_dssp             HHHHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT----TB-SSS--B-S
T ss_pred             hHHHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC----CCCCCcCChHH
Confidence            456677899999999999987 68999999999977543    35999998764

>smart00184 RING Ring finger

Probab=98.41  E-value=2.8e-07  Score=61.32  Aligned_cols=39  Identities=44%  Similarity=1.020  Sum_probs=34.5

Q ss_pred             cccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCC
Q 043080           22 CCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVC   61 (458)
Q Consensus        22 C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~C   61 (458)
                      |+||++....++.++|||.||..|+..|+. .+...||.|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~-~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLK-SGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHH-hCcCCCCCC
Confidence            789999988999999999999999999987 345679987

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)

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.40  E-value=1.5e-07  Score=88.92  Aligned_cols=47  Identities=30%  Similarity=0.741  Sum_probs=40.5

Q ss_pred             CCcccccccccCCCc--------eEcccCchhhHhhhhhccCCCCCCCCCccCCC
Q 043080          207 DDLSCAACKKMLFKP--------VVLNCGHVFCELCLFVPEDGNFKCPNCQSLQP  253 (458)
Q Consensus       207 ~~l~C~iC~~~~~~p--------v~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~  253 (458)
                      .+..|+||++.+..+        ++++|||.||..|+.+|+.....||+||..+.
T Consensus       173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            467899999987653        45589999999999999998899999999764

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

Probab=98.37  E-value=1e-07  Score=92.48  Aligned_cols=73  Identities=33%  Similarity=0.660  Sum_probs=58.0

Q ss_pred             hhhcCCCCCccccccccccCcEEc-cCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCCCch--hHHHHHHHHHHchH
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSI--CHLLHFLLKKLYPL   85 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~-~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~--~~~l~~~l~~~~~~   85 (458)
                      .+..|..++.|+||++++...+++ .|+|.||+.||...++. +...||.||+.+...+.+  ...+..++.++++.
T Consensus        36 ~l~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~-gn~ecptcRk~l~SkrsLr~Dp~fdaLis~i~~s  111 (381)
T KOG0311|consen   36 DLAMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRS-GNNECPTCRKKLVSKRSLRIDPNFDALISKIYPS  111 (381)
T ss_pred             cHHHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHh-cCCCCchHHhhccccccCCCCccHHHHHHHHhcc
Confidence            467788899999999999998885 59999999999998886 556899999998654443  23355667777765

>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=98.36  E-value=2.2e-07  Score=64.10  Aligned_cols=42  Identities=38%  Similarity=0.847  Sum_probs=36.9

Q ss_pred             ccccccccCCCceEcc-cCchhhHhhhhhccCC-CCCCCCCccC
Q 043080          210 SCAACKKMLFKPVVLN-CGHVFCELCLFVPEDG-NFKCPNCQSL  251 (458)
Q Consensus       210 ~C~iC~~~~~~pv~l~-CgH~fC~~Cl~~~~~~-~~~CP~Cr~~  251 (458)
                      .|+||.+.+..++.++ |||.||..|+..|+.. ...||.|+..
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~   44 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP   44 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence            4999999998888775 9999999999999875 7889999875

>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein

Probab=98.35  E-value=4.8e-07  Score=62.76  Aligned_cols=36  Identities=44%  Similarity=1.145  Sum_probs=32.9

Q ss_pred             ccccccCCCCCCCCCCcceeccCCccccCCCcchhhhcCC
Q 043080          319 HFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNP  358 (458)
Q Consensus       319 h~~v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~  358 (458)
                      |.++.|+.|+. +|.|.||+|..|.   +||||..|+..+
T Consensus         2 ~~~~~C~~C~~-~i~g~ry~C~~C~---d~dlC~~Cf~~~   37 (44)
T smart00291        2 HHSYSCDTCGK-PIVGVRYHCLVCP---DYDLCQSCFAKG   37 (44)
T ss_pred             CCCcCCCCCCC-CCcCCEEECCCCC---CccchHHHHhCc
Confidence            44589999998 9999999999999   999999999985

Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].

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

Probab=98.32  E-value=8.4e-08  Score=91.19  Aligned_cols=48  Identities=29%  Similarity=0.688  Sum_probs=41.6

Q ss_pred             CccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCC
Q 043080           20 FKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHF   68 (458)
Q Consensus        20 ~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   68 (458)
                      -.|+||+....-||.+.|+|.||+-||+..... .+..|++||.++.+.
T Consensus         8 ~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~n-dk~~CavCR~pids~   55 (324)
T KOG0824|consen    8 KECLICYNTGNCPVNLYCFHKFCYICIKGSYKN-DKKTCAVCRFPIDST   55 (324)
T ss_pred             CcceeeeccCCcCccccccchhhhhhhcchhhc-CCCCCceecCCCCcc
Confidence            459999999999999999999999999876553 566799999999754

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

Probab=98.30  E-value=4.5e-07  Score=91.76  Aligned_cols=72  Identities=35%  Similarity=0.830  Sum_probs=57.6

Q ss_pred             cCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCCCchhHHH------HHHHHHHchHHHH
Q 043080           15 AFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICHLL------HFLLKKLYPLTYE   88 (458)
Q Consensus        15 ~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~l------~~~l~~~~~~~~~   88 (458)
                      .+..+|.|.||..+|++||+++|||+||..||.+.+.  ....||.||..+...+.....+      ..++.++++..+.
T Consensus        80 ~~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld--~~~~cp~Cr~~l~e~~~~~~~~~~~r~~~~li~~F~~~~~~  157 (398)
T KOG4159|consen   80 EIRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLD--QETECPLCRDELVELPALEQALSLNRLLCKLITKFLEGSSS  157 (398)
T ss_pred             cccchhhhhhhHhhcCCCccccccccccHHHHHHHhc--cCCCCcccccccccchHHHHHHHHHHHHHHHHHHhhhhhhc
Confidence            4477999999999999999999999999999999877  5567999999997655544433      3566666666655

>KOG4582 consensus Uncharacterized conserved protein, contains ZZ-type Zn-finger [General function prediction only]

Probab=98.29  E-value=6.5e-07  Score=87.22  Aligned_cols=61  Identities=31%  Similarity=0.690  Sum_probs=46.7

Q ss_pred             CCCccccc-----cccCCCCCCCCCCcceeccCCccccCCCcchhhhcCC-CCCCCCCCC---CCCCCCcceE
Q 043080          314 NGPKIHFG-----VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNP-AKVPGRFNQ---QHKPEHKFEI  377 (458)
Q Consensus       314 ~~~~~h~~-----v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~-~~~~gr~~~---~h~~~H~~~~  377 (458)
                      ....+|.+     +.||.|...+|+|.||+|..|.   +||||+.|+..+ +...+++.+   .+++.|....
T Consensus       140 ~~~~~H~~~~~~~v~CD~C~~~~IvG~RyKC~~C~---dYDLCe~Ce~~~~~h~~H~~lR~~t~~t~~~~~~~  209 (278)
T KOG4582|consen  140 VVGEMHPNISKLSVPCDNCGKPGIVGARYKCTVCP---DYDLCERCEAGNEHHAAHAMLRLHTNETPFSGYVM  209 (278)
T ss_pred             CccccCCCcccccccCCCccCCccccceeeecCCC---ccchhHHhhcCCCCCcccceeecccccCCCCccee
Confidence            44567888     9999999999999999999999   999999999996 444445544   4444443333

>smart00184 RING Ring finger

Probab=98.28  E-value=5.4e-07  Score=59.91  Aligned_cols=38  Identities=47%  Similarity=1.021  Sum_probs=34.6

Q ss_pred             cccccccCCCceEcccCchhhHhhhhhccC-CCCCCCCC
Q 043080          211 CAACKKMLFKPVVLNCGHVFCELCLFVPED-GNFKCPNC  248 (458)
Q Consensus       211 C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~-~~~~CP~C  248 (458)
                      |+||++....++.++|||.||..|+..|+. ....||+|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            789999999999999999999999999987 66779987

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

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

Probab=98.26  E-value=9.3e-07  Score=87.57  Aligned_cols=31  Identities=29%  Similarity=0.895  Sum_probs=29.2

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhh
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLF  236 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~  236 (458)
                      +++|.||||...|.+|+.|+|+|+.|+.|..
T Consensus         2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~   32 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPIILPCSHNLCQACAR   32 (699)
T ss_pred             cccccCceehhhccCceEeecccHHHHHHHH
Confidence            5789999999999999999999999999974

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

Probab=98.25  E-value=4.4e-07  Score=89.37  Aligned_cols=50  Identities=38%  Similarity=0.852  Sum_probs=44.8

Q ss_pred             hhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRN   63 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~   63 (458)
                      ....+.+.+.|+||+++|..|++++|||+||+.|+..++.  ....||.||.
T Consensus         6 ~~~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~--~~~~Cp~cr~   55 (386)
T KOG2177|consen    6 LLEVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE--GPLSCPVCRP   55 (386)
T ss_pred             hhhhccccccChhhHHHhhcCccccccchHhHHHHHHhcC--CCcCCcccCC
Confidence            4567788999999999999998899999999999999887  5578999994

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

Probab=98.24  E-value=4.5e-07  Score=92.28  Aligned_cols=49  Identities=35%  Similarity=0.743  Sum_probs=43.3

Q ss_pred             CCccccccccccCcEEccCCChhhHHhHHHHHhcC---CCCCCCCCCCCCCC
Q 043080           19 EFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSW---HESNCPVCRNPYNH   67 (458)
Q Consensus        19 ~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~---~~~~CP~Cr~~~~~   67 (458)
                      ...||||++...-|+.+.|||.||..||..+|...   +...||+||..++.
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            78999999999999999999999999999999854   33569999998864

>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]

Probab=98.23  E-value=4.9e-07  Score=87.40  Aligned_cols=60  Identities=35%  Similarity=0.707  Sum_probs=53.5

Q ss_pred             cccccccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEcCCCChhh
Q 043080          318 IHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQPTSLSD  385 (458)
Q Consensus       318 ~h~~v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~~~~~~~~  385 (458)
                      -|.||.||.|+.....+.||+|+.|.   +||||.+||..+-.+.     .|..+|+|+.+..+.-.+
T Consensus         5 rHe~v~CdgC~k~~~t~rrYkCL~C~---DyDlC~sCyen~~tt~-----~H~~dHPmqcil~~~dfe   64 (381)
T KOG1280|consen    5 RHEGVSCDGCGKTAFTFRRYKCLRCS---DYDLCFSCYENGATTP-----IHDEDHPMQCILSRVDFE   64 (381)
T ss_pred             CcCCceeccccccceeeeeeEeeeec---chhHHHHHhhcCCCCc-----ccCCCCceeEEeecccee
Confidence            48899999999999999999999999   9999999999975554     799999999988766655

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

Probab=98.21  E-value=7.3e-07  Score=83.60  Aligned_cols=51  Identities=29%  Similarity=0.684  Sum_probs=43.0

Q ss_pred             CCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHF   68 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   68 (458)
                      .++.|.||++....|..++|||+||..||...|.....-.||+||+.....
T Consensus       214 ~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk  264 (271)
T COG5574         214 ADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK  264 (271)
T ss_pred             cccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence            477799999999999999999999999999965544545699999877543

>PHA02926 zinc finger-like protein; Provisional

Probab=98.11  E-value=1.4e-06  Score=79.85  Aligned_cols=49  Identities=20%  Similarity=0.645  Sum_probs=38.9

Q ss_pred             CCCCcccccccccCCC---------ceEcccCchhhHhhhhhccCC------CCCCCCCccCCC
Q 043080          205 SVDDLSCAACKKMLFK---------PVVLNCGHVFCELCLFVPEDG------NFKCPNCQSLQP  253 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~---------pv~l~CgH~fC~~Cl~~~~~~------~~~CP~Cr~~~~  253 (458)
                      ...+..|+||++....         +++.+|+|+||..|+..|...      ...||+||..+.
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            4467889999987643         355599999999999999863      356999999764

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

Probab=98.04  E-value=2e-06  Score=87.61  Aligned_cols=51  Identities=33%  Similarity=0.704  Sum_probs=44.9

Q ss_pred             CcccccccccCCCceEcccCchhhHhhhhhccC-----CCCCCCCCccCCCCCCch
Q 043080          208 DLSCAACKKMLFKPVVLNCGHVFCELCLFVPED-----GNFKCPNCQSLQPYGLPS  258 (458)
Q Consensus       208 ~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~-----~~~~CP~Cr~~~~~~~~~  258 (458)
                      ...||||+....-|+.+.|||.||..||..+|.     +...||+|+..+..+.+.
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~  241 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL  241 (513)
T ss_pred             CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence            889999999999999999999999999999876     567899999988765443

>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=98.04  E-value=3.1e-06  Score=65.48  Aligned_cols=40  Identities=40%  Similarity=0.984  Sum_probs=31.6

Q ss_pred             cccccccccc------------CcEE-ccCCChhhHHhHHHHHhcCCCCCCCCCC
Q 043080           21 KCCVCLELLY------------KPVV-LACGHISCFWCVYNAMNSWHESNCPVCR   62 (458)
Q Consensus        21 ~C~IC~~~l~------------~Pv~-~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr   62 (458)
                      .|+||++.|.            -++. ..|||.|+..||.+|+..  ...||+||
T Consensus        21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~--~~~CP~CR   73 (73)
T PF12678_consen   21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ--NNTCPLCR   73 (73)
T ss_dssp             BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT--SSB-TTSS
T ss_pred             cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc--CCcCCCCC
Confidence            4999999993            2333 579999999999999984  44899997

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 ....

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.98  E-value=4.2e-06  Score=81.46  Aligned_cols=49  Identities=31%  Similarity=0.692  Sum_probs=37.7

Q ss_pred             Cccccccccc-CCCce---Ec-ccCchhhHhhhhhccC-CCCCCCCCccCCCCCC
Q 043080          208 DLSCAACKKM-LFKPV---VL-NCGHVFCELCLFVPED-GNFKCPNCQSLQPYGL  256 (458)
Q Consensus       208 ~l~C~iC~~~-~~~pv---~l-~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~~~  256 (458)
                      +..||+|+.. +.+|-   .+ +|||.||..|+..++. +...||.|+..+....
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            4689999983 44553   22 7999999999999765 6678999999886544

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

>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=97.95  E-value=5.1e-06  Score=64.30  Aligned_cols=40  Identities=38%  Similarity=0.792  Sum_probs=33.0

Q ss_pred             ccccccccCCC------------ceE-cccCchhhHhhhhhccCCCCCCCCCc
Q 043080          210 SCAACKKMLFK------------PVV-LNCGHVFCELCLFVPEDGNFKCPNCQ  249 (458)
Q Consensus       210 ~C~iC~~~~~~------------pv~-l~CgH~fC~~Cl~~~~~~~~~CP~Cr  249 (458)
                      .|+||++.|..            ++. .+|||.|+..||.+|+.....||+||
T Consensus        21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            49999999833            333 38999999999999999888999997

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 ....

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

Probab=97.94  E-value=5.3e-06  Score=80.31  Aligned_cols=69  Identities=17%  Similarity=0.406  Sum_probs=59.0

Q ss_pred             CCcccccccccCCCceEc-ccCchhhHhhhhhccCCCCCCCCCccCCCC----CCchhhHHHHHHHHHhhhhHH
Q 043080          207 DDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQPY----GLPSVCLIIEHFLEERFSDLY  275 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~----~~~~~~~~l~~l~~~~~~~~~  275 (458)
                      ...+|.+|..+|.++.++ -|.|+||+.||..++.....||.|...+..    ..+..+..|+.|+-.++|.-+
T Consensus        14 ~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKLVPgl~   87 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKLVPGLQ   87 (331)
T ss_pred             cceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccccccCCcchHHHHHHHHHcchHH
Confidence            567899999999999887 899999999999999999999999986643    346667888888888887655

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

Probab=97.94  E-value=3.5e-06  Score=79.08  Aligned_cols=49  Identities=29%  Similarity=0.659  Sum_probs=42.0

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhh-ccCCCC-CCCCCccCCCC
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFV-PEDGNF-KCPNCQSLQPY  254 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~-~~~~~~-~CP~Cr~~~~~  254 (458)
                      ..++.|+||++....|..++|||.||..||.. |..... .||+||+.+..
T Consensus       213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p  263 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYP  263 (271)
T ss_pred             ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence            35788999999999999999999999999998 655444 49999997654

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

Probab=97.93  E-value=2e-06  Score=83.64  Aligned_cols=69  Identities=20%  Similarity=0.449  Sum_probs=54.5

Q ss_pred             CCCCcccccccccCCCceEc-ccCchhhHhhhhhccC-CCCCCCCCccCC-CCCCchhhHHHHHHHHHhhhh
Q 043080          205 SVDDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPED-GNFKCPNCQSLQ-PYGLPSVCLIIEHFLEERFSD  273 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~-~~~~~~~~~~l~~l~~~~~~~  273 (458)
                      ..-++.|+||+.+++..++. .|+|.||..||...+. +...||.||+.+ ..+.++.......|+...|+.
T Consensus        40 ~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp~fdaLis~i~~s  111 (381)
T KOG0311|consen   40 FDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDPNFDALISKIYPS  111 (381)
T ss_pred             hhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCccHHHHHHHHhcc
Confidence            34578999999999998877 8999999999987766 789999999976 445566666666666655543

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

Probab=97.90  E-value=6.1e-06  Score=73.83  Aligned_cols=60  Identities=30%  Similarity=0.530  Sum_probs=49.9

Q ss_pred             CcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHHH
Q 043080          208 DLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLE  268 (458)
Q Consensus       208 ~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~  268 (458)
                      .+.|.||.+.|..||++.|||+||..|..+-++....|-+|.+..... +.|...++.|+.
T Consensus       196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~-f~V~~d~~kmL~  255 (259)
T COG5152         196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATYGR-FWVVSDLQKMLN  255 (259)
T ss_pred             ceeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhccc-eeHHhhHHHHHh
Confidence            468999999999999999999999999999888999999999876543 445555555554

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

Probab=97.90  E-value=1.5e-06  Score=86.84  Aligned_cols=46  Identities=24%  Similarity=0.508  Sum_probs=37.4

Q ss_pred             CCCcccccccccCCCce----EcccCchhhHhhhhhccCCCCCCCCCccCCC
Q 043080          206 VDDLSCAACKKMLFKPV----VLNCGHVFCELCLFVPEDGNFKCPNCQSLQP  253 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv----~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~  253 (458)
                      .+--+||||++.+-.-+    ++.|.|+|...|+..|+  ..+||+||....
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            35668999999988654    45999999999999995  578999987443

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.90  E-value=1.8e-05  Score=77.10  Aligned_cols=48  Identities=27%  Similarity=0.611  Sum_probs=36.6

Q ss_pred             CCcccccccc-ccCcE---E-ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           19 EFKCCVCLEL-LYKPV---V-LACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        19 ~~~C~IC~~~-l~~Pv---~-~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      +..||+|+.. +..|-   . .+|||.||.+||...|.. +...||.|+..+..
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~-~~~~CP~C~~~lrk   55 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR-GSGSCPECDTPLRK   55 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcC-CCCCCCCCCCccch
Confidence            4579999984 22342   2 369999999999998864 55689999988753

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

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

Probab=97.86  E-value=9.3e-06  Score=72.69  Aligned_cols=61  Identities=26%  Similarity=0.485  Sum_probs=49.0

Q ss_pred             CCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCCCchhHHHHHHHH
Q 043080           18 DEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICHLLHFLLK   80 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~l~~~l~   80 (458)
                      -.|.|.||.+.+..||++.|||.||..|..+-++  ....|-+|.+.....--+...++.+|.
T Consensus       195 IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~--kg~~C~~Cgk~t~G~f~V~~d~~kmL~  255 (259)
T COG5152         195 IPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQ--KGDECGVCGKATYGRFWVVSDLQKMLN  255 (259)
T ss_pred             CceeehhchhhccchhhhhcchhHHHHHHHHHhc--cCCcceecchhhccceeHHhhHHHHHh
Confidence            3578999999999999999999999999988777  445799999887765555555555553

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

Probab=97.82  E-value=7.9e-06  Score=59.85  Aligned_cols=45  Identities=24%  Similarity=0.388  Sum_probs=32.8

Q ss_pred             CCCCCccccccccccCcEE-ccCCChhhHHhHHHHHhcCCCCCCCC
Q 043080           16 FSDEFKCCVCLELLYKPVV-LACGHISCFWCVYNAMNSWHESNCPV   60 (458)
Q Consensus        16 l~~~~~C~IC~~~l~~Pv~-~~CgH~FC~~Ci~~~~~~~~~~~CP~   60 (458)
                      -...+.|||.+..|.+||. ..|||+|.+..|..++...+...||+
T Consensus         8 ~~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    8 GTISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             SB--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             cEeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            4457899999999999999 68999999999999996656677998

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

Probab=97.78  E-value=6.7e-06  Score=87.83  Aligned_cols=52  Identities=31%  Similarity=0.666  Sum_probs=45.4

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccC-CCCCCCCCccCCCCCCc
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED-GNFKCPNCQSLQPYGLP  257 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~~~~  257 (458)
                      .+-++||+|..-.++-|.+.|||+||..|+..... ....||.|+..|....+
T Consensus       641 K~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv  693 (698)
T KOG0978|consen  641 KELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDV  693 (698)
T ss_pred             HhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence            35789999999999999999999999999998776 78899999999876543

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

Probab=97.77  E-value=1.8e-05  Score=80.21  Aligned_cols=74  Identities=24%  Similarity=0.494  Sum_probs=59.8

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCC-----CchhhHHHHHHHHHhhhhHHHHHH
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYG-----LPSVCLIIEHFLEERFSDLYAERK  279 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~-----~~~~~~~l~~l~~~~~~~~~~~r~  279 (458)
                      ..++.|-||...|..||+++|||+||..||.+.+.....||.||..+...     ....|..+..++..|++..+....
T Consensus        82 ~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~~~~~~~~~~~r~~~~li~~F~~~~~~~s~  160 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVELPALEQALSLNRLLCKLITKFLEGSSSFSP  160 (398)
T ss_pred             cchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCcccccccccchHHHHHHHHHHHHHHHHHHhhhhhhccch
Confidence            46889999999999999999999999999999888899999999987631     112256666788888877766433

>cd02337 ZZ_CBP Zinc finger, ZZ type

Probab=97.74  E-value=2.2e-05  Score=53.38  Aligned_cols=31  Identities=32%  Similarity=0.892  Sum_probs=27.2

Q ss_pred             ccCCCCCCCCCCcceeccCCccccCCCcchhhhcCC
Q 043080          323 GCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNP  358 (458)
Q Consensus       323 ~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~  358 (458)
                      .|+.|..  +.|.||+|..|.   +||||..|+...
T Consensus         2 ~C~~C~~--~~~~r~~C~~C~---dfDLC~~C~~~~   32 (41)
T cd02337           2 TCNECKH--HVETRWHCTVCE---DYDLCITCYNTK   32 (41)
T ss_pred             cCCCCCC--cCCCceECCCCc---chhhHHHHhCCC
Confidence            4899975  668999999999   999999999884

Zinc finger present in CBP/p300 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. CREB-binding protein (CBP) is a large multidomain protein that provides binding sites for transcriptional coactivators, the role of the ZZ domain in CBP/p300 is unclear.

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

Probab=97.73  E-value=1e-05  Score=86.42  Aligned_cols=61  Identities=25%  Similarity=0.651  Sum_probs=51.3

Q ss_pred             hhcchhhhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080            6 HEIELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus         6 ~~~~~~~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ..+...++..+..-+.||+|..-+.+.|.+.|||.||..|+...... +...||.|...|..
T Consensus       630 d~~L~EElk~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~et-RqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  630 DEVLAEELKEYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYET-RQRKCPKCNAAFGA  690 (698)
T ss_pred             cHHHHHHHHHHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHH-hcCCCCCCCCCCCc
Confidence            34445667888999999999988888899999999999999987664 56789999999863

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

Probab=97.67  E-value=2e-05  Score=75.07  Aligned_cols=49  Identities=33%  Similarity=0.773  Sum_probs=42.0

Q ss_pred             CCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCCC
Q 043080           19 EFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFP   69 (458)
Q Consensus        19 ~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~   69 (458)
                      .+-|-||..+|+.||++.|||+||..|....++  ....|.+|.+++...-
T Consensus       241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~q--k~~~c~vC~~~t~g~~  289 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQ--KGEKCYVCSQQTHGSF  289 (313)
T ss_pred             CccccccccccccchhhcCCceeehhhhccccc--cCCcceeccccccccc
Confidence            566999999999999999999999999988776  4457999998876443

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

Probab=97.62  E-value=6.6e-05  Score=58.94  Aligned_cols=49  Identities=24%  Similarity=0.674  Sum_probs=36.7

Q ss_pred             CCCcccccccccc------------CcEE-ccCCChhhHHhHHHHHhcC-CCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLY------------KPVV-LACGHISCFWCVYNAMNSW-HESNCPVCRNPYN   66 (458)
Q Consensus        18 ~~~~C~IC~~~l~------------~Pv~-~~CgH~FC~~Ci~~~~~~~-~~~~CP~Cr~~~~   66 (458)
                      .+-.|.||...|.            -|++ -.|+|.|+..||.+|+... ....||+||+...
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            3556777766654            2544 4799999999999999964 3467999998764

>KOG4286 consensus Dystrophin-like protein [Cell motility; Signal transduction mechanisms; Cytoskeleton]

Probab=97.60  E-value=2.5e-05  Score=82.45  Aligned_cols=51  Identities=27%  Similarity=0.567  Sum_probs=46.4

Q ss_pred             ccccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEcC
Q 043080          321 GVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQ  379 (458)
Q Consensus       321 ~v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~~  379 (458)
                      ...|..|.+.||+|.||+|+.|.   ++|+|..|+..+     |....|.+.|+|.++-
T Consensus       603 ~~kCniCk~~pIvG~RyR~l~~f---n~dlCq~CF~sg-----raak~hk~~~pM~Ey~  653 (966)
T KOG4286|consen  603 QAKCNICKECPIIGFRYRSLKHF---NYDICQSCFFSG-----RAAKGHKMHYPMVEYC  653 (966)
T ss_pred             hhhcchhhhCccceeeeeehhhc---ChhHHhhHhhhc-----ccccCCCCCCCceeee
Confidence            47899999999999999999999   999999999985     6666999999999973

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

Probab=97.57  E-value=3.7e-05  Score=76.13  Aligned_cols=46  Identities=28%  Similarity=0.617  Sum_probs=38.4

Q ss_pred             CccccccccccC--cE-EccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           20 FKCCVCLELLYK--PV-VLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        20 ~~C~IC~~~l~~--Pv-~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      .+|.||++-|..  -+ .|+|+|.|+..||..|+.+. ...||+|+..+.
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~-r~~CPvCK~di~  278 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT-RTFCPVCKRDIR  278 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc-CccCCCCCCcCC
Confidence            499999999973  33 39999999999999999974 455999988664

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

Probab=97.45  E-value=7.6e-05  Score=71.23  Aligned_cols=56  Identities=32%  Similarity=0.718  Sum_probs=46.3

Q ss_pred             CcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHH
Q 043080          208 DLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIE  264 (458)
Q Consensus       208 ~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~  264 (458)
                      .+.|-||.++|..||+..|||.||..|....++....|++|.+.+... +.+...|.
T Consensus       241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~-~~~akeL~  296 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGS-FNVAKELL  296 (313)
T ss_pred             CccccccccccccchhhcCCceeehhhhccccccCCcceecccccccc-cchHHHHH
Confidence            356999999999999999999999999999998899999998876543 44444443

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

Probab=97.40  E-value=9.6e-05  Score=72.37  Aligned_cols=47  Identities=32%  Similarity=0.918  Sum_probs=39.8

Q ss_pred             CCCCcccccccccc-------------CcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCC
Q 043080           17 SDEFKCCVCLELLY-------------KPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPY   65 (458)
Q Consensus        17 ~~~~~C~IC~~~l~-------------~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~   65 (458)
                      ..+-.|.||.+-+.             +|-.++|||.|+..|++.|+.++  -+||+||.++
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERq--QTCPICr~p~  344 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQ--QTCPICRRPV  344 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhc--cCCCcccCcc
Confidence            57889999998843             34779999999999999999944  4899999985

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

Probab=97.38  E-value=8.7e-05  Score=79.59  Aligned_cols=49  Identities=33%  Similarity=0.646  Sum_probs=42.8

Q ss_pred             CCCCCccccccccccC-----cEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           16 FSDEFKCCVCLELLYK-----PVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        16 l~~~~~C~IC~~~l~~-----Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      ......|+||.+.+..     |..++|||.||.+|+.+|+++  ..+||.||..+.
T Consensus       288 ~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er--~qtCP~CR~~~~  341 (543)
T KOG0802|consen  288 ALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER--QQTCPTCRTVLY  341 (543)
T ss_pred             hhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH--hCcCCcchhhhh
Confidence            3457899999999998     788999999999999999995  568999999553

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

Probab=97.37  E-value=0.00012  Score=69.25  Aligned_cols=56  Identities=27%  Similarity=0.594  Sum_probs=46.9

Q ss_pred             hhhhcCCCCCccccccccccCcEEcc-CCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           11 ADKEAFSDEFKCCVCLELLYKPVVLA-CGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        11 ~~~~~l~~~~~C~IC~~~l~~Pv~~~-CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      .+.........|++|.+.-..|.+.. |||.||..||.....-...+.||.|..+..
T Consensus       231 ~sss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  231 FSSSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cccccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            34455567889999999999999965 999999999999877666789999988764

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

Probab=97.36  E-value=7.1e-05  Score=73.27  Aligned_cols=48  Identities=29%  Similarity=0.634  Sum_probs=41.7

Q ss_pred             CCCCcccccccccCC-------------CceEcccCchhhHhhhhhccCCCCCCCCCccCC
Q 043080          205 SVDDLSCAACKKMLF-------------KPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQ  252 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~-------------~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~  252 (458)
                      ...+-+|.||++-+.             .|..|||||.++..|+.-|++....||.||.++
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            446778999998743             247899999999999999999999999999985

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

Probab=97.33  E-value=2.3e-05  Score=82.93  Aligned_cols=48  Identities=21%  Similarity=0.286  Sum_probs=40.1

Q ss_pred             CCcccccccccCCCceEc---ccCchhhHhhhhhccCCCCCCCCCccCCCC
Q 043080          207 DDLSCAACKKMLFKPVVL---NCGHVFCELCLFVPEDGNFKCPNCQSLQPY  254 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l---~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~  254 (458)
                      ..-.||+|+..+.+-...   +|+|.||..||..|-+....||+||..+..
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~  172 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGE  172 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence            445799999877764433   899999999999999989999999998754

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

Probab=97.30  E-value=0.00012  Score=72.65  Aligned_cols=46  Identities=26%  Similarity=0.380  Sum_probs=38.8

Q ss_pred             cccccccccCCCc---eEcccCchhhHhhhhhccCCC-CCCCCCccCCCC
Q 043080          209 LSCAACKKMLFKP---VVLNCGHVFCELCLFVPEDGN-FKCPNCQSLQPY  254 (458)
Q Consensus       209 l~C~iC~~~~~~p---v~l~CgH~fC~~Cl~~~~~~~-~~CP~Cr~~~~~  254 (458)
                      .+|.||++-|..-   +.|||.|.|+..|+..|+... ..||+|+..+..
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence            4899999999853   557999999999999999855 559999987654

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

Probab=97.30  E-value=0.00014  Score=69.56  Aligned_cols=48  Identities=29%  Similarity=0.634  Sum_probs=39.4

Q ss_pred             CCCccccccccccC--c-EEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYK--P-VVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        18 ~~~~C~IC~~~l~~--P-v~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      .-..|.||++-|.+  . +++||.|.|+..|+.+|+.. -+..||+||.++.
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~-y~~~CPvCrt~iP  372 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLG-YSNKCPVCRTAIP  372 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhh-hcccCCccCCCCC
Confidence            34679999999863  3 45999999999999999984 4567999998874

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

Probab=97.29  E-value=0.00023  Score=55.93  Aligned_cols=33  Identities=27%  Similarity=0.603  Sum_probs=27.9

Q ss_pred             ceEc-ccCchhhHhhhhhccC---CCCCCCCCccCCC
Q 043080          221 PVVL-NCGHVFCELCLFVPED---GNFKCPNCQSLQP  253 (458)
Q Consensus       221 pv~l-~CgH~fC~~Cl~~~~~---~~~~CP~Cr~~~~  253 (458)
                      |+++ .|+|.|+..||.+|+.   ....||+||+...
T Consensus        46 plv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   46 PLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             ceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            5555 8999999999999987   3579999998764

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

Probab=97.27  E-value=0.00015  Score=69.39  Aligned_cols=47  Identities=26%  Similarity=0.448  Sum_probs=40.9

Q ss_pred             cccccccccCCCceEcccCchhhHhhhhhccC-CCCCCCCCccCCCCC
Q 043080          209 LSCAACKKMLFKPVVLNCGHVFCELCLFVPED-GNFKCPNCQSLQPYG  255 (458)
Q Consensus       209 l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~~  255 (458)
                      -.|+||+.....|+.|+|+|.||.-||+.... ....|++||.++...
T Consensus         8 ~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~   55 (324)
T KOG0824|consen    8 KECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST   55 (324)
T ss_pred             CcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence            35999999999999999999999999987655 556699999998754

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

Probab=97.19  E-value=0.00022  Score=67.36  Aligned_cols=49  Identities=29%  Similarity=0.760  Sum_probs=41.6

Q ss_pred             CCCCcccccccccCCCceEc-ccCchhhHhhhhhccC--CCCCCCCCccCCC
Q 043080          205 SVDDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPED--GNFKCPNCQSLQP  253 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~--~~~~CP~Cr~~~~  253 (458)
                      .....+||+|.+.-..|.++ +|||.||..|+.....  ..+.||.|+....
T Consensus       236 ~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             ccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            34567899999999999988 6999999999987644  6799999998764

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

Probab=97.17  E-value=0.00017  Score=68.85  Aligned_cols=47  Identities=32%  Similarity=0.509  Sum_probs=40.3

Q ss_pred             CcccccccccCCC---ceEcccCchhhHhhhhhccC-CCCCCCCCccCCCC
Q 043080          208 DLSCAACKKMLFK---PVVLNCGHVFCELCLFVPED-GNFKCPNCQSLQPY  254 (458)
Q Consensus       208 ~l~C~iC~~~~~~---pv~l~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~  254 (458)
                      ...|.||+.-|.+   -++|||.|.|+..|+..|+. -...||+||..++.
T Consensus       323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            4789999998764   35679999999999999988 68899999998764

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

Probab=97.16  E-value=0.00012  Score=78.51  Aligned_cols=47  Identities=32%  Similarity=0.721  Sum_probs=42.7

Q ss_pred             CCCcccccccccCCC-----ceEcccCchhhHhhhhhccCCCCCCCCCccCC
Q 043080          206 VDDLSCAACKKMLFK-----PVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQ  252 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~-----pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~  252 (458)
                      .....|+||.+.+..     |..++|||.||..|+..|++....||.||..+
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~  340 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL  340 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence            346789999999998     89999999999999999999999999999944

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

Probab=97.10  E-value=0.00021  Score=52.36  Aligned_cols=41  Identities=27%  Similarity=0.522  Sum_probs=30.2

Q ss_pred             CCcccccccccCCCceEc-ccCchhhHhhhhhccC--CCCCCCC
Q 043080          207 DDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPED--GNFKCPN  247 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~--~~~~CP~  247 (458)
                      -.+.|||.+..|.+||.- .|||+|.+..|..++.  ....||+
T Consensus        10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            468899999999999986 9999999999999994  6788998

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

Probab=97.10  E-value=0.00058  Score=65.08  Aligned_cols=64  Identities=33%  Similarity=0.584  Sum_probs=47.5

Q ss_pred             CCccccccccccCcEEcc-CCChhhHHhHHHHHhcCCCCCCCCCCCCCCCCCchhHHHHHHHHHHchHHHHHHHHHH
Q 043080           19 EFKCCVCLELLYKPVVLA-CGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICHLLHFLLKKLYPLTYEKRERQV   94 (458)
Q Consensus        19 ~~~C~IC~~~l~~Pv~~~-CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~l~~~l~~~~~~~~~~r~~~~   94 (458)
                      .+.|++|..++++|+.++ |+|+||..||...+.. .-+.||.|...-           .+|..+.|..-++++-+.
T Consensus       274 ~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~d-sDf~CpnC~rkd-----------vlld~l~pD~dk~~EvE~  338 (427)
T COG5222         274 SLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLD-SDFKCPNCSRKD-----------VLLDGLTPDIDKKLEVEK  338 (427)
T ss_pred             cccCcchhhhhhCcccCccccchHHHHHHhhhhhh-ccccCCCccccc-----------chhhccCccHHHHHHHHH
Confidence            389999999999999985 8999999999988775 457899995421           345555665555544333

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

Probab=97.01  E-value=0.00018  Score=50.80  Aligned_cols=46  Identities=30%  Similarity=0.842  Sum_probs=39.2

Q ss_pred             CccccccccccCcEEccCCCh-hhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           20 FKCCVCLELLYKPVVLACGHI-SCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        20 ~~C~IC~~~l~~Pv~~~CgH~-FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      ..|.||.+--.+-|...|||. .|+.|-.+.++. ..-.||+||+++.
T Consensus         8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~-~~g~CPiCRapi~   54 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKA-LHGCCPICRAPIK   54 (62)
T ss_pred             cceeeeccCcchHHHHHcchHHhHHHHHHHHHHc-cCCcCcchhhHHH
Confidence            469999999999899999996 899999998874 4557999999764

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

Probab=96.93  E-value=0.00011  Score=77.99  Aligned_cols=49  Identities=24%  Similarity=0.386  Sum_probs=40.0

Q ss_pred             CCCccccccccccCcEE---ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKPVV---LACGHISCFWCVYNAMNSWHESNCPVCRNPYNHF   68 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~---~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   68 (458)
                      ..-.||+|+..+.+...   ..|+|.||..||..|-+  ...+||+||..|.+.
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR--~aqTCPiDR~EF~~v  173 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSR--CAQTCPVDRGEFGEV  173 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhh--hcccCchhhhhhhee
Confidence            35579999998887655   57999999999999987  455899999988643

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

Probab=96.69  E-value=0.00074  Score=69.31  Aligned_cols=52  Identities=29%  Similarity=0.846  Sum_probs=45.8

