Citrus Sinensis ID: 014723

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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-------42
Protein Sequence
MNLSVVYLLCVLLICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIPSFENSAWHRIRREAPRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSSSPASSSILSSIRSSLASSSALHIPPSMSHSPSVSHIHSVASTPYIPQSLRSYCQSPPISVSRSSLDLRHASSQRSHGSYIMSSHSIGYPSISPLNSRYMSPYLPSPSNASPSLVGSSSHQQHPLHYSESATSFSPFASAQSLPECECNI
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHcccEEEEEEEcccEEEEEccccccccccccccccEEEEEEccccccccccccccccccccccEEEEEEcccccHHHHHHHHHHccccEEEEEEcccccHHHHHcccccccEEEEEEEEcHHHHHHHHHcccccEEEEEEccccccccEEEEEEEcccccccccccccHHHHHHcccEEEEEEEccccccccccccccccccccEEEEEccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHHEEEEccccEEEcccccccccccccccccEEEEEcccccccccccccccccccccccEEEEEEcccccHHHHHHHHHHccccEEEEEEccccccEEEEcccccccEEEEEEEccccHHHHHHHHcccccEEEEEccHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHcccEEEcccccccccccEEEEEEcccccccEEEEEccccHHHHHcccHHHHHccccccHcHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEcc
Coil and Loop (DISEMBL)
MNLSVVYLLCVLLICRLASANVVlignnvtlsfddieanfapairgsgdcgvlyvaepldacsnLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGEKLkqyagstdmeiwiipsfensawhrirreaprasrgrefhGMSRRLVKAMPSLIFTAVVednctsrtcaicledysvgeklrilpcrhkFHAFCVDSWLtswrtfcpvckrdartstgeppasestpllssspassSILSSIRSSlasssalhippsmshspsvshihsvastpyipqslrsycqsppisvsrssldlrhassqrshgsyimsshsigypsisplnsrymspylpspsnaspslvgssshqqhplhysesatsfspfasaqslpececni
Flexible Loop (DISEMBL)
MNLSVVYLLCVLLICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIPSfensawhrirreaprasrgrefhgMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDartstgeppasestpllssspaSSSILSSIRSSLASSSALHIPPSMSHSPSVSHIHSVASTPYIPQSLRSYCQSPPISVSRSSLDLRHASSQRSHGSYIMSSHSIGYPSISPLNSRYMSPYLPSPSNASPSLVGSSSHQQHPLHYSESATSFSPFASAQSLPECECNI
Low Complexity Region (SEG)
MNLSVVYLLCVLLICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIPSFENSAWHRIRREAPRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEppasestpllssspasssilssirsslasssalhippsmshspsvshihsvasTPYIPQSLRSYCQSPPISVSRSSLDLRHASSQRSHGSYIMSSHSIGYPSISPLNSRYMSPYLPSPSNASPSLVGSSSHQQHPLHYSESATSFSPFASAQSLPECECNI
Disordered region (IsUnstruct)
***SVVYLLCVLLICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIPSFENSAWHRIR**************MSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCK**************************************************************************************************************************************************************************
Disordered Region (DISOPRED)
*NLSVVYLLCVLLICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVL*AMAGNSAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIPSFENSAWHRIRREAPRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA****************************************************************************************************************************************************************PECEC**
Disordered Region (DISEMBL)
MNLSVVYLLCVLLICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIPSFENSAWHRIRREAPRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKR*******************************************************IHSVASTPYIPQSLRSYCQ************************YIMSSHSIGYPSISPLNSRYMSPYLP***********************ESATSFSP**************
Disordered Region (DISPRO)
MNLSVVYLLCVLLICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIPSFENSAWHRIRREAPRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTG*********************************************************************************************************P*******P*LP*PSNASP****************************QSLPECECNI
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNLSVVYLLCVLLICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIPSFENSAWHRIRREAPRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSSSPASSSILSSIRSSLASSSALHIPPSMSHSPSVSHIHSVASTPYIPQSLRSYCQSPPISVSRSSLDLRHASSQRSHGSYIMSSHSIGYPSISPLNSRYMSPYLPSPSNASPSLVGSSSHQQHPLHYSESATSFSPFASAQSLPECECNI
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	419	2.2.26 [Sep-21-2011]
Q9H6Y7	350	E3 ubiquitin-protein liga	yes	no	0.587	0.702	0.304	4e-26
Q90972	381	E3 ubiquitin-protein liga	yes	no	0.560	0.616	0.318	2e-25
Q0VD51	380	E3 ubiquitin-protein liga	no	no	0.599	0.660	0.306	3e-25
Q66HG0	380	E3 ubiquitin-protein liga	yes	no	0.622	0.686	0.313	4e-25
Q5XIL0	349	E3 ubiquitin-protein liga	no	no	0.582	0.699	0.304	5e-25
O54965	381	E3 ubiquitin-protein liga	yes	no	0.613	0.674	0.314	7e-25
Q91XF4	347	E3 ubiquitin-protein liga	no	no	0.582	0.703	0.299	8e-25
Q5RCV8	381	E3 ubiquitin-protein liga	no	no	0.599	0.658	0.302	4e-24
O43567	381	E3 ubiquitin-protein liga	no	no	0.599	0.658	0.302	4e-24
Q4R6Y5	429	Zinc/RING finger protein	N/A	no	0.577	0.564	0.306	7e-19

>sp|Q9H6Y7|RN167_HUMAN E3 ubiquitin-protein ligase RNF167 OS=Homo sapiens GN=RNF167 PE=1 SV=1

 Score =  119 bits (298), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 92/302 (30%), Positives = 134/302 (44%), Gaps = 56/302 (18%)

Query: 27  NNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGG 86
           +N ++ F D+ A F   +   G  G L  A P +ACS +        N S    L  R  
Sbjct: 32  HNASMDFADLPALFGATLSQEGLQGFLVEAHPDNACSPIAPPPPAPVNGSVFIALLRRFD 91

Query: 87  CSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIK----IHAVFVSKASGEKLKQ 142
           C+F+ KV NAQKAG+ AA+V+ N +   L+ M  NS  I+    I +VF+ + S E L+ 
Sbjct: 92  CNFDLKVLNAQKAGYGAAVVH-NVNSNELLNMVWNSEEIQQQIWIPSVFIGERSSEYLRA 150

Query: 143 -YAGSTDMEIWIIP--SFENSAW--------------------HRIRREAPRASRGREFH 179
            +       + ++P  +F    +                     R  +   R  R R   
Sbjct: 151 LFVYEKGARVLLVPDNTFPLGYYLIPFTGIVGLLVLAMGAVMIARCIQHRKRLQRNR--- 207

Query: 180 GMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLT 239
            +++  +K +P    T   +       CAICL++Y  G+KLR+LPC H +H+ CVD WLT
Sbjct: 208 -LTKEQLKQIP----THDYQKGDQYDVCAICLDEYEDGDKLRVLPCAHAYHSRCVDPWLT 262