Q ss_pred             hcCCCCCccccccccccCcEE-ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           14 EAFSDEFKCCVCLELLYKPVV-LACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        14 ~~l~~~~~C~IC~~~l~~Pv~-~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ..+...+.|++|..++.+|+. +.|||.||..|+..|+..  ...||.|+.....
T Consensus        16 ~~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~--~~~cp~~~~~~~~   68 (391)
T KOG0297|consen   16 RPLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN--HQKCPVCRQELTQ   68 (391)
T ss_pred             CCCcccccCccccccccCCCCCCCCCCcccccccchhhcc--CcCCcccccccch
Confidence            447888999999999999999 599999999999999885  6689999887753

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

Probab=96.66  E-value=0.0023  Score=45.32  Aligned_cols=42  Identities=21%  Similarity=0.504  Sum_probs=34.6

Q ss_pred             ccccccc--cccCcEEccCC-----ChhhHHhHHHHHhcCCCCCCCCCC
Q 043080           21 KCCVCLE--LLYKPVVLACG-----HISCFWCVYNAMNSWHESNCPVCR   62 (458)
Q Consensus        21 ~C~IC~~--~l~~Pv~~~Cg-----H~FC~~Ci~~~~~~~~~~~CP~Cr   62 (458)
                      .|.||++  .-..|...||.     |.++..|+.+|+...+...||+|+
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4889997  33467778874     889999999999987778899994

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

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

Probab=96.64  E-value=0.0021  Score=61.43  Aligned_cols=42  Identities=43%  Similarity=1.061  Sum_probs=37.6

Q ss_pred             cccccccccCCCceEc-ccCchhhHhhhhhcc-CCCCCCCCCcc
Q 043080          209 LSCAACKKMLFKPVVL-NCGHVFCELCLFVPE-DGNFKCPNCQS  250 (458)
Q Consensus       209 l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~-~~~~~CP~Cr~  250 (458)
                      |.||+|..++++|+.+ .|+|.||..||...+ ...+.||.|..
T Consensus       275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            8999999999999999 789999999998654 47899999965

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

Probab=96.50  E-value=0.0019  Score=66.36  Aligned_cols=49  Identities=35%  Similarity=0.765  Sum_probs=44.2

Q ss_pred             CCCCcccccccccCCCceEc-ccCchhhHhhhhhccCCCCCCCCCccCCC
Q 043080          205 SVDDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQP  253 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~  253 (458)
                      ..+.+.|++|..++.+|+.. .|||.||..|+..|......||.|+....
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~   67 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELT   67 (391)
T ss_pred             CcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccc
Confidence            55779999999999999994 99999999999999988899999987654

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

Probab=96.22  E-value=0.0035  Score=64.29  Aligned_cols=50  Identities=24%  Similarity=0.560  Sum_probs=42.0

Q ss_pred             CCCCccccccccccCcEEccCCChhhHHhHHHHHhc---CCCCCCCCCCCCCC
Q 043080           17 SDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNS---WHESNCPVCRNPYN   66 (458)
Q Consensus        17 ~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~---~~~~~CP~Cr~~~~   66 (458)
                      .....|.+|.+...+++...|.|.||+.||.++...   ....+||+|-..+.
T Consensus       534 k~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  534 KGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             cCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            356789999999999999999999999999777653   23477999988774

>KOG4301 consensus Beta-dystrobrevin [Cytoskeleton]

Probab=96.18  E-value=0.0011  Score=64.51  Aligned_cols=50  Identities=28%  Similarity=0.781  Sum_probs=44.0

Q ss_pred             cccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEcC
Q 043080          322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQ  379 (458)
Q Consensus       322 v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~~  379 (458)
                      |.|+.|...++.|.||+|..|.   +|.||+.|+..++.-     +.|...|.|.+..
T Consensus       241 v~cs~c~srs~~gfry~cq~C~---nyqlcq~cfwrG~~g-----~~hsnqh~mke~S  290 (434)
T KOG4301|consen  241 VECSYCRSRSMMGFRYRCQQCH---NYQLCQQCFWRGHAG-----GSHSNQHQMKEYS  290 (434)
T ss_pred             ccCcceecccccchhhhHhhcC---CccccchhhccccCC-----CCcchHHHHHHhh
Confidence            8999999999999999999999   999999999886443     4788888888764

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

Probab=96.17  E-value=0.0033  Score=62.79  Aligned_cols=51  Identities=27%  Similarity=0.686  Sum_probs=41.3

Q ss_pred             CCCCccccccccccCcE-----E---ccCCChhhHHhHHHHHhcCC-----CCCCCCCCCCCCC
Q 043080           17 SDEFKCCVCLELLYKPV-----V---LACGHISCFWCVYNAMNSWH-----ESNCPVCRNPYNH   67 (458)
Q Consensus        17 ~~~~~C~IC~~~l~~Pv-----~---~~CgH~FC~~Ci~~~~~~~~-----~~~CP~Cr~~~~~   67 (458)
                      ..+..|.||++.....+     .   .+|.|.||..||..|.....     .+.||.||.....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~  222 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF  222 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence            34788999999998777     4   57999999999999985433     4679999987653

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

Probab=96.15  E-value=0.001  Score=47.11  Aligned_cols=45  Identities=24%  Similarity=0.571  Sum_probs=38.2

Q ss_pred             cccccccccCCCceEcccCch-hhHhhhhhccC-CCCCCCCCccCCC
Q 043080          209 LSCAACKKMLFKPVVLNCGHV-FCELCLFVPED-GNFKCPNCQSLQP  253 (458)
Q Consensus       209 l~C~iC~~~~~~pv~l~CgH~-fC~~Cl~~~~~-~~~~CP~Cr~~~~  253 (458)
                      -.|.||.+...+.|...|||. +|..|-.+.++ ....||+||.++.
T Consensus         8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            459999999999988899995 79999888776 6778999998753

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

Probab=96.05  E-value=0.0034  Score=61.92  Aligned_cols=49  Identities=33%  Similarity=0.789  Sum_probs=40.9

Q ss_pred             CCCccccccccccCcEEccCCCh-hhHHhHHHHHhcCCCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKPVVLACGHI-SCFWCVYNAMNSWHESNCPVCRNPYNHF   68 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~~CgH~-FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   68 (458)
                      .--.|-||+.-.++-+.+||.|. .|..|.....-  ....||+||..+...
T Consensus       289 ~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~--q~n~CPICRqpi~~l  338 (349)
T KOG4265|consen  289 SGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRY--QTNNCPICRQPIEEL  338 (349)
T ss_pred             CCCeeEEEecCCcceEEecchhhehhHhHHHHHHH--hhcCCCccccchHhh
Confidence            35679999999999999999997 89999987653  445899999988643

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

Probab=96.01  E-value=0.0024  Score=64.46  Aligned_cols=49  Identities=29%  Similarity=0.591  Sum_probs=39.9

Q ss_pred             hcCCCCCccccccccccCcE----EccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           14 EAFSDEFKCCVCLELLYKPV----VLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        14 ~~l~~~~~C~IC~~~l~~Pv----~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      -.+.+--+||||++-+-.-|    ++.|.|+|...|+..|+.    .+||+||.-..
T Consensus       170 ~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~----~scpvcR~~q~  222 (493)
T KOG0804|consen  170 TGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD----SSCPVCRYCQS  222 (493)
T ss_pred             CCcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc----CcChhhhhhcC
Confidence            34556779999999997655    378999999999999876    47999997654

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

Probab=95.94  E-value=0.0055  Score=61.39  Aligned_cols=37  Identities=32%  Similarity=0.755  Sum_probs=33.0

Q ss_pred             CCCCCccccccccccCcEEccCCChhhHHhHHHHHhc
Q 043080           16 FSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNS   52 (458)
Q Consensus        16 l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~   52 (458)
                      +++++.|+||...|.+|+.++|||+.|+.|....+.+
T Consensus         1 meeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    1 MEEELKCPVCGSFYREPIILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             CcccccCceehhhccCceEeecccHHHHHHHHhhccc
Confidence            4678899999999999999999999999999876654

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

Probab=95.87  E-value=0.0042  Score=61.33  Aligned_cols=48  Identities=25%  Similarity=0.495  Sum_probs=41.9

Q ss_pred             CCCcccccccccCCCceEcccCch-hhHhhhhhccCCCCCCCCCccCCC
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHV-FCELCLFVPEDGNFKCPNCQSLQP  253 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~-fC~~Cl~~~~~~~~~CP~Cr~~~~  253 (458)
                      .....|-||+.-.++-++|||-|. .|..|...+.-....||+||..+.
T Consensus       288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            346789999999999999999996 799999887666788999999764

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

Probab=95.85  E-value=0.0019  Score=49.46  Aligned_cols=48  Identities=27%  Similarity=0.675  Sum_probs=23.4

Q ss_pred             CCcccccccccc----CcEE----ccCCChhhHHhHHHHHhcCCC---------CCCCCCCCCCC
Q 043080           19 EFKCCVCLELLY----KPVV----LACGHISCFWCVYNAMNSWHE---------SNCPVCRNPYN   66 (458)
Q Consensus        19 ~~~C~IC~~~l~----~Pv~----~~CgH~FC~~Ci~~~~~~~~~---------~~CP~Cr~~~~   66 (458)
                      ++.|+||..++.    .|+.    ..|+..|+..||.+|+.....         -.||.|+.++.
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            467999999865    2433    269999999999999884211         14999998774

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=95.82  E-value=0.0051  Score=44.06  Aligned_cols=47  Identities=28%  Similarity=0.629  Sum_probs=38.0

Q ss_pred             CCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCC
Q 043080          207 DDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYG  255 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~  255 (458)
                      ....|-.|...-...++++|||..|..|..-  .....||.|..++...
T Consensus         6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~   52 (55)
T PF14447_consen    6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFD   52 (55)
T ss_pred             cceeEEEccccccccccccccceeeccccCh--hhccCCCCCCCcccCC
Confidence            3456778888888899999999999999863  3567899999987653

>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]

Probab=95.81  E-value=0.0061  Score=61.49  Aligned_cols=53  Identities=36%  Similarity=0.773  Sum_probs=42.7

Q ss_pred             cccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEcCCCC
Q 043080          322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQPTS  382 (458)
Q Consensus       322 v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~~~~~  382 (458)
                      ..|++|...-..-.+.+|..|+   +||||-.|+..+....     .|++.|....+.+..
T Consensus        15 y~C~~C~~dit~~i~ikCaeCp---~fdLCl~CFs~GaE~~-----~H~~~H~Yrim~~~s   67 (438)
T KOG0457|consen   15 YNCDYCSLDITGLIRIKCAECP---DFDLCLQCFSVGAETG-----KHQNDHPYRIMDTNS   67 (438)
T ss_pred             CCCccHhHHhccceEEEeecCC---CcchhHHHHhcccccC-----CCCCCCCceeecCCC
Confidence            6799998533333458999998   9999999999986664     899999999887643

>cd02336 ZZ_RSC8 Zinc finger, ZZ type

Probab=95.80  E-value=0.011  Score=40.92  Aligned_cols=40  Identities=28%  Similarity=0.580  Sum_probs=31.2

Q ss_pred             ccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCC
Q 043080          323 GCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKP  371 (458)
Q Consensus       323 ~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~  371 (458)
                      .|+.|+..- ...||+|+.+.   +++||..|+..+     ||...|..
T Consensus         2 ~C~~Cg~D~-t~vryh~~~~~---~~dLC~~CF~~G-----~f~~~~~s   41 (45)
T cd02336           2 HCFTCGNDC-TRVRYHNLKAK---KYDLCPSCYQEG-----RFPSNFQS   41 (45)
T ss_pred             cccCCCCcc-CceEEEecCCC---ccccChHHHhCc-----CCCCCCcc
Confidence            589998543 36899999998   899999999995     55555544

Zinc finger present in RSC8 and related proteins. RSC8 is a component of the RSC complex, which is closely related to the SWI/SNF complex and is involved in remodeling chromatin structure. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.

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

Probab=95.79  E-value=0.012  Score=58.75  Aligned_cols=47  Identities=26%  Similarity=0.603  Sum_probs=38.6

Q ss_pred             CCccccccccccCc-----EEccCCChhhHHhHHHHHhcCCCCCCCCCCCCC
Q 043080           19 EFKCCVCLELLYKP-----VVLACGHISCFWCVYNAMNSWHESNCPVCRNPY   65 (458)
Q Consensus        19 ~~~C~IC~~~l~~P-----v~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~   65 (458)
                      -.+||||++-+..|     |.+.|||.|-..||.+|+.+.-...||.|....
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            46899999998755     337899999999999999755567799997654

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

Probab=95.58  E-value=0.02  Score=57.38  Aligned_cols=46  Identities=28%  Similarity=0.576  Sum_probs=34.5

Q ss_pred             CCCCcccccccccCCCc---eEcccCchhhHhhhhhccC--------CCCCCCCCcc
Q 043080          205 SVDDLSCAACKKMLFKP---VVLNCGHVFCELCLFVPED--------GNFKCPNCQS  250 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~p---v~l~CgH~fC~~Cl~~~~~--------~~~~CP~Cr~  250 (458)
                      ...-+.|.||.......   +.+||+|+||+.|+..+..        ....||.+.-
T Consensus       181 ~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  181 VNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             HhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            34567899999877653   4569999999999988754        4567776544

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

Probab=95.52  E-value=0.0021  Score=49.22  Aligned_cols=46  Identities=33%  Similarity=0.579  Sum_probs=22.4

Q ss_pred             CcccccccccCC-C---ceEc----ccCchhhHhhhhhccC---C--------CCCCCCCccCCC
Q 043080          208 DLSCAACKKMLF-K---PVVL----NCGHVFCELCLFVPED---G--------NFKCPNCQSLQP  253 (458)
Q Consensus       208 ~l~C~iC~~~~~-~---pv~l----~CgH~fC~~Cl~~~~~---~--------~~~CP~Cr~~~~  253 (458)
                      ++.|+||..++. .   |+.+    .|+..|+..||..|+.   .        ...||.|+.++.
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            467999998765 2   4433    7999999999999975   1        135999998764

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

Probab=95.50  E-value=0.0072  Score=65.95  Aligned_cols=53  Identities=32%  Similarity=0.689  Sum_probs=42.7

Q ss_pred             hcCCCCCcccccccccc--C---cE--EccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           14 EAFSDEFKCCVCLELLY--K---PV--VLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        14 ~~l~~~~~C~IC~~~l~--~---Pv--~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      ..+...-.|+||..++.  +   |-  .-.|.|-|+.+|+.+|++..+.++||+||..++
T Consensus      1464 ~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1464 EKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             hhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            34556677999998875  1   22  235999999999999999989999999998775

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

Probab=95.49  E-value=0.0055  Score=62.90  Aligned_cols=48  Identities=25%  Similarity=0.605  Sum_probs=41.7

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccC-----CCCCCCCCccCCC
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED-----GNFKCPNCQSLQP  253 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~-----~~~~CP~Cr~~~~  253 (458)
                      ..+..|.+|.+...+++...|.|.||..|+..+..     ....||+|...+.
T Consensus       534 k~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  534 KGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             cCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            45678999999999999999999999999977654     4589999988664

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

Probab=95.38  E-value=0.0042  Score=58.65  Aligned_cols=47  Identities=30%  Similarity=0.557  Sum_probs=37.8

Q ss_pred             CCcccccccccCCCc----------eEcccCchhhHhhhhhccC--CCCCCCCCccCCC
Q 043080          207 DDLSCAACKKMLFKP----------VVLNCGHVFCELCLFVPED--GNFKCPNCQSLQP  253 (458)
Q Consensus       207 ~~l~C~iC~~~~~~p----------v~l~CgH~fC~~Cl~~~~~--~~~~CP~Cr~~~~  253 (458)
                      ++-.|.||.+.+...          ..|+|+|+|+..||..|-.  +...||.|++.+.
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            345699998877644          4679999999999999865  6789999998663

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

Probab=95.35  E-value=0.0086  Score=59.50  Aligned_cols=52  Identities=25%  Similarity=0.452  Sum_probs=40.7

Q ss_pred             CCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCCCc
Q 043080           19 EFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPS   70 (458)
Q Consensus        19 ~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~   70 (458)
                      .-.|.||-+-=.+--.-+|||..|..|+..|........||-||.+++....
T Consensus       369 FeLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~  420 (563)
T KOG1785|consen  369 FELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP  420 (563)
T ss_pred             HHHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence            3458899886655555689999999999998765556789999999975443

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

Probab=95.34  E-value=0.013  Score=58.64  Aligned_cols=52  Identities=23%  Similarity=0.482  Sum_probs=41.5

Q ss_pred             CcccccccccCCCc-----eEcccCchhhHhhhhhccC--CCCCCCCCccCCCCCCchh
Q 043080          208 DLSCAACKKMLFKP-----VVLNCGHVFCELCLFVPED--GNFKCPNCQSLQPYGLPSV  259 (458)
Q Consensus       208 ~l~C~iC~~~~~~p-----v~l~CgH~fC~~Cl~~~~~--~~~~CP~Cr~~~~~~~~~~  259 (458)
                      ..+||||+.-+.-|     +.+.|||.|-..|+++|+.  ..+.||.|.....++.+..
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~   62 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRP   62 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHH
Confidence            45799999988766     5569999999999999986  4578999987666554444

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

Probab=95.28  E-value=0.0086  Score=59.50  Aligned_cols=47  Identities=26%  Similarity=0.514  Sum_probs=39.6

Q ss_pred             cccccccccCCCceEcccCchhhHhhhhhccC--CCCCCCCCccCCCCC
Q 043080          209 LSCAACKKMLFKPVVLNCGHVFCELCLFVPED--GNFKCPNCQSLQPYG  255 (458)
Q Consensus       209 l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~--~~~~CP~Cr~~~~~~  255 (458)
                      -.|.||-+--++-..-||||..|..|+..|..  ....||.||..+...
T Consensus       370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt  418 (563)
T KOG1785|consen  370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT  418 (563)
T ss_pred             HHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence            46999998887766669999999999999985  478999999988654

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

Probab=95.21  E-value=0.01  Score=59.28  Aligned_cols=49  Identities=22%  Similarity=0.596  Sum_probs=39.8

Q ss_pred             CCCcccccccccCCCce-----E---cccCchhhHhhhhhccC--C-----CCCCCCCccCCCC
Q 043080          206 VDDLSCAACKKMLFKPV-----V---LNCGHVFCELCLFVPED--G-----NFKCPNCQSLQPY  254 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv-----~---l~CgH~fC~~Cl~~~~~--~-----~~~CP~Cr~~~~~  254 (458)
                      ..+..|.||++.....+     .   .+|.|.||..|+..|-.  .     ...||.||.....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~  222 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF  222 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence            45778999999888765     3   47999999999999973  3     6899999986543

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

Probab=95.11  E-value=0.01  Score=60.57  Aligned_cols=48  Identities=25%  Similarity=0.540  Sum_probs=37.6

Q ss_pred             CCcccccccccCC-----------------CceEcccCchhhHhhhhhccC-CCCCCCCCccCCCC
Q 043080          207 DDLSCAACKKMLF-----------------KPVVLNCGHVFCELCLFVPED-GNFKCPNCQSLQPY  254 (458)
Q Consensus       207 ~~l~C~iC~~~~~-----------------~pv~l~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~  254 (458)
                      ....|+||+....                 +-+.+||.|.|+..|+.+|+. .+..||+||.+++.
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            4567999997543                 113449999999999999999 55699999998753

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

Probab=95.11  E-value=0.0074  Score=57.04  Aligned_cols=49  Identities=20%  Similarity=0.517  Sum_probs=40.0

Q ss_pred             CCCccccccccccCc----------EEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKP----------VVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        18 ~~~~C~IC~~~l~~P----------v~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      ++-.|.||..-+..-          ..++|+|+|+..||..|.....+.+||.|...+.
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            456799999877543          4589999999999999988767778999987663

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=95.05  E-value=0.0091  Score=42.79  Aligned_cols=47  Identities=32%  Similarity=0.690  Sum_probs=37.8

Q ss_pred             CCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           16 FSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        16 l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +.....|-.|...-.+.++++|||..|..|+.-+    +-+.||.|...+.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~----rYngCPfC~~~~~   50 (55)
T PF14447_consen    4 QQPEQPCVFCGFVGTKGTVLPCGHLICDNCFPGE----RYNGCPFCGTPFE   50 (55)
T ss_pred             cccceeEEEccccccccccccccceeeccccChh----hccCCCCCCCccc
Confidence            3456778889988889999999999999997532    3356999998874

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

Probab=94.79  E-value=0.027  Score=39.89  Aligned_cols=40  Identities=28%  Similarity=0.504  Sum_probs=31.5

Q ss_pred             ccccccc--cCCCceEcccC-----chhhHhhhhhccC--CCCCCCCCc
Q 043080          210 SCAACKK--MLFKPVVLNCG-----HVFCELCLFVPED--GNFKCPNCQ  249 (458)
Q Consensus       210 ~C~iC~~--~~~~pv~l~Cg-----H~fC~~Cl~~~~~--~~~~CP~Cr  249 (458)
                      .|.||+.  .-.+|...||.     |.++..||.+|+.  ....||+|+
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4889987  34467777885     7899999999986  556899995

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

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

Probab=94.78  E-value=0.027  Score=43.30  Aligned_cols=44  Identities=27%  Similarity=0.525  Sum_probs=33.6

Q ss_pred             ccccccccCC----CceEc-ccCchhhHhhhhhccCCCCCCCCCccCCC
Q 043080          210 SCAACKKMLF----KPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQP  253 (458)
Q Consensus       210 ~C~iC~~~~~----~pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~  253 (458)
                      +|+-|..-..    -|++. -|.|.|...||.+|+.....||++|+...
T Consensus        33 ~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          33 TCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             cCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            3555555332    13444 79999999999999999999999998764

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

Probab=94.76  E-value=0.0096  Score=45.33  Aligned_cols=33  Identities=27%  Similarity=0.606  Sum_probs=27.5

Q ss_pred             ceEc-ccCchhhHhhhhhccC---CCCCCCCCccCCC
Q 043080          221 PVVL-NCGHVFCELCLFVPED---GNFKCPNCQSLQP  253 (458)
Q Consensus       221 pv~l-~CgH~fC~~Cl~~~~~---~~~~CP~Cr~~~~  253 (458)
                      |.++ -|.|.|...||.+|+.   ....||+||....
T Consensus        45 PLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   45 PLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             ccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            5555 7999999999999986   5678999998754

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=94.76  E-value=0.021  Score=54.79  Aligned_cols=50  Identities=32%  Similarity=0.714  Sum_probs=38.7

Q ss_pred             ccccccc-cCCCceE-c---ccCchhhHhhhhhccC-CCCCCCCCccCCCCCCchh
Q 043080          210 SCAACKK-MLFKPVV-L---NCGHVFCELCLFVPED-GNFKCPNCQSLQPYGLPSV  259 (458)
Q Consensus       210 ~C~iC~~-~~~~pv~-l---~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~~~~~~  259 (458)
                      .||+|.. .+.+|-+ +   +|||..|.+|+...+. +...||.|...+....+++
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr~   57 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFRV   57 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccch
Confidence            4999976 4556522 2   9999999999998876 7889999998876655554

>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]

Probab=94.74  E-value=0.014  Score=56.33  Aligned_cols=56  Identities=29%  Similarity=0.570  Sum_probs=45.6

Q ss_pred             cccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEcCCCChhh
Q 043080          322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQPTSLSD  385 (458)
Q Consensus       322 v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~~~~~~~~  385 (458)
                      +.||.|...-....+.+|..|.   .||||--|+..+...     ..|++.|....|.+..++-
T Consensus         6 ~hCdvC~~d~T~~~~i~C~eC~---~~DLC~pCF~~g~~t-----g~H~pyH~YRiietnsypI   61 (432)
T COG5114           6 IHCDVCFLDMTDLTFIKCNECP---AVDLCLPCFVNGIET-----GVHSPYHGYRIIETNSYPI   61 (432)
T ss_pred             eeehHHHHhhhcceeeeeeccc---ccceehhhhhccccc-----cccCCCCCeeEeeccCccc
Confidence            6799998655555677899999   899999999997555     4899999999987766554

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

Probab=94.72  E-value=0.026  Score=39.49  Aligned_cols=43  Identities=33%  Similarity=0.814  Sum_probs=21.4

Q ss_pred             cccccccccC--cEE--ccCCChhhHHhHHHHHhcCCCCCCCCCCCCC
Q 043080           22 CCVCLELLYK--PVV--LACGHISCFWCVYNAMNSWHESNCPVCRNPY   65 (458)
Q Consensus        22 C~IC~~~l~~--Pv~--~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~   65 (458)
                      ||+|.+.+..  --.  .+||+-.|++|+...+.. ....||-||.++
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~-~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILEN-EGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTS-S-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhc-cCCCCCCCCCCC
Confidence            7888888731  111  478999999999987762 456799999876

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

Probab=94.71  E-value=0.021  Score=55.21  Aligned_cols=42  Identities=33%  Similarity=0.793  Sum_probs=35.4

Q ss_pred             cccccccccCC----CceEcccCchhhHhhhhhccCCCCCCCCCcc
Q 043080          209 LSCAACKKMLF----KPVVLNCGHVFCELCLFVPEDGNFKCPNCQS  250 (458)
Q Consensus       209 l~C~iC~~~~~----~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~  250 (458)
                      ..||||.+.+.    .|..++|||.....|+.........||+|.+
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            44999998765    4667799999999999988776699999987

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

Probab=94.69  E-value=0.023  Score=53.35  Aligned_cols=44  Identities=34%  Similarity=0.766  Sum_probs=31.3

Q ss_pred             cccccccccC-CCceEc-ccCchhhHhhhhhccCCCCCCCCCccCCCC
Q 043080          209 LSCAACKKML-FKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQPY  254 (458)
Q Consensus       209 l~C~iC~~~~-~~pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~  254 (458)
                      ..|-.|...- ..|..| .|+|+||..|.....  ...||.|++.+..
T Consensus         4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~   49 (233)
T KOG4739|consen    4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIRI   49 (233)
T ss_pred             EEeccccccCCCCceeeeechhhhhhhhcccCC--ccccccccceeee
Confidence            4577776543 345444 999999999997543  2389999998643

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

Probab=94.43  E-value=0.026  Score=57.67  Aligned_cols=49  Identities=27%  Similarity=0.610  Sum_probs=37.0

Q ss_pred             CCCCcccccccccc-----------------CcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           17 SDEFKCCVCLELLY-----------------KPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        17 ~~~~~C~IC~~~l~-----------------~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +...-|+||.....                 +-+.++|.|.|.+.|+..||.. .+..||+||.++.
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~-ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT-YKLICPVCRCPLP  634 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhh-hcccCCccCCCCC
Confidence            44566999986532                 1234699999999999999983 3347999999864

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

Probab=94.43  E-value=0.018  Score=57.13  Aligned_cols=46  Identities=30%  Similarity=0.645  Sum_probs=38.8

Q ss_pred             CCCcccccccccc-CcEE---ccCCChhhHHhHHHHHhcCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLY-KPVV---LACGHISCFWCVYNAMNSWHESNCPVCRN   63 (458)
Q Consensus        18 ~~~~C~IC~~~l~-~Pv~---~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~   63 (458)
                      -.+.|-.|.+.+- +|-.   ++|.|.|+..|+...+.++...+||.||+
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            4688999999874 3322   89999999999999998888889999984

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

Probab=94.34  E-value=0.015  Score=44.29  Aligned_cols=46  Identities=26%  Similarity=0.645  Sum_probs=34.0

Q ss_pred             cccccccccc------------CcEEc-cCCChhhHHhHHHHHhcCC-CCCCCCCCCCCC
Q 043080           21 KCCVCLELLY------------KPVVL-ACGHISCFWCVYNAMNSWH-ESNCPVCRNPYN   66 (458)
Q Consensus        21 ~C~IC~~~l~------------~Pv~~-~CgH~FC~~Ci~~~~~~~~-~~~CP~Cr~~~~   66 (458)
                      +|-||.-.|.            -|+++ -|.|.|...||.+|+.... .-.||+||..++
T Consensus        22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            6777766654            25553 4999999999999998543 346999998764

>PF04641 Rtf2: Rtf2 RING-finger

Probab=94.33  E-value=0.041  Score=53.43  Aligned_cols=51  Identities=29%  Similarity=0.348  Sum_probs=40.3

Q ss_pred             CCCCcccccccccCCC---ceEc-ccCchhhHhhhhhccCCCCCCCCCccCCCCCC
Q 043080          205 SVDDLSCAACKKMLFK---PVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQPYGL  256 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~---pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~  256 (458)
                      ....+.|||....|..   -|.| +|||+|+..++...- ....||+|..++....
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~D  164 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEED  164 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCC
Confidence            3467899999999853   2334 999999999999884 4667999999987543

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

Probab=94.28  E-value=0.022  Score=55.82  Aligned_cols=49  Identities=20%  Similarity=0.358  Sum_probs=43.7

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCC
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQP  253 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~  253 (458)
                      ..++-.||||.---.+.|..||+|.-|+.||.+++-+.+.|-.|+..+.
T Consensus       419 ~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  419 DSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             CcccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence            3578889999998888999999999999999999889999999987654

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

Probab=94.00  E-value=0.14  Score=51.49  Aligned_cols=49  Identities=24%  Similarity=0.566  Sum_probs=35.5

Q ss_pred             CCCCCccccccccccCc---EEccCCChhhHHhHHHHHhc---CC---CCCCCCCCCC
Q 043080           16 FSDEFKCCVCLELLYKP---VVLACGHISCFWCVYNAMNS---WH---ESNCPVCRNP   64 (458)
Q Consensus        16 l~~~~~C~IC~~~l~~P---v~~~CgH~FC~~Ci~~~~~~---~~---~~~CP~Cr~~   64 (458)
                      .+.-+.|.||.+...-.   +.++|+|+||+.|+..++..   .+   ..+||.+...
T Consensus       181 ~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~  238 (445)
T KOG1814|consen  181 VNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG  238 (445)
T ss_pred             HhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence            35678899999987532   34899999999999988762   22   2457765543

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

Probab=93.97  E-value=0.065  Score=41.27  Aligned_cols=33  Identities=30%  Similarity=0.686  Sum_probs=27.0

Q ss_pred             cEE-ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           32 PVV-LACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        32 Pv~-~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      |+. --|.|.|...||.+|+..  ...||++|+...
T Consensus        48 ~v~wG~CnHaFH~HCI~rWL~T--k~~CPld~q~w~   81 (88)
T COG5194          48 PVVWGVCNHAFHDHCIYRWLDT--KGVCPLDRQTWV   81 (88)
T ss_pred             eEEEEecchHHHHHHHHHHHhh--CCCCCCCCceeE
Confidence            444 359999999999999985  457999998764

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

Probab=93.94  E-value=0.048  Score=54.29  Aligned_cols=46  Identities=24%  Similarity=0.304  Sum_probs=37.8

Q ss_pred             cccccccccCCCc----eEcccCchhhHhhhhhccCCCCCCCCCccCCCC
Q 043080          209 LSCAACKKMLFKP----VVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPY  254 (458)
Q Consensus       209 l~C~iC~~~~~~p----v~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~  254 (458)
                      -.|.||..-|+.-    -.+-|||.+...||..|+.....||.|+..+..
T Consensus       197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~  246 (465)
T KOG0827|consen  197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPK  246 (465)
T ss_pred             hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence            3588888877653    345899999999999999888889999988765

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

Probab=93.90  E-value=0.025  Score=61.87  Aligned_cols=46  Identities=28%  Similarity=0.729  Sum_probs=41.1

Q ss_pred             CccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           20 FKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        20 ~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      ..|.+|.+ ...++.+.|||.||..|+...+.......||.||..+.
T Consensus       455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~  500 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLK  500 (674)
T ss_pred             cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence            89999999 77888899999999999999988766668999998775

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

Probab=93.79  E-value=0.012  Score=56.22  Aligned_cols=41  Identities=32%  Similarity=0.835  Sum_probs=34.2

Q ss_pred             CCccccccccccCcEEccCCC-hhhHHhHHHHHhcCCCCCCCCCCCCC
Q 043080           19 EFKCCVCLELLYKPVVLACGH-ISCFWCVYNAMNSWHESNCPVCRNPY   65 (458)
Q Consensus        19 ~~~C~IC~~~l~~Pv~~~CgH-~FC~~Ci~~~~~~~~~~~CP~Cr~~~   65 (458)
                      ...|.||.+..++-|.|+||| +-|..|-.+      ...||+||+-+
T Consensus       300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr------m~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKR------MNECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCCcceEEeecCcEEeehhhccc------cccCchHHHHH
Confidence            678999999999999999999 479988654      23699998754

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

Probab=93.79  E-value=0.046  Score=54.06  Aligned_cols=44  Identities=30%  Similarity=0.694  Sum_probs=37.3

Q ss_pred             cccccccccCC------CceEcccCchhhHhhhhhccC-CCCCCCCCccCC
Q 043080          209 LSCAACKKMLF------KPVVLNCGHVFCELCLFVPED-GNFKCPNCQSLQ  252 (458)
Q Consensus       209 l~C~iC~~~~~------~pv~l~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~  252 (458)
                      +.|-||...|.      .|..|.|||+||..|+..... ....||.||...
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            56889988765      588899999999999998876 567889999985

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

Probab=93.69  E-value=0.043  Score=51.58  Aligned_cols=43  Identities=26%  Similarity=0.723  Sum_probs=30.0

Q ss_pred             Cccccccccc-cCcEE-ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           20 FKCCVCLELL-YKPVV-LACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        20 ~~C~IC~~~l-~~Pv~-~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +.|-.|..-- .+|.. +.|+|+||..|......    ..||+|++.+.
T Consensus         4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~----~~C~lCkk~ir   48 (233)
T KOG4739|consen    4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSP----DVCPLCKKSIR   48 (233)
T ss_pred             EEeccccccCCCCceeeeechhhhhhhhcccCCc----cccccccceee
Confidence            4466665433 34544 78999999999865432    27999999864

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

Probab=93.42  E-value=0.046  Score=54.41  Aligned_cols=44  Identities=30%  Similarity=0.517  Sum_probs=32.6

Q ss_pred             ccccccccCCCceEc----ccCchhhHhhhhhccC--CC-CCCCCCccCCC
Q 043080          210 SCAACKKMLFKPVVL----NCGHVFCELCLFVPED--GN-FKCPNCQSLQP  253 (458)
Q Consensus       210 ~C~iC~~~~~~pv~l----~CgH~fC~~Cl~~~~~--~~-~~CP~Cr~~~~  253 (458)
                      .|.||...+-.---|    .|||+|...|+..|+.  .. ..||.|+-.++
T Consensus         6 ~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~   56 (465)
T KOG0827|consen    6 ECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ   56 (465)
T ss_pred             eeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence            599996655432222    5999999999999998  33 58999994443

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

Probab=93.39  E-value=0.061  Score=53.00  Aligned_cols=49  Identities=31%  Similarity=0.688  Sum_probs=39.9

Q ss_pred             cCCCCCccccccccccCcEE-ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCC
Q 043080           15 AFSDEFKCCVCLELLYKPVV-LACGHISCFWCVYNAMNSWHESNCPVCRNPYNHF   68 (458)
Q Consensus        15 ~l~~~~~C~IC~~~l~~Pv~-~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   68 (458)
                      .+.+-+.||||.+.+..|+. .+=||.-|..|-.+     ....||.||.++...
T Consensus        44 ~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~-----~~~~CP~Cr~~~g~~   93 (299)
T KOG3002|consen   44 LDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTK-----VSNKCPTCRLPIGNI   93 (299)
T ss_pred             cchhhccCchhhccCcccceecCCCcEehhhhhhh-----hcccCCccccccccH
Confidence            34567889999999999988 67799999999764     334799999998743

>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=93.24  E-value=0.06  Score=47.29  Aligned_cols=49  Identities=22%  Similarity=0.496  Sum_probs=35.9

Q ss_pred             CCcccccccccCCCceEcc------------cCchh-hHhhhhhccC-------------------------------CC
Q 043080          207 DDLSCAACKKMLFKPVVLN------------CGHVF-CELCLFVPED-------------------------------GN  242 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l~------------CgH~f-C~~Cl~~~~~-------------------------------~~  242 (458)
                      ++.+||||++.-.+.|+|-            |+.+| ...||.++-+                               ..
T Consensus         1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE   80 (162)
T ss_pred             CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence            4578999999999999984            44443 4567776532                               24


Q ss_pred             CCCCCCccCCCCC
Q 043080          243 FKCPNCQSLQPYG  255 (458)
Q Consensus       243 ~~CP~Cr~~~~~~  255 (458)
                      ..||+||..+...
T Consensus        81 L~CPLCRG~V~GW   93 (162)
T PF07800_consen   81 LACPLCRGEVKGW   93 (162)
T ss_pred             ccCccccCceece
Confidence            6899999988653

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.

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

Probab=93.19  E-value=0.017  Score=55.27  Aligned_cols=41  Identities=32%  Similarity=0.625  Sum_probs=34.5

Q ss_pred             CcccccccccCCCceEcccCch-hhHhhhhhccCCCCCCCCCccCC
Q 043080          208 DLSCAACKKMLFKPVVLNCGHV-FCELCLFVPEDGNFKCPNCQSLQ  252 (458)
Q Consensus       208 ~l~C~iC~~~~~~pv~l~CgH~-fC~~Cl~~~~~~~~~CP~Cr~~~  252 (458)
                      ...|.||+....+-+.|+|||. -|..|-.+    ...||+||+.+
T Consensus       300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr----m~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKR----MNECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCCcceEEeecCcEEeehhhccc----cccCchHHHHH
Confidence            6789999999999999999995 58888654    44899999854

>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=93.08  E-value=0.082  Score=37.56  Aligned_cols=46  Identities=24%  Similarity=0.666  Sum_probs=24.0

Q ss_pred             CCccccccccccCcEE-ccCCChhhHH--hHHHHHhcCCCCCCCCCCCC
Q 043080           19 EFKCCVCLELLYKPVV-LACGHISCFW--CVYNAMNSWHESNCPVCRNP   64 (458)
Q Consensus        19 ~~~C~IC~~~l~~Pv~-~~CgH~FC~~--Ci~~~~~~~~~~~CP~Cr~~   64 (458)
                      .+.|||....+..|+. ..|.|.-|+.  -+.......+...||+|.++
T Consensus         2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    2 SLRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             ESB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred             eeeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence            3689999999999999 7899987643  23333334466789999763

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.