Query: 240 SWRTFCPVCKRDAR-----------------TSTGEP---PASESTPLLSSSPASSSILS 279
             R  CP+CK+                       GEP   PASE TPLL SSP   +   
Sbjct: 263 QTRKTCPICKQPVHRGPGDEDQEEETQGQEEGDEGEPRDHPASERTPLLGSSPTLPTSFG 322

Query: 280 SI 281
           S+
Sbjct: 323 SL 324

May act as an E3 ubiquitin-protein ligase, or as part of the E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes, such as UBE2E1, and then transfers it to substrates, such as SLC22A18. May play a role in growth regulation involved in G1/S transition.
Homo sapiens (taxid: 9606)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q90972|RNF13_CHICK E3 ubiquitin-protein ligase RNF13 OS=Gallus gallus GN=RNF13 PE=1 SV=1

 Score =  117 bits (293), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 88/276 (31%), Positives = 131/276 (47%), Gaps = 41/276 (14%)

Query: 28  NVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRG-G 86
           N T +FDD+ A F   +   G  G L  ++P +AC  +     +  N S+AF++ IR   
Sbjct: 43  NGTQTFDDLPARFGYRLPAEGLKGFLINSKPENACEPIAPPPLR-DNSSTAFIVLIRRLE 101

Query: 87  CSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNS----AGIKIHAVFVSKASGEKLKQ 142
           C+F+ KV NAQ+AG++AAIV+ N D   L++M  N       I I +VF+ +AS   LK+
Sbjct: 102 CNFDIKVLNAQRAGYKAAIVH-NVDSDDLISMGSNDIEILKKIDIPSVFIGEASANSLKE 160

Query: 143 -YAGSTDMEIWIIPSFENSAWHRIR------------------REAPRASRGREFHGMSR 183
            +       + +IP F     + +                    +  +       + + +
Sbjct: 161 EFTYEKGGHVVLIPEFSLPLEYYLIPFLIIVGICLILIVIFMITKFVQDRHRARRNRLRK 220

Query: 184 RLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRT 243
             +K +P   F    E +     CAICL++Y  G+KLRILPC H +H  CVD WLT  + 
Sbjct: 221 DQLKKLPVHKFKKGDEYD----VCAICLDEYEDGDKLRILPCSHAYHCKCVDPWLTKTKK 276

Query: 244 FCPVCKRDARTSTG-----------EPPASESTPLL 268
            CPVCK+    S G           E   SE+TPLL
Sbjct: 277 TCPVCKQKVVPSQGDSDSETDSSQEENEVSENTPLL 312

E3 ubiquitin-protein ligase. May play a role in controlling cell proliferation, including that of muscle cells.

Gallus gallus (taxid: 9031)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q0VD51|RNF13_BOVIN E3 ubiquitin-protein ligase RNF13 OS=Bos taurus GN=RNF13 PE=2 SV=1

 Score =  116 bits (291), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 90/294 (30%), Positives = 136/294 (46%), Gaps = 43/294 (14%)

Query: 28  NVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGC 87
           N + +FDD+ A F   +   G  G L  ++P +AC  +     + ++  +  VL  R  C
Sbjct: 43  NASQTFDDLPARFGYRLPAEGLKGFLINSKPENACEPIVPPPVRDNSSGTFIVLIRRLDC 102

Query: 88  SFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNS----AGIKIHAVFVSKASGEKLK-Q 142
           +F++KV NAQ+AG++AAIV+ N D   L++M  N       I I +VF+ ++S   LK +
Sbjct: 103 NFDEKVLNAQRAGYKAAIVH-NVDSDDLISMGSNDIEVLKKIDIPSVFIGESSANSLKDE 161

Query: 143 YAGSTDMEIWIIPSFENSAWHRIR------------------REAPRASRGREFHGMSRR 184
           +       I ++P F     + +                    +  +       + + + 
Sbjct: 162 FTYEKGGHIILVPEFSLPLEYYLIPFLIIVGICLILIVIFMITKFVQDRHRARRNRLRKD 221

Query: 185 LVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTF 244
            +K +P   F    E +     CAICL++Y  G+KLRILPC H +H  CVD WLT  +  
Sbjct: 222 QLKKLPVHKFKKGDEYD----VCAICLDEYEDGDKLRILPCSHAYHCKCVDPWLTKTKKT 277

Query: 245 CPVCKRDARTSTG-----------EPPASESTPLL----SSSPASSSILSSIRS 283
           CPVCK+    S G           E   SE TPLL    S+S  S   LS  RS
Sbjct: 278 CPVCKQKVVPSQGDSDSDTDSSQEENEVSEHTPLLRPLASASTQSFGALSESRS 331

E3 ubiquitin-protein ligase that may play a role in controlling cell proliferation.

Bos taurus (taxid: 9913)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q66HG0|RNF13_RAT E3 ubiquitin-protein ligase RNF13 OS=Rattus norvegicus GN=Rnf13 PE=2 SV=1

 Score =  116 bits (290), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 95/303 (31%), Positives = 141/303 (46%), Gaps = 42/303 (13%)

Query: 28  NVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGC 87
           N + +F+D+ A F   +   G  G L  ++P +AC  +     K ++  +  VL  R  C
Sbjct: 43  NASQTFEDLPARFGYRLPAEGLKGFLINSKPENACEPIVPPPLKDNSSGTFIVLIRRLDC 102

Query: 88  SFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGI----KIHAVFVSKASGEKLK-- 141
           +F+ KV NAQ+AG++AAIV+ N D   L++M  N   I     I +VF+ ++S   LK  
Sbjct: 103 NFDIKVLNAQRAGYKAAIVH-NVDSDDLISMGSNDIDILKKIDIPSVFIGESSANSLKDE 161

Query: 142 ---QYAG--------STDMEIWIIPSFENSAWHRIR------REAPRASRGREFHGMSRR 184
              +  G        S  +E ++IP         I        +  +       + + + 
Sbjct: 162 FTYEKGGHVILVPELSLPLEYYLIPFLIIVGICLILIVIFMITKFVQDRHRNRRNRLRKD 221

Query: 185 LVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTF 244
            +K +P   F    E +     CAICLE+Y  G+KLRILPC H +H  CVD WLT  +  
Sbjct: 222 QLKKLPVHKFKKGDEYD----VCAICLEEYEDGDKLRILPCSHAYHCKCVDPWLTKTKKT 277

Query: 245 CPVCKRDARTSTG-----------EPPASESTPLLSSSPASSSILSSIRSSLASSSALHI 293
           CPVCK+    S G           E   SE TPLL   P S+S  +    SL+ S + H+
Sbjct: 278 CPVCKQKVVPSQGDSDSDTDSSQEENQVSEHTPLL---PPSASARTQSFGSLSESHSHHM 334

Query: 294 PPS 296
             S
Sbjct: 335 TES 337

E3 ubiquitin-protein ligase that may play a role in controlling cell proliferation.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5XIL0|RN167_RAT E3 ubiquitin-protein ligase RNF167 OS=Rattus norvegicus GN=Rnf167 PE=2 SV=1