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

Probab=92.90  E-value=0.32  Score=49.95  Aligned_cols=42  Identities=31%  Similarity=0.589  Sum_probs=30.1

Q ss_pred             CCcccccccccCC-----CceEcccCchhhHhhhhhccCCCCCCCCC
Q 043080          207 DDLSCAACKKMLF-----KPVVLNCGHVFCELCLFVPEDGNFKCPNC  248 (458)
Q Consensus       207 ~~l~C~iC~~~~~-----~pv~l~CgH~fC~~Cl~~~~~~~~~CP~C  248 (458)
                      .-..||.|.-.+.     +-++-.|||-||..|...|......|..|
T Consensus       305 ~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~  351 (384)
T KOG1812|consen  305 RWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC  351 (384)
T ss_pred             hcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence            3456999987654     33444799999999998887766656544

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

Probab=92.81  E-value=0.083  Score=51.60  Aligned_cols=46  Identities=33%  Similarity=0.704  Sum_probs=37.8

Q ss_pred             CCCccccccccccCcEEcc-CCChhhHHhHHHHHhcCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKPVVLA-CGHISCFWCVYNAMNSWHESNCPVCRNPY   65 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~~-CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~   65 (458)
                      +.-.||||+....+|.++. -|.+||..||.+++.  +..+||+-..+.
T Consensus       299 ~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~--~~~~CPVT~~p~  345 (357)
T KOG0826|consen  299 DREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVV--NYGHCPVTGYPA  345 (357)
T ss_pred             ccccChhHHhccCCCceEEecceEEeHHHHHHHHH--hcCCCCccCCcc
Confidence            4567999999999998865 599999999999998  455899765443

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.74  E-value=0.074  Score=49.82  Aligned_cols=49  Identities=20%  Similarity=0.329  Sum_probs=40.7

Q ss_pred             CCCccccccccccCcEE----ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKPVV----LACGHISCFWCVYNAMNSWHESNCPVCRNPYNHF   68 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~----~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   68 (458)
                      ..+.||+|.+.|.+.+.    -+|||+||..|+.+++.  .-..||+|..++...
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir--~D~v~pv~d~plkdr  272 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIR--KDMVDPVTDKPLKDR  272 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhcc--ccccccCCCCcCccc
Confidence            67899999999986433    58999999999999887  445799999988654

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

Probab=92.62  E-value=0.071  Score=52.40  Aligned_cols=47  Identities=23%  Similarity=0.605  Sum_probs=38.8

Q ss_pred             CCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCC
Q 043080           17 SDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPY   65 (458)
Q Consensus        17 ~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~   65 (458)
                      .++-.||||.---...|..+|+|.-|+.||.+.+-  +.+.|=-|...+
T Consensus       420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlm--N~k~CFfCktTv  466 (489)
T KOG4692|consen  420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLM--NCKRCFFCKTTV  466 (489)
T ss_pred             cccccCcceecccchhhccCCCCchHHHHHHHHHh--cCCeeeEeccee
Confidence            35678999998888889999999999999999877  455677776554

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

Probab=92.57  E-value=0.071  Score=37.36  Aligned_cols=42  Identities=24%  Similarity=0.659  Sum_probs=21.0

Q ss_pred             cccccccCCC--ceEc--ccCchhhHhhhhhccC-CCCCCCCCccCC
Q 043080          211 CAACKKMLFK--PVVL--NCGHVFCELCLFVPED-GNFKCPNCQSLQ  252 (458)
Q Consensus       211 C~iC~~~~~~--pv~l--~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~  252 (458)
                      ||+|.+.+..  --.+  +||.-+|..|+..... ....||-||+++
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            6778776631  1122  7899999999998886 688999999865

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

Probab=92.54  E-value=0.051  Score=53.84  Aligned_cols=48  Identities=31%  Similarity=0.793  Sum_probs=37.4

Q ss_pred             hcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        14 ~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      ..+.....|.||++-.++.+.++|||+.|  |..-+..   ...||+||..+.
T Consensus       300 ~~~~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~---l~~CPvCR~rI~  347 (355)
T KOG1571|consen  300 RELPQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH---LPQCPVCRQRIR  347 (355)
T ss_pred             cccCCCCceEEecCCccceeeecCCcEEE--chHHHhh---CCCCchhHHHHH
Confidence            44556778999999999999999999977  7655433   335999988654

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

Probab=92.53  E-value=0.12  Score=50.87  Aligned_cols=60  Identities=28%  Similarity=0.535  Sum_probs=45.5

Q ss_pred             CCCCcccccccccCCCceEc-ccCchhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHHHHh
Q 043080          205 SVDDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEER  270 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~  270 (458)
                      .-+-+.||||...+..|+.- +=||..|..|-.+   ....||.||.++..   ..+..++.+++..
T Consensus        45 ~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g~---~R~~amEkV~e~~  105 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTK---VSNKCPTCRLPIGN---IRCRAMEKVAEAV  105 (299)
T ss_pred             chhhccCchhhccCcccceecCCCcEehhhhhhh---hcccCCcccccccc---HHHHHHHHHHHhc
Confidence            34568899999999999643 5589999999853   46789999998873   2566666666554

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

Probab=92.46  E-value=0.11  Score=42.14  Aligned_cols=28  Identities=21%  Similarity=0.659  Sum_probs=24.1

Q ss_pred             cCCChhhHHhHHHHHhcCCCCCCCCCCCCC
Q 043080           36 ACGHISCFWCVYNAMNSWHESNCPVCRNPY   65 (458)
Q Consensus        36 ~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~   65 (458)
                      .|.|.|.+.||.+|++.  ...||+|.+.-
T Consensus        80 ~CNHaFH~hCisrWlkt--r~vCPLdn~eW  107 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKT--RNVCPLDNKEW  107 (114)
T ss_pred             ecchHHHHHHHHHHHhh--cCcCCCcCcce
Confidence            69999999999999994  45799998764

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=92.21  E-value=0.13  Score=50.30  Aligned_cols=48  Identities=29%  Similarity=0.719  Sum_probs=34.2

Q ss_pred             CCcccccccccc--Cc-EE-ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           19 EFKCCVCLELLY--KP-VV-LACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        19 ~~~C~IC~~~l~--~P-v~-~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      +..||+|.+.+.  +- .. .+||...|+.|+...-.. -.-+||.||..+..
T Consensus        14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~-lngrcpacrr~y~d   65 (480)
T COG5175          14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQN-LNGRCPACRRKYDD   65 (480)
T ss_pred             cccCcccccccccccCCcccCCcccHHHHHHHHHHHhh-ccCCChHhhhhccc
Confidence            344999999874  22 22 689999999998764332 34579999998853

>PF04641 Rtf2: Rtf2 RING-finger

Probab=91.67  E-value=0.2  Score=48.57  Aligned_cols=50  Identities=22%  Similarity=0.415  Sum_probs=39.1

Q ss_pred             CCCCCccccccccccC--cEE--ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCC
Q 043080           16 FSDEFKCCVCLELLYK--PVV--LACGHISCFWCVYNAMNSWHESNCPVCRNPYNHF   68 (458)
Q Consensus        16 l~~~~~C~IC~~~l~~--Pv~--~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   68 (458)
                      -...|.|||....|..  +++  .+|||+|+..+|...-   ....||+|..+|...
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k---~~~~Cp~c~~~f~~~  163 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK---KSKKCPVCGKPFTEE  163 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc---ccccccccCCccccC
Confidence            4678999999999853  333  4899999999998862   245699999999743

>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=90.96  E-value=0.2  Score=34.31  Aligned_cols=40  Identities=20%  Similarity=0.444  Sum_probs=25.4

Q ss_pred             cccccccccCcEEcc---CCChhhHHhHHHHHhcCCCCCCCCC
Q 043080           22 CCVCLELLYKPVVLA---CGHISCFWCVYNAMNSWHESNCPVC   61 (458)
Q Consensus        22 C~IC~~~l~~Pv~~~---CgH~FC~~Ci~~~~~~~~~~~CP~C   61 (458)
                      |.+|.+++..-+.-+   |+-.++..|+..+++......||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            778999999888854   9988999999999986555579987

; PDB: 3NW0_A 2CT0_A.

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

Probab=90.69  E-value=0.13  Score=41.57  Aligned_cols=28  Identities=21%  Similarity=0.246  Sum_probs=26.0

Q ss_pred             ccCchhhHhhhhhccCCCCCCCCCccCC
Q 043080          225 NCGHVFCELCLFVPEDGNFKCPNCQSLQ  252 (458)
Q Consensus       225 ~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~  252 (458)
                      .|.|.|+..||.+|++....||+|.+.-
T Consensus        80 ~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             ecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            7999999999999999999999998753

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

Probab=90.57  E-value=0.17  Score=55.38  Aligned_cols=40  Identities=40%  Similarity=0.804  Sum_probs=35.3

Q ss_pred             cccccccccCCCceEc-ccCchhhHhhhhhccCCCCCCCCCccC
Q 043080          209 LSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSL  251 (458)
Q Consensus       209 l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~  251 (458)
                      -.|..|.-.|.-|++- .|||+|++.|+.   .+...||.|+..
T Consensus       841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e  881 (933)
T KOG2114|consen  841 SKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPE  881 (933)
T ss_pred             eeecccCCccccceeeeecccHHHHHhhc---cCcccCCccchh
Confidence            5899999999999765 999999999998   567899999763

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

Probab=90.57  E-value=0.077  Score=58.34  Aligned_cols=46  Identities=28%  Similarity=0.523  Sum_probs=36.7

Q ss_pred             CcccccccccCC-----CceE--cccCchhhHhhhhhccC--CCCCCCCCccCCC
Q 043080          208 DLSCAACKKMLF-----KPVV--LNCGHVFCELCLFVPED--GNFKCPNCQSLQP  253 (458)
Q Consensus       208 ~l~C~iC~~~~~-----~pv~--l~CgH~fC~~Cl~~~~~--~~~~CP~Cr~~~~  253 (458)
                      .-.|+||..++.     -|-.  -.|.|-|+..|+-+|++  +...||+||..++
T Consensus      1469 ~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1469 HEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             cchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            456999998876     1222  26999999999999997  6789999998764

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

Probab=90.13  E-value=0.22  Score=50.05  Aligned_cols=50  Identities=26%  Similarity=0.456  Sum_probs=40.0

Q ss_pred             cCCCCCcccccccccc---CcEEccCCChhhHHhHHHHHhcCCC--CCCCCCCCCC
Q 043080           15 AFSDEFKCCVCLELLY---KPVVLACGHISCFWCVYNAMNSWHE--SNCPVCRNPY   65 (458)
Q Consensus        15 ~l~~~~~C~IC~~~l~---~Pv~~~CgH~FC~~Ci~~~~~~~~~--~~CP~Cr~~~   65 (458)
                      .+..-|.|||=.+.-.   .|+.+.|||+.++.-+.+..+. +.  ++||.|-...
T Consensus       330 ~fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~n-g~~sfKCPYCP~e~  384 (394)
T KOG2817|consen  330 HFHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKN-GSQSFKCPYCPVEQ  384 (394)
T ss_pred             cccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhC-CCeeeeCCCCCccc
Confidence            4567899999777653   6899999999999999886553 54  8899997654

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

Probab=90.07  E-value=0.11  Score=51.90  Aligned_cols=45  Identities=33%  Similarity=0.708  Sum_probs=36.3

Q ss_pred             CCCcccccccccCC-Cc---eEcccCchhhHhhhhhccC--CCCCCCCCcc
Q 043080          206 VDDLSCAACKKMLF-KP---VVLNCGHVFCELCLFVPED--GNFKCPNCQS  250 (458)
Q Consensus       206 ~~~l~C~iC~~~~~-~p---v~l~CgH~fC~~Cl~~~~~--~~~~CP~Cr~  250 (458)
                      +-++.|..|.+.+- .|   -.|||.|.|+..|+..++.  ....||.||+
T Consensus       363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            34789999999764 33   3459999999999998765  6789999995

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

Probab=89.77  E-value=0.19  Score=49.30  Aligned_cols=48  Identities=21%  Similarity=0.535  Sum_probs=40.2

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhcc--CCCCCCCCCccCC
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPE--DGNFKCPNCQSLQ  252 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~--~~~~~CP~Cr~~~  252 (458)
                      .++...|.||-.-++-..++||+|..|.-|..+.-  -..+.||+||...
T Consensus        58 DEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          58 DEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             ccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            45677899999999988899999999999987643  3788999999754

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

Probab=89.73  E-value=0.11  Score=54.82  Aligned_cols=41  Identities=39%  Similarity=0.844  Sum_probs=33.7

Q ss_pred             cCCCCCcccccccccc----CcEEccCCChhhHHhHHHHHhcCCCCCCC
Q 043080           15 AFSDEFKCCVCLELLY----KPVVLACGHISCFWCVYNAMNSWHESNCP   59 (458)
Q Consensus        15 ~l~~~~~C~IC~~~l~----~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP   59 (458)
                      .+...+.|+||+..|.    .||.+.|||+.|+.|+....+.    +||
T Consensus         7 ~w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~----scp   51 (861)
T KOG3161|consen    7 KWVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA----SCP   51 (861)
T ss_pred             hhHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc----cCC
Confidence            3455678999988875    7999999999999999877663    577

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

Probab=89.70  E-value=0.17  Score=49.44  Aligned_cols=48  Identities=31%  Similarity=0.489  Sum_probs=40.7

Q ss_pred             CCCCcccccccccCCCceEc-ccCchhhHhhhhhccCCCCCCCCCccCC
Q 043080          205 SVDDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQ  252 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~  252 (458)
                      ..+.-.||+|.+...+|.++ --|-+||..|+..++.....||+-..+.
T Consensus       297 ~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             CCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            33556799999999999888 4599999999999999999999876543

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

Probab=89.69  E-value=0.2  Score=54.95  Aligned_cols=44  Identities=32%  Similarity=0.649  Sum_probs=37.9

Q ss_pred             cccccccccCCCceEcccCchhhHhhhhhccC--CCCCCCCCccCCC
Q 043080          209 LSCAACKKMLFKPVVLNCGHVFCELCLFVPED--GNFKCPNCQSLQP  253 (458)
Q Consensus       209 l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~--~~~~CP~Cr~~~~  253 (458)
                      +.|.+|.+ ...++...|||.||..|+...+.  ....||.||..+.
T Consensus       455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~  500 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLK  500 (674)
T ss_pred             cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence            88999999 88888899999999999998876  3447999998653

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

Probab=89.67  E-value=0.49  Score=41.66  Aligned_cols=20  Identities=30%  Similarity=0.820  Sum_probs=16.9

Q ss_pred             CCCccccccccccCcEEccC
Q 043080           18 DEFKCCVCLELLYKPVVLAC   37 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~~C   37 (458)
                      ++.+||||++.-.+.|.|-|
T Consensus         1 ed~~CpICme~PHNAVLLlC   20 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLC   20 (162)
T ss_pred             CCccCceeccCCCceEEEEe
Confidence            35789999999999999754

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.

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

Probab=89.55  E-value=0.18  Score=50.61  Aligned_cols=45  Identities=33%  Similarity=0.633  Sum_probs=35.8

Q ss_pred             CCcccccccccCC---CceEcccCchhhHhhhhhccC-C--CCCCCCCccC
Q 043080          207 DDLSCAACKKMLF---KPVVLNCGHVFCELCLFVPED-G--NFKCPNCQSL  251 (458)
Q Consensus       207 ~~l~C~iC~~~~~---~pv~l~CgH~fC~~Cl~~~~~-~--~~~CP~Cr~~  251 (458)
                      ..+.|||=.+.-.   -|+.|.|||+.++.-+.+... +  +++||.|=..
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            4578999777654   489999999999999988766 3  4899999543

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

Probab=89.02  E-value=0.12  Score=51.18  Aligned_cols=43  Identities=28%  Similarity=0.634  Sum_probs=32.6

Q ss_pred             CcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCC
Q 043080          208 DLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQP  253 (458)
Q Consensus       208 ~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~  253 (458)
                      ...|.||..-..+.+.+||||.-|  |..-. +....||+||..+.
T Consensus       305 p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  305 PDLCVVCLDEPKSAVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             CCceEEecCCccceeeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            456999999999999999999865  54322 23455999998653

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

Probab=88.94  E-value=0.31  Score=41.58  Aligned_cols=48  Identities=23%  Similarity=0.417  Sum_probs=41.0

Q ss_pred             CCcccccccccCCCceEc----ccCchhhHhhhhhccC---CCCCCCCCccCCCC
Q 043080          207 DDLSCAACKKMLFKPVVL----NCGHVFCELCLFVPED---GNFKCPNCQSLQPY  254 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l----~CgH~fC~~Cl~~~~~---~~~~CP~Cr~~~~~  254 (458)
                      .-+.|-||.+...+...|    -||-+.|..|....|+   ....||+|+..+..
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs  133 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS  133 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence            357899999999988888    4999999999988887   56789999988754

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

Probab=88.90  E-value=0.26  Score=53.98  Aligned_cols=41  Identities=34%  Similarity=0.708  Sum_probs=35.3

Q ss_pred             CCccccccccccCcEE-ccCCChhhHHhHHHHHhcCCCCCCCCCCCC
Q 043080           19 EFKCCVCLELLYKPVV-LACGHISCFWCVYNAMNSWHESNCPVCRNP   64 (458)
Q Consensus        19 ~~~C~IC~~~l~~Pv~-~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~   64 (458)
                      .-.|..|...|.-|++ ..|||.|+..|+..     +...||.|+..
T Consensus       840 ~skCs~C~~~LdlP~VhF~CgHsyHqhC~e~-----~~~~CP~C~~e  881 (933)
T KOG2114|consen  840 VSKCSACEGTLDLPFVHFLCGHSYHQHCLED-----KEDKCPKCLPE  881 (933)
T ss_pred             eeeecccCCccccceeeeecccHHHHHhhcc-----CcccCCccchh
Confidence            3579999999999988 89999999999972     56689999774

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

Probab=88.90  E-value=0.53  Score=43.59  Aligned_cols=45  Identities=27%  Similarity=0.532  Sum_probs=37.4

Q ss_pred             ccccccccCC--CceEcccCchhhHhhhhhccC--------CCCCCCCCccCCCC
Q 043080          210 SCAACKKMLF--KPVVLNCGHVFCELCLFVPED--------GNFKCPNCQSLQPY  254 (458)
Q Consensus       210 ~C~iC~~~~~--~pv~l~CgH~fC~~Cl~~~~~--------~~~~CP~Cr~~~~~  254 (458)
                      .|.+|...|.  +.+.|.|-|.|...|+..+..        ....||.|..++-.
T Consensus        52 NC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   52 NCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             CCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            4999999887  467789999999999998864        46789999987643

>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues

Probab=88.82  E-value=1  Score=42.76  Aligned_cols=25  Identities=28%  Similarity=0.401  Sum_probs=15.5

Q ss_pred             hhHhhhhhccC---CCCCCCCCccCCCC
Q 043080          230 FCELCLFVPED---GNFKCPNCQSLQPY  254 (458)
Q Consensus       230 fC~~Cl~~~~~---~~~~CP~Cr~~~~~  254 (458)
                      .|..|-..+|.   ..+.|..|..-+..
T Consensus       127 ~C~EC~R~vw~hGGrif~CsfC~~flCE  154 (314)
T PF06524_consen  127 VCIECERGVWDHGGRIFKCSFCDNFLCE  154 (314)
T ss_pred             EeeeeecccccCCCeEEEeecCCCeeec
Confidence            35555544554   57889999775543

The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus

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

Probab=88.78  E-value=0.19  Score=41.35  Aligned_cols=30  Identities=33%  Similarity=0.698  Sum_probs=24.6

Q ss_pred             CCcccccccccCCCceEc--ccCchhhHhhhh
Q 043080          207 DDLSCAACKKMLFKPVVL--NCGHVFCELCLF  236 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l--~CgH~fC~~Cl~  236 (458)
                      +.-.|++|.+.+.+.+..  ||||.|+..|+.
T Consensus        77 ~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   77 ESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            345699999998876544  999999999975

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 [].

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

Probab=88.75  E-value=0.2  Score=54.10  Aligned_cols=49  Identities=29%  Similarity=0.603  Sum_probs=41.3

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccC---CCCCCCCCccCCCC
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED---GNFKCPNCQSLQPY  254 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~---~~~~CP~Cr~~~~~  254 (458)
                      .-.+.|+||...++.|+.+.|-|.||..|+...+.   ....||+|+..+..
T Consensus        19 ~k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK   70 (684)
T KOG4362|consen   19 QKILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK   70 (684)
T ss_pred             hhhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence            35678999999999999999999999999977655   46789999965543

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

Probab=88.51  E-value=0.14  Score=42.28  Aligned_cols=32  Identities=31%  Similarity=0.766  Sum_probs=26.9

Q ss_pred             CCCCCccccccccccCcEE--ccCCChhhHHhHH
Q 043080           16 FSDEFKCCVCLELLYKPVV--LACGHISCFWCVY   47 (458)
Q Consensus        16 l~~~~~C~IC~~~l~~Pv~--~~CgH~FC~~Ci~   47 (458)
                      +...-.|++|...+...+.  .||||.|+..|+.
T Consensus        75 i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   75 ITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             ECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            4567789999999987655  7999999999974

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=88.45  E-value=0.38  Score=47.30  Aligned_cols=50  Identities=22%  Similarity=0.592  Sum_probs=40.3

Q ss_pred             CCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCC
Q 043080           16 FSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPY   65 (458)
Q Consensus        16 l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~   65 (458)
                      -++...|-||-+-+.--.++||+|..|..|..+.-.--..+.||.||.+.
T Consensus        58 DEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          58 DEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             ccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            35567899999988777779999999999998754444567899999875

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=88.37  E-value=0.82  Score=44.17  Aligned_cols=45  Identities=29%  Similarity=0.600  Sum_probs=33.3

Q ss_pred             cccccccccc-Cc-EE---ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           21 KCCVCLELLY-KP-VV---LACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        21 ~C~IC~~~l~-~P-v~---~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      .||+|.--.+ .| +.   -+|||..|.+|+.+.+.. +.-.||.|...+.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~-g~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSL-GPAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhc-CCCCCCcccchhh
Confidence            5899985533 33 22   389999999999987764 6678999977653

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

Probab=87.98  E-value=0.26  Score=47.58  Aligned_cols=50  Identities=30%  Similarity=0.633  Sum_probs=38.2

Q ss_pred             CCCCcccccccccc-Cc-EE-ccCCChhhHHhHHHHHhc---------------------CCCCCCCCCCCCCC
Q 043080           17 SDEFKCCVCLELLY-KP-VV-LACGHISCFWCVYNAMNS---------------------WHESNCPVCRNPYN   66 (458)
Q Consensus        17 ~~~~~C~IC~~~l~-~P-v~-~~CgH~FC~~Ci~~~~~~---------------------~~~~~CP~Cr~~~~   66 (458)
                      ...-.|.||+.-|. .| ++ ++|-|.|.+.|+.+++..                     .....||+||..+.
T Consensus       113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            45678999999887 35 33 899999999999887661                     01235999998875

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

Probab=87.91  E-value=0.6  Score=46.08  Aligned_cols=46  Identities=33%  Similarity=0.668  Sum_probs=36.6

Q ss_pred             CCcccccccccc------CcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCC
Q 043080           19 EFKCCVCLELLY------KPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPY   65 (458)
Q Consensus        19 ~~~C~IC~~~l~------~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~   65 (458)
                      .+.|-||.+.|.      -|..+.|||+||..|+...+.. ....||-||...
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~-~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGN-SRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcC-ceeeccCCCCcc
Confidence            456889988774      5777889999999999876653 555689999886

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

Probab=87.78  E-value=0.15  Score=54.99  Aligned_cols=54  Identities=26%  Similarity=0.648  Sum_probs=44.6

Q ss_pred             hhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCC-CCCCCCCCCCCC
Q 043080           13 KEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWH-ESNCPVCRNPYN   66 (458)
Q Consensus        13 ~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~-~~~CP~Cr~~~~   66 (458)
                      ...+...+.|+||...++.|+.+.|-|.||..|+...+...+ ...||+|+..+.
T Consensus        15 i~~~~k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e   69 (684)
T KOG4362|consen   15 INAMQKILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE   69 (684)
T ss_pred             HHHHhhhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence            355667888999999999999999999999999987766444 567999986653

>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=87.02  E-value=0.23  Score=46.44  Aligned_cols=46  Identities=30%  Similarity=0.774  Sum_probs=34.4

Q ss_pred             CCcccccccc-cCCCc-eEc---c-cCchhhHhhhhhccC-CCCCCC--CCccCC
Q 043080          207 DDLSCAACKK-MLFKP-VVL---N-CGHVFCELCLFVPED-GNFKCP--NCQSLQ  252 (458)
Q Consensus       207 ~~l~C~iC~~-~~~~p-v~l---~-CgH~fC~~Cl~~~~~-~~~~CP--~Cr~~~  252 (458)
                      .+-.||+|.. .+-+| +.+   | |-|.+|.+|+.+.+. +...||  -|.+.+
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL   63 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL   63 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence            3457999975 34455 322   4 999999999999877 678899  787644

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

Probab=87.02  E-value=0.18  Score=53.36  Aligned_cols=40  Identities=35%  Similarity=0.799  Sum_probs=31.7

Q ss_pred             CCCCcccccccccCC----CceEcccCchhhHhhhhhccCCCCCCC
Q 043080          205 SVDDLSCAACKKMLF----KPVVLNCGHVFCELCLFVPEDGNFKCP  246 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~----~pv~l~CgH~fC~~Cl~~~~~~~~~CP  246 (458)
                      +.+.+.|+||...|.    .||.+-|||+.|..|+.....  ..||
T Consensus         8 w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp   51 (861)
T KOG3161|consen    8 WVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP   51 (861)
T ss_pred             hHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC
Confidence            345678999987765    699999999999999987654  3455

>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=86.30  E-value=0.31  Score=33.73  Aligned_cols=45  Identities=24%  Similarity=0.561  Sum_probs=25.8

Q ss_pred             cccccccccCCCceEcccC-chhhHhhhhhccCCCCCCCCCccCCCCC
Q 043080          209 LSCAACKKMLFKPVVLNCG-HVFCELCLFVPEDGNFKCPNCQSLQPYG  255 (458)
Q Consensus       209 l~C~iC~~~~~~pv~l~Cg-H~fC~~Cl~~~~~~~~~CP~Cr~~~~~~  255 (458)
                      +.|..|.-..+.  .+.|. |-.|..|+...+..+..||+|..+++.+
T Consensus         3 ~nCKsCWf~~k~--Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen    3 YNCKSCWFANKG--LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             ----SS-S--SS--EEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             ccChhhhhcCCC--eeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            346666655544  45676 7789999999999999999999988753

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.

>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=85.97  E-value=0.24  Score=35.15  Aligned_cols=41  Identities=32%  Similarity=0.536  Sum_probs=21.4

Q ss_pred             cccccccccCCCceEc-ccCchhhHhhhhhccC-----CCCCCCCCcc
Q 043080          209 LSCAACKKMLFKPVVL-NCGHVFCELCLFVPED-----GNFKCPNCQS  250 (458)
Q Consensus       209 l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~-----~~~~CP~Cr~  250 (458)
                      |.||+....+..|+.. .|.|.-|-. +..++.     +...||+|++
T Consensus         3 L~CPls~~~i~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~   49 (50)
T PF02891_consen    3 LRCPLSFQRIRIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNK   49 (50)
T ss_dssp             SB-TTTSSB-SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT--
T ss_pred             eeCCCCCCEEEeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcC
Confidence            6899999999999987 999986643 222222     5678999976

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.

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

Probab=85.73  E-value=0.54  Score=45.58  Aligned_cols=43  Identities=35%  Similarity=0.831  Sum_probs=34.5

Q ss_pred             CCcccccccccc----CcEEccCCChhhHHhHHHHHhcCCCCCCCCCCC
Q 043080           19 EFKCCVCLELLY----KPVVLACGHISCFWCVYNAMNSWHESNCPVCRN   63 (458)
Q Consensus        19 ~~~C~IC~~~l~----~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~   63 (458)
                      ...||||.+.+.    .|..++|||.....|+...... + .+||+|.+
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~-~-y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE-G-YTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCccCcccchHHHHHHHHhcc-C-CCCCcccc
Confidence            344999999875    4556899999999999876664 4 89999977

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

Probab=85.70  E-value=0.96  Score=46.42  Aligned_cols=40  Identities=30%  Similarity=0.670  Sum_probs=28.6

Q ss_pred             CcccccccccCCCc----eEcccCchhhHhhhhhccC------CCCCCCC
Q 043080          208 DLSCAACKKMLFKP----VVLNCGHVFCELCLFVPED------GNFKCPN  247 (458)
Q Consensus       208 ~l~C~iC~~~~~~p----v~l~CgH~fC~~Cl~~~~~------~~~~CP~  247 (458)
                      ..+|.||..-...+    .+..|+|.||..|+.+++.      ....||.
T Consensus       146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~  195 (384)
T KOG1812|consen  146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPH  195 (384)
T ss_pred             cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCC
Confidence            56799999433322    2457999999999998776      4566764

>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=85.43  E-value=0.72  Score=31.59  Aligned_cols=38  Identities=29%  Similarity=0.613  Sum_probs=23.5

Q ss_pred             cccccccCCCceEcc---cCchhhHhhhhhccCCCC--CCCCC
Q 043080          211 CAACKKMLFKPVVLN---CGHVFCELCLFVPEDGNF--KCPNC  248 (458)
Q Consensus       211 C~iC~~~~~~pv~l~---CgH~fC~~Cl~~~~~~~~--~CP~C  248 (458)
                      |.+|.++...-+.-+   |+-.++..|+..+++...  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            678888888877654   888899999999988433  79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=85.40  E-value=0.93  Score=38.72  Aligned_cols=50  Identities=26%  Similarity=0.609  Sum_probs=40.8

Q ss_pred             CCCccccccccccCcEEc----cCCChhhHHhHHHHHhcCCC-CCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKPVVL----ACGHISCFWCVYNAMNSWHE-SNCPVCRNPYNH   67 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~----~CgH~FC~~Ci~~~~~~~~~-~~CP~Cr~~~~~   67 (458)
                      .-..|-||.+.-.+.-.+    =||-..|..|-...|+.... ..||+|+..+..
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs  133 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS  133 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence            467899999998877775    28999999999999886543 459999988764

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

Probab=85.05  E-value=1.9  Score=40.09  Aligned_cols=48  Identities=21%  Similarity=0.468  Sum_probs=38.1

Q ss_pred             CCcccccccccc--CcEEccCCChhhHHhHHHHHhcC------CCCCCCCCCCCCC
Q 043080           19 EFKCCVCLELLY--KPVVLACGHISCFWCVYNAMNSW------HESNCPVCRNPYN   66 (458)
Q Consensus        19 ~~~C~IC~~~l~--~Pv~~~CgH~FC~~Ci~~~~~~~------~~~~CP~Cr~~~~   66 (458)
                      .-.|.+|.-.|.  +-+.+.|-|.|...|+.++....      ....||.|..++-
T Consensus        50 ~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF  105 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF  105 (299)
T ss_pred             CCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence            346999999886  56779999999999999886632      2356999998874

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=84.84  E-value=0.78  Score=45.07  Aligned_cols=49  Identities=22%  Similarity=0.493  Sum_probs=34.4

Q ss_pred             CCCcccccccccCCCc----eEcccCchhhHhhhhhccC-CCCCCCCCccCCCCC
Q 043080          206 VDDLSCAACKKMLFKP----VVLNCGHVFCELCLFVPED-GNFKCPNCQSLQPYG  255 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~p----v~l~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~~  255 (458)
                      ++++ ||+|.+.+...    .--+||-..|+-|+...-+ -..+||.||..+...
T Consensus        13 eed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de   66 (480)
T COG5175          13 EEDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE   66 (480)
T ss_pred             cccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence            3444 99999876421    1138898899999865543 356899999987654

>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=83.45  E-value=1  Score=30.29  Aligned_cols=30  Identities=23%  Similarity=0.481  Sum_probs=21.7

Q ss_pred             cccCCCCCCCCCCcceeccCCccccCCCcchhhhcCC
Q 043080          322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNP  358 (458)
Q Consensus       322 v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~  358 (458)
                      ..|..+..   ....|+|.+|...+    |..|....
T Consensus         4 ~~C~~H~~---~~~~~~C~~C~~~~----C~~C~~~~   33 (42)
T PF00643_consen    4 PKCPEHPE---EPLSLFCEDCNEPL----CSECTVSG   33 (42)
T ss_dssp             SB-SSTTT---SBEEEEETTTTEEE----EHHHHHTS
T ss_pred             ccCccCCc---cceEEEecCCCCcc----CccCCCCC
Confidence            56777763   22678999997555    99999985

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....

>PHA02862 5L protein; Provisional

Probab=83.10  E-value=1.2  Score=38.61  Aligned_cols=46  Identities=22%  Similarity=0.524  Sum_probs=35.6

Q ss_pred             CccccccccccCcEEccCC-----ChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           20 FKCCVCLELLYKPVVLACG-----HISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        20 ~~C~IC~~~l~~Pv~~~Cg-----H~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      -.|-||.+.-.+.+ .+|.     ..-+..|+.+|++..++..|++|+.++.
T Consensus         3 diCWIC~~~~~e~~-~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~   53 (156)
T PHA02862          3 DICWICNDVCDERN-NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN   53 (156)
T ss_pred             CEEEEecCcCCCCc-ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence            36899998765443 4543     2468999999999888889999999885

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=81.89  E-value=1.6  Score=38.65  Aligned_cols=49  Identities=24%  Similarity=0.514  Sum_probs=37.2

Q ss_pred             CCCCccccccccccCcEEccCC--C---hhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           17 SDEFKCCVCLELLYKPVVLACG--H---ISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        17 ~~~~~C~IC~~~l~~Pv~~~Cg--H---~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      ...-.|-||.+--. +...+|.  .   ..+.+|+.+|+...+...|++|+.++.
T Consensus         6 ~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~   59 (162)
T PHA02825          6 LMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN   59 (162)
T ss_pred             CCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence            34567999998754 3334543  3   348999999999888889999998874

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

Probab=80.35  E-value=0.84  Score=44.36  Aligned_cols=43  Identities=28%  Similarity=0.596  Sum_probs=32.0

Q ss_pred             CcccccccccC-CCceEcccCchhhHhhhhhccCCCCCCCCCccCC
Q 043080          208 DLSCAACKKML-FKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQ  252 (458)
Q Consensus       208 ~l~C~iC~~~~-~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~  252 (458)
                      ...|--|...+ .--..++|.|+||..|...  ...+.||.|-..+
T Consensus        90 VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   90 VHFCDRCDFPIAIYGRMIPCKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             eEeecccCCcceeeecccccchhhhhhhhhc--CccccCcCcccHH
Confidence            45788887643 3445679999999999854  3478899997755

>PHA03096 p28-like protein; Provisional

Probab=80.28  E-value=1.2  Score=43.58  Aligned_cols=45  Identities=22%  Similarity=0.293  Sum_probs=32.0

Q ss_pred             Ccccccccccc-Cc-------EEccCCChhhHHhHHHHHhcCC-CCCCCCCCCC
Q 043080           20 FKCCVCLELLY-KP-------VVLACGHISCFWCVYNAMNSWH-ESNCPVCRNP   64 (458)
Q Consensus        20 ~~C~IC~~~l~-~P-------v~~~CgH~FC~~Ci~~~~~~~~-~~~CP~Cr~~   64 (458)
                      -.|.||++... ++       +.-.|-|.||..|+..|..... ...||.||.-
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~  232 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRL  232 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccch
Confidence            67999998865 22       2237999999999999887542 2346666543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	458
2fc7_A	82	Solution Structure Of The Zz Domain Of Zzz3 Protein		7e-04
2ecw_A	85	Solution Structure Of The Zinc Finger, C3hc4 Type (		8e-04

>pdb|2FC7|A Chain A, Solution Structure Of The Zz Domain Of Zzz3 Protein Length = 82

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 16/36 (44%), Positives = 22/36 (61%)
Query: 319 HFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEAC 354
           H G  CD CG+ PI G R+ C+DC   +  D C++C
Sbjct: 19  HVGFKCDNCGIEPIQGVRWHCQDCPPEMSLDFCDSC 54

>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring Finger) Domain Tripartite Motif Protein 30 Length = 85

Iteration: 1
 Score = 42.0 bits (97), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 23/56 (41%), Positives = 30/56 (53%), Gaps = 4/56 (7%)
Query: 14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVY----NAMNSWHESNCPVCRNPY 65
          E   +E  C +CLELL +PV   C H  C  C+     +  N+  + NCPVCR PY
Sbjct: 14 EMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPY 69

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	458
2fc7_A	82	ZZZ3 protein; structure genomics, ZZ domain, struc	9e-17
2dip_A	98	Zinc finger SWIM domain-containing protein 2; ZZ d	1e-15
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-13
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-08
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	4e-11
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	9e-08
2e5r_A	63	Dystrobrevin alpha; ZZ domain, structural genomics	4e-11
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	9e-11
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	4e-10
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-10
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-07
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	4e-10
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	2e-05
1z6u_A	150	NP95-like ring finger protein isoform B; structura	9e-10
1z6u_A	150	NP95-like ring finger protein isoform B; structura	4e-07
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	1e-09
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	3e-06
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	2e-09
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	1e-05
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-09
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	6e-07
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	3e-09
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	9e-06
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	7e-09
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	8e-06
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-08
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	7e-05
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	1e-08
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	5e-06
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	1e-08
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	4e-05
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-08
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	9e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	3e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	4e-05
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	3e-08
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	9e-07
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	3e-08
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	3e-06
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	6e-08
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	2e-06
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	8e-08
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	7e-04
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-07
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	2e-07
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	1e-05
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	2e-07
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	2e-07
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	3e-07
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	3e-07
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	5e-06
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	3e-07
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	4e-06
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	4e-07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	5e-04
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	6e-07
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	3e-05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	1e-06
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	2e-04
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	4e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	2e-05
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	9e-06
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-05
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	3e-05
1tot_A	52	CREB-binding protein; zinc binding, CBP, TAZ2, tra	3e-05
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	9e-05
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	1e-04
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	3e-04

>2fc7_A ZZZ3 protein; structure genomics, ZZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.6 Length = 82

 Score = 73.9 bits (181), Expect = 9e-17
 Identities = 20/59 (33%), Positives = 30/59 (50%), Gaps = 5/59 (8%)

Query: 318 IHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFE 376
            H G  CD CG+ PI G R+ C+DC   +  D C++C +   +        HK +H+ E
Sbjct: 18  QHVGFKCDNCGIEPIQGVRWHCQDCPPEMSLDFCDSCSDCLHE-----TDIHKEDHQLE 71

>2dip_A Zinc finger SWIM domain-containing protein 2; ZZ domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.44.1.6 Length = 98

 Score = 71.3 bits (174), Expect = 1e-15
 Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 3/65 (4%)

Query: 318 IHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEI 377
            H G+ C+ C   PI G+ YKC +C+E   + LC+ C ++   +   F  + K   K+  
Sbjct: 28  KHLGIPCNNCKQFPIEGKCYKCTECIE---YHLCQECFDSYCHLSHTFTFREKRNQKWRS 84

Query: 378 MQPTS 382
           ++  +
Sbjct: 85  LEKRA 89

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

 Score = 66.2 bits (161), Expect = 3e-13
 Identities = 24/100 (24%), Positives = 46/100 (46%), Gaps = 2/100 (2%)

Query: 1   MEAEEHEIELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPV 60
           M+A++ E+     +   +E +C +C E   + V L C H  C +C+   M    +  CP+
Sbjct: 46  MQAQKEEVLSHMNDVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMK--RKIECPI 103

Query: 61  CRNPYNHFPSICHLLHFLLKKLYPLTYEKRERQVAEEEKQ 100
           CR           L + + K +  L+ E +ER++    ++
Sbjct: 104 CRKDIKSKTYSLVLDNCINKMVNNLSSEVKERRIVLIRER 143

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

 Score = 52.4 bits (125), Expect = 2e-08
 Identities = 19/74 (25%), Positives = 37/74 (50%), Gaps = 2/74 (2%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHF 266
           ++L C  C +   + V LNC H FC  C+        +CP C+  +     +  L++++ 
Sbjct: 63  NELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICR--KDIKSKTYSLVLDNC 120

Query: 267 LEERFSDLYAERKE 280
           + +  ++L +E KE
Sbjct: 121 INKMVNNLSSEVKE 134

>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 = 59.6 bits (144), Expect = 4e-11
 Identities = 19/79 (24%), Positives = 34/79 (43%), Gaps = 3/79 (3%)

Query: 14  EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSIC- 72
               + F+C  C EL+++P+   C H  C  C+  +  +    +CP CR       ++  
Sbjct: 47  SKVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRA-QVFSCPACRYDLGRSYAMQV 105

Query: 73  -HLLHFLLKKLYPLTYEKR 90
              L  +L +L+P     R
Sbjct: 106 NQPLQTVLNQLFPGYGNGR 124

>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 = 49.6 bits (118), Expect = 9e-08
 Identities = 18/74 (24%), Positives = 29/74 (39%), Gaps = 2/74 (2%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED-GNFKCPNC-QSLQPYGLPSVCLIIE 264
           +   C  C++++F+P+   C H  C+ CL        F CP C   L       V   ++
Sbjct: 51  ETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQ 110

Query: 265 HFLEERFSDLYAER 278
             L + F      R
Sbjct: 111 TVLNQLFPGYGNGR 124

>2e5r_A Dystrobrevin alpha; ZZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 63

 Score = 57.2 bits (138), Expect = 4e-11
 Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 8/58 (13%)

Query: 318 IHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKF 375
           +   V C YC    ++G RY+C+ C     + LC+ C        G     H  +H+ 
Sbjct: 8   VFHPVECSYCHSESMMGFRYRCQQCHN---YQLCQDCFWR-----GHAGGSHSNQHQM 57

>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 = 58.0 bits (140), Expect = 9e-11
 Identities = 24/97 (24%), Positives = 40/97 (41%), Gaps = 10/97 (10%)

Query: 18  DEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPS------- 70
            E +C +C+E+L +PV L C H  C  C  + +       CP CR   + +         
Sbjct: 14  SECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEK-ASLCCPFCRRRVSSWTRYHTRRNS 72

Query: 71  -ICHLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSP 106
            +   L  +++K YP   + R     E E+    + P
Sbjct: 73  LVNVELWTIIQKHYPRECKLR-ASGQESEEVADDYQP 108

>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 = 56.1 bits (135), Expect = 4e-10
 Identities = 17/85 (20%), Positives = 31/85 (36%), Gaps = 8/85 (9%)

Query: 205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLF-VPEDGNFKCPNCQSLQPYGL------- 256
           S+ +  C  C ++L +PV L C H  C+ C     E  +  CP C+              
Sbjct: 12  SLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRN 71

Query: 257 PSVCLIIEHFLEERFSDLYAERKEA 281
             V + +   +++ +      R   
Sbjct: 72  SLVNVELWTIIQKHYPRECKLRASG 96

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

 Score = 56.0 bits (135), Expect = 1e-10
 Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 2/54 (3%)

Query: 11 ADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNP 64
           +        +C +CL+    PV L C H+ C+ CV  A   W    C +CR  
Sbjct: 7  GNTAPSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGAS--WLGKRCALCRQE 58

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

 Score = 47.5 bits (113), Expect = 1e-07
 Identities = 16/44 (36%), Positives = 20/44 (45%)

Query: 205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNC 248
           S+    CA C +    PV L C HVFC LC+        +C  C
Sbjct: 12  SLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALC 55

>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 = 57.3 bits (138), Expect = 4e-10
 Identities = 25/111 (22%), Positives = 38/111 (34%), Gaps = 7/111 (6%)

Query: 1   MEAEEHEIELADKEAFSDEFKCCVCLELLYKPV-VLACGHISCFWCVYNAMNSWHESNCP 59
            +  E  +          E  C +CL++L   +    C H  C  C+  A+ S     CP
Sbjct: 39  TDGLEIVVSPRS---LHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRS-GNKECP 94

Query: 60  VCRNPYNHFPSIC--HLLHFLLKKLYPLTYEKRERQVAEEEKQLGHFSPQV 108
            CR       S+        L+ K+YP   E    Q     +   H + Q 
Sbjct: 95  TCRKKLVSKRSLRPDPNFDALISKIYPSRDEYEAHQERVLARINKHNNQQA 145

>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 = 43.8 bits (103), Expect = 2e-05
 Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 2/45 (4%)

Query: 207 DDLSCAACKKMLFKPV-VLNCGHVFCELCLFVP-EDGNFKCPNCQ 249
            +L C  C  ML   +    C H FC  C+      GN +CP C+
Sbjct: 53  SELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCR 97

>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 = 56.2 bits (135), Expect = 9e-10
 Identities = 22/79 (27%), Positives = 33/79 (41%), Gaps = 3/79 (3%)

Query: 14  EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSIC- 72
           +     F C  C EL+Y+PV   C H  C  C+  +  +   S CP CR+       +  
Sbjct: 73  KKLEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFS-CPACRHDLGQNYIMIP 131

Query: 73  -HLLHFLLKKLYPLTYEKR 90
             +L  LL   +P   + R
Sbjct: 132 NEILQTLLDLFFPGYSKGR 150

>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 = 48.5 bits (115), Expect = 4e-07
 Identities = 18/74 (24%), Positives = 30/74 (40%), Gaps = 2/74 (2%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELCLF-VPEDGNFKCPNC-QSLQPYGLPSVCLIIE 264
               C  C++++++PV   C H  C+ CL    +   F CP C   L    +     I++
Sbjct: 77  QSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQ 136

Query: 265 HFLEERFSDLYAER 278
             L+  F      R
Sbjct: 137 TLLDLFFPGYSKGR 150

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

 Score = 53.5 bits (129), Expect = 1e-09
 Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAM-NSWHESNCPVCRNPY 65
              +E  C +CL++L KPV + CGH  C  C+      S     CP+C+   
Sbjct: 15 NKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSV 67

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

 Score = 43.9 bits (104), Expect = 3e-06
 Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 3/46 (6%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELCLFV---PEDGNFKCPNCQ 249
           +++ C  C  +L KPV ++CGH FC  C+        G FKCP C+
Sbjct: 19  EEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCK 64

>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 = 54.3 bits (131), Expect = 2e-09
 Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 3/68 (4%)

Query: 1  MEAEEHEIELADK--EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMN-SWHESN 57
          M+     +E       A     +C +CLEL+ +PV   C HI C +C+   +N     S 
Sbjct: 1  MDLSALRVEEVQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQ 60

Query: 58 CPVCRNPY 65
          CP+C+N  
Sbjct: 61 CPLCKNDI 68

>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 = 43.2 bits (102), Expect = 1e-05
 Identities = 19/83 (22%), Positives = 33/83 (39%), Gaps = 7/83 (8%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELCL---FVPEDGNFKCPNC-QSLQPYGL-PSVCL 261
             L C  C +++ +PV   C H+FC+ C+      + G  +CP C   +    L  S   
Sbjct: 20  KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRF 79

Query: 262 --IIEHFLEERFSDLYAERKEAL 282
             ++E  L+   +       E  
Sbjct: 80  SQLVEELLKIICAFQLDTGLEYA 102

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

 Score = 52.9 bits (127), Expect = 2e-09
 Identities = 14/51 (27%), Positives = 22/51 (43%), Gaps = 1/51 (1%)

Query: 14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNP 64
          +   D++KC  C  +L  P    CGH  C  C+   ++S     C  C+  
Sbjct: 10 KTVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSS-SSPKCTACQES 59

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

 Score = 45.5 bits (108), Expect = 6e-07
 Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 1/44 (2%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELCLF-VPEDGNFKCPNCQ 249
           D   C  C  +L  P    CGH FCE C+  +    + KC  CQ
Sbjct: 14  DKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQ 57

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

 Score = 52.8 bits (127), Expect = 3e-09
 Identities = 23/56 (41%), Positives = 30/56 (53%), Gaps = 4/56 (7%)

Query: 14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVY----NAMNSWHESNCPVCRNPY 65
          E   +E  C +CLELL +PV   C H  C  C+     +  N+  + NCPVCR PY
Sbjct: 14 EMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPY 69

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

 Score = 42.7 bits (101), Expect = 9e-06
 Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 6/49 (12%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELCLF------VPEDGNFKCPNCQ 249
           ++++C  C ++L +PV  +C H FC  C+          DG   CP C+
Sbjct: 18  EEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCR 66

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

 Score = 51.5 bits (124), Expect = 7e-09
 Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 5/57 (8%)

Query: 14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHES-----NCPVCRNPY 65
              +E  C +CLELL +P+ L CGH  C  C+  +      S     +CPVC   Y
Sbjct: 7  GNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISY 63

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

 Score = 42.6 bits (101), Expect = 8e-06
 Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 7/50 (14%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELCL-------FVPEDGNFKCPNCQ 249
           ++++C  C ++L +P+ L+CGH  C  C+            G   CP C 
Sbjct: 11  EEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCG 60

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

 Score = 51.8 bits (124), Expect = 1e-08
 Identities = 23/92 (25%), Positives = 33/92 (35%), Gaps = 3/92 (3%)

Query: 14  EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICH 73
             F     C +C  +L  PV  +C H+ C  C+   +     S CP CR P   FP+   
Sbjct: 18  AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKV-MGSYCPSCRYPC--FPTDLE 74

Query: 74  LLHFLLKKLYPLTYEKRERQVAEEEKQLGHFS 105
                   +      K   Q   EE  L  ++
Sbjct: 75  SPVKSFLNILNSLMVKCPAQDCNEEVSLEKYN 106

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

 Score = 41.4 bits (97), Expect = 7e-05
 Identities = 17/59 (28%), Positives = 29/59 (49%), Gaps = 8/59 (13%)

Query: 198 HKAENWVSVD-------DLSCAACKKMLFKPVVLNCGHVFCELCLF-VPEDGNFKCPNC 248
           H +   ++VD        +SC  C+ +L  PV  +C H+FC +C+    +     CP+C
Sbjct: 6   HLSTKLLAVDFPAHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSC 64

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

 Score = 50.7 bits (122), Expect = 1e-08
 Identities = 23/56 (41%), Positives = 30/56 (53%), Gaps = 4/56 (7%)

Query: 14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVY----NAMNSWHESNCPVCRNPY 65
              +E  C +CLELL +P+ L CGH  C  C+      +M    ES+CPVCR  Y
Sbjct: 14 VNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISY 69

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

 Score = 43.8 bits (104), Expect = 5e-06
 Identities = 16/49 (32%), Positives = 29/49 (59%), Gaps = 6/49 (12%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELCL------FVPEDGNFKCPNCQ 249
           ++++C  C ++L +P+ L+CGH FC+ CL       + + G   CP C+
Sbjct: 18  EEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCR 66

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

 Score = 50.1 bits (120), Expect = 1e-08
 Identities = 18/53 (33%), Positives = 23/53 (43%), Gaps = 3/53 (5%)

Query: 209 LSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCL 261
           L C  C+     P +L C H  C  CL   E    +CP CQ+  P G  +  L
Sbjct: 7   LRCQQCQAEAKCPKLLPCLHTLCSGCL---EASGMQCPICQAPWPLGADTPAL 56

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

 Score = 40.4 bits (95), Expect = 4e-05
 Identities = 12/43 (27%), Positives = 17/43 (39%), Gaps = 5/43 (11%)

Query: 22 CCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNP 64
          C  C      P +L C H  C  C+  +        CP+C+ P
Sbjct: 9  CQQCQAEAKCPKLLPCLHTLCSGCLEAS-----GMQCPICQAP 46

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

 Score = 50.6 bits (121), Expect = 2e-08
 Identities = 16/62 (25%), Positives = 22/62 (35%), Gaps = 2/62 (3%)

Query: 20 FKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICHLLHFLL 79
          F+C +C +    PVV  C H  C  C            C +C  P     +    L   L
Sbjct: 16 FRCFICRQAFQNPVVTKCRHYFCESCALEHFR--ATPRCYICDQPTGGIFNPAKELMAKL 73

Query: 80 KK 81
          +K
Sbjct: 74 QK 75

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

 Score = 48.3 bits (115), Expect = 9e-08
 Identities = 13/41 (31%), Positives = 16/41 (39%)

Query: 208 DLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNC 248
              C  C++    PVV  C H FCE C         +C  C
Sbjct: 15  PFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYIC 55

>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 = 54.8 bits (131), Expect = 3e-08
 Identities = 16/58 (27%), Positives = 21/58 (36%), Gaps = 1/58 (1%)

Query: 5   EHEIELADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCR 62
             E      E  S    C +C E      +  CGH+ C  C+ +   S     CP CR
Sbjct: 318 TQEQYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQES-EGQGCPFCR 374

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

 Score = 44.8 bits (105), Expect = 4e-05
 Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 1/53 (1%)

Query: 197 EHKAENWVSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVP-EDGNFKCPNC 248
           +++    +      C  C +      +  CGH+ C  CL    E     CP C
Sbjct: 321 QYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 373

>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 = 49.7 bits (119), Expect = 3e-08
 Identities = 15/62 (24%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 11 ADKEAFSDEFKCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFP 69
           + +   DE  C +C +++   VV+  CG+  C  C+  A+    E  CP C        
Sbjct: 7  GEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD 66

Query: 70 SI 71
          ++
Sbjct: 67 AL 68

>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 = 45.5 bits (108), Expect = 9e-07
 Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 3/45 (6%)

Query: 207 DDLSCAACKKMLFKPVVL-NCGHVFCELCL--FVPEDGNFKCPNC 248
           D+L C  CK ++   VV+  CG+ +C+ C+   + E     CP C
Sbjct: 14  DELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTC 58

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

 Score = 51.0 bits (122), Expect = 3e-08
 Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 1/53 (1%)

Query: 14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN 66
               +++C +CL  L + V   CGH  C  C+  ++       CPV      
Sbjct: 13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRD-AGHKCPVDNEILL 64

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

 Score = 45.2 bits (107), Expect = 3e-06
 Identities = 14/46 (30%), Positives = 17/46 (36%), Gaps = 1/46 (2%)

Query: 206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLF-VPEDGNFKCPNCQS 250
                C  C   L + V   CGH FC+ C+     D   KCP    
Sbjct: 16  ESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNE 61

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

 Score = 48.1 bits (115), Expect = 6e-08
 Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 1/49 (2%)

Query: 14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAM-NSWHESNCPVC 61
              +E  C +CL++L KPV + CGH  C  C+      S     CP+C
Sbjct: 15 NKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

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

 Score = 44.3 bits (105), Expect = 2e-06
 Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 3/45 (6%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELCLFV---PEDGNFKCPNC 248
           +++ C  C  +L KPV ++CGH FC  C+        G FKCP C
Sbjct: 19  EEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

>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 = 49.9 bits (119), Expect = 8e-08
 Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 5/53 (9%)

Query: 14 EAFSDEFKCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPY 65
          +      +C  C  +L +PV L  C HI C  CV    +    + CPVC  P 
Sbjct: 17 DRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCV----SDCIGTGCPVCYTPA 65

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

 Score = 38.3 bits (89), Expect = 7e-04
 Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 3/45 (6%)

Query: 207 DDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQS 250
             L C+ C  +L +PV L  C H+FC  C+   +     CP C +
Sbjct: 21  KLLRCSRCTNILREPVCLGGCEHIFCSNCVS--DCIGTGCPVCYT 63

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

 Score = 47.0 bits (112), Expect = 2e-07
 Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 7/56 (12%)

Query: 11 ADKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESN--CPVCRNP 64
             +  +DE +CC+C++     ++L C H  C  C+    + W + +  CP+CR  
Sbjct: 7  GRVKQLTDEEECCICMD-GRADLILPCAHSFCQKCI----DKWSDRHRNCPICRLQ 57

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

 Score = 46.5 bits (111), Expect = 2e-07
 Identities = 19/49 (38%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAM-NSWHESNCPVC 61
          E    E  C VCLE L +PV++ CGH  C  C+     +   +  CPVC
Sbjct: 10 ENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58

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

 Score = 41.5 bits (98), Expect = 1e-05
 Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 3/45 (6%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELCLFV---PEDGNFKCPNC 248
            + SC+ C + L +PV++ CGH FC+ C+       + +F CP C
Sbjct: 14  VEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58

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

 Score = 48.0 bits (114), Expect = 2e-07
 Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 2/52 (3%)

Query: 14 EAFSDEFKCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNP 64
          E+ ++ F+C +C+E L    +   C  + CF C+   +     + CP CR P
Sbjct: 17 ESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTE-QRAQCPHCRAP 67

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

 Score = 47.5 bits (113), Expect = 2e-07
 Identities = 19/74 (25%), Positives = 31/74 (41%), Gaps = 12/74 (16%)

Query: 207 DDLSCAACKKMLFKPVVL-NCGHVFCELCL--FVPEDGNFKCPNCQSLQPYGLPSVCL-- 261
           D+L C  CK ++   VV+  CG+ +C+ C+   + E     CP C   Q    P   +  
Sbjct: 12  DELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCH--QNDVSPDALIAN 69

Query: 262 -----IIEHFLEER 270
                 + +F  E 
Sbjct: 70  KFLRQAVNNFKNET 83

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

 Score = 47.5 bits (113), Expect = 3e-07
 Identities = 18/93 (19%), Positives = 34/93 (36%), Gaps = 8/93 (8%)

Query: 11  ADKEAFSDEFKCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFP 69
           ++ +   DE  C +C +++   VV+  CG+  C  C+  A+    E  CP C        
Sbjct: 5   SEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD 64

Query: 70  SIC--HLLHFLLKKLYPLTYEKRERQVAEEEKQ 100
           ++     L   +       ++          KQ
Sbjct: 65  ALIANKFLRQAVNN-----FKNETGYTKRLRKQ 92

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens} Length = 141

 Score = 48.6 bits (115), Expect = 3e-07
 Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 1/61 (1%)

Query: 14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICH 73
               ++ C  C  +L +P    CGH  C +C+ + ++S    NC  C +   +   I  
Sbjct: 26 TKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSS-GPQNCAACVHEGIYEEGISI 84

Query: 74 L 74
          L
Sbjct: 85 L 85

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens} Length = 141

 Score = 45.1 bits (106), Expect = 5e-06
 Identities = 16/66 (24%), Positives = 23/66 (34%), Gaps = 1/66 (1%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELCLF-VPEDGNFKCPNCQSLQPYGLPSVCLIIEH 265
               C+AC+ +L +P    CGH +C  CL  +   G   C  C     Y      L    
Sbjct: 30  AKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESSS 89

Query: 266 FLEERF 271
              +  
Sbjct: 90  AFPDNA 95

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

 Score = 47.9 bits (114), Expect = 3e-07
 Identities = 13/93 (13%), Positives = 28/93 (30%), Gaps = 8/93 (8%)

Query: 14  EAFSDEFKCCVCLELLYKPVVLA-CGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSIC 72
              +    C +C         +  C H  C  C+   +       CP+C    +    + 
Sbjct: 10  TELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLE--TSKYCPICDVQVHKTRPLL 67

Query: 73  -----HLLHFLLKKLYPLTYEKRERQVAEEEKQ 100
                  L  ++ KL P  ++   ++  +    
Sbjct: 68  NIRSDKTLQDIVYKLVPGLFKNEMKRRRDFYAA 100

>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 = 44.4 bits (105), Expect = 4e-06
 Identities = 15/83 (18%), Positives = 27/83 (32%), Gaps = 9/83 (10%)

Query: 207 DDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCL---- 261
             L C  C         +  C H FC+ C+    + +  CP C        P + +    
Sbjct: 14  PHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDK 73

Query: 262 ----IIEHFLEERFSDLYAERKE 280
               I+   +   F +    R++
Sbjct: 74  TLQDIVYKLVPGLFKNEMKRRRD 96

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

 Score = 47.1 bits (112), Expect = 4e-07
 Identities = 13/59 (22%), Positives = 25/59 (42%), Gaps = 3/59 (5%)

Query: 9  ELADKEAFSDEFKCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPYN 66
           LA  +   D  +C +C E     +++  C H  C  C+   ++  +++ CP C     
Sbjct: 12 GLAVMKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLS--YKTQCPTCCVTVT 68

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

 Score = 38.2 bits (89), Expect = 5e-04
 Identities = 12/43 (27%), Positives = 19/43 (44%), Gaps = 1/43 (2%)

Query: 207 DDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNC 248
           D L C  C +     +++  C H +C LC+        +CP C
Sbjct: 21  DLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63

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

 Score = 45.9 bits (109), Expect = 6e-07
 Identities = 10/54 (18%), Positives = 17/54 (31%), Gaps = 3/54 (5%)

Query: 14 EAFSDEFKCCVCLELLYKPVVLA-CGHISCFWCVYNAMNSWHESNCPVCRNPYN 66
             +    C +C   L     +  C H  C  C+       + + CP C    +
Sbjct: 10 SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFY--YSNRCPKCNIVVH 61

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

 Score = 40.9 bits (96), Expect = 3e-05
 Identities = 12/43 (27%), Positives = 19/43 (44%), Gaps = 1/43 (2%)

Query: 207 DDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNC 248
             + C+ CK  L     +  C H FC+ C+      + +CP C
Sbjct: 14  PYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKC 56

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

 Score = 47.8 bits (113), Expect = 1e-06
 Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 1/53 (1%)

Query: 14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN 66
               +++C +CL  L + V   CGH  C  C+  ++       CPV      
Sbjct: 13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRD-AGHKCPVDNEILL 64

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

 Score = 41.2 bits (96), Expect = 2e-04
 Identities = 14/46 (30%), Positives = 17/46 (36%), Gaps = 1/46 (2%)

Query: 206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLF-VPEDGNFKCPNCQS 250
                C  C   L + V   CGH FC+ C+     D   KCP    
Sbjct: 16  ESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNE 61

>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 = 44.1 bits (104), Expect = 2e-06
 Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 9/58 (15%)

Query: 17 SDEFKCCVCLELLYKP-------VVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH 67
          S    C +C++   +        V   CGH+ C  C+ +++   + + CP CR   NH
Sbjct: 8  SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK--NANTCPTCRKKINH 63

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

 Score = 44.3 bits (105), Expect = 4e-06
 Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 9/60 (15%)

Query: 207 DDLSCAAC----KKMLFKPVVLNCGHVFCELCL---FVPEDGNFKCPNCQSLQPYGLPSV 259
           + L C  C     +   +P +L+CGH  C  CL           +CP C   +   + S+
Sbjct: 14  EVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCS--KITRITSL 71

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

 Score = 42.4 bits (100), Expect = 2e-05
 Identities = 15/59 (25%), Positives = 27/59 (45%), Gaps = 5/59 (8%)

Query: 11 ADKEAFSDEFKCCVCLEL----LYKPVVLACGHISCFWCVYNAM-NSWHESNCPVCRNP 64
           + +A  +  +C +C+E       +P +L CGH  C  C+   + +S +   CP C   
Sbjct: 7  GNLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKI 65

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

 Score = 42.5 bits (100), Expect = 9e-06
 Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 9/56 (16%)

Query: 19 EFKCCVCLELLYKP-------VVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH 67
             C +C++   +        V   CGH+ C  C+ +++   + + CP CR   NH
Sbjct: 3  MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK--NANTCPTCRKKINH 56

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

 Score = 41.8 bits (98), Expect = 2e-05
 Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 9/58 (15%)

Query: 17 SDEFKCCVCLELLYKP-------VVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH 67
          S    C +C++   +        V   CGH+ C  C+ +++   + + CP CR   NH
Sbjct: 13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK--NANTCPTCRKKINH 68

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

 Score = 40.9 bits (96), Expect = 3e-05
 Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 10/63 (15%)

Query: 17 SDEFKCCVCLELLY-KPVVLACGHISCFWCVYNAMNSWHESN--CPVCRNPYNHFPSICH 73
          +   +C +CLE      + L C H  C+ C+      W   N  CP+C+ P     S+ H
Sbjct: 3  TVAERCPICLEDPSNYSMALPCLHAFCYVCI----TRWIRQNPTCPLCKVP---VESVVH 55

Query: 74 LLH 76
           + 
Sbjct: 56 TIE 58

>1tot_A CREB-binding protein; zinc binding, CBP, TAZ2, transferase; NMR {Mus musculus} SCOP: g.44.1.6 Length = 52

 Score = 40.5 bits (95), Expect = 3e-05
 Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 5/34 (14%)

Query: 324 CDYCGMSPIIGERYKCKDCVESIGFDLCEACHNN 357
           C+ C     +  R+ C  C +   +DLC  C+N 
Sbjct: 9   CNEC--KHHVETRWHCTVCED---YDLCINCYNT 37

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

 Score = 41.3 bits (96), Expect = 9e-05
 Identities = 15/64 (23%), Positives = 26/64 (40%), Gaps = 9/64 (14%)

Query: 17 SDEFKCCVCLELLYK-------PVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFP 69
          S    C +C++   +        V   CGH+ C  C+ +++   + + CP CR   NH  
Sbjct: 5  SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK--NANTCPTCRKKINHKR 62

Query: 70 SICH 73
              
Sbjct: 63 YHPI 66

>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 = 39.1 bits (91), Expect = 1e-04
 Identities = 17/57 (29%), Positives = 23/57 (40%), Gaps = 2/57 (3%)

Query: 13 KEAFSDEFK-CCVCLELLYKPVVLA-CGHISCFWCVYNAMNSWHESNCPVCRNPYNH 67
          +E + D  K C +C  LL +      CG      CV     S  E  CP C + + H
Sbjct: 8  RETYPDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH 64

>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 = 38.6 bits (90), Expect = 3e-04
 Identities = 16/67 (23%), Positives = 24/67 (35%), Gaps = 7/67 (10%)

Query: 3  AEEHEIELADKEAFSDEFKCCVCLELLYKPVVLACGH-ISCFWCVYNAMNSWHESNCPVC 61
          A++  +         +   C VC E         CGH + C  C      +    +CPVC
Sbjct: 2  AQQTRVLQEKLRKLKEAMLCMVCCEEEINSTFCPCGHTVCCESC------AAQLQSCPVC 55

Query: 62 RNPYNHF 68
          R+   H 
Sbjct: 56 RSRVEHV 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	458
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.73
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.39
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.38
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.37
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.34
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.34
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.34
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.33
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.33
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.32
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.32
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.32
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.32
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.29
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.29
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.28
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.27
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.26
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.26
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.23
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.23
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.22
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.22
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.2
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.19
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.19
2fc7_A	82	ZZZ3 protein; structure genomics, ZZ domain, struc	99.19
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.19
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.19
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.17
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.17
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.16
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.16
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.16
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.15
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.14
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.13
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.13
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.13
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.13
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.12
2e5r_A	63	Dystrobrevin alpha; ZZ domain, structural genomics	99.09
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.09
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.09
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.09
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.09
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.08
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.07
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.07
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.07
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.07
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.07
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.05
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.03
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.02
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.02
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.01
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.01
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.01
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.01
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.99
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.98
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.98
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.98
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.97
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.96
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.96
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	98.95
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.95
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.94
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.94
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	98.94
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.93
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.93
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.93
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.92
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.92
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.91
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.9
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.9
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.89
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.89
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.89
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.89
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.88
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.88
2dip_A	98	Zinc finger SWIM domain-containing protein 2; ZZ d	98.88
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.87
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.87
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.86
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.86
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.85
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.85
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.83
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.83
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.82
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.81
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.81
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.8
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.8
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.8
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.79
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.75
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.74
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.71
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.68
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.64
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.62
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.62
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.62
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.57
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.54
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.53
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.51
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.49
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.49
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.44
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.43
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.42
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.41
1tot_A	52	CREB-binding protein; zinc binding, CBP, TAZ2, tra	98.4
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.4
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.38
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.38
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.38
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.37
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.27
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.24
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.22
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.17
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.16
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.1
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	97.97
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	97.89
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	97.62
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	97.62
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.43
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	97.11
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.1
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	96.88
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	96.51
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	95.81
3nw0_A	238	Non-structural maintenance of chromosomes element	95.64
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.21
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	95.14
3nw0_A	238	Non-structural maintenance of chromosomes element	93.92
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	93.2
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	92.38
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	87.58
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	86.46
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	85.25
2ffw_A	78	Midline-1; B-BOX, ring finger, zinc-finger, ligase	83.23
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	83.07
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	80.86

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

Probab=99.73  E-value=3.2e-19  Score=153.69  Aligned_cols=49  Identities=31%  Similarity=0.638  Sum_probs=43.5

Q ss_pred             CCcccccccccCCCc-------eEcccCchhhHhhhhhccCCCCCCCCCccCCCCC
Q 043080          207 DDLSCAACKKMLFKP-------VVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYG  255 (458)
Q Consensus       207 ~~l~C~iC~~~~~~p-------v~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~  255 (458)
                      +.+.|+||++.|..|       +.++|||+||..|+.+|+.....||+||..+...
T Consensus        71 ~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  126 (133)
T 4ap4_A           71 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK  126 (133)
T ss_dssp             SSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChh
Confidence            345699999999887       8889999999999999999889999999988654

>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=99.39  E-value=1.1e-13  Score=116.32  Aligned_cols=79  Identities=20%  Similarity=0.481  Sum_probs=67.4

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccCC-CCCCCCCccCCCC-------CCchhhHHHHHHHHHhhhhHHH
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDG-NFKCPNCQSLQPY-------GLPSVCLIIEHFLEERFSDLYA  276 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~-~~~CP~Cr~~~~~-------~~~~~~~~l~~l~~~~~~~~~~  276 (458)
                      ..+++.|+||++++.+|++++|||+||..|+..|+.. ...||+||..+..       ..+.+|..|.+++..+++.+.+
T Consensus        12 ~~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~n~~l~~~i~~~~p~~~~   91 (115)
T 3l11_A           12 SLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVELWTIIQKHYPRECK   91 (115)
T ss_dssp             CHHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHHHHHHHHHTTCCBCHHHHHHHHHHSHHHHH
T ss_pred             CCCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCccccccccccchhhHHHHHHHHHHCCHHHH
Confidence            4567899999999999999999999999999999875 7899999998753       4567899999999999999888


Q ss_pred             HHHHHHH
Q 043080          277 ERKEALL  283 (458)
Q Consensus       277 ~r~~~~~  283 (458)
                      .|+...+
T Consensus        92 ~r~~~~e   98 (115)
T 3l11_A           92 LRASGQE   98 (115)
T ss_dssp             HHHHC--
T ss_pred             HHHhhhh
Confidence            7765433

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

Probab=99.38  E-value=1.7e-13  Score=106.75  Aligned_cols=67  Identities=12%  Similarity=0.212  Sum_probs=61.0

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccCC-CCCCCCCccCCCCCCchhhHHHHHHHHHhh
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDG-NFKCPNCQSLQPYGLPSVCLIIEHFLEERF  271 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~-~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~~  271 (458)
                      ..+.+.|+||+++|.+|++++|||+||..||..|+.. ...||+||..+....+..|..|.++++.+.
T Consensus         5 ~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~~n~~l~~~i~~~~   72 (78)
T 1t1h_A            5 FPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSLIALWC   72 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHHHHHHH
T ss_pred             CcccCCCCCccccccCCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCccCHHHHHHHHHHH
Confidence            3468999999999999999999999999999999985 789999999998878888999999998874

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

Probab=99.37  E-value=3.4e-13  Score=108.44  Aligned_cols=55  Identities=27%  Similarity=0.706  Sum_probs=49.7

Q ss_pred             hhhcCCCCCccccccccccCcEEcc-CCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLA-CGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~-CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +.+.+.+.+.|+||+++|.+||+++ |||+||+.||..|+...+...||+||..+.
T Consensus         6 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A            6 EDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             SCCCCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             ccccCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            4567889999999999999999999 999999999999998766678999999974

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

Probab=99.34  E-value=2.2e-13  Score=107.93  Aligned_cols=68  Identities=10%  Similarity=0.091  Sum_probs=62.6

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHHHHhhh
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERFS  272 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~~~  272 (458)
                      ..+++.||||+++|.+||+++|||+||+.||..|+.....||+|+..+....+..|..|.++++.+..
T Consensus        11 ~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l~pn~~L~~~i~~~~~   78 (85)
T 2kr4_A           11 APDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTESMLEPVPELKEQIQAWMR   78 (85)
T ss_dssp             CCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHHHHH
T ss_pred             CchheECcccCchhcCCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChHhcchHHHHHHHHHHHHH
Confidence            34689999999999999999999999999999999877899999999988888999999999999854

>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=99.34  E-value=1.3e-12  Score=108.31  Aligned_cols=78  Identities=17%  Similarity=0.404  Sum_probs=62.5

Q ss_pred             hhhcCCCCCccccccccccCcEEc-cCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCCC-----chhHHHHHHHHHHchH
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFP-----SICHLLHFLLKKLYPL   85 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~-~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~-----~~~~~l~~~l~~~~~~   85 (458)
                      .++.+.+.+.|+||++++.+|+++ +|||+||..||..|+..  ...||+||..+....     .....+..++..+++.
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~~~~~~~~~~l~~n~~l~~~i~~~~~~   85 (108)
T 2ckl_A            8 KITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET--SKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKLVPG   85 (108)
T ss_dssp             EHHHHGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTS--CSBCTTTCCBSCSSCGGGGEEECHHHHHHHHHHSTT
T ss_pred             chhccCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHh--CCcCcCCCccccccCcccccCcCHHHHHHHHHHhhh
Confidence            356778899999999999999997 99999999999999984  368999999987532     2234577888888886


Q ss_pred             HHHHHH
Q 043080           86 TYEKRE   91 (458)
Q Consensus        86 ~~~~r~   91 (458)
                      ......
T Consensus        86 ~~~~e~   91 (108)
T 2ckl_A           86 LFKNEM   91 (108)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            554443

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

Probab=99.34  E-value=5e-13  Score=115.94  Aligned_cols=53  Identities=28%  Similarity=0.808  Sum_probs=46.3

Q ss_pred             hcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCC
Q 043080           14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHF   68 (458)
Q Consensus        14 ~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   68 (458)
                      +.+.+++.|+||++.|.+||+++|||+||..||..|+.  ....||+||..+...
T Consensus        48 ~~~~~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~--~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           48 DVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMK--RKIECPICRKDIKSK  100 (138)
T ss_dssp             HHHHHHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTT--TCSBCTTTCCBCCCE
T ss_pred             HhccccCCCcccCcccCCceECCCCCCccHHHHHHHHH--cCCcCCCCCCcCCCC
Confidence            34556789999999999999999999999999999987  456799999998653

>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=99.33  E-value=1.7e-13  Score=116.68  Aligned_cols=70  Identities=23%  Similarity=0.502  Sum_probs=62.3

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccC-CCCCCCCCccCCCC-CCchhhHHHHHHHHHhhhhHH
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED-GNFKCPNCQSLQPY-GLPSVCLIIEHFLEERFSDLY  275 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~-~~~~~~~~l~~l~~~~~~~~~  275 (458)
                      .+.+.|+||+++|.+|++++|||+||..||..|+. ....||+||..+.. ..+.+|..|.++++.++|...
T Consensus        50 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~p~~~  121 (124)
T 3fl2_A           50 EETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQTVLNQLFPGYG  121 (124)
T ss_dssp             HHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCCCHHHHHHHHHHSTTTT
T ss_pred             ccCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCCCCCCCCCHHHHHHHHHHccccc
Confidence            35689999999999999999999999999999986 45699999999976 678899999999999987643

>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=99.33  E-value=1.6e-12  Score=105.67  Aligned_cols=67  Identities=10%  Similarity=0.024  Sum_probs=62.3

Q ss_pred             CCCCcccccccccCCCceEcccC-chhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHHHHhh
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCG-HVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERF  271 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~Cg-H~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~~  271 (458)
                      ..+++.||||+++|.+||+++|| |+||+.||..|+.....||+||..+....+..|..|+++++.+.
T Consensus        19 ~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~I~~~~   86 (98)
T 1wgm_A           19 ACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKEKIQRWL   86 (98)
T ss_dssp             CCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHHHHHHHHH
T ss_pred             CcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhceEcHHHHHHHHHHH
Confidence            35689999999999999999999 99999999999988889999999998888999999999999883

>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=99.32  E-value=2.4e-13  Score=114.07  Aligned_cols=82  Identities=26%  Similarity=0.517  Sum_probs=64.0