 Score =  115 bits (289), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 93/305 (30%), Positives = 134/305 (43%), Gaps = 61/305 (20%)

Query: 27  NNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGG 86
           +N ++ F D+ A F   +   G  G L  A P +ACS +        N S    L  R  
Sbjct: 32  HNASMDFADLPALFGATLSDEGLQGFLVEAHPENACSPIAPPPSAPVNGSVFIALLRRFD 91

Query: 87  CSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIK----IHAVFVSKASGEKLKQ 142
           C+F+ KV NAQKAG+ AA+V+ N +   L+ M  NS  I+    I +VF+ + S E L+ 
Sbjct: 92  CNFDLKVLNAQKAGYGAAVVH-NVNSNELLNMVWNSEEIQQQIWIPSVFIGERSAEYLRA 150

Query: 143 -YAGSTDMEIWIIPSFENSAWHRIRREAPRASRGREFHGMSRRLVKAMPSLIFTAVVE-- 199
            +       + ++P  +NS         P       F G+   LV AM +++    ++  
Sbjct: 151 LFVYEKGARVLLVP--DNSF--------PLGYYLIPFTGIVGLLVLAMGTVLIVRCIQHR 200

Query: 200 -----DNCTSR-----------------TCAICLEDYSVGEKLRILPCRHKFHAFCVDSW 237
                +  T                    CAICL++Y  G+KLRILPC H +H+ CVD W
Sbjct: 201 KRLQRNRLTKEQLKQIPTHDYQKGDEYDVCAICLDEYEDGDKLRILPCAHAYHSRCVDPW 260

Query: 238 LTSWRTFCPVCKRDARTSTG---------------------EPPASESTPLLSSSPASSS 276
           LT  R  CP+CK+      G                     + PASE TPLL SSP   +
Sbjct: 261 LTQTRKTCPICKQPVHRGPGDEEQEEETQGQEEEGDEGEPRDQPASEWTPLLGSSPTLPT 320

Query: 277 ILSSI 281
              S+
Sbjct: 321 SFGSL 325

May act as an E3 ubiquitin-protein ligase, or as part of the E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes, such as UBE2E1, and then transfers it to substrates, such as SLC22A18. May play a role in growth regulation involved in G1/S transition.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|O54965|RNF13_MOUSE E3 ubiquitin-protein ligase RNF13 OS=Mus musculus GN=Rnf13 PE=1 SV=2

 Score =  115 bits (288), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 94/299 (31%), Positives = 139/299 (46%), Gaps = 42/299 (14%)

Query: 28  NVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGC 87
           N + +F+D+ A F   +   G  G L  ++P +AC  +     K ++  +  VL  R  C
Sbjct: 43  NASQTFEDLPARFGYRLPAEGLKGFLINSKPENACEPIVPPPLKDNSSGTFIVLIRRLDC 102

Query: 88  SFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAG----IKIHAVFVSKASGEKLK-- 141
           +F+ KV NAQ+AG++AAIV+ N D   L++M  N       I I +VF+ ++S   LK  
Sbjct: 103 NFDIKVLNAQRAGYKAAIVH-NVDSDDLISMGSNDIDTLKKIDIPSVFIGESSANSLKDE 161

Query: 142 ---QYAG--------STDMEIWIIPSFENSAWHRIR------REAPRASRGREFHGMSRR 184
              +  G        S  +E ++IP         I        +  +       + + + 
Sbjct: 162 FTYEKGGHIILVPELSLPLEYYLIPFLIIVGICLILIVIFMITKFVQDRHRNRRNRLRKD 221

Query: 185 LVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTF 244
            +K +P   F    E +     CAICLE+Y  G+KLRILPC H +H  CVD WLT  +  
Sbjct: 222 QLKKLPVHKFKKGDEYD----VCAICLEEYEDGDKLRILPCSHAYHCKCVDPWLTKTKKT 277

Query: 245 CPVCKRDARTSTG-----------EPPASESTPLLSSSPASSSILSSIRSSLASSSALH 292
           CPVCK+    S G           E   SE TPLL   P S+S  +    SL+ S + H
Sbjct: 278 CPVCKQKVVPSQGDSDSDTDSSQEENQVSEHTPLL---PPSASARTQSFGSLSESHSHH 333

E3 ubiquitin-protein ligase that may play a role in controlling cell proliferation.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q91XF4|RN167_MOUSE E3 ubiquitin-protein ligase RNF167 OS=Mus musculus GN=Rnf167 PE=2 SV=1

 Score =  115 bits (287), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 91/304 (29%), Positives = 133/304 (43%), Gaps = 60/304 (19%)

Query: 27  NNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGG 86
           +N ++ F D+ A F   +   G  G L  A P +AC  +        N S    L  R  
Sbjct: 32  HNASMDFADLPALFGATLSDEGLQGFLVEAHPENACGPIAPPPSAPVNGSVFIALLRRFD 91

Query: 87  CSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIK----IHAVFVSKASGEKLKQ 142
           C+F+ KV NAQKAG+ AA+V+ N +   L+ M  NS  I+    I +VF+ + S E L+ 
Sbjct: 92  CNFDLKVLNAQKAGYGAAVVH-NVNSNELLNMVWNSEEIQQQIWIPSVFIGERSAEYLRA 150

Query: 143 -YAGSTDMEIWIIPSFENSAWHRIRREAPRASRGREFHGMSRRLVKAMPSLIFTAVVE-- 199
            +       + ++P  +NS         P       F G+   LV AM +++    ++  
Sbjct: 151 LFVYEKGARVLLVP--DNSF--------PLGYYLIPFTGIVGLLVLAMGTVLIVRCIQHR 200

Query: 200 -----DNCTSR-----------------TCAICLEDYSVGEKLRILPCRHKFHAFCVDSW 237
                +  T                    CAICL++Y  G+KLR+LPC H +H+ CVD W
Sbjct: 201 KRLQRNRLTKEQLKQIPTHDYQKGDEYDVCAICLDEYEDGDKLRVLPCAHAYHSRCVDPW 260

Query: 238 LTSWRTFCPVCKRDARTSTG--------------------EPPASESTPLLSSSPASSSI 277
           LT  R  CP+CK+      G                    + PASE TPLL SSP   + 
Sbjct: 261 LTQTRKTCPICKQPVHRGPGDEEQEEETQEQEEGDEGEPRDQPASEWTPLLGSSPTLPTS 320

Query: 278 LSSI 281
             S+
Sbjct: 321 FGSL 324

May act as an E3 ubiquitin-protein ligase, or as part of the E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes, such as UBE2E1, and then transfers it to substrates, such as SLC22A18. May play a role in growth regulation involved in G1/S transition.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5RCV8|RNF13_PONAB E3 ubiquitin-protein ligase RNF13 OS=Pongo abelii GN=RNF13 PE=2 SV=1

 Score =  113 bits (282), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 89/294 (30%), Positives = 134/294 (45%), Gaps = 43/294 (14%)