Q ss_pred             hhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC--------CCchhHHHHHHHHHHch
Q 043080           13 KEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH--------FPSICHLLHFLLKKLYP   84 (458)
Q Consensus        13 ~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~--------~~~~~~~l~~~l~~~~~   84 (458)
                      ...+.+.+.|+||++++.+|++++|||+||..||..|+.. +...||+||..+..        ...+...+..+++.++|
T Consensus         9 ~~~~~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~~~~~~~~~~~~~n~~l~~~i~~~~p   87 (115)
T 3l11_A            9 AIPSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEK-ASLCCPFCRRRVSSWTRYHTRRNSLVNVELWTIIQKHYP   87 (115)
T ss_dssp             CCCCHHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCT-TTSBCTTTCCBCHHHHHHHHHTTCCBCHHHHHHHHHHSH
T ss_pred             ccCCCCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhH-CcCCCCCCCcccCccccccccccchhhHHHHHHHHHHCC
Confidence            3455668899999999999999999999999999998864 35689999998852        22345567888999999


Q ss_pred             HHHHHHHHHHH
Q 043080           85 LTYEKRERQVA   95 (458)
Q Consensus        85 ~~~~~r~~~~~   95 (458)
                      ...+.|..+.+
T Consensus        88 ~~~~~r~~~~e   98 (115)
T 3l11_A           88 RECKLRASGQE   98 (115)
T ss_dssp             HHHHHHHHC--
T ss_pred             HHHHHHHhhhh
Confidence            87776654443

>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=99.32  E-value=2.9e-13  Score=115.16  Aligned_cols=73  Identities=25%  Similarity=0.620  Sum_probs=59.0

Q ss_pred             hhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC--CCchhHHHHHHHHHHchHH
Q 043080           13 KEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH--FPSICHLLHFLLKKLYPLT   86 (458)
Q Consensus        13 ~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~--~~~~~~~l~~~l~~~~~~~   86 (458)
                      +..+.+.+.|+||+++|.+||+++|||+||+.||..|+.. +...||+||..+..  .......+..++..++|..
T Consensus        46 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~p~~  120 (124)
T 3fl2_A           46 LSKVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRA-QVFSCPACRYDLGRSYAMQVNQPLQTVLNQLFPGY  120 (124)
T ss_dssp             HHHHHHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHT-TCCBCTTTCCBCCTTCCCCCCHHHHHHHHHHSTTT
T ss_pred             HHhCccCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhH-CcCCCCCCCccCCCCCCCCCCHHHHHHHHHHcccc
Confidence            4556778999999999999999999999999999999983 45589999999965  2233445777888887753

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

Probab=99.32  E-value=9.2e-13  Score=105.89  Aligned_cols=67  Identities=21%  Similarity=0.510  Sum_probs=59.2

Q ss_pred             CCCCcccccccccCCCceEcc-cCchhhHhhhhhccC--CCCCCCCCccCC-CCCCchhhHHHHHHHHHhh
Q 043080          205 SVDDLSCAACKKMLFKPVVLN-CGHVFCELCLFVPED--GNFKCPNCQSLQ-PYGLPSVCLIIEHFLEERF  271 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~-CgH~fC~~Cl~~~~~--~~~~CP~Cr~~~-~~~~~~~~~~l~~l~~~~~  271 (458)
                      ..+.+.|+||+++|.+|++++ |||+||..||..|+.  ....||+||..+ ....+..|..|.++++.+.
T Consensus        10 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~   80 (92)
T 3ztg_A           10 IPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANKFLRQAVNNFK   80 (92)
T ss_dssp             CCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEECHHHHHHHHHHH
T ss_pred             CCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCcCHHHHHHHHHHH
Confidence            457899999999999999999 999999999999975  457999999997 5567888999999999883

>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=99.32  E-value=1.1e-12  Score=107.12  Aligned_cols=67  Identities=9%  Similarity=0.072  Sum_probs=62.6

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHHHHhh
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERF  271 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~~  271 (458)
                      ..+++.||||+++|.+||+++|||+||+.||..|+.....||+|+.++....+..|..|.++++.+.
T Consensus        26 ~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~I~~~~   92 (100)
T 2kre_A           26 APDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTESMLEPVPELKEQIQAWM   92 (100)
T ss_dssp             CSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSEECHHHHHHHHHHH
T ss_pred             CcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCChhhceECHHHHHHHHHHH
Confidence            3578999999999999999999999999999999998899999999998888999999999999884

>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=99.29  E-value=2.1e-12  Score=107.07  Aligned_cols=71  Identities=17%  Similarity=0.379  Sum_probs=62.9

Q ss_pred             CCCCcccccccccCCCceEc-ccCchhhHhhhhhccCCCCCCCCCccCCCCC----CchhhHHHHHHHHHhhhhHH
Q 043080          205 SVDDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQPYG----LPSVCLIIEHFLEERFSDLY  275 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~----~~~~~~~l~~l~~~~~~~~~  275 (458)
                      ..+.+.|+||++.+.+|+++ +|||+||..|+..|+.....||+||..+...    .+..|..+.++++.+++...
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~~i~~~~~~~~   87 (108)
T 2ckl_A           12 LNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKLVPGLF   87 (108)
T ss_dssp             HGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSSCGGGGEEECHHHHHHHHHHSTTHH
T ss_pred             cCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhCCcCcCCCccccccCcccccCcCHHHHHHHHHHhhhHH
Confidence            34678999999999999998 9999999999999999889999999998764    56779999999999987544

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

Probab=99.29  E-value=1.1e-12  Score=101.08  Aligned_cols=56  Identities=27%  Similarity=0.692  Sum_probs=49.7

Q ss_pred             hhhcCCCCCccccccccccCcEEcc-CCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLA-CGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~-CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      +.+.+.+.+.|+||+++|.+||+++ |||+||+.||..|+...+...||+||..+..
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2yur_A            8 EDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS   64 (74)
T ss_dssp             CCCCSCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCC
T ss_pred             ccccCCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCC
Confidence            4577888999999999999999999 9999999999999987556789999998643

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

Probab=99.28  E-value=1.7e-12  Score=101.02  Aligned_cols=53  Identities=23%  Similarity=0.508  Sum_probs=47.2

Q ss_pred             hcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        14 ~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ..+.+.+.|+||+++|.+||+++|||+||+.||..|+.. +...||+||..+..
T Consensus         3 ~~~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~-~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            3 PEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDA-GHKTCPKSQETLLH   55 (78)
T ss_dssp             CCCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTT-TCCBCTTTCCBCSS
T ss_pred             cCCcccCCCCCccccccCCEEcCCCCeecHHHHHHHHHH-CcCCCCCCcCCCCh
Confidence            356789999999999999999999999999999999974 46789999999864

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

Probab=99.27  E-value=1.7e-12  Score=102.79  Aligned_cols=54  Identities=20%  Similarity=0.224  Sum_probs=48.4

Q ss_pred             hhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      .+..+.+.+.||||+++|.+||+++|||+||+.||..|+..  ...||+||..+..
T Consensus         7 ~~~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~--~~~cP~~~~~l~~   60 (85)
T 2kr4_A            7 DYSDAPDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLN--SPTDPFNRQMLTE   60 (85)
T ss_dssp             CCTTCCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHH--CSBCTTTCCBCCG
T ss_pred             hhhcCchheECcccCchhcCCeECCCCCEECHHHHHHHHhc--CCCCCCCcCCCCh
Confidence            45677889999999999999999999999999999999984  4689999998864

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

Probab=99.26  E-value=3.1e-12  Score=110.86  Aligned_cols=75  Identities=24%  Similarity=0.509  Sum_probs=56.7

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCC--CchhhHHHHHHHHHhhhhHHHHHHHH
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYG--LPSVCLIIEHFLEERFSDLYAERKEA  281 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~--~~~~~~~l~~l~~~~~~~~~~~r~~~  281 (458)
                      .+++.|+||++.|.+|++++|||+||..|+..|+.....||+||..+...  .+.++..+..++.. ++..+..|+..
T Consensus        51 ~~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~i~~~~~~-l~~~~~~rr~~  127 (138)
T 4ayc_A           51 ENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNCINKMVNN-LSSEVKERRIV  127 (138)
T ss_dssp             HHHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCEEECHHHHHHHHHHHTT-SCHHHHHHHHH
T ss_pred             cccCCCcccCcccCCceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCCCCccchhHHHHHHHHH-hhHHHHHHHHH
Confidence            35678999999999999999999999999999999999999999988653  23334444444443 34445444443

>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=99.26  E-value=8.2e-13  Score=116.12  Aligned_cols=70  Identities=23%  Similarity=0.535  Sum_probs=62.0

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccCC-CCCCCCCccCCCCC-CchhhHHHHHHHHHhhhhHH
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDG-NFKCPNCQSLQPYG-LPSVCLIIEHFLEERFSDLY  275 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~-~~~CP~Cr~~~~~~-~~~~~~~l~~l~~~~~~~~~  275 (458)
                      .+.+.|+||+++|.+|++++|||+||..||..|+.. ...||+||..+... .+.+|..|.++++.+++...
T Consensus        76 ~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~n~~l~~lv~~~~p~~~  147 (150)
T 1z6u_A           76 EQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQTLLDLFFPGYS  147 (150)
T ss_dssp             HHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCBCHHHHHHHHHHSTTTT
T ss_pred             ccCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCCCCCCCCHHHHHHHHHHhhHhh
Confidence            356889999999999999999999999999999874 45899999999876 78899999999999987543

>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=99.23  E-value=1.6e-12  Score=114.20  Aligned_cols=73  Identities=27%  Similarity=0.592  Sum_probs=58.6

Q ss_pred             hhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCC--CchhHHHHHHHHHHchHH
Q 043080           13 KEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHF--PSICHLLHFLLKKLYPLT   86 (458)
Q Consensus        13 ~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~--~~~~~~l~~~l~~~~~~~   86 (458)
                      ++.+.+.+.|+||+++|.+||+++|||+||..||..|+.. +...||+||..+...  ......++.++..++|..
T Consensus        72 ~~~l~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~~~~l~~n~~l~~lv~~~~p~~  146 (150)
T 1z6u_A           72 LKKLEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKA-QVFSCPACRHDLGQNYIMIPNEILQTLLDLFFPGY  146 (150)
T ss_dssp             HHHHHHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHT-TCCBCTTTCCBCCTTCCCCBCHHHHHHHHHHSTTT
T ss_pred             HHhCccCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHh-CCCcCCCCCccCCCCCCCCCCHHHHHHHHHHhhHh
Confidence            3456678999999999999999999999999999999984 445799999998754  233445677787777643

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

Probab=99.23  E-value=4.6e-13  Score=104.40  Aligned_cols=61  Identities=23%  Similarity=0.654  Sum_probs=51.5

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccCC-------CCCCCCCccCCCCCCchhhHHHHH
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDG-------NFKCPNCQSLQPYGLPSVCLIIEH  265 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~-------~~~CP~Cr~~~~~~~~~~~~~l~~  265 (458)
                      ..+.+.|+||++.+.+|++++|||+||..|+..|+..       ...||+||..+....+..|..|.+
T Consensus         9 ~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~   76 (79)
T 2egp_A            9 VQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQANQHLAN   76 (79)
T ss_dssp             CCCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGGGTCSSSCC
T ss_pred             cccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhCCcCHHHHH
Confidence            4568899999999999999999999999999999875       789999999987765655554443

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

Probab=99.22  E-value=2.9e-12  Score=104.51  Aligned_cols=65  Identities=20%  Similarity=0.434  Sum_probs=59.7

Q ss_pred             CCCcccccccccCCCceEc-ccCchhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHHHHh
Q 043080          206 VDDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEER  270 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~  270 (458)
                      .+.+.|+||++.+.+|+++ +|||+||..|+..|+.....||+||..+....+..|..+.++++.+
T Consensus        20 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~~i~~~   85 (99)
T 2y43_A           20 DDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRILDELVKSL   85 (99)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECHHHHHHHHHH
T ss_pred             CCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChhhCCcCHHHHHHHHHH
Confidence            3568899999999999998 9999999999999999889999999999877788899999999887

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

Probab=99.22  E-value=4.7e-12  Score=96.95  Aligned_cols=56  Identities=18%  Similarity=0.483  Sum_probs=49.0

Q ss_pred             hhhhcCCCCCccccccccccCcEEc-cCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCC
Q 043080           11 ADKEAFSDEFKCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPYNHF   68 (458)
Q Consensus        11 ~~~~~l~~~~~C~IC~~~l~~Pv~~-~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   68 (458)
                      .+++.+++.+.|+||++.+.+|+++ +|||+||..||..|+..  ...||+||..+...
T Consensus         7 ~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~~~~~   63 (72)
T 2djb_A            7 GNLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYY--SNRCPKCNIVVHQT   63 (72)
T ss_dssp             CCCCCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHH--CSSCTTTCCCCCSS
T ss_pred             hhHhhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHc--CCcCCCcCcccCcc
Confidence            3457788899999999999999997 99999999999999974  46899999998643

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

Probab=99.20  E-value=6.7e-12  Score=94.31  Aligned_cols=55  Identities=25%  Similarity=0.580  Sum_probs=48.2

Q ss_pred             hhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ..+.+.+.+.|+||++.+.+|+.++|||+||..||..|+.. ....||+||..+..
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~   62 (66)
T 2ecy_A            8 FVKTVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSS-SSPKCTACQESIVK   62 (66)
T ss_dssp             SCCSCCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTT-SSCCCTTTCCCCCT
T ss_pred             hhhcCCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHh-CcCCCCCCCcCCCh
Confidence            34667889999999999999999999999999999999962 45679999998864

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

Probab=99.19  E-value=1e-11  Score=95.15  Aligned_cols=56  Identities=29%  Similarity=0.713  Sum_probs=48.7

Q ss_pred             hhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhc-CCCCCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNS-WHESNCPVCRNPYNH   67 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~-~~~~~CP~Cr~~~~~   67 (458)
                      ..+.+.+.+.|+||++.+.+|++++|||+||..||..|+.. .....||+||..+..
T Consensus        13 ~~~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           13 FVNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CCCCCCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             HHHhCccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            34677889999999999999999999999999999999873 245679999998864

>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=99.19  E-value=1.2e-11  Score=104.08  Aligned_cols=63  Identities=24%  Similarity=0.494  Sum_probs=58.2

Q ss_pred             CCCcccccccccCCCceEc-ccCchhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHHHHh
Q 043080          206 VDDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEER  270 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~  270 (458)
                      .+.+.|+||+.+|.+|+++ +|||+||..||..|+.  ..||+||..+....+..|..|.+++..+
T Consensus        20 ~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~~~~n~~l~~l~~~~   83 (117)
T 1jm7_B           20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLKINRQLDSMIQLC   83 (117)
T ss_dssp             HHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCCCCHHHHHHHHHH
T ss_pred             hhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCccccccccHHHHHHHHHH
Confidence            4678999999999999999 9999999999999987  7899999999877888999999999877

>2fc7_A ZZZ3 protein; structure genomics, ZZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.6

Probab=99.19  E-value=1.5e-11  Score=95.94  Aligned_cols=68  Identities=31%  Similarity=0.739  Sum_probs=56.9

Q ss_pred             hhcccCCCCccccccccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEcCC
Q 043080          308 ASLWLGNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQP  380 (458)
Q Consensus       308 ~~~~~~~~~~~h~~v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~~~  380 (458)
                      ..+.......+|.++.||.|...||.|.||+|.+|...++||||+.|+...     ++++.|.+.|+|+.+..
T Consensus         8 ~~~~~~~~~~~H~~~~Cd~C~~~pI~G~RykC~~C~d~~~yDLC~~C~~~g-----~~~~~H~~~H~~~~i~~   75 (82)
T 2fc7_A            8 QQMQAESGFVQHVGFKCDNCGIEPIQGVRWHCQDCPPEMSLDFCDSCSDCL-----HETDIHKEDHQLEPIYR   75 (82)
T ss_dssp             SSSCSSTTSCEESSCCCSSSCCSSEESCEEEESSSCSSSCCEEEGGGTTCC-----CCCSSCCSSSCEEEECS
T ss_pred             hhhhccccCCeeCcCCCCCCCCCcceeceEECCcCCCCcceecHHHHHhCc-----cccCCCCCCCCEEEeeC
Confidence            344555677889999999999999999999999999444499999999985     45668999999999765

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

Probab=99.19  E-value=8.5e-12  Score=97.75  Aligned_cols=51  Identities=27%  Similarity=0.685  Sum_probs=46.1

Q ss_pred             hcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        14 ~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +.....+.|+||++.+.+|++++|||+||..||..|+..  ...||+||..+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~~~   60 (81)
T 2csy_A           10 EEEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRA--TPRCYICDQPTG   60 (81)
T ss_dssp             SCCCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHH--CSBCSSSCCBCC
T ss_pred             ccCCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHC--CCcCCCcCcccc
Confidence            556778999999999999999999999999999999974  568999999986

>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=99.19  E-value=7.4e-12  Score=102.30  Aligned_cols=56  Identities=27%  Similarity=0.761  Sum_probs=49.2

Q ss_pred             hhhhcCCCCCccccccccccCcEE-ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           11 ADKEAFSDEFKCCVCLELLYKPVV-LACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        11 ~~~~~l~~~~~C~IC~~~l~~Pv~-~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      .....+.+.+.|+||+++|.+|++ ++|||+||..||..|+...+ ..||+||..+..
T Consensus        14 ~~~~~l~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~-~~CP~Cr~~~~~   70 (100)
T 3lrq_A           14 QSVESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQR-AQCPHCRAPLQL   70 (100)
T ss_dssp             HHHHHHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTC-SBCTTTCCBCCG
T ss_pred             cccccCCCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCc-CCCCCCCCcCCH
Confidence            345777889999999999999999 99999999999999998632 689999999853

>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=99.17  E-value=1.9e-11  Score=99.35  Aligned_cols=55  Identities=22%  Similarity=0.216  Sum_probs=48.6

Q ss_pred             hhhhcCCCCCccccccccccCcEEccCC-ChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           11 ADKEAFSDEFKCCVCLELLYKPVVLACG-HISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        11 ~~~~~l~~~~~C~IC~~~l~~Pv~~~Cg-H~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      .....+.++|.||||+++|.+||+++|| |+||+.||..|+..  ...||+||..+..
T Consensus        14 ~~~~~~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~--~~~cP~~~~~l~~   69 (98)
T 1wgm_A           14 ETYADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLS--DQTDPFNRSPLTM   69 (98)
T ss_dssp             CCCCSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTT--SCBCTTTCSBCCT
T ss_pred             hhhhcCcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHh--CCCCCCCCCCCCh
Confidence            3446678899999999999999999999 99999999999984  4589999999864

>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=99.17  E-value=3.2e-12  Score=104.49  Aligned_cols=66  Identities=17%  Similarity=0.353  Sum_probs=56.1

Q ss_pred             CCCCcccccccccCCCceE-cccCchhhHhhhhhccCCC-CCCCCCccCCCCCCchhhHHHHHHHHHh
Q 043080          205 SVDDLSCAACKKMLFKPVV-LNCGHVFCELCLFVPEDGN-FKCPNCQSLQPYGLPSVCLIIEHFLEER  270 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~-l~CgH~fC~~Cl~~~~~~~-~~CP~Cr~~~~~~~~~~~~~l~~l~~~~  270 (458)
                      ..+.+.|+||+++|.+|+. ++|||+||..||..|+... ..||+||..+....+..+..+.++++.+
T Consensus        19 l~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~i~~~~   86 (100)
T 3lrq_A           19 IAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWAEEVTQQL   86 (100)
T ss_dssp             HHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECTTHHHHHHHH
T ss_pred             CCCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhHhhHHHHHHHHHH
Confidence            4467899999999999999 8999999999999998855 7999999998776666677776666554

>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=99.16  E-value=1.6e-11  Score=100.18  Aligned_cols=54  Identities=22%  Similarity=0.247  Sum_probs=48.1

Q ss_pred             hhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ....+.+.+.||||+++|.+||+++|||+||+.||..|+.  ....||+||..+..
T Consensus        22 ~~~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~--~~~~cP~~~~~l~~   75 (100)
T 2kre_A           22 DYSDAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLL--NSPTDPFNRQTLTE   75 (100)
T ss_dssp             SCSSCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTT--SCSBCSSSCCBCCT
T ss_pred             hhccCcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHH--cCCCCCCCCCCCCh
Confidence            3456778999999999999999999999999999999998  35689999999864

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

Probab=99.16  E-value=1.4e-12  Score=102.87  Aligned_cols=61  Identities=26%  Similarity=0.702  Sum_probs=51.5

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccCC------CCCCCCCccCCCCCCchhhHHHHH
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDG------NFKCPNCQSLQPYGLPSVCLIIEH  265 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~------~~~CP~Cr~~~~~~~~~~~~~l~~  265 (458)
                      ..+.+.|+||++.+.+|++++|||+||..|+..|+..      ...||+||..+....+..|..|.+
T Consensus        16 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~l~~   82 (85)
T 2ecw_A           16 IKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPNLHVAN   82 (85)
T ss_dssp             CCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCEECSCCCS
T ss_pred             CccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCCcCHHHHH
Confidence            3467899999999999999999999999999998764      789999999988766666655443

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

Probab=99.16  E-value=1.7e-11  Score=91.14  Aligned_cols=50  Identities=32%  Similarity=0.760  Sum_probs=44.1

Q ss_pred             hhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcC-CCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSW-HESNCPVC   61 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~-~~~~CP~C   61 (458)
                      .++.+.+.+.|+||++.+.+|++++|||+||+.||..|+... ....||+|
T Consensus        13 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           13 FVNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HHHhCccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            356788999999999999999999999999999999999842 45679998

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

Probab=99.15  E-value=6.1e-12  Score=97.92  Aligned_cols=56  Identities=36%  Similarity=0.774  Sum_probs=48.8

Q ss_pred             hhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcC-----CCCCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSW-----HESNCPVCRNPYNH   67 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~-----~~~~CP~Cr~~~~~   67 (458)
                      .++.+.+.+.|+||++.+.+|++++|||+||..||..|+...     ....||+||..+..
T Consensus         5 ~~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A            5 SSGNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             SSCCCCCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             hHhhcccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            346778899999999999999999999999999999998752     25689999998863

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

Probab=99.14  E-value=7.9e-12  Score=97.93  Aligned_cols=58  Identities=24%  Similarity=0.524  Sum_probs=49.4

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHH
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLII  263 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l  263 (458)
                      ....+.|+||++.+.+|++++|||+||..|+..|+.....||+||..+. ..+..+..+
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~-~~~~~~~~l   69 (81)
T 2csy_A           12 EEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQPTG-GIFNPAKEL   69 (81)
T ss_dssp             CCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC-SCCEECHHH
T ss_pred             CCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc-ccCCcHHHH
Confidence            3457899999999999999999999999999999988889999999986 345555443

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

Probab=99.13  E-value=2.4e-11  Score=95.70  Aligned_cols=56  Identities=41%  Similarity=0.793  Sum_probs=49.3

Q ss_pred             hhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcC----CCCCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSW----HESNCPVCRNPYNH   67 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~----~~~~CP~Cr~~~~~   67 (458)
                      ..+.+.+.+.|+||++.+.+|++++|||+||..||..|+...    +...||+||..+..
T Consensus        12 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           12 VLEMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             CCCCCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             HHHhCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            356678899999999999999999999999999999999863    26789999998863

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

Probab=99.13  E-value=3.3e-11  Score=92.25  Aligned_cols=52  Identities=35%  Similarity=0.821  Sum_probs=46.2

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccC---CCCCCCCCccCCCCCC
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED---GNFKCPNCQSLQPYGL  256 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~---~~~~CP~Cr~~~~~~~  256 (458)
                      ..+.+.|+||++.+.+|++++|||+||..|+..|+.   ....||+||..+....
T Consensus        17 ~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           17 LQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             CccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            456789999999999999999999999999999986   5679999999887643

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

Probab=99.13  E-value=2.2e-11  Score=99.18  Aligned_cols=55  Identities=22%  Similarity=0.650  Sum_probs=48.2

Q ss_pred             hhhhcCCCCCccccccccccCcEEc-cCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           11 ADKEAFSDEFKCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        11 ~~~~~l~~~~~C~IC~~~l~~Pv~~-~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ..++.+.+.+.|+||++.+.+|+++ +|||+||..||..|+.  ....||+||..+..
T Consensus        14 ~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~--~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           14 AVMKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLS--YKTQCPTCCVTVTE   69 (99)
T ss_dssp             GGGHHHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHT--TCCBCTTTCCBCCG
T ss_pred             hHHHhCCCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHH--CCCCCCCCCCcCCh
Confidence            3456677889999999999999997 8999999999999998  44689999998864

>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=99.13  E-value=1.1e-11  Score=99.97  Aligned_cols=66  Identities=20%  Similarity=0.336  Sum_probs=58.2

Q ss_pred             CCCCcccccccccCCCceEcc-cCchhhHhhhhhccCC------CCCCCC--CccC-CCCCCchhhHHHHHHHHHh
Q 043080          205 SVDDLSCAACKKMLFKPVVLN-CGHVFCELCLFVPEDG------NFKCPN--CQSL-QPYGLPSVCLIIEHFLEER  270 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~-CgH~fC~~Cl~~~~~~------~~~CP~--Cr~~-~~~~~~~~~~~l~~l~~~~  270 (458)
                      ..+.+.||||+++|.+||+++ |||+||+.||..|+..      ...||+  |+.. +....+..|..|.++++.+
T Consensus         4 ~~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn~~L~~~I~~~   79 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRRAIENH   79 (94)
T ss_dssp             CSSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEECHHHHHHHHHH
T ss_pred             CCcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCCHHHHHHHHHH
Confidence            346899999999999999996 9999999999999863      468999  9877 7777788899999999988

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

Probab=99.12  E-value=1.9e-12  Score=102.09  Aligned_cols=60  Identities=25%  Similarity=0.614  Sum_probs=50.7

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccCC------CCCCCCCccCCCCCCchhhHHHH
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDG------NFKCPNCQSLQPYGLPSVCLIIE  264 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~------~~~CP~Cr~~~~~~~~~~~~~l~  264 (458)
                      ..+.+.|+||++.+.+|+.++|||+||..|+..|+..      ...||+||..+....+..|..|.
T Consensus        16 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~l~   81 (85)
T 2ecv_A           16 VKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPNRHVA   81 (85)
T ss_dssp             CCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCCCSCCCC
T ss_pred             ccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcCccHHHH
Confidence            4467899999999999999999999999999998764      78999999998766565554443

>2e5r_A Dystrobrevin alpha; ZZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.09  E-value=7.3e-11  Score=87.25  Aligned_cols=57  Identities=26%  Similarity=0.706  Sum_probs=49.6

Q ss_pred             CCccccccccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEcCC
Q 043080          315 GPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQP  380 (458)
Q Consensus       315 ~~~~h~~v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~~~  380 (458)
                      ....|. +.||.|...||.|.||+|..|.   +||||..|+..+     +..+.|...|+|+.+.+
T Consensus         6 ~~v~H~-~~Cd~C~~~pi~G~RykC~~C~---d~DLC~~C~~~g-----~~~~~H~~~H~~~~~~t   62 (63)
T 2e5r_A            6 SGVFHP-VECSYCHSESMMGFRYRCQQCH---NYQLCQDCFWRG-----HAGGSHSNQHQMKEYTS   62 (63)
T ss_dssp             SSCCSC-SCCSSSCCCSSCSCEEEESSCS---SCEECHHHHHHC-----CCCSSSCTTCCEEEECC
T ss_pred             CCceeC-CCCcCCCCcceecceEEecCCC---CchhHHHHHhCC-----CcCCCCCCCCCEEEEeC
Confidence            445666 9999999999999999999999   999999999985     45568999999998754

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

Probab=99.09  E-value=2.6e-11  Score=92.75  Aligned_cols=53  Identities=25%  Similarity=0.594  Sum_probs=47.2

Q ss_pred             CCCCcccccccccCCCceEc-ccCchhhHhhhhhccCCCCCCCCCccCCCCCCc
Q 043080          205 SVDDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLP  257 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~  257 (458)
                      ..+.+.|+||++.+.+|+++ +|||+||..||..|+.....||+||..+....+
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~   65 (72)
T 2djb_A           12 LTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQP   65 (72)
T ss_dssp             CCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSCS
T ss_pred             cCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCcccc
Confidence            45678999999999999998 999999999999999878899999998876543

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

Probab=99.09  E-value=3.7e-11  Score=90.21  Aligned_cols=51  Identities=31%  Similarity=0.658  Sum_probs=45.6

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccC-CCCCCCCCccCCCCC
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED-GNFKCPNCQSLQPYG  255 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~~  255 (458)
                      ..+.+.|+||++.+.+|+.++|||+||..|+..|+. ....||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           12 VEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             CCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            356789999999999999999999999999999994 677899999987654

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

Probab=99.09  E-value=4.1e-11  Score=87.35  Aligned_cols=50  Identities=38%  Similarity=0.786  Sum_probs=43.7

Q ss_pred             hhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhc-CCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNS-WHESNCPVC   61 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~-~~~~~CP~C   61 (458)
                      .++.+.+.+.|+||++.+.+|+.++|||+||..||..|+.. .....||+|
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A            8 ALENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CSSCSCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             HhhccccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34677889999999999999999999999999999999764 345679988

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

Probab=99.09  E-value=3.1e-11  Score=92.03  Aligned_cols=51  Identities=29%  Similarity=0.675  Sum_probs=44.8

Q ss_pred             hcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        14 ~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      ....+.+.|+||++.+.+|+.++|||+||..||..|+..  ...||+||..+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~~~   60 (71)
T 2d8t_A           10 APSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWL--GKRCALCRQEIP   60 (71)
T ss_dssp             CSSSSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTC--SSBCSSSCCBCC
T ss_pred             ccCCCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHC--CCcCcCcCchhC
Confidence            344567899999999999999999999999999999874  368999999875

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

Probab=99.08  E-value=4.4e-11  Score=94.13  Aligned_cols=56  Identities=39%  Similarity=0.771  Sum_probs=49.0

Q ss_pred             hhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhc----CCCCCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNS----WHESNCPVCRNPYNH   67 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~----~~~~~CP~Cr~~~~~   67 (458)
                      ..+.+.+.+.|+||++.+.+|+.++|||+||..||..|+..    .+...||+||..+..
T Consensus        12 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           12 ILVNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             HHHHccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            34677889999999999999999999999999999999875    246789999998863

>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=99.07  E-value=2.2e-11  Score=101.42  Aligned_cols=65  Identities=23%  Similarity=0.570  Sum_probs=55.6

Q ss_pred             CCcccccccccCCCceEcccCchhhHhhhhhccCC---CCCCCCCccCCCCCCchhhHHHHHHHHHhh
Q 043080          207 DDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDG---NFKCPNCQSLQPYGLPSVCLIIEHFLEERF  271 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~---~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~~  271 (458)
                      +.+.|+||++.+.+|++++|||+||..|+..|+..   ...||+||..+....+..+..+.++++.+.
T Consensus        20 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~~~~~~~   87 (112)
T 1jm7_A           20 KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFSQLVEELL   87 (112)
T ss_dssp             HHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCCSSSHHHHHHH
T ss_pred             CCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhcCccHHHHHHHHHHH
Confidence            56789999999999999999999999999999864   358999999998777777777777777664

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

Probab=99.07  E-value=6.3e-11  Score=94.06  Aligned_cols=56  Identities=27%  Similarity=0.679  Sum_probs=48.6

Q ss_pred             hhhcCCCCCccccccccccC----cEEccCCChhhHHhHHHHHhcC-CCCCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYK----PVVLACGHISCFWCVYNAMNSW-HESNCPVCRNPYNH   67 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~----Pv~~~CgH~FC~~Ci~~~~~~~-~~~~CP~Cr~~~~~   67 (458)
                      ..+.+.+.+.|+||++.|.+    |+.++|||+||..||..|+... +...||+||..+..
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A            8 NLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             SCCCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             ChhhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            35677889999999999998    9999999999999999999864 34689999998753

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

Probab=99.07  E-value=3.6e-11  Score=92.49  Aligned_cols=50  Identities=28%  Similarity=0.728  Sum_probs=44.0

Q ss_pred             CCCCcccccccccCCCceEcc-cCchhhHhhhhhccCC--CCCCCCCccCCCC
Q 043080          205 SVDDLSCAACKKMLFKPVVLN-CGHVFCELCLFVPEDG--NFKCPNCQSLQPY  254 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~-CgH~fC~~Cl~~~~~~--~~~CP~Cr~~~~~  254 (458)
                      ..+.+.|+||++.|.+|++++ |||+||..||..|+..  ...||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2yur_A           12 IPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS   64 (74)
T ss_dssp             SCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCC
T ss_pred             CCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCC
Confidence            456789999999999999999 9999999999999863  4799999997543

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

Probab=99.07  E-value=6.7e-11  Score=90.16  Aligned_cols=49  Identities=33%  Similarity=0.624  Sum_probs=44.9

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCC
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPY  254 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~  254 (458)
                      .+.+.|+||++.+.+|+.++|||+||..|+..|+.....||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           13 LTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            4678899999999999999999999999999999888999999998753

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

Probab=99.07  E-value=3.8e-11  Score=90.73  Aligned_cols=53  Identities=28%  Similarity=0.703  Sum_probs=46.4

Q ss_pred             hhcCCCCCccccccccccCc-------EEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           13 KEAFSDEFKCCVCLELLYKP-------VVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        13 ~~~l~~~~~C~IC~~~l~~P-------v~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ...+.+.+.|+||++.+.+|       +.++|||+||..||..|+..  ...||+||..+..
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~--~~~CP~Cr~~~~~   68 (69)
T 2ea6_A            9 GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN--ANTCPTCRKKINH   68 (69)
T ss_dssp             CCCTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHH--CSSCTTTCCCCCC
T ss_pred             ccCCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHc--CCCCCCCCCccCc
Confidence            45677889999999999987       88999999999999999985  4589999998753

>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=99.05  E-value=9.9e-11  Score=94.41  Aligned_cols=52  Identities=27%  Similarity=0.458  Sum_probs=44.3

Q ss_pred             cCCCCCccccccccccCcEEcc-CCChhhHHhHHHHHhcC----CCCCCCC--CCCC-CC
Q 043080           15 AFSDEFKCCVCLELLYKPVVLA-CGHISCFWCVYNAMNSW----HESNCPV--CRNP-YN   66 (458)
Q Consensus        15 ~l~~~~~C~IC~~~l~~Pv~~~-CgH~FC~~Ci~~~~~~~----~~~~CP~--Cr~~-~~   66 (458)
                      .....+.||||+++|.+||+++ |||+||+.||..||...    +...||+  |+.. +.
T Consensus         3 ~~~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~   62 (94)
T 2yu4_A            3 SGSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIR   62 (94)
T ss_dssp             SCSSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBC
T ss_pred             CCCcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccC
Confidence            3467899999999999999995 99999999999999863    3468999  9866 43

>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=99.04  E-value=3.2e-11  Score=107.68  Aligned_cols=72  Identities=28%  Similarity=0.579  Sum_probs=54.4

Q ss_pred             hhcCCCCCccccccccccCcEEc-cCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCCCc--hhHHHHHHHHHHchH
Q 043080           13 KEAFSDEFKCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPS--ICHLLHFLLKKLYPL   85 (458)
Q Consensus        13 ~~~l~~~~~C~IC~~~l~~Pv~~-~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~--~~~~l~~~l~~~~~~   85 (458)
                      .+.+...+.|+||+++|.+|+++ +|||+||..||..|+.. +...||+||..+.....  ....+..++..+++.
T Consensus        48 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~~~~l~~~~~l~~~i~~~~~~  122 (165)
T 2ckl_B           48 PRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRS-GNKECPTCRKKLVSKRSLRPDPNFDALISKIYPS  122 (165)
T ss_dssp             --CCHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHT-TCCBCTTTCCBCCSGGGEEECHHHHHHHHHHC--
T ss_pred             hhhCCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHh-CcCCCCCCCCcCCCcccCCcCHHHHHHHHHHHcc
Confidence            34556778999999999999997 99999999999999984 35679999999854322  233466777776663

>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=99.04  E-value=4.8e-11  Score=100.29  Aligned_cols=52  Identities=35%  Similarity=0.814  Sum_probs=46.9

Q ss_pred             hhhhcCCCCCccccccccccCcEEc-cCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           11 ADKEAFSDEFKCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        11 ~~~~~l~~~~~C~IC~~~l~~Pv~~-~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      ..++.+.+.+.|+||+++|.+||++ +|||+||+.||..|+.    ..||+||..+.
T Consensus        14 ~~~~~l~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~----~~CP~Cr~~~~   66 (117)
T 1jm7_B           14 AALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG----TGCPVCYTPAW   66 (117)
T ss_dssp             HHHHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT----TBCSSSCCBCS
T ss_pred             HHHHhchhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc----CCCcCCCCcCc
Confidence            3467778899999999999999998 9999999999999876    57999999985

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

Probab=99.04  E-value=1.1e-10  Score=87.25  Aligned_cols=49  Identities=33%  Similarity=0.669  Sum_probs=42.1

Q ss_pred             CCCccccccc-cccCc----EEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLE-LLYKP----VVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        18 ~~~~C~IC~~-~l~~P----v~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      +++.|+||++ ++.+|    +.++|||+||..||.+|+.. +...||+||..+..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR-GAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHT-TSSSCTTTCCCCSS
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHc-CCCcCCCCCCcccc
Confidence            3678999999 99988    56899999999999999774 45679999999864

>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=99.03  E-value=4.1e-11  Score=106.95  Aligned_cols=70  Identities=20%  Similarity=0.429  Sum_probs=59.2

Q ss_pred             CCCCcccccccccCCCceEc-ccCchhhHhhhhhccCC-CCCCCCCccCCC-CCCchhhHHHHHHHHHhhhhH
Q 043080          205 SVDDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDG-NFKCPNCQSLQP-YGLPSVCLIIEHFLEERFSDL  274 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~-~~~CP~Cr~~~~-~~~~~~~~~l~~l~~~~~~~~  274 (458)
                      ..+.+.|+||++.|.+|+++ +|||+||..|+..|+.. ...||+||..+. ...+..|..|.+++..+++..
T Consensus        51 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~~~~l~~~i~~~~~~~  123 (165)
T 2ckl_B           51 LHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKIYPSR  123 (165)
T ss_dssp             CHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSGGGEEECHHHHHHHHHHC---
T ss_pred             CCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCcccCCcCHHHHHHHHHHHcch
Confidence            34678999999999999998 99999999999999885 788999999884 345778999999999987753

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

Probab=99.02  E-value=8.8e-11  Score=89.30  Aligned_cols=52  Identities=29%  Similarity=0.723  Sum_probs=44.8

Q ss_pred             hcCCCCCccccccccccCc-------EEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           14 EAFSDEFKCCVCLELLYKP-------VVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        14 ~~l~~~~~C~IC~~~l~~P-------v~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ....+.+.|+||++.+.+|       +.++|||+||..||..|+..  ...||+||..+..
T Consensus         5 ~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~--~~~CP~Cr~~~~~   63 (71)
T 3ng2_A            5 LRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN--ANTCPTCRKKINH   63 (71)
T ss_dssp             -CCTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHH--CSBCTTTCCBCCC
T ss_pred             CCCCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHc--CCCCCCCCCccCh
Confidence            3456788999999999988       88999999999999999984  3589999999864

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

Probab=99.02  E-value=1.1e-10  Score=86.71  Aligned_cols=44  Identities=41%  Similarity=1.003  Sum_probs=40.2

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccC---CCCCCCCC
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED---GNFKCPNC  248 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~---~~~~CP~C  248 (458)
                      ..+.+.|+||++.+.+|++++|||+||..||..|+.   ....||+|
T Consensus        17 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            456889999999999999999999999999999986   56789998

>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=99.01  E-value=4.7e-11  Score=100.53  Aligned_cols=66  Identities=20%  Similarity=0.328  Sum_probs=54.5

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccCCC-CCCCCCccCCCCCCchhhHHHHHHHHHh
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGN-FKCPNCQSLQPYGLPSVCLIIEHFLEER  270 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~-~~CP~Cr~~~~~~~~~~~~~l~~l~~~~  270 (458)
                      ..+.+.|+||++.+.+|++++|||+||..|+..|+... ..||+||..+....+..+..+.+++..+
T Consensus        15 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~~i~~l   81 (118)
T 3hct_A           15 LESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILSL   81 (118)
T ss_dssp             CCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHTS
T ss_pred             CCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHhcccCHHHHHHHccc
Confidence            45678999999999999999999999999999998743 4999999998766555666666666554

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

Probab=99.01  E-value=1.1e-10  Score=104.72  Aligned_cols=67  Identities=10%  Similarity=0.013  Sum_probs=60.1

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccCC-CCCCCCCccCCCCCCchhhHHHHHHHHHhh
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDG-NFKCPNCQSLQPYGLPSVCLIIEHFLEERF  271 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~-~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~~  271 (458)
                      ..+.+.||||+++|.+||+++|||+||..||..|+.. ...||+|+.++....+.+|..|.+++..+.
T Consensus       103 ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~pN~~Lk~~Ie~~~  170 (179)
T 2f42_A          103 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNLAMKEVIDAFI  170 (179)
T ss_dssp             CCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECHHHHHHHHHHH
T ss_pred             CcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcchHHHHHHHHHHH
Confidence            3468999999999999999999999999999999873 347999999998888899999999999883

>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=99.01  E-value=1.1e-10  Score=98.36  Aligned_cols=55  Identities=24%  Similarity=0.537  Sum_probs=48.6

Q ss_pred             hhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      .++.+.+.+.|+||++++.+|++++|||+||+.||..|+... ...||+||..+..
T Consensus        11 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~   65 (118)
T 3hct_A           11 FDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDA-GHKCPVDNEILLE   65 (118)
T ss_dssp             BSSCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHH-CSBCTTTCCBCCG
T ss_pred             hccCCCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhC-CCCCCCCCCCcCH
Confidence            457788899999999999999999999999999999999853 2489999998864

>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=99.01  E-value=1.2e-10  Score=96.75  Aligned_cols=55  Identities=35%  Similarity=0.818  Sum_probs=47.4

Q ss_pred             hhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcC-CCCCCCCCCCCCCC
Q 043080           13 KEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSW-HESNCPVCRNPYNH   67 (458)
Q Consensus        13 ~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~-~~~~CP~Cr~~~~~   67 (458)
                      ++.+...+.|+||++.+.+|++++|||+||..||..|+... +...||+||..+..
T Consensus        15 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           15 INAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (112)
T ss_dssp             HHHHHHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             HHhccCCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH
Confidence            45566788999999999999999999999999999999853 33579999998863

>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=98.99  E-value=8.5e-11  Score=113.52  Aligned_cols=66  Identities=11%  Similarity=0.025  Sum_probs=59.7

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccCC-CCCCCCCccCCCCCCchhhHHHHHHHHHhh
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDG-NFKCPNCQSLQPYGLPSVCLIIEHFLEERF  271 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~-~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~~  271 (458)
                      ...+.||||+++|.+||+++|||+||..||..|+.. ...||+|+.++....+.+|..|.++++.+.
T Consensus       206 ~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~~n~~l~~~i~~~~  272 (281)
T 2c2l_A          206 PDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVIDAFI  272 (281)
T ss_dssp             CSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHHHHH
T ss_pred             CcccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCcccHHHHHHHHHHH
Confidence            468999999999999999999999999999999873 445999999998878889999999999885

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

Probab=98.98  E-value=2e-10  Score=89.19  Aligned_cols=55  Identities=29%  Similarity=0.649  Sum_probs=44.5

Q ss_pred             hhcCCCCCcccccccccc--CcEEcc--CCChhhHHhHHHHHhcCCCCCCCCCCCCCCCC
Q 043080           13 KEAFSDEFKCCVCLELLY--KPVVLA--CGHISCFWCVYNAMNSWHESNCPVCRNPYNHF   68 (458)
Q Consensus        13 ~~~l~~~~~C~IC~~~l~--~Pv~~~--CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   68 (458)
                      ...+++++.||||++.+.  ++++++  |||+||+.|+..++.. ....||.||+.+...
T Consensus         5 ~~~~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~-~~~~CP~CR~~~~~~   63 (78)
T 1e4u_A            5 PDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTD-ENGLCPACRKPYPED   63 (78)
T ss_dssp             SCCCCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTS-SCSBCTTTCCBCSSC
T ss_pred             ccccccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhc-CCCCCCCCCCccCCC
Confidence            355788999999999884  455555  9999999999998864 457899999998754

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

Probab=98.98  E-value=1.3e-10  Score=86.96  Aligned_cols=52  Identities=33%  Similarity=0.634  Sum_probs=44.0

Q ss_pred             CCcccccccc-cCCCc----eEcccCchhhHhhhhhccC-CCCCCCCCccCCCCCCch
Q 043080          207 DDLSCAACKK-MLFKP----VVLNCGHVFCELCLFVPED-GNFKCPNCQSLQPYGLPS  258 (458)
Q Consensus       207 ~~l~C~iC~~-~~~~p----v~l~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~~~~~  258 (458)
                      +++.|+||++ ++.+|    ++++|||+||..|+.+|+. ....||+||..+....+.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~   59 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFR   59 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCCE
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccccce
Confidence            4678999999 99998    5679999999999999954 567899999998766544

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

Probab=98.98  E-value=1.3e-10  Score=84.35  Aligned_cols=47  Identities=34%  Similarity=0.740  Sum_probs=41.7

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCC
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYG  255 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~  255 (458)
                      .+.+.|+||++.|.+|++++|||+||..|+..   ....||+||..+...
T Consensus         4 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~---~~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEA---SGMQCPICQAPWPLG   50 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSS---SSSSCSSCCSSSSCC
T ss_pred             ccCCCceEeCCccCCeEEcCCCCcccHHHHcc---CCCCCCcCCcEeecC
Confidence            46789999999999999999999999999987   367899999988654

>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=98.97  E-value=1.9e-10  Score=96.42  Aligned_cols=53  Identities=30%  Similarity=0.740  Sum_probs=46.5

Q ss_pred             hcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        14 ~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ..+.+.+.|+||++++.+|+.++|||+||..||..|+.. ....||+||..+..
T Consensus        18 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~   70 (116)
T 1rmd_A           18 AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKV-MGSYCPSCRYPCFP   70 (116)
T ss_dssp             HHHHHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHH-TCSBCTTTCCBCCG
T ss_pred             HhccCCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhH-CcCcCCCCCCCCCH
Confidence            455678899999999999999999999999999999985 24579999999864

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

Probab=98.96  E-value=9.9e-11  Score=84.92  Aligned_cols=46  Identities=26%  Similarity=0.631  Sum_probs=40.4

Q ss_pred             CCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           17 SDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        17 ~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      .+.+.|+||++.|.+|++++|||+||..||..     ....||+||+.+..
T Consensus         4 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~-----~~~~CP~Cr~~~~~   49 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEA-----SGMQCPICQAPWPL   49 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSS-----SSSSCSSCCSSSSC
T ss_pred             ccCCCceEeCCccCCeEEcCCCCcccHHHHcc-----CCCCCCcCCcEeec
Confidence            56788999999999999999999999999876     34579999998864

>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=98.96  E-value=8.8e-11  Score=101.96  Aligned_cols=53  Identities=25%  Similarity=0.657  Sum_probs=47.0

Q ss_pred             hhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           13 KEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        13 ~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      .+.+++.+.|+||+++|.+||+++|||+||+.||..|+.. +...||+||..+.
T Consensus        25 ~~~l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~-~~~~CP~Cr~~~~   77 (141)
T 3knv_A           25 GTKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSS-GPQNCAACVHEGI   77 (141)
T ss_dssp             GGGCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGG-SCEECHHHHHTTC
T ss_pred             hccCCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhc-CCCCCCCCCCccc
Confidence            4678899999999999999999999999999999999874 4457999998763

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

Probab=98.95  E-value=2e-10  Score=91.13  Aligned_cols=51  Identities=27%  Similarity=0.694  Sum_probs=45.0

Q ss_pred             CCCCcccccccccCCC----ceEcccCchhhHhhhhhccCC---CCCCCCCccCCCCC
Q 043080          205 SVDDLSCAACKKMLFK----PVVLNCGHVFCELCLFVPEDG---NFKCPNCQSLQPYG  255 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~----pv~l~CgH~fC~~Cl~~~~~~---~~~CP~Cr~~~~~~  255 (458)
                      ..+.+.|+||++.|.+    |++++|||+||..|+..|+..   ...||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             ccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            4567899999999998    999999999999999999874   48999999987653

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens}

Probab=98.95  E-value=4.9e-10  Score=84.72  Aligned_cols=52  Identities=29%  Similarity=0.560  Sum_probs=43.4

Q ss_pred             hcCCCCCcccccccccc---CcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           14 EAFSDEFKCCVCLELLY---KPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        14 ~~l~~~~~C~IC~~~l~---~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ........|+||++.|.   .++.++|||.||..||..|+..  ...||+||..+..
T Consensus         9 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~--~~~CP~Cr~~~~~   63 (69)
T 2kiz_A            9 TEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLIT--NKKCPICRVDIEA   63 (69)
T ss_dssp             CSTTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHH--CSBCTTTCSBSCS
T ss_pred             CcCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHc--CCCCcCcCccccC
Confidence            45567788999999885   4567999999999999999985  3469999998864

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

Probab=98.94  E-value=4.1e-10  Score=100.96  Aligned_cols=53  Identities=17%  Similarity=0.197  Sum_probs=47.1

Q ss_pred             hcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        14 ~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ..+...+.||||+++|.+||+++|||+||+.||..|+...+. .||+||..+..
T Consensus       101 ~~ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~-tcP~t~~~l~~  153 (179)
T 2f42_A          101 REIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGH-FDPVTRSPLTQ  153 (179)
T ss_dssp             CCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCS-BCTTTCCBCCG
T ss_pred             cCCcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCCC-CCCCCcCCCCh
Confidence            456789999999999999999999999999999999986443 69999998864

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

Probab=98.94  E-value=2.3e-10  Score=85.02  Aligned_cols=48  Identities=29%  Similarity=0.802  Sum_probs=42.4

Q ss_pred             CCCccccccccccCc-------EEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKP-------VVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        18 ~~~~C~IC~~~l~~P-------v~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      +.+.|+||++.+.+|       +.++|||+||..||.+|+..  ...||+||..+..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~--~~~CP~Cr~~~~~   56 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN--ANTCPTCRKKINH   56 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHH--CSBCTTTCCBCTT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHc--CCCCCCCCccCCc
Confidence            467899999999887       78999999999999999985  4589999998864

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

Probab=98.94  E-value=1.2e-10  Score=88.59  Aligned_cols=53  Identities=28%  Similarity=0.553  Sum_probs=46.5

Q ss_pred             CCCCcccccccccCCCc-------eEcccCchhhHhhhhhccCCCCCCCCCccCCCCCCc
Q 043080          205 SVDDLSCAACKKMLFKP-------VVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLP  257 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~p-------v~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~  257 (458)
                      ..+.+.|+||++.+.+|       +.++|||+||..|+..|+.....||+||..+....+
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            34678899999999988       888999999999999999888899999998876543

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

Probab=98.93  E-value=4.1e-10  Score=81.08  Aligned_cols=49  Identities=37%  Similarity=0.643  Sum_probs=41.9

Q ss_pred             CCCCCccccccccccC---cEEcc-CCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           16 FSDEFKCCVCLELLYK---PVVLA-CGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        16 l~~~~~C~IC~~~l~~---Pv~~~-CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +++...|+||++.+..   ++.++ |||.||..||.+|+..  ...||+||+.+.
T Consensus         2 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~--~~~CP~Cr~~~~   54 (55)
T 1iym_A            2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS--HSTCPLCRLTVV   54 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT--CCSCSSSCCCSC
T ss_pred             CCCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHc--CCcCcCCCCEeE
Confidence            4567889999999987   77786 9999999999999874  568999998763

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

Probab=98.93  E-value=1.5e-10  Score=87.41  Aligned_cols=50  Identities=30%  Similarity=0.628  Sum_probs=44.4

Q ss_pred             CCCCcccccccccCCCc-------eEcccCchhhHhhhhhccCCCCCCCCCccCCCC
Q 043080          205 SVDDLSCAACKKMLFKP-------VVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPY  254 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~p-------v~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~  254 (458)
                      ..+.+.|+||++.+.+|       +.++|||.||..|+..|+.....||+||..+..
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            34678899999999987       888999999999999999888899999998754

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

Probab=98.93  E-value=4e-10  Score=87.40  Aligned_cols=53  Identities=26%  Similarity=0.539  Sum_probs=44.6

Q ss_pred             hhcCCCCCccccccccccCc---EEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           13 KEAFSDEFKCCVCLELLYKP---VVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        13 ~~~l~~~~~C~IC~~~l~~P---v~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      .+.+...+.|+||++.|..+   +.++|||.||..||.+|+..  ...||+||..+..
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~--~~~CP~Cr~~~~~   64 (78)
T 2ect_A            9 EEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQ--HDSCPVCRKSLTG   64 (78)
T ss_dssp             CTTSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTT--TCSCTTTCCCCCC
T ss_pred             cccCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHc--CCcCcCcCCccCC
Confidence            45567789999999999865   44799999999999999974  4689999999864

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

Probab=98.92  E-value=4.6e-10  Score=81.66  Aligned_cols=44  Identities=36%  Similarity=0.908  Sum_probs=39.4

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhcc---CCCCCCCCC
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPE---DGNFKCPNC  248 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~---~~~~~CP~C  248 (458)
                      ..+.+.|+||++.+.+|++++|||+||..||..|+   .....||+|
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           12 LQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34678999999999999999999999999999994   467889988

>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=98.92  E-value=4.3e-10  Score=108.55  Aligned_cols=52  Identities=17%  Similarity=0.202  Sum_probs=45.7

Q ss_pred             cCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           15 AFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        15 ~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      .+...+.||||+++|.+||+++|||+||+.||..|+...+ ..||+||.++..
T Consensus       204 ~~~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~-~~cP~~~~~~~~  255 (281)
T 2c2l_A          204 DIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVG-HFNPVTRSPLTQ  255 (281)
T ss_dssp             CCCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTC-SSCTTTCCCCCG
T ss_pred             CCCcccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCC-CCCcCCCCCCch
Confidence            4557999999999999999999999999999999998643 349999999864

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A

Probab=98.91  E-value=5.4e-10  Score=80.38  Aligned_cols=47  Identities=30%  Similarity=0.651  Sum_probs=40.8

Q ss_pred             CCCccccccccccC----cEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYK----PVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        18 ~~~~C~IC~~~l~~----Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      ....|+||++.+.+    ++.++|||.||..||..|+...  ..||+||..+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~--~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG--YRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHT--CCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcC--CcCCCCCCcCC
Confidence            46789999999965    7779999999999999999854  68999998764

>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=98.90  E-value=5.1e-10  Score=105.17  Aligned_cols=57  Identities=18%  Similarity=0.320  Sum_probs=49.3

Q ss_pred             hhhhhcCCCCCccccccccccCcEE-ccCCChhhHHhHHHHHhcCCCCCCCC--CCCCCC
Q 043080           10 LADKEAFSDEFKCCVCLELLYKPVV-LACGHISCFWCVYNAMNSWHESNCPV--CRNPYN   66 (458)
Q Consensus        10 ~~~~~~l~~~~~C~IC~~~l~~Pv~-~~CgH~FC~~Ci~~~~~~~~~~~CP~--Cr~~~~   66 (458)
                      +-.+......+.||||+++|.+||+ +.|||+||+.||..||...+...||+  |+..+.
T Consensus       172 DI~v~~~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~  231 (267)
T 3htk_C          172 DLQIEGGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS  231 (267)
T ss_dssp             CCCCCSSBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEEC
T ss_pred             cceecCCceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCc
Confidence            3345667889999999999999998 59999999999999998655678999  999875

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

Probab=98.90  E-value=1.5e-10  Score=87.79  Aligned_cols=53  Identities=28%  Similarity=0.751  Sum_probs=46.6

Q ss_pred             hhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      .++.+.+.+.|+||++.+.+ +.++|||+||..||..|+.  ....||+||..+..
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~--~~~~CP~Cr~~~~~   60 (70)
T 2ecn_A            8 RVKQLTDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSD--RHRNCPICRLQMTG   60 (70)
T ss_dssp             CCCCCCCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSC--CCSSCHHHHHCTTC
T ss_pred             hhhcCCCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHH--CcCcCCCcCCcccC
Confidence            35677888999999999999 8899999999999999987  56789999998864

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

Probab=98.89  E-value=9.2e-10  Score=79.21  Aligned_cols=48  Identities=29%  Similarity=0.519  Sum_probs=42.6

Q ss_pred             CCCcccccccccCCC---ceEcc-cCchhhHhhhhhccCCCCCCCCCccCCC
Q 043080          206 VDDLSCAACKKMLFK---PVVLN-CGHVFCELCLFVPEDGNFKCPNCQSLQP  253 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~---pv~l~-CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~  253 (458)
                      .+...|+||++.+..   ++.++ |||.||..|+..|+.....||+||..+.
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            456789999999987   78886 9999999999999998999999998753

>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=98.89  E-value=3.8e-10  Score=97.95  Aligned_cols=50  Identities=26%  Similarity=0.627  Sum_probs=44.3

Q ss_pred             CCCCCcccccccccCCCceEcccCchhhHhhhhhccCC-CCCCCCCccCCC
Q 043080          204 VSVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDG-NFKCPNCQSLQP  253 (458)
Q Consensus       204 ~~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~-~~~CP~Cr~~~~  253 (458)
                      ...+.+.|+||+.+|.+|++++|||+||..||..|+.. ...||+||..+.
T Consensus        27 ~l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           27 KLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             GCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             cCCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            35678999999999999999999999999999999874 458999999753

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

Probab=98.89  E-value=5e-10  Score=85.88  Aligned_cols=54  Identities=22%  Similarity=0.412  Sum_probs=45.1

Q ss_pred             hhcCCCCCccccccccccCcEE---ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCC
Q 043080           13 KEAFSDEFKCCVCLELLYKPVV---LACGHISCFWCVYNAMNSWHESNCPVCRNPYNHF   68 (458)
Q Consensus        13 ~~~l~~~~~C~IC~~~l~~Pv~---~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   68 (458)
                      +..+.....|+||++.|..+..   ++|||.||..||..|+...  ..||+||..+...
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~--~~CP~Cr~~~~~~   65 (74)
T 2ep4_A            9 VKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVR--KVCPLCNMPVLQL   65 (74)
T ss_dssp             CCCCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHC--SBCTTTCCBCSSC
T ss_pred             cccCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcC--CcCCCcCcccccc
Confidence            4567778899999999987654   4999999999999999853  4899999998653

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

Probab=98.89  E-value=5.3e-10  Score=84.23  Aligned_cols=48  Identities=27%  Similarity=0.705  Sum_probs=41.8

Q ss_pred             CCCCccccccccccCc-EEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           17 SDEFKCCVCLELLYKP-VVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        17 ~~~~~C~IC~~~l~~P-v~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      .....|+||++.+.+| +.++|||.||..|+..|+..  ...||+||..+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~--~~~CP~Cr~~~~   51 (68)
T 1chc_A            3 TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQ--NPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHH--SCSTTTTCCCCC
T ss_pred             CCCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhC--cCcCcCCChhhH
Confidence            3467899999999997 67999999999999999874  368999999875

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

Probab=98.88  E-value=2e-10  Score=88.32  Aligned_cols=52  Identities=23%  Similarity=0.623  Sum_probs=45.3

Q ss_pred             hhhhhcCCCCCccccccccccCcEEccCCCh-hhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           10 LADKEAFSDEFKCCVCLELLYKPVVLACGHI-SCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        10 ~~~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~-FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ....+.+.+.+.|+||++.+.+|++++|||+ ||..|+..|      ..||+||..+..
T Consensus        15 ~~~~~~~~~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~------~~CP~Cr~~i~~   67 (74)
T 4ic3_A           15 EEQLRRLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV------DKCPMCYTVITF   67 (74)
T ss_dssp             HHHHHHHHHHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC------SBCTTTCCBCSE
T ss_pred             HHHHhcCccCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC------ccCCCcCcCccC
Confidence            3445677788999999999999999999999 999999876      479999998864

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

Probab=98.88  E-value=7.4e-10  Score=85.83  Aligned_cols=51  Identities=24%  Similarity=0.443  Sum_probs=44.1

Q ss_pred             CCCcccccccccCCCc---eEcccCchhhHhhhhhccCCCCCCCCCccCCCCCC
Q 043080          206 VDDLSCAACKKMLFKP---VVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGL  256 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~p---v~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~  256 (458)
                      ...+.|+||++.|..+   +.++|||.||..||..|+.....||+||..+....
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   66 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN   66 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSC
T ss_pred             CCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCcc
Confidence            4578899999999866   45699999999999999998899999999886543

>2dip_A Zinc finger SWIM domain-containing protein 2; ZZ domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.44.1.6

Probab=98.88  E-value=8.4e-10  Score=88.80  Aligned_cols=54  Identities=31%  Similarity=0.818  Sum_probs=48.3

Q ss_pred             CCccccccccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEcCCC
Q 043080          315 GPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQPT  381 (458)
Q Consensus       315 ~~~~h~~v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~~~~  381 (458)
                      .+..|.++.||.|...||.|.||+|..|.   +||||+.|+...         .| +.|.|..+...
T Consensus        25 ~~~~H~gv~Cd~C~~~pI~G~RykC~~C~---d~DLC~~C~~~~---------~H-~~H~f~~i~~~   78 (98)
T 2dip_A           25 RLDKHLGIPCNNCKQFPIEGKCYKCTECI---EYHLCQECFDSY---------CH-LSHTFTFREKR   78 (98)
T ss_dssp             CCSSCCCCCCSSSCCSSCCSCEEEESSSS---SCEEEHHHHHTT---------SG-GGSCEEECCSS
T ss_pred             cccccCCCCCcCCCCCCcccCeEECCCCC---CccHHHHHHccC---------CC-CCCCeeEecCC
Confidence            36689999999999999999999999999   999999999986         36 89999887653

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

Probab=98.87  E-value=2.4e-10  Score=84.89  Aligned_cols=51  Identities=29%  Similarity=0.556  Sum_probs=44.8

Q ss_pred             CCcccccccccCCCc-------eEcccCchhhHhhhhhccCCCCCCCCCccCCCCCCc
Q 043080          207 DDLSCAACKKMLFKP-------VVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLP  257 (458)
Q Consensus       207 ~~l~C~iC~~~~~~p-------v~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~  257 (458)
                      +.+.|+||++.+.+|       +.++|||.||..|+..|+.....||+||..+....+
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   59 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   59 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTCE
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccce
Confidence            467899999999887       788999999999999999888899999998876443

>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=98.87  E-value=3.7e-10  Score=94.61  Aligned_cols=63  Identities=25%  Similarity=0.521  Sum_probs=49.8

Q ss_pred             CCcccccccccCCCceEcccCchhhHhhhhhccCC-CCCCCCCccCCCCCCc-hhhHHHHHHHHH
Q 043080          207 DDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDG-NFKCPNCQSLQPYGLP-SVCLIIEHFLEE  269 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~-~~~CP~Cr~~~~~~~~-~~~~~l~~l~~~  269 (458)
                      +.+.|+||++.+.+|+.++|||+||..|+..|+.. ...||+||..+....+ ..+..+.+++..
T Consensus        22 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~l~~~i~~   86 (116)
T 1rmd_A           22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNILNS   86 (116)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHHHHHHHH
T ss_pred             CCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhccccHHHHHHHHHH
Confidence            46889999999999999999999999999999874 7789999998865432 233444444443

>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=98.86  E-value=9.5e-10  Score=103.36  Aligned_cols=66  Identities=21%  Similarity=0.263  Sum_probs=59.5

Q ss_pred             CCCCcccccccccCCCceEc-ccCchhhHhhhhhccCC--CCCCCC--CccCCCCCCchhhHHHHHHHHHh
Q 043080          205 SVDDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDG--NFKCPN--CQSLQPYGLPSVCLIIEHFLEER  270 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~--~~~CP~--Cr~~~~~~~~~~~~~l~~l~~~~  270 (458)
                      ....++||||+.+|.+||+. .|||+||+.||..|+..  ...||+  |++.+....+.+|..|.++++.+
T Consensus       178 ~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~pN~~L~~lve~~  248 (267)
T 3htk_C          178 GKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPIMELRCKIA  248 (267)
T ss_dssp             SBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEECHHHHHHHHHH
T ss_pred             CceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCcCHHHHHHHHHH
Confidence            45789999999999999986 99999999999999874  468999  99999888899999999999876

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

Probab=98.86  E-value=6.4e-10  Score=83.77  Aligned_cols=49  Identities=24%  Similarity=0.434  Sum_probs=43.2

Q ss_pred             CCCcccccccccCCCc-eEcccCchhhHhhhhhccCCCCCCCCCccCCCC
Q 043080          206 VDDLSCAACKKMLFKP-VVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPY  254 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~p-v~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~  254 (458)
                      .....|+||++.+.+| +.++|||.||..|+..|+.....||+||..+..
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            3 TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            3567899999999997 677999999999999999878899999998753

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A

Probab=98.85  E-value=6.8e-10  Score=79.88  Aligned_cols=47  Identities=23%  Similarity=0.608  Sum_probs=41.5

Q ss_pred             CCcccccccccCCC----ceEcccCchhhHhhhhhccCCCCCCCCCccCCC
Q 043080          207 DDLSCAACKKMLFK----PVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQP  253 (458)
Q Consensus       207 ~~l~C~iC~~~~~~----pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~  253 (458)
                      ....|+||++.+.+    ++.++|||.||..|+..|+.....||+||..+.
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            45789999999866    778899999999999999987799999998764

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

Probab=98.85  E-value=1.2e-09  Score=87.54  Aligned_cols=50  Identities=30%  Similarity=0.557  Sum_probs=42.9

Q ss_pred             cCCCCCccccccccccC---cEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           15 AFSDEFKCCVCLELLYK---PVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        15 ~l~~~~~C~IC~~~l~~---Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      .......|+||++.|..   ++.++|||.||..||..|+.  ....||+||..+.
T Consensus        36 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~--~~~~CP~Cr~~~~   88 (91)
T 2l0b_A           36 AVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQ--KSGTCPVCRCMFP   88 (91)
T ss_dssp             SSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHT--TTCBCTTTCCBSS
T ss_pred             ccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHH--cCCcCcCcCccCC
Confidence            34567889999999886   77799999999999999997  4458999999875

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

Probab=98.83  E-value=8.2e-10  Score=83.71  Aligned_cols=49  Identities=27%  Similarity=0.607  Sum_probs=44.4

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCC
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYG  255 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~  255 (458)
                      .+.+.|+||++.+.+ +.++|||.||..|+..|+.....||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (70)
T 2ecn_A           13 TDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGA   61 (70)
T ss_dssp             CCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCC
T ss_pred             CCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCC
Confidence            457889999999999 8999999999999999999999999999987643

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

Probab=98.83  E-value=9.2e-10  Score=84.68  Aligned_cols=51  Identities=27%  Similarity=0.528  Sum_probs=43.4

Q ss_pred             cCCCCCccccccccccCc---EEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           15 AFSDEFKCCVCLELLYKP---VVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        15 ~l~~~~~C~IC~~~l~~P---v~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      .......|+||++.|..+   +.++|||.||..||..|+..  ...||+||+.+..
T Consensus        19 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~--~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           19 HQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKA--NRTCPICRADSGP   72 (75)
T ss_dssp             CSSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHH--CSSCTTTCCCCCC
T ss_pred             ccCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHc--CCcCcCcCCcCCC
Confidence            345678999999999877   66899999999999999985  3589999998753

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

Probab=98.82  E-value=1.8e-09  Score=83.75  Aligned_cols=52  Identities=25%  Similarity=0.531  Sum_probs=42.4

Q ss_pred             CCCCcccccccccCC--CceEcc--cCchhhHhhhhhccC-CCCCCCCCccCCCCCC
Q 043080          205 SVDDLSCAACKKMLF--KPVVLN--CGHVFCELCLFVPED-GNFKCPNCQSLQPYGL  256 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~--~pv~l~--CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~~~  256 (458)
                      .++++.||||++.+.  +++.++  |||+||..|+..++. ....||.||+.+....
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            467899999999884  445555  999999999998875 5688999999887643

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

Probab=98.81  E-value=1.4e-09  Score=97.50  Aligned_cols=55  Identities=24%  Similarity=0.537  Sum_probs=48.5

Q ss_pred             hhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      .+..+.+.+.|+||+++|.+||.++|||+||+.||..|+... ...||+||..+..
T Consensus        11 ~~~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           11 FDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDA-GHKCPVDNEILLE   65 (170)
T ss_dssp             ESSCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHH-CSBCTTTCCBCCG
T ss_pred             hccCCCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhC-CCCCCCCccCcch
Confidence            456788999999999999999999999999999999998753 3489999998864

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

Probab=98.81  E-value=7.3e-10  Score=99.28  Aligned_cols=65  Identities=20%  Similarity=0.347  Sum_probs=53.1

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccCC-CCCCCCCccCCCCCCchhhHHHHHHHHH
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDG-NFKCPNCQSLQPYGLPSVCLIIEHFLEE  269 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~-~~~CP~Cr~~~~~~~~~~~~~l~~l~~~  269 (458)
                      ..+.+.|+||+.+|.+|++++|||+||..|+..|+.. ...||+||..+....+..+..+.+++..
T Consensus        15 ~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~~   80 (170)
T 3hcs_A           15 LESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILS   80 (170)
T ss_dssp             CCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHT
T ss_pred             CCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhhhhhhHHHHHHHhh
Confidence            4578999999999999999999999999999999863 4599999998876555555555555554

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

Probab=98.80  E-value=1.8e-09  Score=86.37  Aligned_cols=49  Identities=24%  Similarity=0.555  Sum_probs=43.9

Q ss_pred             CCCcccccccccCCC---ceEcccCchhhHhhhhhccCCCCCCCCCccCCCC
Q 043080          206 VDDLSCAACKKMLFK---PVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPY  254 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~---pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~  254 (458)
                      .+...|+||++.|..   ++.++|||.||..||..|+.....||+||..+..
T Consensus        38 ~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           38 GQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             CCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            457789999999887   7788999999999999999988999999998764

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

Probab=98.80  E-value=2.5e-09  Score=89.13  Aligned_cols=50  Identities=24%  Similarity=0.566  Sum_probs=41.5

Q ss_pred             CCCccccccccccCcE------------------EccCCChhhHHhHHHHHhc---CCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKPV------------------VLACGHISCFWCVYNAMNS---WHESNCPVCRNPYNH   67 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv------------------~~~CgH~FC~~Ci~~~~~~---~~~~~CP~Cr~~~~~   67 (458)
                      .+..|+||++.|..|+                  .++|||.||..||..|+..   .....||+||..+..
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            4568999999997765                  6899999999999999964   235679999998864

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

Probab=98.80  E-value=7.9e-10  Score=85.16  Aligned_cols=53  Identities=23%  Similarity=0.590  Sum_probs=44.6

Q ss_pred             hhhhhcCCCCCccccccccccCcEEccCCCh-hhHHhHHHHHhcCCCCCCCCCCCCCCCC
Q 043080           10 LADKEAFSDEFKCCVCLELLYKPVVLACGHI-SCFWCVYNAMNSWHESNCPVCRNPYNHF   68 (458)
Q Consensus        10 ~~~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~-FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   68 (458)
                      ....+.+.+.+.|+||++.+.+|++++|||. ||..|+...      ..||+||..+...
T Consensus        16 ~~~~~~~~~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~~------~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           16 EEQLRRLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV------DKCPMCYTVITFK   69 (75)
T ss_dssp             HHHHHHHHHHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHHC------SBCTTTCCBCCCC
T ss_pred             HHHHHcCCCCCCCCcCCCCCCCEEEecCCCHHHHHHHhhCC------CCCccCCceecCc
Confidence            3445667778899999999999999999999 999999642      4799999998653

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens}

Probab=98.79  E-value=1.9e-09  Score=81.37  Aligned_cols=50  Identities=26%  Similarity=0.403  Sum_probs=42.8

Q ss_pred             CCCcccccccccCC---CceEcccCchhhHhhhhhccCCCCCCCCCccCCCCC
Q 043080          206 VDDLSCAACKKMLF---KPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYG  255 (458)
Q Consensus       206 ~~~l~C~iC~~~~~---~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~  255 (458)
                      .....|+||++.|.   .++.++|||.||..|+..|+.....||+||..+...
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            45678999999885   457789999999999999998778899999987654

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

Probab=98.75  E-value=1.8e-09  Score=83.05  Aligned_cols=49  Identities=24%  Similarity=0.406  Sum_probs=43.3

Q ss_pred             CCCcccccccccCCCc---eEcccCchhhHhhhhhccCCCCCCCCCccCCCC
Q 043080          206 VDDLSCAACKKMLFKP---VVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPY  254 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~p---v~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~  254 (458)
                      .+...|+||++.|..+   +.++|||.||..|+..|+.....||+||..+..
T Consensus        21 ~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           21 SEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGP   72 (75)
T ss_dssp             SSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCC
Confidence            3567899999999887   678999999999999999888899999998754

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

Probab=98.74  E-value=1.9e-09  Score=91.97  Aligned_cols=52  Identities=29%  Similarity=0.583  Sum_probs=46.4

Q ss_pred             CCCCcccccccccCCCc-------eEcccCchhhHhhhhhccCCCCCCCCCccCCCCCC
Q 043080          205 SVDDLSCAACKKMLFKP-------VVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYGL  256 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~p-------v~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~  256 (458)
                      ..+.+.|+||++.|.+|       ++++|||+||..||.+|+.....||+||+.+....
T Consensus         4 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            4 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   62 (133)
T ss_dssp             -CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTC
T ss_pred             CCCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccc
Confidence            34678999999999998       89999999999999999998899999999887643

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

Probab=98.71  E-value=3.6e-09  Score=81.19  Aligned_cols=45  Identities=27%  Similarity=0.665  Sum_probs=40.6

Q ss_pred             CCCcccccccccCCCceEcccCch-hhHhhhhhccCCCCCCCCCccCCCC
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHV-FCELCLFVPEDGNFKCPNCQSLQPY  254 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~-fC~~Cl~~~~~~~~~CP~Cr~~~~~  254 (458)
                      .+.+.|+||++.+.+|++++|||. ||..|+..|    ..||+||..+..
T Consensus        22 ~~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           22 QEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HHHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             ccCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            356789999999999999999999 999999887    789999998764

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

Probab=98.68  E-value=3.8e-09  Score=80.92  Aligned_cols=49  Identities=24%  Similarity=0.326  Sum_probs=42.0

Q ss_pred             CCCcccccccccCCCceEc---ccCchhhHhhhhhccCCCCCCCCCccCCCC
Q 043080          206 VDDLSCAACKKMLFKPVVL---NCGHVFCELCLFVPEDGNFKCPNCQSLQPY  254 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l---~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~  254 (458)
                      .....|+||++.|..+..+   +|||.||..||..|+.....||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQ   64 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSS
T ss_pred             CCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCccccc
Confidence            3567899999999876444   999999999999999877899999998754

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

Probab=98.64  E-value=1.1e-08  Score=85.23  Aligned_cols=48  Identities=29%  Similarity=0.726  Sum_probs=41.0

Q ss_pred             CCcccccccccCCCce------------------EcccCchhhHhhhhhcc-----CCCCCCCCCccCCCC
Q 043080          207 DDLSCAACKKMLFKPV------------------VLNCGHVFCELCLFVPE-----DGNFKCPNCQSLQPY  254 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv------------------~l~CgH~fC~~Cl~~~~-----~~~~~CP~Cr~~~~~  254 (458)
                      .+..|+||++.|..|.                  .++|||.||..||..|+     .....||+||..+..
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            3468999999997764                  67999999999999998     567899999998754

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

Probab=98.62  E-value=6.9e-09  Score=79.83  Aligned_cols=46  Identities=26%  Similarity=0.643  Sum_probs=40.4

Q ss_pred             CCCcccccccccCCCceEcccCch-hhHhhhhhccCCCCCCCCCccCCCCC
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHV-FCELCLFVPEDGNFKCPNCQSLQPYG  255 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~-fC~~Cl~~~~~~~~~CP~Cr~~~~~~  255 (458)
                      .+.+.|+||++.+.+|++++|||. ||..|+...    ..||+||..+...
T Consensus        23 ~~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           23 QEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFK   69 (75)
T ss_dssp             HHHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHHC----SBCTTTCCBCCCC
T ss_pred             CCCCCCCcCCCCCCCEEEecCCCHHHHHHHhhCC----CCCccCCceecCc
Confidence            456789999999999999999999 999999753    7899999988653

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

Probab=98.62  E-value=1.6e-08  Score=78.92  Aligned_cols=47  Identities=21%  Similarity=0.537  Sum_probs=38.8