Query: 28  NVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGC 87
           N + +FDD+ A F   +   G  G L  ++P +AC  +     K ++  +  VL  R  C
Sbjct: 43  NASQTFDDLPARFGYRLPAEGLKGFLINSKPENACEPIVPPPVKDNSSGTFIVLIRRLDC 102

Query: 88  SFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNS----AGIKIHAVFVSKASGEKLK-Q 142
           +F+ KV NAQ+AG++AAIV+ N D   L++M  N       I I +VF+ ++S   LK +
Sbjct: 103 NFDIKVLNAQRAGYKAAIVH-NVDSDDLISMGSNDIEVLKKIDIPSVFIGESSANSLKDE 161

Query: 143 YAGSTDMEIWIIPSFENSAWHRIR------------------REAPRASRGREFHGMSRR 184
           +       + ++P F     + +                    +  +       + + + 
Sbjct: 162 FTYEKGGHLILVPEFSLPLEYYLIPFLIIVGICLILIVIFMITKFVQDRHRARRNRLRKD 221

Query: 185 LVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTF 244
            +K +P   F    E +     CAICL++Y  G+KLRILPC H +H  CVD WLT  +  
Sbjct: 222 QLKKLPVHKFKKGDEYD----VCAICLDEYEDGDKLRILPCSHAYHCKCVDPWLTKTKKT 277

Query: 245 CPVCKRDARTSTG-----------EPPASESTPLL----SSSPASSSILSSIRS 283
           CPVCK+    S G           E   +E TPLL    S S  S   LS  RS
Sbjct: 278 CPVCKQKVVPSQGDSDSDTDSSQEENEVTEHTPLLRPLASVSAQSFGALSESRS 331

E3 ubiquitin-protein ligase that may play a role in controlling cell proliferation.

Pongo abelii (taxid: 9601)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|O43567|RNF13_HUMAN E3 ubiquitin-protein ligase RNF13 OS=Homo sapiens GN=RNF13 PE=1 SV=1

 Score =  113 bits (282), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 89/294 (30%), Positives = 134/294 (45%), Gaps = 43/294 (14%)

Query: 28  NVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGC 87
           N + +FDD+ A F   +   G  G L  ++P +AC  +     K ++  +  VL  R  C
Sbjct: 43  NASQTFDDLPARFGYRLPAEGLKGFLINSKPENACEPIVPPPVKDNSSGTFIVLIRRLDC 102

Query: 88  SFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNS----AGIKIHAVFVSKASGEKLK-Q 142
           +F+ KV NAQ+AG++AAIV+ N D   L++M  N       I I +VF+ ++S   LK +
Sbjct: 103 NFDIKVLNAQRAGYKAAIVH-NVDSDDLISMGSNDIEVLKKIDIPSVFIGESSANSLKDE 161

Query: 143 YAGSTDMEIWIIPSFENSAWHRIR------------------REAPRASRGREFHGMSRR 184
           +       + ++P F     + +                    +  +       + + + 
Sbjct: 162 FTYEKGGHLILVPEFSLPLEYYLIPFLIIVGICLILIVIFMITKFVQDRHRARRNRLRKD 221

Query: 185 LVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTF 244
            +K +P   F    E +     CAICL++Y  G+KLRILPC H +H  CVD WLT  +  
Sbjct: 222 QLKKLPVHKFKKGDEYD----VCAICLDEYEDGDKLRILPCSHAYHCKCVDPWLTKTKKT 277

Query: 245 CPVCKRDARTSTG-----------EPPASESTPLL----SSSPASSSILSSIRS 283
           CPVCK+    S G           E   +E TPLL    S S  S   LS  RS
Sbjct: 278 CPVCKQKVVPSQGDSDSDTDSSQEENEVTEHTPLLRPLASVSAQSFGALSESRS 331

E3 ubiquitin-protein ligase that may play a role in controlling cell proliferation.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q4R6Y5|ZNRF4_MACFA Zinc/RING finger protein 4 OS=Macaca fascicularis GN=ZNRF4 PE=2 SV=1

 Score = 95.5 bits (236), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 85/277 (30%), Positives = 129/277 (46%), Gaps = 35/277 (12%)

Query: 3   LSVVYLLCVLLICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDAC 62
           +  + +L VL +   A    +L   + ++ F D+ A F   +   G  G L   +P +AC
Sbjct: 83  VKALLVLSVLQVPAQAVVRAMLEDISSSVDFADLPALFGVPLAPEGIRGYLMEVKPANAC 142

Query: 63  SNLTSKVEKVSNMS-SAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGN 121
             +  +  ++ N S  A  L  R  C+F+ KV NAQ+AGFEAAIV++   D  LV+M   
Sbjct: 143 HPV--EAPRLGNRSLGAIALIRRYDCTFDLKVLNAQRAGFEAAIVHNVHSDD-LVSMTHV 199

Query: 122 SAGIK----IHAVFVSKASGEKLKQYAG-STDMEIWIIPS-----------FENSAWHRI 165
           S  ++    I +VFV +A+ + L+   G      + ++P                +W   
Sbjct: 200 SEDLRGQIAIPSVFVGEAASQDLRVILGCDKSAHVLLLPDDPPCRDLDCHPVLTVSWALG 259

Query: 166 RREAPRASRGREFHGM---------SRRLVKAMPSLIFTAVVEDNCTSRT--CAICLEDY 214
           R  A   S     + +          RRLVK   S    A V    T R   CAICL++Y
Sbjct: 260 RTLALVVSTLFVLNRLWLWAQACCSHRRLVKT--STCQKAQVR-TFTRRNDLCAICLDEY 316

Query: 215 SVGEKLRILPCRHKFHAFCVDSWLTSW-RTFCPVCKR 250
             G++L+ILPC H +H  C+D W +   R  CPVCK+
Sbjct: 317 EEGDQLKILPCSHTYHCKCIDPWFSQAPRRSCPVCKQ 353

Macaca fascicularis (taxid: 9541)

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	419
225470792	446	PREDICTED: E3 ubiquitin-protein ligase R	0.985	0.926	0.730	1e-156
224146378	437	predicted protein [Populus trichocarpa]	0.940	0.901	0.683	1e-154
356576139	495	PREDICTED: E3 ubiquitin-protein ligase R	0.954	0.808	0.625	1e-153
296081075	424	unnamed protein product [Vitis vinifera]	0.897	0.886	0.710	1e-149
356535715	469	PREDICTED: E3 ubiquitin-protein ligase R	0.954	0.852	0.648	1e-149
22330577	448	protease-associated and C3HC4-type RING	0.985	0.921	0.62	1e-139
297839045	448	predicted protein [Arabidopsis lyrata su	0.985	0.921	0.615	1e-137
6942149	444	ReMembR-H2 protein JR702 [Arabidopsis th	0.976	0.921	0.616	1e-137
224104529	461	predicted protein [Populus trichocarpa]	0.909	0.826	0.657	1e-136
449528049	463	PREDICTED: E3 ubiquitin-protein ligase R	0.942	0.853	0.652	1e-135