Q ss_pred             CCCccccccccccC--------------cEEc-cCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYK--------------PVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        18 ~~~~C~IC~~~l~~--------------Pv~~-~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +...|+||++.|..              ++.+ +|||.||..||.+|+..  ..+||+||+.+.
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~~~   75 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQ--NNRCPLCQQDWV   75 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTT--CCBCTTTCCBCC
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHh--CCCCCCcCCCcc
Confidence            46679999999976              4455 59999999999999984  358999999875

>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=98.62  E-value=3.6e-09  Score=82.30  Aligned_cols=52  Identities=29%  Similarity=0.673  Sum_probs=44.8

Q ss_pred             hhhhhcCCCCCccccccccccCcEEccCCCh-hhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           10 LADKEAFSDEFKCCVCLELLYKPVVLACGHI-SCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        10 ~~~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~-FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ...++.+.+...|+||++.+.++++++|||. ||..|+..+      ..||+||..+..
T Consensus         9 ~~~~~~l~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~------~~CP~Cr~~i~~   61 (79)
T 2yho_A            9 QEKLRKLKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQL------QSCPVCRSRVEH   61 (79)
T ss_dssp             HHHHHHHHHHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTC------SBCTTTCCBCCE
T ss_pred             HHHHHcCCCCCEeEEeCcccCcEEEECCCCHHHHHHHHHhc------CcCCCCCchhhC
Confidence            4456677788899999999999999999999 999999764      279999999864

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

Probab=98.57  E-value=3.2e-08  Score=77.22  Aligned_cols=48  Identities=29%  Similarity=0.576  Sum_probs=40.6

Q ss_pred             CCcccccccccCCC--------------ceEc-ccCchhhHhhhhhccCCCCCCCCCccCCCC
Q 043080          207 DDLSCAACKKMLFK--------------PVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQPY  254 (458)
Q Consensus       207 ~~l~C~iC~~~~~~--------------pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~  254 (458)
                      ++..|+||++.|..              ++.+ +|||.||..||.+|+.....||+||..+..
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            45679999998866              4555 599999999999999988999999998753

>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=98.54  E-value=3.8e-08  Score=98.23  Aligned_cols=53  Identities=28%  Similarity=0.503  Sum_probs=45.4

Q ss_pred             hcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        14 ~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      +.......|+||++.+.+|+.++|||+||..|+..|+.. ....||+||..+..
T Consensus       327 e~~~~~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~-~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          327 EMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQES-EGQGCPFCRCEIKG  379 (389)
T ss_dssp             HTTTSSSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHH-TCSBCTTTCCBCCE
T ss_pred             hhcCCCCCCCccCcCCCCeEEeCCCChhhHHHHHHHHhc-CCCCCCCCCCccCC
Confidence            344556899999999999999999999999999999873 45679999998864

>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=98.53  E-value=3e-08  Score=73.77  Aligned_cols=48  Identities=27%  Similarity=0.689  Sum_probs=41.6

Q ss_pred             CCCccccccccccCcEEc--cCCCh-hhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKPVVL--ACGHI-SCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~--~CgH~-FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      +...|+||++.+.+++.+  +|||. ||..|+..++.  ....||+||..+..
T Consensus         7 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~--~~~~CPiCR~~i~~   57 (64)
T 2vje_A            7 AIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKK--RNKPCPVCRQPIQM   57 (64)
T ss_dssp             GGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHH--TTCCCTTTCCCCCE
T ss_pred             CcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHH--cCCcCCCcCcchhc
Confidence            456799999999999987  99999 89999999887  34579999998853

>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=98.51  E-value=2.9e-08  Score=73.81  Aligned_cols=47  Identities=21%  Similarity=0.434  Sum_probs=42.5

Q ss_pred             CCcccccccccCCCceEc--ccCch-hhHhhhhhccCCCCCCCCCccCCC
Q 043080          207 DDLSCAACKKMLFKPVVL--NCGHV-FCELCLFVPEDGNFKCPNCQSLQP  253 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l--~CgH~-fC~~Cl~~~~~~~~~CP~Cr~~~~  253 (458)
                      ++..|+||++.+.+++.+  +|||. ||..|+..+......||+||..+.
T Consensus         7 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            7 AIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            456799999999999987  99999 899999999887889999999875

>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=98.49  E-value=6.9e-08  Score=79.24  Aligned_cols=47  Identities=17%  Similarity=0.453  Sum_probs=39.6

Q ss_pred             CCCccccccccccCc------------------EEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKP------------------VVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        18 ~~~~C~IC~~~l~~P------------------v~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      ....|+||++.|..+                  +.++|||.||..||..|+..  ...||+||+.+.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~--~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT--RQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT--CSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHc--CCcCcCCCCcce
Confidence            456799999998865                  33799999999999999984  568999999864

>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=98.49  E-value=4.1e-08  Score=72.78  Aligned_cols=47  Identities=21%  Similarity=0.651  Sum_probs=40.7

Q ss_pred             CCccccccccccCcEEc--cCCCh-hhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           19 EFKCCVCLELLYKPVVL--ACGHI-SCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        19 ~~~C~IC~~~l~~Pv~~--~CgH~-FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ...|+||++...+++.+  +|||. ||..|+..++..  ...||+||..+..
T Consensus         7 ~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~--~~~CPiCR~~i~~   56 (63)
T 2vje_B            7 LKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKA--GASCPICKKEIQL   56 (63)
T ss_dssp             GSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHT--TCBCTTTCCBCCE
T ss_pred             CCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHh--CCcCCCcCchhhc
Confidence            45799999999999887  99998 999999998863  3679999998863

>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=98.44  E-value=4.8e-08  Score=72.38  Aligned_cols=48  Identities=21%  Similarity=0.407  Sum_probs=42.2

Q ss_pred             CCcccccccccCCCceEc--ccCch-hhHhhhhhccCCCCCCCCCccCCCC
Q 043080          207 DDLSCAACKKMLFKPVVL--NCGHV-FCELCLFVPEDGNFKCPNCQSLQPY  254 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l--~CgH~-fC~~Cl~~~~~~~~~CP~Cr~~~~~  254 (458)
                      ....|+||++...+++++  ||||. ||..|+..+......||+||..+..
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             GGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             cCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            345799999999999888  99998 9999999988777899999998753

>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=98.43  E-value=6.2e-08  Score=75.21  Aligned_cols=44  Identities=27%  Similarity=0.627  Sum_probs=39.2

Q ss_pred             CCcccccccccCCCceEcccCch-hhHhhhhhccCCCCCCCCCccCCCC
Q 043080          207 DDLSCAACKKMLFKPVVLNCGHV-FCELCLFVPEDGNFKCPNCQSLQPY  254 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l~CgH~-fC~~Cl~~~~~~~~~CP~Cr~~~~~  254 (458)
                      +...|+||++.+.+++.++|||. ||..|+..+    ..||+||..+..
T Consensus        17 ~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   61 (79)
T 2yho_A           17 EAMLCMVCCEEEINSTFCPCGHTVCCESCAAQL----QSCPVCRSRVEH   61 (79)
T ss_dssp             HHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTC----SBCTTTCCBCCE
T ss_pred             CCCEeEEeCcccCcEEEECCCCHHHHHHHHHhc----CcCCCCCchhhC
Confidence            45689999999999999999999 999999876    389999998754

>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=98.42  E-value=8.2e-08  Score=70.58  Aligned_cols=47  Identities=15%  Similarity=0.182  Sum_probs=41.4

Q ss_pred             CCccccccccccCcEEc-cCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           19 EFKCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        19 ~~~C~IC~~~l~~Pv~~-~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      .+.|+|+++++.+||.+ ++||+|++.||.+|+...+  .||+.+..+..
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~~--~cP~t~~~L~~   50 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTG--NDPITNEPLSI   50 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHS--BCTTTCCBCCG
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhCC--CCcCCcCCCCh
Confidence            47899999999999998 9999999999999998643  59999988853

>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=98.41  E-value=2e-07  Score=74.78  Aligned_cols=47  Identities=21%  Similarity=0.466  Sum_probs=38.8

Q ss_pred             CCCccccccccccCcEEc---cCCChhhHHhHHHHHhcC---C---CCCCCC--CCCC
Q 043080           18 DEFKCCVCLELLYKPVVL---ACGHISCFWCVYNAMNSW---H---ESNCPV--CRNP   64 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~---~CgH~FC~~Ci~~~~~~~---~---~~~CP~--Cr~~   64 (458)
                      ..+.|+||++.+..|+++   +|||.||+.||..++...   +   ...||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            467899999999888663   699999999999998742   2   357999  9887

>1tot_A CREB-binding protein; zinc binding, CBP, TAZ2, transferase; NMR {Mus musculus} SCOP: g.44.1.6

Probab=98.40  E-value=5.4e-08  Score=68.82  Aligned_cols=46  Identities=30%  Similarity=0.695  Sum_probs=38.9

Q ss_pred             ccccccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEcCC
Q 043080          319 HFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQP  380 (458)
Q Consensus       319 h~~v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~~~  380 (458)
                      +.++.||.|... | |.||+|..|.   +||||..|+...         .|  .|+|..+..
T Consensus         4 ~~~~~Cd~C~~~-i-g~R~~C~~C~---dyDLC~~C~~~~---------~H--~H~m~~~~~   49 (52)
T 1tot_A            4 RFVYTCNECKHH-V-ETRWHCTVCE---DYDLCINCYNTK---------SH--THKMVKWGL   49 (52)
T ss_dssp             SSCEEETTTTEE-E-SSEEEESSSS---SCEECHHHHHHH---------CC--CSSEEEECS
T ss_pred             cCEEECCCCCCC-C-cceEEcCCCC---CchhHHHHHhCC---------CC--CCceEEecC
Confidence            345899999975 4 8999999999   999999999996         35  699998764

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

Probab=98.40  E-value=8.4e-08  Score=72.22  Aligned_cols=44  Identities=32%  Similarity=0.628  Sum_probs=39.1

Q ss_pred             CCCccccccccccCcEEccCCCh-hhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKPVVLACGHI-SCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~~CgH~-FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      +...|.||++...++++++|||. ||..|+..      ...||+||..+..
T Consensus        14 ~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~------~~~CP~CR~~i~~   58 (68)
T 2ea5_A           14 NSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKY------FQQCPMCRQFVQE   58 (68)
T ss_dssp             CSSCCSSSSSSCCCCEETTTTBCCSCTTHHHH------CSSCTTTCCCCCC
T ss_pred             CCCCCCCcCcCCCCEEEECCCChhhhHHHHhc------CCCCCCCCcchhc
Confidence            47889999999999999999999 99999984      2479999999864

>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=98.38  E-value=9.6e-08  Score=95.34  Aligned_cols=50  Identities=22%  Similarity=0.434  Sum_probs=44.5

Q ss_pred             CCCCcccccccccCCCceEcccCchhhHhhhhhccC-CCCCCCCCccCCCC
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED-GNFKCPNCQSLQPY  254 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~  254 (458)
                      ......|+||++.+.+|+.++|||+||..|+..|.. ....||+||..+..
T Consensus       329 ~~~~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          329 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG  379 (389)
T ss_dssp             TTSSSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCE
T ss_pred             cCCCCCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCC
Confidence            334578999999999999999999999999999987 68899999998754

>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=98.38  E-value=4.8e-08  Score=96.84  Aligned_cols=51  Identities=27%  Similarity=0.694  Sum_probs=45.0

Q ss_pred             hhhhcCCCCCccccccccccCcEEccCCCh-hhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           11 ADKEAFSDEFKCCVCLELLYKPVVLACGHI-SCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        11 ~~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~-FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ..++.+++.+.|+||++.+.+|++++|||+ ||..|+..+      ..||+||..+..
T Consensus       287 ~~~~~l~~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~------~~CP~CR~~i~~  338 (345)
T 3t6p_A          287 EQLRRLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL------RKCPICRGIIKG  338 (345)
T ss_dssp             HHHHHHHTTCBCTTTSSSBCCEEEETTCCEEECTTTGGGC------SBCTTTCCBCCE
T ss_pred             HHHHhCcCCCCCCccCCcCCceEEcCCCChhHhHHHHhcC------CcCCCCCCCccC
Confidence            346777889999999999999999999999 999999865      479999998864

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

Probab=98.38  E-value=2e-07  Score=70.13  Aligned_cols=45  Identities=24%  Similarity=0.628  Sum_probs=39.8

Q ss_pred             CCCcccccccccCCCceEcccCch-hhHhhhhhccCCCCCCCCCccCCCC
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHV-FCELCLFVPEDGNFKCPNCQSLQPY  254 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~-fC~~Cl~~~~~~~~~CP~Cr~~~~~  254 (458)
                      .+...|+||++...+++.+||||. ||..|+..    ...||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CCSSCCSSSSSSCCCCEETTTTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCCCcCcCCCCEEEECCCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            356789999999999999999999 99999985    4789999998754

>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=98.37  E-value=1.8e-07  Score=76.80  Aligned_cols=48  Identities=19%  Similarity=0.258  Sum_probs=41.1

Q ss_pred             CCCcccccccccCCCc------------------eEcccCchhhHhhhhhccCCCCCCCCCccCCC
Q 043080          206 VDDLSCAACKKMLFKP------------------VVLNCGHVFCELCLFVPEDGNFKCPNCQSLQP  253 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~p------------------v~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~  253 (458)
                      .++..|+||++.|..+                  +.++|||.||..||..|+.....||+||..+.
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            3566799999998865                  34699999999999999999999999999754

>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=98.27  E-value=1e-07  Score=76.46  Aligned_cols=45  Identities=24%  Similarity=0.612  Sum_probs=38.2

Q ss_pred             CCcccccccccCCCceEc---ccCchhhHhhhhhccC--------CCCCCCC--CccC
Q 043080          207 DDLSCAACKKMLFKPVVL---NCGHVFCELCLFVPED--------GNFKCPN--CQSL  251 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l---~CgH~fC~~Cl~~~~~--------~~~~CP~--Cr~~  251 (458)
                      +.++|+||++.+..|+.+   +|||.||..|+..++.        ....||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            568899999999988665   7999999999998865        2468999  9987

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A

Probab=98.24  E-value=1.1e-07  Score=69.87  Aligned_cols=50  Identities=16%  Similarity=0.083  Sum_probs=43.6

Q ss_pred             CcccccccccCCCceEc-ccCchhhHhhhhhccCCCCCCCCCccCCCCCCc
Q 043080          208 DLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLP  257 (458)
Q Consensus       208 ~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~  257 (458)
                      .+.|||+++++.+||++ ++||+|++.||.+|+.....||+.+.++....+
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~L   53 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI   53 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGC
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhc
Confidence            47899999999999999 999999999999999866679999998865433

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

Probab=98.22  E-value=6.1e-07  Score=69.67  Aligned_cols=51  Identities=20%  Similarity=0.408  Sum_probs=43.0

Q ss_pred             CCCCcccccccccc--CcEEccCC-----ChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           17 SDEFKCCVCLELLY--KPVVLACG-----HISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        17 ~~~~~C~IC~~~l~--~Pv~~~Cg-----H~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      .+...|.||++.+.  .++.++|.     |.|+..||.+|+...+...||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~   70 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIM   70 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCC
T ss_pred             CCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeec
Confidence            34568999998774  68889996     99999999999997666789999998853

>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=98.17  E-value=5e-07  Score=89.53  Aligned_cols=46  Identities=26%  Similarity=0.639  Sum_probs=41.4

Q ss_pred             CCCCcccccccccCCCceEcccCch-hhHhhhhhccCCCCCCCCCccCCCC
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCGHV-FCELCLFVPEDGNFKCPNCQSLQPY  254 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~CgH~-fC~~Cl~~~~~~~~~CP~Cr~~~~~  254 (458)
                      ..+++.|+||++.+.+|+.++|||. ||..|+..+    ..||+||..+..
T Consensus       292 l~~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          292 LQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             HHTTCBCTTTSSSBCCEEEETTCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             CcCCCCCCccCCcCCceEEcCCCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            3567899999999999999999999 999999977    689999998754

>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=98.16  E-value=2.7e-07  Score=76.85  Aligned_cols=46  Identities=20%  Similarity=0.527  Sum_probs=0.4

Q ss_pred             CCccccccccccCc-----------------EE-ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           19 EFKCCVCLELLYKP-----------------VV-LACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        19 ~~~C~IC~~~l~~P-----------------v~-~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      .-.|+||++.|..+                 ++ ++|+|.||..||..|+..  ...||+||+.+.
T Consensus        48 ~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~--~~~CP~Cr~~~~  111 (117)
T 4a0k_B           48 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT--RQVCPLDNREWE  111 (117)
T ss_dssp             C-----------------------------------------------------------------
T ss_pred             CCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHc--CCcCCCCCCeee
Confidence            46899999999763                 22 589999999999999984  568999999864

>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=98.10  E-value=2.3e-07  Score=77.31  Aligned_cols=48  Identities=21%  Similarity=0.299  Sum_probs=1.4

Q ss_pred             CCCcccccccccCCCc-----------------eE-cccCchhhHhhhhhccCCCCCCCCCccCCC
Q 043080          206 VDDLSCAACKKMLFKP-----------------VV-LNCGHVFCELCLFVPEDGNFKCPNCQSLQP  253 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~p-----------------v~-l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~  253 (458)
                      ...-.|+||++.|..+                 ++ ++|+|.||..||..|+.....||+||..+.
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            3456899999998763                 22 489999999999999998899999999754

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

Probab=97.97  E-value=6.6e-06  Score=62.59  Aligned_cols=50  Identities=26%  Similarity=0.486  Sum_probs=41.7

Q ss_pred             CCCCccccccccccCcEE-ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           17 SDEFKCCVCLELLYKPVV-LACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        17 ~~~~~C~IC~~~l~~Pv~-~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +....|.||.+++..-+. ..|+|.|+..||.+|++..+...||+||..+.
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             CCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            345679999999986555 48999999999999998655578999998875

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

Probab=97.89  E-value=5.6e-06  Score=64.16  Aligned_cols=50  Identities=18%  Similarity=0.262  Sum_probs=41.0

Q ss_pred             CCCCcccccccccCC--CceEcccC-----chhhHhhhhhccC--CCCCCCCCccCCCC
Q 043080          205 SVDDLSCAACKKMLF--KPVVLNCG-----HVFCELCLFVPED--GNFKCPNCQSLQPY  254 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~--~pv~l~Cg-----H~fC~~Cl~~~~~--~~~~CP~Cr~~~~~  254 (458)
                      ..+...|.||+..+.  +++++||.     |.|+..||.+|+.  ....||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~   70 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIM   70 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCC
T ss_pred             CCCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeec
Confidence            345678999998774  68888996     9999999999987  34699999998754

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

Probab=97.62  E-value=5.3e-05  Score=57.57  Aligned_cols=48  Identities=23%  Similarity=0.492  Sum_probs=40.0

Q ss_pred             CCcccccccccCCCceEc-ccCchhhHhhhhhccCCC--CCCCCCccCCCC
Q 043080          207 DDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGN--FKCPNCQSLQPY  254 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~~--~~CP~Cr~~~~~  254 (458)
                      ....|.||..++..-+.- .|+|.|+..||.+|++..  ..||+||..+..
T Consensus        14 ~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            345799999999855444 899999999999999866  899999997754

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

Probab=97.62  E-value=3.2e-05  Score=56.38  Aligned_cols=49  Identities=27%  Similarity=0.447  Sum_probs=40.2

Q ss_pred             CCCccccccccccCcEEccCC--C---hhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKPVVLACG--H---ISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~~Cg--H---~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +...|.||++....+..+||.  +   .|+..||.+|+...+...||+|+..+.
T Consensus         5 ~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            5 DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            455699999887777777854  4   799999999998767788999998874

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

Probab=97.43  E-value=7.3e-05  Score=59.29  Aligned_cols=46  Identities=22%  Similarity=0.539  Sum_probs=37.0

Q ss_pred             ccccccccccCc-EEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           21 KCCVCLELLYKP-VVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        21 ~C~IC~~~l~~P-v~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      .|++|.-.+..- ..++|.|+||..|+..|..+ +...||.|+..+..
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~-~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKK-GDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHT-TCCBCTTTCCBCSE
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhc-cCCCCcCcCCeeee
Confidence            588898877644 44899999999999998764 45679999998853

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=97.11  E-value=0.00087  Score=53.90  Aligned_cols=31  Identities=23%  Similarity=0.644  Sum_probs=27.2

Q ss_pred             CCccccccccc-CCCceE--cccCchhhHhhhhh
Q 043080          207 DDLSCAACKKM-LFKPVV--LNCGHVFCELCLFV  237 (458)
Q Consensus       207 ~~l~C~iC~~~-~~~pv~--l~CgH~fC~~Cl~~  237 (458)
                      +++.|+||.+. +..|+.  +.|+|+||..|+..
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~   35 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKA   35 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHH
Confidence            46889999974 778888  89999999999997

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

Probab=97.10  E-value=0.0002  Score=56.74  Aligned_cols=45  Identities=29%  Similarity=0.662  Sum_probs=36.9

Q ss_pred             ccccccccCCC-ceEcccCchhhHhhhhhcc-CCCCCCCCCccCCCC
Q 043080          210 SCAACKKMLFK-PVVLNCGHVFCELCLFVPE-DGNFKCPNCQSLQPY  254 (458)
Q Consensus       210 ~C~iC~~~~~~-pv~l~CgH~fC~~Cl~~~~-~~~~~CP~Cr~~~~~  254 (458)
                      .|++|.-.+.. ...+||.|+||..|+..|. ++...||.|+.++..
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            58999877664 4566999999999999886 467899999998753

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

Probab=96.88  E-value=0.0004  Score=50.47  Aligned_cols=48  Identities=23%  Similarity=0.306  Sum_probs=39.0

Q ss_pred             CCcccccccccCCCceEcccC--c---hhhHhhhhhccC--CCCCCCCCccCCCC
Q 043080          207 DDLSCAACKKMLFKPVVLNCG--H---VFCELCLFVPED--GNFKCPNCQSLQPY  254 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l~Cg--H---~fC~~Cl~~~~~--~~~~CP~Cr~~~~~  254 (458)
                      +...|.||+....++..+||.  +   .|+..||.+|+.  +...||+|+..+..
T Consensus         5 ~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            5 DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            456799999887777777865  3   799999999986  57899999987753

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

Probab=96.51  E-value=0.00038  Score=67.64  Aligned_cols=50  Identities=20%  Similarity=0.619  Sum_probs=38.7

Q ss_pred             CCCCccccccccccC----cEE----ccCCChhhHHhHHHHHhcCCC---------CCCCCCCCCCC
Q 043080           17 SDEFKCCVCLELLYK----PVV----LACGHISCFWCVYNAMNSWHE---------SNCPVCRNPYN   66 (458)
Q Consensus        17 ~~~~~C~IC~~~l~~----Pv~----~~CgH~FC~~Ci~~~~~~~~~---------~~CP~Cr~~~~   66 (458)
                      .....|+||+.++..    |..    ..|||.|+..||.+|++....         ..||.||.++.
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            456679999999875    322    379999999999999974321         35999999875

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

Probab=95.81  E-value=0.0011  Score=64.56  Aligned_cols=49  Identities=22%  Similarity=0.411  Sum_probs=38.1

Q ss_pred             CCCcccccccccCCC----ceE----cccCchhhHhhhhhccCC-----------CCCCCCCccCCCC
Q 043080          206 VDDLSCAACKKMLFK----PVV----LNCGHVFCELCLFVPEDG-----------NFKCPNCQSLQPY  254 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~----pv~----l~CgH~fC~~Cl~~~~~~-----------~~~CP~Cr~~~~~  254 (458)
                      .....|+||...+..    |..    ..|||.|+..||.+|++.           ...||.||.++..
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            356679999998875    322    379999999999999862           1469999997753

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

Probab=95.64  E-value=0.008  Score=56.16  Aligned_cols=50  Identities=28%  Similarity=0.527  Sum_probs=42.0

Q ss_pred             CCCccccccccccCcEEcc-CCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKPVVLA-CGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~~-CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ....|.||.+++..-+..+ |+|.|+..|+..|++..+...||.|+.....
T Consensus       179 ~i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             TCCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CCCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            3567999999998777754 9999999999999986666789999987653

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=95.21  E-value=0.0064  Score=48.70  Aligned_cols=32  Identities=19%  Similarity=0.392  Sum_probs=27.7

Q ss_pred             CCCcccccccc-ccCcEE--ccCCChhhHHhHHHH
Q 043080           18 DEFKCCVCLEL-LYKPVV--LACGHISCFWCVYNA   49 (458)
Q Consensus        18 ~~~~C~IC~~~-l~~Pv~--~~CgH~FC~~Ci~~~   49 (458)
                      +++.|+||.+. +.+|+.  +.|+|+||..|+..+
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHH
Confidence            46889999964 788888  999999999999873

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=95.14  E-value=0.0085  Score=65.91  Aligned_cols=68  Identities=7%  Similarity=-0.123  Sum_probs=61.8

Q ss_pred             CCCCcccccccccCCCceEcccC-chhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHHHHhhh
Q 043080          205 SVDDLSCAACKKMLFKPVVLNCG-HVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERFS  272 (458)
Q Consensus       205 ~~~~l~C~iC~~~~~~pv~l~Cg-H~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~~~  272 (458)
                      ..+++.|||-.+++.+||+++-| ++|=+..|.+|+.....||.-|.++....+.+|..|+..|+.+..
T Consensus       888 iP~~F~cPIs~~lM~DPVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~liPN~~Lk~~I~~w~~  956 (968)
T 3m62_A          888 VPDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDVTPNEELRQKILCFKK  956 (968)
T ss_dssp             SCGGGBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECHHHHHHHHHHHH
T ss_pred             CcHHhCCcchhhHHhCCeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCcccccccHHHHHHHHHHHH
Confidence            34689999999999999999998 699999999999888899999999988888999999999999954

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

Probab=93.92  E-value=0.036  Score=51.69  Aligned_cols=51  Identities=22%  Similarity=0.507  Sum_probs=41.2

Q ss_pred             CCcccccccccCCCceEc-ccCchhhHhhhhhccCC--CCCCCCCccCCCCCCc
Q 043080          207 DDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDG--NFKCPNCQSLQPYGLP  257 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~--~~~CP~Cr~~~~~~~~  257 (458)
                      ....|.+|.++...-+.- .|+|.|+..|+..|++.  ...||.|+...+...+
T Consensus       179 ~i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~~~  232 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIP  232 (238)
T ss_dssp             TCCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSCCC
T ss_pred             CCCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCC
Confidence            356799999999876655 59999999999999874  4599999998765433

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=93.20  E-value=0.044  Score=60.35  Aligned_cols=54  Identities=20%  Similarity=0.211  Sum_probs=47.2

Q ss_pred             hhhcCCCCCccccccccccCcEEccCC-ChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLACG-HISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~Cg-H~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ....+-++|.|||-++++.+||+++-| ++|-+..|.+|+..  ..+||.=|.++..
T Consensus       884 ~~~~iP~~F~cPIs~~lM~DPVilpsG~~TydR~~I~~wl~~--~~tdP~Tr~~L~~  938 (968)
T 3m62_A          884 EYGDVPDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLS--DSTDPFNRMPLKL  938 (968)
T ss_dssp             HHCCSCGGGBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTT--CCBCTTTCCBCCG
T ss_pred             cccCCcHHhCCcchhhHHhCCeEcCCCCEEECHHHHHHHHhc--CCCCCCCCCCCCc
Confidence            356778899999999999999999998 69999999999984  4579999988864

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=87.58  E-value=0.4  Score=47.19  Aligned_cols=52  Identities=17%  Similarity=0.411  Sum_probs=40.4

Q ss_pred             cCCCCCccccccccccCcEE-ccCCChhh--HHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           15 AFSDEFKCCVCLELLYKPVV-LACGHISC--FWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        15 ~l~~~~~C~IC~~~l~~Pv~-~~CgH~FC--~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      .+.-.+.|||-...+..|+. ..|.|.-|  ..-+.......+...||+|.+.+.
T Consensus       245 s~~vSL~CPlS~~ri~~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~  299 (371)
T 3i2d_A          245 STIMSLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIA  299 (371)
T ss_dssp             EEEEESBCTTTSSBCSSEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCC
T ss_pred             eeEEeecCCCccccccccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccC
Confidence            34557899999999999999 78999955  444555555567888999988774

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=86.46  E-value=0.17  Score=37.97  Aligned_cols=37  Identities=27%  Similarity=0.600  Sum_probs=30.1

Q ss_pred             CCCCccccccccccCcEEccC----CChhhHHhHHHHHhcC
Q 043080           17 SDEFKCCVCLELLYKPVVLAC----GHISCFWCVYNAMNSW   53 (458)
Q Consensus        17 ~~~~~C~IC~~~l~~Pv~~~C----gH~FC~~Ci~~~~~~~   53 (458)
                      ...+.|.+|.+-|.+--...|    +|.||+-|-..+++..
T Consensus        13 ~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~q   53 (93)
T 2cs3_A           13 SGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQ   53 (93)
T ss_dssp             CCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHHH
T ss_pred             CCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHhc
Confidence            457889999999997655544    6999999999888754

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=85.25  E-value=0.73  Score=45.17  Aligned_cols=51  Identities=20%  Similarity=0.337  Sum_probs=40.1

Q ss_pred             CCCCCccccccccccCcEE-ccCCChhh--HHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           16 FSDEFKCCVCLELLYKPVV-LACGHISC--FWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        16 l~~~~~C~IC~~~l~~Pv~-~~CgH~FC--~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +.-.+.||+-...+..|+. ..|.|.-|  ..-+.......+...||+|.+.+.
T Consensus       212 ~~vSL~CPlS~~ri~~P~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~  265 (360)
T 4fo9_A          212 LRVSLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAA  265 (360)
T ss_dssp             EEEESBCTTTCSBCSSEEEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCC
T ss_pred             eEEeeeCCCccceeccCCcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccC
Confidence            3457889999999999999 78999944  445555555567789999998875

>2ffw_A Midline-1; B-BOX, ring finger, zinc-finger, ligase; NMR {Homo sapiens}

Probab=83.23  E-value=0.69  Score=34.97  Aligned_cols=36  Identities=25%  Similarity=0.656  Sum_probs=25.6

Q ss_pred             ccccCCCCCCCCCCcceeccCCccccCCCcchhhhcC-CCC
Q 043080          321 GVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNN-PAK  360 (458)
Q Consensus       321 ~v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~-~~~  360 (458)
                      .+.||.|...+...+--.|+.|..++    |+.|... |..
T Consensus        30 ~v~C~~C~~~~~~~A~ksCl~C~~s~----C~~hl~~~H~~   66 (78)
T 2ffw_A           30 KVLCQFCDQDPAQDAVKTCVTCEVSY----CDECLKATHPN   66 (78)
T ss_dssp             CCBCSSCCSSSCCBCCEEETTTTEEE----CHHHHHHHSCC
T ss_pred             CccCCcCCCCCCCCCeeEccCccchh----hhhhhHhhcCC
Confidence            38999998544223344699997544    9999997 744

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=83.07  E-value=0.43  Score=46.92  Aligned_cols=63  Identities=19%  Similarity=0.381  Sum_probs=48.0

Q ss_pred             CcccccccccCCCceEc-ccCchhhHhh--hhhc--cCCCCCCCCCccCCCCCCchhhHHHHHHHHHh
Q 043080          208 DLSCAACKKMLFKPVVL-NCGHVFCELC--LFVP--EDGNFKCPNCQSLQPYGLPSVCLIIEHFLEER  270 (458)
Q Consensus       208 ~l~C~iC~~~~~~pv~l-~CgH~fC~~C--l~~~--~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~  270 (458)
                      .|.||+-...+..|+.- .|.|.-|-.-  +...  ......||+|.+.+....+.++..+..++...
T Consensus       249 SL~CPlS~~ri~~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~~dL~ID~~~~~IL~~~  316 (371)
T 3i2d_A          249 SLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALENLAISEFVDDILQNC  316 (371)
T ss_dssp             ESBCTTTSSBCSSEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCGGGEEEBHHHHHHHTTS
T ss_pred             eecCCCccccccccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCHHHeeEcHHHHHHHHhc
Confidence            58999999999999886 8999854432  1111  12678999999999888888888887777654

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=80.86  E-value=0.68  Score=45.37  Aligned_cols=63  Identities=21%  Similarity=0.352  Sum_probs=47.3

Q ss_pred             CCcccccccccCCCceEc-ccCchhhHhh--hhhcc--CCCCCCCCCccCCCCCCchhhHHHHHHHHH
Q 043080          207 DDLSCAACKKMLFKPVVL-NCGHVFCELC--LFVPE--DGNFKCPNCQSLQPYGLPSVCLIIEHFLEE  269 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l-~CgH~fC~~C--l~~~~--~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~  269 (458)
                      -.|.||+-...+..|+.- .|.|.-|-.-  +....  .....||+|.+.+....+.++..+..++..
T Consensus       214 vSL~CPlS~~ri~~P~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~~dL~ID~~~~~IL~~  281 (360)
T 4fo9_A          214 VSLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYESLILDGLFMEILND  281 (360)
T ss_dssp             EESBCTTTCSBCSSEEEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCGGGEEEBHHHHHHHTT
T ss_pred             EeeeCCCccceeccCCcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCHHHeEEcHHHHHHHHh
Confidence            357899999999999886 8999844332  11111  267899999999988788888887777654

---

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	458
d2fc7a1	69	g.44.1.6 (A:8-76) Zinc finger ZZ-type-containing p	7e-14
d2dipa1	85	g.44.1.6 (A:8-92) Zinc finger ZZ-type-containing p	4e-13
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	8e-09
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-05
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-08
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	9e-05
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	6e-08
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	0.001
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	6e-07
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-05
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	2e-06
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	0.004
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-05
d2c2la2	80	g.44.1.2 (A:225-304) STIP1 homology and U box-cont	5e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	5e-04
d1tota1	52	g.44.1.6 (A:1-52) CREB-binding protein, CBP {Mouse	5e-04
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	6e-04
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	0.001

>d2fc7a1 g.44.1.6 (A:8-76) Zinc finger ZZ-type-containing protein 3, ZZZ3 {Human (Homo sapiens) [TaxId: 9606]} Length = 69

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: ZZ domain
domain: Zinc finger ZZ-type-containing protein 3, ZZZ3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 63.9 bits (155), Expect = 7e-14
 Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 5/59 (8%)

Query: 318 IHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFE 376
            H G  CD CG+ PI G R+ C+DC   +  D C++C +            HK +H+ E
Sbjct: 11  QHVGFKCDNCGIEPIQGVRWHCQDCPPEMSLDFCDSCSDC-----LHETDIHKEDHQLE 64

>d2dipa1 g.44.1.6 (A:8-92) Zinc finger ZZ-type-containing protein 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: ZZ domain
domain: Zinc finger ZZ-type-containing protein 2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 62.3 bits (151), Expect = 4e-13
 Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 3/64 (4%)

Query: 319 HFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIM 378
           H G+ C+ C   PI G+ YKC +C+E   + LC+ C ++   +   F  + K   K+  +
Sbjct: 22  HLGIPCNNCKQFPIEGKCYKCTECIE---YHLCQECFDSYCHLSHTFTFREKRNQKWRSL 78

Query: 379 QPTS 382
           +  +
Sbjct: 79  EKRA 82

>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 = 50.3 bits (120), Expect = 8e-09
 Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN 66
            F     C +C  +L  PV  +C H+ C  C+   +     S CP CR P  
Sbjct: 18 AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKV-MGSYCPSCRYPCF 69

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.1 bits (96), Expect = 1e-05
 Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 1/45 (2%)

Query: 206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLF-VPEDGNFKCPNCQ 249
           V  +SC  C+ +L  PV  +C H+FC +C+    +     CP+C+
Sbjct: 21  VKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCR 65

>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 = 49.3 bits (117), Expect = 3e-08
 Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNS-WHESNCPVCRNPYNH 67
           A     +C +CLEL+ +PV   C HI C +C+   +N     S CP+C+N    
Sbjct: 16 NAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK 70

>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 = 39.3 bits (91), Expect = 9e-05
 Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 7/71 (9%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELC---LFVPEDGNFKCPNC-QSLQPYGLPSVCL- 261
             L C  C +++ +PV   C H+FC+ C   L   + G  +CP C   +    L      
Sbjct: 20  KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRF 79

Query: 262 --IIEHFLEER 270
             ++E  L+  
Sbjct: 80  SQLVEELLKII 90

>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 = 47.7 bits (113), Expect = 6e-08
 Identities = 15/55 (27%), Positives = 20/55 (36%), Gaps = 1/55 (1%)

Query: 17 SDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSI 71
          S    C +C E      +  CGH+ C  C+ +   S     CP CR        I
Sbjct: 21 STFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEG-QGCPFCRCEIKGTEPI 74

>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 = 35.4 bits (81), Expect = 0.001
 Identities = 12/43 (27%), Positives = 15/43 (34%), Gaps = 1/43 (2%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELCLF-VPEDGNFKCPNC 248
               C  C +      +  CGH+ C  CL    E     CP C
Sbjct: 22  TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 64

>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 = 44.1 bits (104), Expect = 6e-07
 Identities = 12/47 (25%), Positives = 17/47 (36%), Gaps = 5/47 (10%)

Query: 18 DEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNP 64
             +C  C      P +L C H  C  C+           CP+C+ P
Sbjct: 5  QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEA-----SGMQCPICQAP 46

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.6 bits (95), Expect = 1e-05
 Identities = 15/44 (34%), Positives = 19/44 (43%), Gaps = 3/44 (6%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQS 250
             L C  C+     P +L C H  C  CL   E    +CP CQ+
Sbjct: 5   QFLRCQQCQAEAKCPKLLPCLHTLCSGCL---EASGMQCPICQA 45

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

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]

 Score = 43.5 bits (102), Expect = 2e-06
 Identities = 9/44 (20%), Positives = 22/44 (50%)

Query: 18 DEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVC 61
          + F+C + LEL+  PV+++ G       +   +++ H++     
Sbjct: 7  EYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQ 50

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

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]

 Score = 33.9 bits (77), Expect = 0.004
 Identities = 11/68 (16%), Positives = 28/68 (41%), Gaps = 5/68 (7%)

Query: 207 DDLSCAACKKMLFKPVVLNCGHVFCELCL--FVPEDGNFKCPNCQSLQPYGL-PSVCL-- 261
           +   C    +++  PV+++ G  +    +  ++         + ++L   GL P+  L  
Sbjct: 7   EYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKS 66

Query: 262 IIEHFLEE 269
           +I  + E 
Sbjct: 67  LIALWCES 74

>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 = 41.1 bits (96), Expect = 1e-05
 Identities = 15/54 (27%), Positives = 24/54 (44%), Gaps = 6/54 (11%)