>gi|225470792|ref|XP_002269731.1| PREDICTED: E3 ubiquitin-protein ligase RNF167-like [Vitis vinifera]

 Score =  558 bits (1437), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 325/445 (73%), Positives = 364/445 (81%), Gaps = 32/445 (7%)

Query: 1   MNLSVVYLLCVLLICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLD 60
           MNL +++   + L+  +A ANVVLIGNNVTLSFDDI+ANFA  ++GSG+CG+LYVAEPLD
Sbjct: 4   MNLVLLFCAFLNLMASVAFANVVLIGNNVTLSFDDIQANFAKPVKGSGECGILYVAEPLD 63

Query: 61  ACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAG 120
           ACS LT+ VEKV   SS FVL +RGGC FEDKVRNAQKAGF AAIVYDNED GVLVAMAG
Sbjct: 64  ACSPLTNAVEKVEGASSPFVLIVRGGCGFEDKVRNAQKAGFAAAIVYDNEDGGVLVAMAG 123

Query: 121 NSAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIPSFENSAWHRI--------------- 165
           NSAGIKIHAVFVSKASG  L+ YAGS DME+WIIPSFENSAW  +               
Sbjct: 124 NSAGIKIHAVFVSKASGMVLQTYAGSPDMELWIIPSFENSAWSIMAISFISLLAMSAVLA 183

Query: 166 ----------RREAPRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYS 215
                     RR+ PR SR REFHGMS RLVKAMPSLIFT V+EDNCTSRTCAICLEDY+
Sbjct: 184 TCFFVRRHRIRRQRPRVSRVREFHGMSSRLVKAMPSLIFTTVLEDNCTSRTCAICLEDYN 243

Query: 216 VGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSSSPAS- 274
           VGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTG+PP SESTPLLSSSP S 
Sbjct: 244 VGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGDPP-SESTPLLSSSPGSL 302

Query: 275 --SSILSSIRSSLASSSALHIPPSMSHSPSVSHI--HSVASTPYIPQSLRSYCQSPPISV 330
             SS++SS+RSSLASSSA+HI PS S S S+S    +S+++TPYI QSL+SY QS  +SV
Sbjct: 303 APSSLVSSVRSSLASSSAIHIAPSPSPSHSLSVSRNNSLSATPYIQQSLQSYRQS-SLSV 361

Query: 331 SRSSLDLRHASSQRSHGSYIMSSHSIGYPSISPLNSRYMSPYLPSPSNASPSLVGSSSHQ 390
           SRSSLDLR+ASSQRSH SY++S HS+GYPS+SPLNSRY+SPY+PSPSNAS S VGSSS  
Sbjct: 362 SRSSLDLRNASSQRSHASYLVSPHSMGYPSLSPLNSRYLSPYIPSPSNASLSYVGSSSRP 421

Query: 391 QHPLHYSESATSFSPFASAQSLPEC 415
            HPLHYSESATSFSP+ SAQSLPEC
Sbjct: 422 PHPLHYSESATSFSPYTSAQSLPEC 446

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224146378|ref|XP_002325986.1| predicted protein [Populus trichocarpa] gi|222862861|gb|EEF00368.1| predicted protein [Populus trichocarpa]

 Score =  551 bits (1419), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 290/424 (68%), Positives = 337/424 (79%), Gaps = 30/424 (7%)

Query: 18  ASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSS 77
           AS NV+LIGNNVT++FDDIEANFAPAI+GSG+CGVLY+AEP+DACS+LT++ EK SN SS
Sbjct: 18  ASGNVLLIGNNVTMAFDDIEANFAPAIKGSGECGVLYLAEPIDACSDLTNQAEKGSNCSS 77

Query: 78  AFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASG 137
            FVL IR GCSFEDKVR AQKAG++AAI+YDNE+ G+LVAMAGNSAG+ I AVFVSK SG
Sbjct: 78  PFVLIIREGCSFEDKVRRAQKAGYKAAIIYDNEE-GILVAMAGNSAGVTIPAVFVSKTSG 136

Query: 138 EKLKQYAGSTDMEIWIIPSFENSAWHRI-------------------------RREAPRA 172
           E LK+YAG TD+E+WIIPSFENSAW  +                         RRE PR+
Sbjct: 137 ETLKKYAGLTDLELWIIPSFENSAWSIMAISFISLLAMSAVLATCFFVRRHRIRRERPRS 196

Query: 173 SRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAF 232
           SR REFHGMS RLVKAMPSL FT+ +EDNCTS TCAICLEDY+VGEKLRILPCRHKFHAF
Sbjct: 197 SRVREFHGMSSRLVKAMPSLTFTSALEDNCTSTTCAICLEDYTVGEKLRILPCRHKFHAF 256

Query: 233 CVDSWLTSWRTFCPVCKRDARTSTGEPPASESTP-LLSSSPASSSILSSIRSSLASSSAL 291
           CVDSWLT+WRTFCPVCKRDARTSTGEPPA+ESTP L S+  + +S          +S+A+
Sbjct: 257 CVDSWLTTWRTFCPVCKRDARTSTGEPPATESTPLLSSNPSSLASSSMLSSFRSGTSTAI 316

Query: 292 HIPPSMSHSPSVSHIHSVASTPYIPQSLRSYCQSPPISVSRSSLDLRHASSQRSHGSYIM 351
            I P  S +PSVS+I S++STPY  QSLRSY  SP I++S+SS DLR+ SS RS  S+++
Sbjct: 317 QITP--SRTPSVSYIPSLSSTPYAQQSLRSYRHSPSITLSQSSADLRNMSSLRSRASFLV 374

Query: 352 SSHSIGYPSISPLNSRYMSPYLPSPSNASPSLVGSSSHQQHPLHYSESATSFSPFASAQS 411
           S HS+GYPSISPLN+RYMS Y+PSPSNASPSLV SSS Q  PLH SESA SFSPFASA S
Sbjct: 375 SPHSLGYPSISPLNTRYMSAYIPSPSNASPSLV-SSSRQPRPLHCSESAASFSPFASAHS 433

Query: 412 LPEC 415
           LP+C
Sbjct: 434 LPDC 437

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356576139|ref|XP_003556191.1| PREDICTED: E3 ubiquitin-protein ligase RNF167-like [Glycine max]

 Score =  548 bits (1412), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 301/481 (62%), Positives = 348/481 (72%), Gaps = 81/481 (16%)

Query: 15  CRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSN 74
           C +A++ VVLIGNN+TLSFDDIEANFAPA++GSG  GVLY+AEPLDAC+ LT+KVE++ N
Sbjct: 16  CAMAASKVVLIGNNITLSFDDIEANFAPAVKGSGKYGVLYLAEPLDACAELTNKVEQLPN 75

Query: 75  MSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSK 134
            SS F L +RGGCSFE+KVR AQKAGF+A IVYDNE+ G+LVAMAGNSAGI+IHAVFVSK
Sbjct: 76  ASSPFALVVRGGCSFEEKVRIAQKAGFKAVIVYDNEEGGILVAMAGNSAGIRIHAVFVSK 135

Query: 135 ASGEKLKQYAGSTDMEIWIIPSFENSAW-------------------------HRIRREA 169
           ASGE LK+YAG T++EIW+IP+FENSAW                         HRIRRE 
Sbjct: 136 ASGEILKKYAGLTNVEIWLIPTFENSAWSIMAISFISLLAMSAVLATCFFVRKHRIRRER 195

Query: 170 PRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKF 229
           PRAS  REFHGMS RLVKAMPSL+FT+V+EDNCTSRTCAICLEDY VGEKLRILPC HKF
Sbjct: 196 PRASLVREFHGMSSRLVKAMPSLVFTSVLEDNCTSRTCAICLEDYCVGEKLRILPCCHKF 255

Query: 230 HAFCVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSSSPAS--------------- 274
           HA CVDSWLTSWRTFCPVCKRDART   +PP SESTPLLSS+PAS               
Sbjct: 256 HAACVDSWLTSWRTFCPVCKRDARTGLTDPPPSESTPLLSSTPASMASSVLSSARSSLAS 315

Query: 275 ---------SSILSS-----------------IRSSLASSSALH-------------IPP 295
                    +S+ SS                  R++  +SSALH             I  
Sbjct: 316 SSAIQIARTASMASSALPSARSSLASSSAIQIARTASMASSALHSARSSLASSSAIQISR 375

Query: 296 SMSHSPSVSHIHSVASTPYIPQSLR-SYCQSPPISVSRSSLDLRHASSQRSHGSYIMSSH 354
           + S +PSVS  HS+ASTPY+  SLR SY QSP +S+SRSS+DLR+A SQRS  S++ S  
Sbjct: 376 AASQTPSVSRNHSIASTPYVQPSLRSSYHQSPSLSISRSSVDLRNA-SQRSLASHLNSPC 434

Query: 355 SIGYPSISPLNSRYMSPYLPSPSNASPSLVGSSSHQQHPLHYSESATSFSPFASAQSLPE 414
           S+GYPS+S LNSRYMSP++PSPSNAS S +GSSSHQQHPL YSESA SFSPFAS  SLPE
Sbjct: 435 SMGYPSLSSLNSRYMSPHIPSPSNASVSYMGSSSHQQHPLRYSESAASFSPFASTHSLPE 494

Query: 415 C 415
           C
Sbjct: 495 C 495

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296081075|emb|CBI18269.3| unnamed protein product [Vitis vinifera]

 Score =  535 bits (1377), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 304/428 (71%), Positives = 336/428 (78%), Gaps = 52/428 (12%)

Query: 17  LASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMS 76
           +A ANVVLIGNNVTLSFDDI+ANFA  ++GSG+CG+LYVAEPLDACS LT+ VEKV   S
Sbjct: 4   VAFANVVLIGNNVTLSFDDIQANFAKPVKGSGECGILYVAEPLDACSPLTNAVEKVEGAS 63

Query: 77  SAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKAS 136
           S FVL +RGGC FEDKVRNAQKAGF AAIVYDNED GVLVAMAGNSAGIKIHAVFVSKAS
Sbjct: 64  SPFVLIVRGGCGFEDKVRNAQKAGFAAAIVYDNEDGGVLVAMAGNSAGIKIHAVFVSKAS 123

Query: 137 GEKLKQYAGSTDMEIWIIPSFENSAWHRI-------------------------RREAPR 171
           G  L+ YAGS DME+WIIPSFENSAW  +                         RR+ PR
Sbjct: 124 GMVLQTYAGSPDMELWIIPSFENSAWSIMAISFISLLAMSAVLATCFFVRRHRIRRQRPR 183

Query: 172 ASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHA 231
            SR REFHGMS RLVKAMPSLIFT V+EDNCTSRTCAICLEDY+VGEKLRILPCRHKFHA
Sbjct: 184 VSRVREFHGMSSRLVKAMPSLIFTTVLEDNCTSRTCAICLEDYNVGEKLRILPCRHKFHA 243

Query: 232 FCVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSSSPAS---SSILSSIRSSLASS 288
           FCVDSWLTSWRTFCPVCKRDARTSTG+PP SESTPLLSSSP S   SS++SS+RSSLASS
Sbjct: 244 FCVDSWLTSWRTFCPVCKRDARTSTGDPP-SESTPLLSSSPGSLAPSSLVSSVRSSLASS 302

Query: 289 SALHIPPSMSHSPSVSHI--HSVASTPYIPQSLRSYCQSPPISVSRSSLDLRHASSQRSH 346
           SA+HI PS S S S+S    +S+++TPYI Q                     +ASSQRSH
Sbjct: 303 SAIHIAPSPSPSHSLSVSRNNSLSATPYIQQ---------------------NASSQRSH 341

Query: 347 GSYIMSSHSIGYPSISPLNSRYMSPYLPSPSNASPSLVGSSSHQQHPLHYSESATSFSPF 406
            SY++S HS+GYPS+SPLNSRY+SPY+PSPSNAS S VGSSS   HPLHYSESATSFSP+
Sbjct: 342 ASYLVSPHSMGYPSLSPLNSRYLSPYIPSPSNASLSYVGSSSRPPHPLHYSESATSFSPY 401

Query: 407 ASAQSLPE 414
            SAQSLPE
Sbjct: 402 TSAQSLPE 409

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356535715|ref|XP_003536389.1| PREDICTED: E3 ubiquitin-protein ligase RNF167-like [Glycine max]

 Score =  533 bits (1372), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 295/455 (64%), Positives = 341/455 (74%), Gaps = 55/455 (12%)

Query: 15  CRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSN 74
           C +A++ VVLIGNN+TLSFDDIEANFAP ++GSG+ G+LY+AEPLDAC+ LT+KVE++ N
Sbjct: 16  CAMAASKVVLIGNNITLSFDDIEANFAPTVKGSGEYGILYLAEPLDACTELTNKVEQLPN 75

Query: 75  MSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSK 134
            SS F L +RGGCSFE+KVR AQKAGF+A IVYDNED G+LVAMAGNSAGIKIHAVFVSK
Sbjct: 76  ASSPFALVVRGGCSFEEKVRRAQKAGFKAVIVYDNEDGGILVAMAGNSAGIKIHAVFVSK 135

Query: 135 ASGEKLKQYAGSTDMEIWIIPSFENSAWHRI-------------------------RREA 169
           ASGE L +YAG T++EIW+IP+FENSAW  +                         RRE 
Sbjct: 136 ASGEILSKYAGLTNVEIWLIPTFENSAWSIMAISFISLLAMSAVLATCFFVRRHRIRRER 195

Query: 170 PRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKF 229
           PRA   REFHGMS RLVKAMPSLIFTAV+EDNCTSRTCAICLEDY VGEKLRILPC HKF
Sbjct: 196 PRAPLVREFHGMSSRLVKAMPSLIFTAVLEDNCTSRTCAICLEDYCVGEKLRILPCCHKF 255