Query: 21 KCCVCLELLYKPVV-LACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICH 73
          +C +CLE      + L C H  C+ C+   +       CP+C+ P     S+ H
Sbjct: 7  RCPICLEDPSNYSMALPCLHAFCYVCITRWIR--QNPTCPLCKVP---VESVVH 55

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 80

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]

 Score = 39.5 bits (91), Expect = 5e-05
 Identities = 6/58 (10%), Positives = 13/58 (22%)

Query: 18 DEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFPSICHLL 75
          D     +  EL+ +P +   G       +   +      N                 +
Sbjct: 6  DYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAM 63

>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 = 37.1 bits (85), Expect = 5e-04
 Identities = 17/55 (30%), Positives = 23/55 (41%), Gaps = 5/55 (9%)

Query: 14 EAFSDEFKCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPYNH 67
          +      +C  C  +L +PV L  C HI C  CV    +    + CPVC  P   
Sbjct: 17 DRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCV----SDCIGTGCPVCYTPAWI 67

>d1tota1 g.44.1.6 (A:1-52) CREB-binding protein, CBP {Mouse (Mus musculus) [TaxId: 10090]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: ZZ domain
domain: CREB-binding protein, CBP
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.0 bits (83), Expect = 5e-04
 Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 5/34 (14%)

Query: 324 CDYCGMSPIIGERYKCKDCVESIGFDLCEACHNN 357
           C+ C     +  R+ C  C +   +DLC  C+N 
Sbjct: 9   CNECKH--HVETRWHCTVCED---YDLCINCYNT 37

>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 = 35.6 bits (82), Expect = 6e-04
 Identities = 18/54 (33%), Positives = 22/54 (40%), Gaps = 6/54 (11%)

Query: 15 AFSDEFKCCVCLELLYKP----VVLACGHISCFWCVYNAMNSWHESNCPVCRNP 64
          A  D  +C VCL  L        +  CGH     CV   + S   S CP+CR  
Sbjct: 1  AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS--HSTCPLCRLT 52

>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 = 35.1 bits (80), Expect = 0.001
 Identities = 16/52 (30%), Positives = 19/52 (36%), Gaps = 6/52 (11%)

Query: 18 DEFKCCVCLELLYKP-----VVLACGHISCFWCVYNAMNSWHESNCPVCRNP 64
          D+  C  C    Y+      +V  CGH  C  CV          NCP C  P
Sbjct: 2  DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGA-GNCPECGTP 52

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	458
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.37
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.36
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.28
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.27
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.27
d2fc7a1	69	Zinc finger ZZ-type-containing protein 3, ZZZ3 {Hu	99.25
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.25
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.24
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.22
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.19
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.17
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.14
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.1
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.05
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.04
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.01
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.01
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.0
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.98
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.97
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.94
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.88
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.87
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.87
d2dipa1	85	Zinc finger ZZ-type-containing protein 2 {Human (H	98.86
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.85
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.78
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.74
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.6
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.5
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.44
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.33
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.28
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.14
d1tota1	52	CREB-binding protein, CBP {Mouse (Mus musculus) [T	98.05
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.67
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.66
d2djaa1	71	Midline-2 {Human (Homo sapiens) [TaxId: 9606]}	88.36
d2d8ua1	51	Ubiquitin ligase trim63 {Human (Homo sapiens) [Tax	87.28
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	86.16
d1v5na_	89	Pdi-like hypothetical protein At1g60420 {Thale cre	82.89
d2dq5a1	47	Midline-1 {Human (Homo sapiens) [TaxId: 9606]}	82.01

>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=99.37  E-value=7.7e-14  Score=107.44  Aligned_cols=66  Identities=11%  Similarity=0.014  Sum_probs=59.9

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccC-CCCCCCCCccCCCCCCchhhHHHHHHHHHhh
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED-GNFKCPNCQSLQPYGLPSVCLIIEHFLEERF  271 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~~  271 (458)
                      .++|.||||+++|.+||+++|||+||+.||..|+. ....||.|+..+....+.+|..|+++++.|.
T Consensus         5 P~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~pN~~L~~~I~~~l   71 (80)
T d2c2la2           5 PDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVIDAFI   71 (80)
T ss_dssp             CSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHHHHH
T ss_pred             CccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCCccCCCccccccccccccHHHHHHHHHHHH
Confidence            36899999999999999999999999999999986 5678999999988777888999999999874

>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=99.36  E-value=1.1e-13  Score=106.13  Aligned_cols=66  Identities=14%  Similarity=0.260  Sum_probs=60.2

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccC-CCCCCCCCccCCCCCCchhhHHHHHHHHHhh
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED-GNFKCPNCQSLQPYGLPSVCLIIEHFLEERF  271 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~~  271 (458)
                      .++|.||||+++|.+||+++|||+||+.||..|+. ....||.|+..+....+.+|..|+++|+.|.
T Consensus         6 P~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~pN~~L~~~I~~~~   72 (78)
T d1t1ha_           6 PEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSLIALWC   72 (78)
T ss_dssp             SSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHHHHHHH
T ss_pred             CccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCCCCCCcccccCCcccccchHHHHHHHHHHH
Confidence            36899999999999999999999999999999987 4567999999998888889999999999884

>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=99.28  E-value=1e-12  Score=100.92  Aligned_cols=52  Identities=17%  Similarity=0.210  Sum_probs=46.3

Q ss_pred             cCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           15 AFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        15 ~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ++.++|.||||+++|.+||+++|||+||+.||..|+.. +...||.||..+..
T Consensus         3 eiP~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~-~~~~cP~c~~~l~~   54 (80)
T d2c2la2           3 DIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQR-VGHFNPVTRSPLTQ   54 (80)
T ss_dssp             CCCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHH-TCSSCTTTCCCCCG
T ss_pred             CCCccccCcCcCchhhhhcccCCcCeecHHHHHHHHhc-CCccCCCccccccc
Confidence            46689999999999999999999999999999999875 44579999998863

>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=99.27  E-value=4.7e-13  Score=103.76  Aligned_cols=52  Identities=31%  Similarity=0.761  Sum_probs=45.3

Q ss_pred             hcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           14 EAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        14 ~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +.+.+.+.|+||++++.+||+++|||+||+.||..|++. +...||+||.++.
T Consensus        18 ~d~~~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~-~~~~CP~Cr~p~~   69 (86)
T d1rmda2          18 AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKV-MGSYCPSCRYPCF   69 (86)
T ss_dssp             HHHHHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHH-TCSBCTTTCCBCC
T ss_pred             hhhccCcCCccCCcchhcceecCCCChhhHHHHHHHHhh-CCCcCcccCCCCC
Confidence            444567899999999999999999999999999999974 4457999999875

>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=99.27  E-value=4.6e-13  Score=108.17  Aligned_cols=65  Identities=25%  Similarity=0.591  Sum_probs=56.0

Q ss_pred             CCCcccccccccCCCceEcccCchhhHhhhhhccC---CCCCCCCCccCCCCCCchhhHHHHHHHHHh
Q 043080          206 VDDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED---GNFKCPNCQSLQPYGLPSVCLIIEHFLEER  270 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~---~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~  270 (458)
                      .+.|.||||+++|.+|++++|||+||..||..|+.   ....||+||..+....+..|..+.++++.+
T Consensus        19 ~~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~~ve~l   86 (103)
T d1jm7a_          19 QKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFSQLVEEL   86 (103)
T ss_dssp             HHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCCSSSHHHHHH
T ss_pred             ccCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhCCcCHHHHHHHHHH
Confidence            35688999999999999999999999999999875   346899999999877777787777777766

>d2fc7a1 g.44.1.6 (A:8-76) Zinc finger ZZ-type-containing protein 3, ZZZ3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: ZZ domain
domain: Zinc finger ZZ-type-containing protein 3, ZZZ3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.25  E-value=2.4e-12  Score=95.27  Aligned_cols=62  Identities=34%  Similarity=0.841  Sum_probs=53.6

Q ss_pred             CCCCccccccccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEcC
Q 043080          313 GNGPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQ  379 (458)
Q Consensus       313 ~~~~~~h~~v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~~  379 (458)
                      ......|.++.||.|...||.|.||+|.+|++..+||||..|+.....     ++.|...|+|..|.
T Consensus         6 ~~~~v~H~~~~Cd~C~~~pi~G~R~~C~~Cp~~~d~DLC~~C~~~~~~-----~~~H~~~H~~~~I~   67 (69)
T d2fc7a1           6 ESGFVQHVGFKCDNCGIEPIQGVRWHCQDCPPEMSLDFCDSCSDCLHE-----TDIHKEDHQLEPIY   67 (69)
T ss_dssp             STTSCEESSCCCSSSCCSSEESCEEEESSSCSSSCCEEEGGGTTCCCC-----CSSCCSSSCEEEEC
T ss_pred             cCCCceECCeEcCCCCCcCcCCcccCCCCCCCCCCccchHHhhcCccc-----CCCCCCCCCEEEee
Confidence            455678999999999999999999999999766699999999988643     34799999999874

>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=99.25  E-value=5.7e-13  Score=107.58  Aligned_cols=55  Identities=35%  Similarity=0.809  Sum_probs=47.9

Q ss_pred             hhhcCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCC-CCCCCCCCCCCC
Q 043080           12 DKEAFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWH-ESNCPVCRNPYN   66 (458)
Q Consensus        12 ~~~~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~-~~~CP~Cr~~~~   66 (458)
                      .+..+++.+.|+||+++|.+|++++|||+||+.||..|+.... ...||+||..+.
T Consensus        14 ~~~~l~~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   69 (103)
T d1jm7a_          14 VINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT   69 (103)
T ss_dssp             HHHHHHHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC
T ss_pred             HHHhcccCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCC
Confidence            3566677899999999999999999999999999999997543 467999999885

>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=99.24  E-value=3.8e-12  Score=97.20  Aligned_cols=52  Identities=23%  Similarity=0.521  Sum_probs=46.3

Q ss_pred             cCCCCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           15 AFSDEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        15 ~l~~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ++.++|.|+||+++|.+||+++|||+||+.||..|+.. +...||.|+..+..
T Consensus         4 eiP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~-~~~~cP~~~~~l~~   55 (78)
T d1t1ha_           4 EFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDA-GHKTCPKSQETLLH   55 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTT-TCCBCTTTCCBCSS
T ss_pred             CCCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHH-CCCCCCcccccCCc
Confidence            46789999999999999999999999999999999874 44579999998864

>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=99.22  E-value=3.1e-12  Score=102.01  Aligned_cols=63  Identities=24%  Similarity=0.494  Sum_probs=56.1

Q ss_pred             CCCcccccccccCCCceEc-ccCchhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHHHHh
Q 043080          206 VDDLSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEER  270 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~  270 (458)
                      .+.++|+||+++|.+||++ +|||+||..||.+|+.  ..||.||..+....+.+|..|.++++.+
T Consensus        20 ~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~l~~n~~l~~lv~~~   83 (97)
T d1jm7b_          20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLKINRQLDSMIQLC   83 (97)
T ss_dssp             HHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCCCCHHHHHHHHHH
T ss_pred             hhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHh--ccccccCCcCchhhCcccHHHHHHHHHH
Confidence            4578999999999999987 8999999999999975  4599999998887888899999998876

>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=99.19  E-value=2e-12  Score=100.10  Aligned_cols=49  Identities=29%  Similarity=0.697  Sum_probs=43.6

Q ss_pred             CCcccccccccCCCceEcccCchhhHhhhhhccC-CCCCCCCCccCCCCC
Q 043080          207 DDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED-GNFKCPNCQSLQPYG  255 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~~  255 (458)
                      +.+.|+||++.+.+|++++|||+||..||..|++ +...||+||.++...
T Consensus        22 ~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~   71 (86)
T d1rmda2          22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (86)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cCcCCccCCcchhcceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChh
Confidence            4578999999999999999999999999999986 566899999987643

>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=99.17  E-value=8.1e-12  Score=95.48  Aligned_cols=51  Identities=25%  Similarity=0.505  Sum_probs=43.9

Q ss_pred             CCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNHFP   69 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~   69 (458)
                      ....|+||++.+.+|++++|||+||..||..|+.. +...||+||..+....
T Consensus        22 ~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~-~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          22 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQES-EGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             CTTBCTTTSSSBCCEECSSSCCEECHHHHHHHHHT-TCCSCTTTCCCCCCCC
T ss_pred             CCCCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHH-CcCcCCCCCcCccCCc
Confidence            34569999999999999999999999999999874 4457999999997544

>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=99.14  E-value=1.4e-11  Score=98.03  Aligned_cols=65  Identities=11%  Similarity=0.019  Sum_probs=60.0

Q ss_pred             CCcccccccccCCCceEcccC-chhhHhhhhhccCCCCCCCCCccCCCCCCchhhHHHHHHHHHhh
Q 043080          207 DDLSCAACKKMLFKPVVLNCG-HVFCELCLFVPEDGNFKCPNCQSLQPYGLPSVCLIIEHFLEERF  271 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l~Cg-H~fC~~Cl~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~l~~~~~  271 (458)
                      ++|.||||+.+|.+||+++|| |+||+.||..|+.....||+|+.++....+..|..|++.|+.|.
T Consensus        21 ~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~pN~~Lr~~I~~~~   86 (98)
T d1wgma_          21 DEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKEKIQRWL   86 (98)
T ss_dssp             TTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHHHHHHHHH
T ss_pred             HHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhcCCcccccccccchhhcchHHHHHHHHHHH
Confidence            579999999999999999876 58999999999998889999999998888999999999999883

>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=99.10  E-value=6.1e-12  Score=100.25  Aligned_cols=54  Identities=33%  Similarity=0.757  Sum_probs=46.3

Q ss_pred             hhhhhcCCCCCccccccccccCcEEc-cCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           10 LADKEAFSDEFKCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        10 ~~~~~~l~~~~~C~IC~~~l~~Pv~~-~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ...++.+.+.+.|+||+++|.+||++ +|||+||+.||.+|+.    ..||.||..+..
T Consensus        13 ~~~l~~l~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~----~~CP~Cr~~~~~   67 (97)
T d1jm7b_          13 RAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG----TGCPVCYTPAWI   67 (97)
T ss_dssp             HHHHHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT----TBCSSSCCBCSC
T ss_pred             HHHHHhhhhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHh----ccccccCCcCch
Confidence            34567888899999999999999985 8999999999999875    259999988753

>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=99.05  E-value=1.7e-11  Score=87.22  Aligned_cols=46  Identities=15%  Similarity=0.196  Sum_probs=40.8

Q ss_pred             CccccccccccCcEEc-cCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           20 FKCCVCLELLYKPVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        20 ~~C~IC~~~l~~Pv~~-~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      +.|+||++++.+||.+ .|||+||+.||.+|+...  ..||+||.++..
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~--~~CP~c~~~l~~   47 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDT--GNDPITNEPLSI   47 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHH--SBCTTTCCBCCG
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhc--cCCCccCCcCCH
Confidence            5799999999999987 699999999999999964  479999998763

>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=99.04  E-value=2.4e-11  Score=86.10  Aligned_cols=46  Identities=35%  Similarity=0.755  Sum_probs=40.7

Q ss_pred             CCcccccccccCCCceEcccCchhhHhhhhhccCCCCCCCCCccCCCCC
Q 043080          207 DDLSCAACKKMLFKPVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQPYG  255 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~  255 (458)
                      +.+.|+||++.+.+|++++|||+||..|+.++   ...||+||..+...
T Consensus         5 ~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             CCCCCcccCcccCCCEEecCCCHHhHHHHHcC---CCcCcCCCCcccCC
Confidence            45799999999999999999999999999764   67899999988653

>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=99.01  E-value=2.1e-11  Score=86.41  Aligned_cols=45  Identities=27%  Similarity=0.665  Sum_probs=39.4

Q ss_pred             CCCccccccccccCcEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKPVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      +.+.|+||++.+.+|++++|||+||..||.+     ....||+||..+..
T Consensus         5 ~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~-----~~~~CP~Cr~~~~~   49 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEA-----SGMQCPICQAPWPL   49 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCCSBTTTCSS-----SSSSCSSCCSSSSC
T ss_pred             CCCCCcccCcccCCCEEecCCCHHhHHHHHc-----CCCcCcCCCCcccC
Confidence            4578999999999999999999999999864     34579999999864

>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=99.01  E-value=7e-11  Score=90.13  Aligned_cols=49  Identities=22%  Similarity=0.439  Sum_probs=43.4

Q ss_pred             CCcccccccccCCCceEcccCchhhHhhhhhccC-CCCCCCCCccCCCCC
Q 043080          207 DDLSCAACKKMLFKPVVLNCGHVFCELCLFVPED-GNFKCPNCQSLQPYG  255 (458)
Q Consensus       207 ~~l~C~iC~~~~~~pv~l~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~~  255 (458)
                      ....|+||++.+.+|++++|||.||..|+..|+. +...||+||..+...
T Consensus        22 ~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~   71 (79)
T d1fbva4          22 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT   71 (79)
T ss_dssp             CTTBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCC
T ss_pred             CCCCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCC
Confidence            4457999999999999999999999999999986 567899999988653

>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=99.00  E-value=1.8e-11  Score=87.09  Aligned_cols=47  Identities=17%  Similarity=0.123  Sum_probs=42.8

Q ss_pred             cccccccccCCCceEc-ccCchhhHhhhhhccCCCCCCCCCccCCCCC
Q 043080          209 LSCAACKKMLFKPVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQPYG  255 (458)
Q Consensus       209 l~C~iC~~~~~~pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~~~  255 (458)
                      |.|+||++.+.+||.+ .|||+||..||.+|+.....||+||.++...
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~   48 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   48 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHH
Confidence            5799999999999988 6999999999999999888999999987654

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=98.98  E-value=6e-11  Score=87.86  Aligned_cols=45  Identities=29%  Similarity=0.754  Sum_probs=39.4

Q ss_pred             CccccccccccCcEE-ccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           20 FKCCVCLELLYKPVV-LACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        20 ~~C~IC~~~l~~Pv~-~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      -.|+||++.+.++++ ++|||+||..||.+|+..  ..+||+||..+.
T Consensus         6 d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~--~~~CP~CR~~i~   51 (68)
T d1chca_           6 ERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQ--NPTCPLCKVPVE   51 (68)
T ss_dssp             CCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHH--SCSTTTTCCCCC
T ss_pred             CCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHh--CCcCCCCCcchH
Confidence            359999999988766 899999999999999985  457999999875

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.97  E-value=1.1e-10  Score=85.45  Aligned_cols=49  Identities=33%  Similarity=0.671  Sum_probs=39.0

Q ss_pred             CCCccccccccccC-----cEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYK-----PVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        18 ~~~~C~IC~~~l~~-----Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ++..||||++.+..     .+.++|||+||..||..|+.. +...||+||+.+..
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~-~~~~CP~CR~~i~~   55 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR-GAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHT-TSSSCTTTCCCCSS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCc-CcCCCCCCCcCccc
Confidence            46789999987542     245799999999999999964 34579999998853

>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=98.94  E-value=3.6e-10  Score=89.72  Aligned_cols=53  Identities=23%  Similarity=0.224  Sum_probs=45.5

Q ss_pred             hhcCCCCCccccccccccCcEEccCC-ChhhHHhHHHHHhcCCCCCCCCCCCCCCC
Q 043080           13 KEAFSDEFKCCVCLELLYKPVVLACG-HISCFWCVYNAMNSWHESNCPVCRNPYNH   67 (458)
Q Consensus        13 ~~~l~~~~~C~IC~~~l~~Pv~~~Cg-H~FC~~Ci~~~~~~~~~~~CP~Cr~~~~~   67 (458)
                      ...+-++|.||||+++|.+||+++|| |+||+.||..|+..  ...||+||..+..
T Consensus        16 ~~~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~--~~~~P~~~~~l~~   69 (98)
T d1wgma_          16 YADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLS--DQTDPFNRSPLTM   69 (98)
T ss_dssp             CCSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTT--SCBCTTTCSBCCT
T ss_pred             hcCCcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHh--cCCcccccccccc
Confidence            35566799999999999999999876 58999999999974  4579999999864

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=98.88  E-value=3.2e-10  Score=79.96  Aligned_cols=48  Identities=38%  Similarity=0.666  Sum_probs=39.8

Q ss_pred             CCCCCccccccccccC---cEEc-cCCChhhHHhHHHHHhcCCCCCCCCCCCCC
Q 043080           16 FSDEFKCCVCLELLYK---PVVL-ACGHISCFWCVYNAMNSWHESNCPVCRNPY   65 (458)
Q Consensus        16 l~~~~~C~IC~~~l~~---Pv~~-~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~   65 (458)
                      +++...|+||++.|..   .+.+ .|||.||..||.+|++.  ...||+||..+
T Consensus         2 ~ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~--~~~CP~CR~~i   53 (55)
T d1iyma_           2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS--HSTCPLCRLTV   53 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT--CCSCSSSCCCS
T ss_pred             CCCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHh--CCcCCCCCCEe
Confidence            5677889999999974   3444 69999999999999984  55799999876

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.87  E-value=2.1e-10  Score=84.05  Aligned_cols=51  Identities=31%  Similarity=0.628  Sum_probs=40.4

Q ss_pred             CCcccccccccCC-C----ceEcccCchhhHhhhhhccC-CCCCCCCCccCCCCCCc
Q 043080          207 DDLSCAACKKMLF-K----PVVLNCGHVFCELCLFVPED-GNFKCPNCQSLQPYGLP  257 (458)
Q Consensus       207 ~~l~C~iC~~~~~-~----pv~l~CgH~fC~~Cl~~~~~-~~~~CP~Cr~~~~~~~~  257 (458)
                      ++..||||++.+. .    .++++|||.||..||..|+. ....||+||+.+....+
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~~   58 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccccc
Confidence            5678999998643 2    24559999999999999984 56689999998876544

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=98.87  E-value=2e-10  Score=84.90  Aligned_cols=44  Identities=27%  Similarity=0.535  Sum_probs=39.8

Q ss_pred             ccccccccCCCceE-cccCchhhHhhhhhccCCCCCCCCCccCCC
Q 043080          210 SCAACKKMLFKPVV-LNCGHVFCELCLFVPEDGNFKCPNCQSLQP  253 (458)
Q Consensus       210 ~C~iC~~~~~~pv~-l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~  253 (458)
                      .|+||++.+.++++ ++|||+||..|+.+|+.....||+||..+.
T Consensus         7 ~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           7 RCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            49999999988765 699999999999999998889999999764

>d2dipa1 g.44.1.6 (A:8-92) Zinc finger ZZ-type-containing protein 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: ZZ domain
domain: Zinc finger ZZ-type-containing protein 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.86  E-value=6.6e-10  Score=85.09  Aligned_cols=53  Identities=30%  Similarity=0.807  Sum_probs=43.7

Q ss_pred             CCccccccccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEcCC
Q 043080          315 GPKIHFGVGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQP  380 (458)
Q Consensus       315 ~~~~h~~v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~~~  380 (458)
                      ....|.++.||.|...||.|.||+|..|.   +||||..|+...          +++.|+|.....
T Consensus        18 ~~~~H~~v~Cd~C~~~~i~G~Ry~C~~C~---dyDLC~~C~~~~----------~h~~H~f~~~~~   70 (85)
T d2dipa1          18 RLDKHLGIPCNNCKQFPIEGKCYKCTECI---EYHLCQECFDSY----------CHLSHTFTFREK   70 (85)
T ss_dssp             CCSSCCCCCCSSSCCSSCCSCEEEESSSS---SCEEEHHHHHTT----------SGGGSCEEECCS
T ss_pred             ccCccCCeECCCCCCCCcCcceEEcCCCC---CccchHHHHCcC----------CCCCCCcceecC
Confidence            34479999999999999999999999999   999999999875          345666654433

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.85  E-value=4.7e-10  Score=78.20  Aligned_cols=46  Identities=30%  Similarity=0.717  Sum_probs=37.2

Q ss_pred             CccccccccccC----cEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           20 FKCCVCLELLYK----PVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        20 ~~C~IC~~~l~~----Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +.|+||++.|..    ++.++|||.||..||.+|+.. ....||+||+++.
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~-~~~~CP~CR~~~~   50 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTD-ENGLCPACRKPYP   50 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTT-SCCBCTTTCCBCS
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhh-cCCCCCccCCcCC
Confidence            469999998852    344689999999999999874 3457999999875

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=98.78  E-value=1.4e-09  Score=76.58  Aligned_cols=47  Identities=30%  Similarity=0.552  Sum_probs=40.3

Q ss_pred             CCCcccccccccCCC---ceEc-ccCchhhHhhhhhccCCCCCCCCCccCC
Q 043080          206 VDDLSCAACKKMLFK---PVVL-NCGHVFCELCLFVPEDGNFKCPNCQSLQ  252 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~---pv~l-~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~  252 (458)
                      ++...|+||++.|..   .+.+ .|||.||..|+.+|+.....||+||..+
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i   53 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEe
Confidence            456789999999874   3445 6999999999999999999999999865

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.74  E-value=1.6e-09  Score=75.46  Aligned_cols=46  Identities=26%  Similarity=0.567  Sum_probs=37.7

Q ss_pred             cccccccccCCC----ceEcccCchhhHhhhhhccCC-CCCCCCCccCCCC
Q 043080          209 LSCAACKKMLFK----PVVLNCGHVFCELCLFVPEDG-NFKCPNCQSLQPY  254 (458)
Q Consensus       209 l~C~iC~~~~~~----pv~l~CgH~fC~~Cl~~~~~~-~~~CP~Cr~~~~~  254 (458)
                      +.||||++.|..    ++.++|||.||..|+.+|+.. ...||+||+++..
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            469999998753    344599999999999999984 5679999998753

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.60  E-value=1.2e-08  Score=83.18  Aligned_cols=50  Identities=24%  Similarity=0.584  Sum_probs=39.6

Q ss_pred             CCCccccccccccCc------------------EEccCCChhhHHhHHHHHhcCC---CCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKP------------------VVLACGHISCFWCVYNAMNSWH---ESNCPVCRNPYNH   67 (458)
Q Consensus        18 ~~~~C~IC~~~l~~P------------------v~~~CgH~FC~~Ci~~~~~~~~---~~~CP~Cr~~~~~   67 (458)
                      .+..|+||++.|..+                  +.++|||.||..||..|+....   ..+||+||..+..
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhcc
Confidence            356799999987643                  3478999999999999998532   3579999988753

>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=98.50  E-value=2.4e-08  Score=71.49  Aligned_cols=49  Identities=24%  Similarity=0.385  Sum_probs=41.1

Q ss_pred             CCCccccccccccCcEEccC-----CChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           18 DEFKCCVCLELLYKPVVLAC-----GHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~~C-----gH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      +...|+||++.+.++...+|     +|.||..||..|+...+..+||+||+.+.
T Consensus         5 d~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           5 DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            45669999998887766554     59999999999998767788999999875

>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=98.44  E-value=4.3e-08  Score=75.86  Aligned_cols=45  Identities=18%  Similarity=0.513  Sum_probs=36.2

Q ss_pred             CccccccccccC------------------cEEccCCChhhHHhHHHHHhcCCCCCCCCCCCCCC
Q 043080           20 FKCCVCLELLYK------------------PVVLACGHISCFWCVYNAMNSWHESNCPVCRNPYN   66 (458)
Q Consensus        20 ~~C~IC~~~l~~------------------Pv~~~CgH~FC~~Ci~~~~~~~~~~~CP~Cr~~~~   66 (458)
                      -.|+||++.+..                  ++.++|||.||..||.+|+..  ..+||+||+++.
T Consensus        22 d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~~~   84 (88)
T d3dplr1          22 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT--RQVCPLDNREWE   84 (88)
T ss_dssp             CCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT--CSBCSSSCSBCC
T ss_pred             CcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHH--CCcCCCCCCccc
Confidence            349999876653                  244789999999999999985  457999999875

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.33  E-value=9.2e-08  Score=77.68  Aligned_cols=47  Identities=28%  Similarity=0.683  Sum_probs=37.5

Q ss_pred             CcccccccccCCCc------------------eEcccCchhhHhhhhhccC-----CCCCCCCCccCCCC
Q 043080          208 DLSCAACKKMLFKP------------------VVLNCGHVFCELCLFVPED-----GNFKCPNCQSLQPY  254 (458)
Q Consensus       208 ~l~C~iC~~~~~~p------------------v~l~CgH~fC~~Cl~~~~~-----~~~~CP~Cr~~~~~  254 (458)
                      +-.|+||++.|..+                  ++++|||.||..||..|+.     ....||+||..+..
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhcc
Confidence            45699999987543                  3469999999999999986     24589999987743

>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=98.28  E-value=1.8e-07  Score=72.31  Aligned_cols=44  Identities=20%  Similarity=0.335  Sum_probs=36.4

Q ss_pred             ccccccccCCC------------------ceEcccCchhhHhhhhhccCCCCCCCCCccCCC
Q 043080          210 SCAACKKMLFK------------------PVVLNCGHVFCELCLFVPEDGNFKCPNCQSLQP  253 (458)
Q Consensus       210 ~C~iC~~~~~~------------------pv~l~CgH~fC~~Cl~~~~~~~~~CP~Cr~~~~  253 (458)
                      .|+||+..+..                  ++.++|||.||..||.+|++....||+||+.+.
T Consensus        23 ~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          23 NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             CCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             cCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            48888766543                  245699999999999999999999999999764

>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=98.14  E-value=3.5e-07  Score=65.17  Aligned_cols=49  Identities=20%  Similarity=0.224  Sum_probs=40.5

Q ss_pred             CCCcccccccccCCCceEccc-----CchhhHhhhhhccC--CCCCCCCCccCCCC
Q 043080          206 VDDLSCAACKKMLFKPVVLNC-----GHVFCELCLFVPED--GNFKCPNCQSLQPY  254 (458)
Q Consensus       206 ~~~l~C~iC~~~~~~pv~l~C-----gH~fC~~Cl~~~~~--~~~~CP~Cr~~~~~  254 (458)
                      ++...|+||++.+.++...+|     +|.||..||..|+.  +...||+||+.+..
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            356789999998888766655     59999999999985  56789999998753

>d1tota1 g.44.1.6 (A:1-52) CREB-binding protein, CBP {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: ZZ domain
domain: CREB-binding protein, CBP
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.05  E-value=3.9e-07  Score=62.31  Aligned_cols=43  Identities=30%  Similarity=0.710  Sum_probs=35.1

Q ss_pred             cccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEcCC
Q 043080          322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQP  380 (458)
Q Consensus       322 v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~~~  380 (458)
                      ..||.|... | |.||+|.+|.   +||||..|+..+         .|  .|+|+.+..
T Consensus         7 ~tCd~C~~~-i-~~Ry~C~~C~---DfDLC~~C~~~~---------~H--~H~m~k~~~   49 (52)
T d1tota1           7 YTCNECKHH-V-ETRWHCTVCE---DYDLCINCYNTK---------SH--THKMVKWGL   49 (52)
T ss_dssp             EEETTTTEE-E-SSEEEESSSS---SCEECHHHHHHH---------CC--CSSEEEECS
T ss_pred             EECcCCCCc-C-CCceECCCCC---CcccHHHHhcCC---------Cc--CCCeEEecC
Confidence            679999853 3 7899999999   999999999875         35  488888654

>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=97.67  E-value=8.8e-06  Score=63.12  Aligned_cols=43  Identities=23%  Similarity=0.595  Sum_probs=33.0

Q ss_pred             CcccccccccCCC---ceEcccCchhhHhhhhhccC--------CCCCCCCCcc
Q 043080          208 DLSCAACKKMLFK---PVVLNCGHVFCELCLFVPED--------GNFKCPNCQS  250 (458)
Q Consensus       208 ~l~C~iC~~~~~~---pv~l~CgH~fC~~Cl~~~~~--------~~~~CP~Cr~  250 (458)
                      ...|+||++.+..   ++.++|||.||..|+..|+.        ....||.|+-
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            4569999988753   44558999999999998874        2347998754

>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=97.66  E-value=1.2e-05  Score=62.28  Aligned_cols=46  Identities=22%  Similarity=0.482  Sum_probs=34.3

Q ss_pred             CCcccccccccc--C-cEEccCCChhhHHhHHHHHhcC----C--CCCCCCCCCC
Q 043080           19 EFKCCVCLELLY--K-PVVLACGHISCFWCVYNAMNSW----H--ESNCPVCRNP   64 (458)
Q Consensus        19 ~~~C~IC~~~l~--~-Pv~~~CgH~FC~~Ci~~~~~~~----~--~~~CP~Cr~~   64 (458)
                      ...|+||++.+.  + ++.++|||.||..||..|+...    .  ..+||.|+..
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   59 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP   59 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCS
T ss_pred             CCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCCC
Confidence            456999999874  3 4457899999999999998732    1  2369987543

>d2djaa1 g.43.1.1 (A:8-78) Midline-2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: B-box zinc-binding domain
superfamily: B-box zinc-binding domain
family: B-box zinc-binding domain
domain: Midline-2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.36  E-value=0.16  Score=35.85  Aligned_cols=40  Identities=15%  Similarity=0.234  Sum_probs=27.8

Q ss_pred             CCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEcCC
Q 043080          327 CGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQP  380 (458)
Q Consensus       327 C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~~~  380 (458)
                      |...+.....|+|.+|...+    |..|...+          +|.+|.+..+..
T Consensus        14 C~~H~~e~l~~fC~~C~~~i----C~~C~~~~----------~Hk~H~~~~i~~   53 (71)
T d2djaa1          14 CLDHENEKVNMYCVSDDQLI----CALCKLVG----------RHRDHQVASLND   53 (71)
T ss_dssp             CSSCSSSCCCEEETTTTEEE----CHHHHHTS----------TTTTCCBCCCCS
T ss_pred             CcccCCccceeEcCCCCcee----ccccccCC----------CCCCCcCcCHHH
Confidence            43333334579999997665    99998764          446788877655

>d2d8ua1 g.43.1.1 (A:8-58) Ubiquitin ligase trim63 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: B-box zinc-binding domain
superfamily: B-box zinc-binding domain
family: B-box zinc-binding domain
domain: Ubiquitin ligase trim63
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.28  E-value=0.23  Score=32.63  Aligned_cols=41  Identities=15%  Similarity=0.238  Sum_probs=28.7

Q ss_pred             CCCCCCCCcceeccCCccccCCCcchhhhcCCCCCCCCCCCCCCCCCcceEcCCC
Q 043080          327 CGMSPIIGERYKCKDCVESIGFDLCEACHNNPAKVPGRFNQQHKPEHKFEIMQPT  381 (458)
Q Consensus       327 C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~~~gr~~~~h~~~H~~~~~~~~  381 (458)
                      |...+....+|+|.+|...|    |..|...+          .+.+|.+..+...
T Consensus         4 C~~H~~e~l~~yC~~c~~~i----C~~C~~~~----------~Hk~H~v~~l~~a   44 (51)
T d2d8ua1           4 CKEHEDEKINIYCLTCEVPT----CSMCKVFG----------IHKACEVAPLQSV   44 (51)
T ss_dssp             CSSCTTCCCCSEESSSCCCC----CSHHHHSS----------STTSSCEECTTTC
T ss_pred             CcccCcCcceEEcCCCCceE----CccccCcC----------CcCcCcCcCHHHH
Confidence            44444445678999997656    99997664          3367888887653

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.16  E-value=0.092  Score=36.65  Aligned_cols=36  Identities=25%  Similarity=0.597  Sum_probs=29.3

Q ss_pred             CCCccccccccccCcEEccC----CChhhHHhHHHHHhcC
Q 043080           18 DEFKCCVCLELLYKPVVLAC----GHISCFWCVYNAMNSW   53 (458)
Q Consensus        18 ~~~~C~IC~~~l~~Pv~~~C----gH~FC~~Ci~~~~~~~   53 (458)
                      ..+.|.+|.+-|.+--...|    +|.||+-|-..+++.+
T Consensus         7 ~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~q   46 (80)
T d2cs3a1           7 GPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQ   46 (80)
T ss_dssp             CSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHHH
T ss_pred             CceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHhc
Confidence            45889999999998755555    7999999999888754

>d1v5na_ g.49.1.3 (A:) Pdi-like hypothetical protein At1g60420 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: Cysteine-rich domain
superfamily: Cysteine-rich domain
family: C1-like domain
domain: Pdi-like hypothetical protein At1g60420
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=82.89  E-value=0.64  Score=34.27  Aligned_cols=34  Identities=32%  Similarity=0.643  Sum_probs=28.9

Q ss_pred             cccCCCCCCCCCCcceeccCCccccCCCcchhhhcCCCC
Q 043080          322 VGCDYCGMSPIIGERYKCKDCVESIGFDLCEACHNNPAK  360 (458)
Q Consensus       322 v~Cd~C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~~~  360 (458)
                      ..|+.|+. ++.|..|+|..|    +|+|...|...-..
T Consensus        48 ~~C~~C~~-~~~g~~Y~C~~C----~f~LH~~CA~~P~~   81 (89)
T d1v5na_          48 YTCDKCEE-EGTIWSYHCDEC----DFDLHAKCALNEDT   81 (89)
T ss_dssp             CCCTTTSC-CCCSCEEECTTT----CCCCCHHHHHCSSC
T ss_pred             CEeCCCCC-CcCCcEeEeccC----CCEecHHHcCCCcc
Confidence            67999984 677889999999    79999999987543

>d2dq5a1 g.43.1.1 (A:168-214) Midline-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: B-box zinc-binding domain
superfamily: B-box zinc-binding domain
family: B-box zinc-binding domain
domain: Midline-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.01  E-value=0.36  Score=31.07  Aligned_cols=28  Identities=18%  Similarity=0.190  Sum_probs=20.0

Q ss_pred             CCCCCCCCcceeccCCccccCCCcchhhhcCC
Q 043080          327 CGMSPIIGERYKCKDCVESIGFDLCEACHNNP  358 (458)
Q Consensus       327 C~~~~i~g~~~~C~~C~~~i~~~lC~~C~~~~  358 (458)
                      |...+-...+|+|.+|...|    |..|...+
T Consensus         8 C~~H~~e~l~~yC~~C~~~i----C~~C~~~~   35 (47)
T d2dq5a1           8 CLEHEDEKVNMYCVTDDQLI----CALCKLVG   35 (47)
T ss_dssp             CSSCTTSBEEEEETTTTEEE----EHHHHHTS
T ss_pred             chhhCCCcceEEcCCCCccC----CccCcCcC
Confidence            44444344579999998766    99997654