Query: 230 HAFCVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSSSPAS--------------- 274
           HA CVDSWLTSWRTFCPVCKRDAR+   +PP SESTPLLSS+PAS               
Sbjct: 256 HAACVDSWLTSWRTFCPVCKRDARSGLTDPPPSESTPLLSSTPASMASSVLSSARSSLAS 315

Query: 275 SSILSSIRSSLASSSAL-------------HIPPSMSHSPSVSHIHSVASTPYIPQSLR- 320
           SS +   R++  +SSAL              I  + S +PSVS  HS+ASTPY+  SLR 
Sbjct: 316 SSAIQIARTASMASSALPSARSSLASSSAIQIARAASQTPSVSRNHSIASTPYVQPSLRS 375

Query: 321 SYCQSPPISVSRSSLDLRHASSQRSHGSYIMSSHSIGYPSISPLNSRYMSPYLPSPSNAS 380
           SY QSP +S+SRSS+DLR+A SQRS  S++ S  S+GYPS+S LNSRYMSP++PSPSNAS
Sbjct: 376 SYHQSPSLSISRSSVDLRNA-SQRSLASHLNSPRSMGYPSLSSLNSRYMSPHIPSPSNAS 434

Query: 381 PSLVGSSSHQQHPLHYSESATSFSPFASAQSLPEC 415
            S +GSSSHQQHPL YSESA SFSPFAS  SLPEC
Sbjct: 435 VSYMGSSSHQQHPLRYSESAASFSPFASTHSLPEC 469

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22330577|ref|NP_177343.2| protease-associated and C3HC4-type RING finger domain-containing protein [Arabidopsis thaliana] gi|17529200|gb|AAL38826.1| unknown protein [Arabidopsis thaliana] gi|22136866|gb|AAM91777.1| unknown protein [Arabidopsis thaliana] gi|332197139|gb|AEE35260.1| protease-associated and C3HC4-type RING finger domain-containing protein [Arabidopsis thaliana]

 Score =  502 bits (1293), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 279/450 (62%), Positives = 339/450 (75%), Gaps = 37/450 (8%)

Query: 1   MNLSVVYLLCVLLICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLD 60
           MN ++V LL V  +  LAS+ V+L+ NN+TLSFDDIEANFAP+++G+G+ GV+YVAEPLD
Sbjct: 1   MNRALVLLLYVCTVSCLASSKVILMRNNITLSFDDIEANFAPSVKGTGEIGVVYVAEPLD 60

Query: 61  ACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAG 120
           AC NL +K E+ SN +S FVL +RGGCSFE+KVR AQ+AGF+AAI+YDNED G L+AMAG
Sbjct: 61  ACQNLMNKPEQSSNETSPFVLIVRGGCSFEEKVRKAQRAGFKAAIIYDNEDRGTLIAMAG 120

Query: 121 NSAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIPSFENSAWHRI--------------- 165
           NS GI+IHAVFV+K +GE LK+YAG  D ++W+IPSFENSAW  +               
Sbjct: 121 NSGGIRIHAVFVTKETGEVLKEYAGFPDTKVWLIPSFENSAWSIMAVSFISLLAMSAVLA 180

Query: 166 ----------RREAPRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYS 215
                     RR   R+SR REFHGMSRRLVKAMPSLIF++  EDN T+ TCAICLEDY+
Sbjct: 181 TCFFVRRHRIRRRTSRSSRVREFHGMSRRLVKAMPSLIFSSFHEDNTTAFTCAICLEDYT 240

Query: 216 VGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSSSPASS 275
           VG+KLR+LPC HKFHA CVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSS  A+S
Sbjct: 241 VGDKLRLLPCCHKFHAACVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSS--AAS 298

Query: 276 SILSSIRSSLASSSALHIPPSMSHSP-SVSHIHSVASTPYIPQSLRSYC--QSPPISVSR 332
           S  SS   S   SSAL I PS+   P S+S   + AS+ YI QS +S    +SPPISVSR
Sbjct: 299 SFTSSSLHSSVRSSALLIGPSLGSLPTSISFSPAYASSSYIRQSFQSSSNRRSPPISVSR 358

Query: 333 SSLDLR-------HASSQRSHGSYIMSSHSIGYPSISPLNSRYMSPYLPSPSNASPSLVG 385
           SS+DLR        + SQRS+ S++ S  S+GYP+ISP N+RYMSPY PSPSNASP++ G
Sbjct: 359 SSVDLRQQAASPSPSPSQRSYISHMASPQSLGYPTISPFNTRYMSPYRPSPSNASPAMAG 418

Query: 386 SSSHQQHPLHYSESATSFSPFASAQSLPEC 415
           SS++  +PL YSESA +FSP+ASA SLP+C
Sbjct: 419 SSNYPLNPLRYSESAGTFSPYASANSLPDC 448

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297839045|ref|XP_002887404.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297333245|gb|EFH63663.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  495 bits (1274), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 277/450 (61%), Positives = 336/450 (74%), Gaps = 37/450 (8%)

Query: 1   MNLSVVYLLCVLLICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLD 60
           MN ++V LL V  +  LAS+ V+L+ NN+TLSFDDIEANFAP+++G+G+ G++YVAEPLD
Sbjct: 1   MNRALVLLLYVYTVSCLASSKVILMRNNITLSFDDIEANFAPSVKGTGEIGLVYVAEPLD 60

Query: 61  ACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAG 120
           AC NL +K E+ SN +S FVL +RGGCSFE+KVR AQ+AGF+AAI++DNED G L+AMAG
Sbjct: 61  ACQNLMNKPEQSSNETSPFVLIVRGGCSFEEKVRKAQRAGFKAAIIFDNEDRGTLIAMAG 120

Query: 121 NSAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIPSFENSAWHRI--------------- 165
           NS GIKIHAVFV+K +GE LK YAG  D ++W+IPSFENSAW  +               
Sbjct: 121 NSGGIKIHAVFVTKETGEVLKDYAGFPDTKVWLIPSFENSAWSIMAVSFISLLAMSAVLA 180

Query: 166 ----------RREAPRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYS 215
                     RR   R+SR REFHGMSRRLVKAMPSLIF++  EDN T+ TCAICLEDY 
Sbjct: 181 TCFFVRRHRIRRRTSRSSRVREFHGMSRRLVKAMPSLIFSSFHEDNTTAFTCAICLEDYI 240

Query: 216 VGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSSSPASS 275
           VG+KLR+LPC HKFHA CVDSWLTSWRTFCPVCKRDART+TGEPPASESTPLLSS  A+S
Sbjct: 241 VGDKLRLLPCCHKFHAACVDSWLTSWRTFCPVCKRDARTNTGEPPASESTPLLSS--AAS 298

Query: 276 SILSSIRSSLASSSALHIPPSMSHSP-SVSHIHSVASTPYIPQSLRSYC--QSPPISVSR 332
           S  SS   S   SSAL I PSM   P SVS   +  S+ YI QS +S    +SPPISVSR
Sbjct: 299 SFTSSSLHSSVRSSALLIGPSMGSLPSSVSFSPAYVSSSYIRQSFQSSSNRRSPPISVSR 358

Query: 333 SSLDLR-------HASSQRSHGSYIMSSHSIGYPSISPLNSRYMSPYLPSPSNASPSLVG 385
           SS+DLR        + SQRS+ S++ S  S+GYP+ISP N+RYMSPY PSPS+ASP++ G
Sbjct: 359 SSVDLRQQAASPSPSPSQRSYISHMASPQSLGYPTISPFNTRYMSPYRPSPSDASPAVAG 418

Query: 386 SSSHQQHPLHYSESATSFSPFASAQSLPEC 415
           SS++  +PL YSESA +FSP+ASA SLP+C
Sbjct: 419 SSNYPFNPLRYSESAGTFSPYASANSLPDC 448

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|6942149|gb|AAF32326.1|AF218808_1 ReMembR-H2 protein JR702 [Arabidopsis thaliana]

 Score =  493 bits (1268), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 275/446 (61%), Positives = 334/446 (74%), Gaps = 37/446 (8%)

Query: 5   VVYLLCVLLICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSN 64
           +V LL V  +  LAS+ V+L+ NN+TLSFDDIEAN AP+++G+G+ GV+YVAE LDAC N
Sbjct: 1   LVLLLYVCTVSCLASSKVILMRNNITLSFDDIEANIAPSVKGTGEIGVVYVAEXLDACQN 60

Query: 65  LTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAG 124
           L +K E+ SN +S FVL +RGGCSFE+KVR AQ+AGF+AAI+YDNED G L+AMAGNS G
Sbjct: 61  LMNKXEQSSNETSPFVLIVRGGCSFEEKVRKAQRAGFKAAIIYDNEDRGTLIAMAGNSGG 120

Query: 125 IKIHAVFVSKASGEKLKQYAGSTDMEIWIIPSFENSAWHRI------------------- 165
           I+IHAVFV+K +GE LK+YAG  D ++W+IPSFENSAW  +                   
Sbjct: 121 IRIHAVFVTKETGEVLKEYAGFPDTKVWLIPSFENSAWSIMAVSFISLLAMSAVLATCFF 180

Query: 166 ------RREAPRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEK 219
                 RR   R+SR REFHGMSRRLVKAMPSLIF++  EDN T+ TCAICLEDY+VG+K
Sbjct: 181 VRRHRIRRRTSRSSRVREFHGMSRRLVKAMPSLIFSSFHEDNTTAFTCAICLEDYTVGDK 240

Query: 220 LRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSSSPASSSILS 279
           LR+LPC HKFHA CVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSS  A+SS  S
Sbjct: 241 LRLLPCCHKFHAACVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSS--AASSFTS 298

Query: 280 SIRSSLASSSALHIPPSMSHSP-SVSHIHSVASTPYIPQSLRSYC--QSPPISVSRSSLD 336
           S   S   SSAL I PS+   P S+S   + AS+ YI QS +S    +SPPISVSRSS+D
Sbjct: 299 SSLHSSVRSSALLIGPSLGSLPTSISFSPAYASSSYIRQSFQSSSNRRSPPISVSRSSVD 358

Query: 337 LR-------HASSQRSHGSYIMSSHSIGYPSISPLNSRYMSPYLPSPSNASPSLVGSSSH 389
           LR        + SQRS+ S++ S  S+GYP+ISP N+RYMSPY PSPSNASP++ GSS++
Sbjct: 359 LRQQAASPSPSPSQRSYISHMASPQSLGYPTISPFNTRYMSPYRPSPSNASPAMAGSSNY 418

Query: 390 QQHPLHYSESATSFSPFASAQSLPEC 415
             +PL YSESA +FSP+ASA SLP+C
Sbjct: 419 PLNPLRYSESAGTFSPYASANSLPDC 444

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224104529|ref|XP_002333929.1| predicted protein [Populus trichocarpa] gi|222839169|gb|EEE77520.1| predicted protein [Populus trichocarpa]

 Score =  490 bits (1262), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 276/420 (65%), Positives = 323/420 (76%), Gaps = 39/420 (9%)

Query: 18  ASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSS 77
           ASANVVLIGNNVT++F+DIEANFAPAI+GSG+CGVL +AEP+DAC++LT+K EK  N SS
Sbjct: 18  ASANVVLIGNNVTMAFNDIEANFAPAIKGSGECGVLSLAEPIDACTDLTNKAEKGLNSSS 77

Query: 78  AFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVA---------MAGNSAGIKIH 128
            +VL IRGGCSFE KVR AQKAGF+AAIV+DNE+ GVLVA         +AGNS G+KIH
Sbjct: 78  PYVLIIRGGCSFEHKVRRAQKAGFKAAIVFDNEE-GVLVASKTFSYVKIVAGNSVGVKIH 136

Query: 129 AVFVSKASGEKLKQYAGSTDMEIWIIPSFENSAWHRI----------------------- 165
           AVFVSK SGE L +YAG T +E+W+IPSFENSAW  +                       
Sbjct: 137 AVFVSKKSGETLTKYAGLTGLELWLIPSFENSAWSIMAISFISLLAMSAVLATCFFIRRH 196

Query: 166 --RREAPRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRIL 223
             RRE   +SR REFHGMS RLVKAMPSL FT+V+EDNCTS TCAICLEDY+VGEKLRIL
Sbjct: 197 RIRREHSHSSRVREFHGMSSRLVKAMPSLTFTSVLEDNCTSTTCAICLEDYTVGEKLRIL 256

Query: 224 PCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLL-SSSPASSSILSSIR 282
           PCRHKFHAFCVDSWLT+WRTFCPVCKRDARTSTG+PPASESTPLL S+  + +S      
Sbjct: 257 PCRHKFHAFCVDSWLTTWRTFCPVCKRDARTSTGDPPASESTPLLSSNPSSFASSSMLSS 316

Query: 283 SSLASSSALHIPPSMSHSPSVSHIHSVASTPYIPQSLRSYCQSPPISVSRSSLDLRHASS 342
               +S+A+ I  + S +PSVSHI S++STPY+ Q LRSY  S  IS+S SS DLRH SS
Sbjct: 317 FRSGTSTAIQI--ASSRTPSVSHISSLSSTPYVQQPLRSYRHSTSISISHSSADLRHMSS 374

Query: 343 QRSHGSYIMSSHSIGYPSISPLNSRYMSPYLPSPSNASPSLVGSSSHQQHPLHYSESATS 402
           QRS  S+++S HS+GYPSISPLN+RYMS Y+PSPSNASPSLV SSSHQ  PL+ SES +S
Sbjct: 375 QRSLTSHLVSPHSLGYPSISPLNTRYMSAYIPSPSNASPSLV-SSSHQPRPLYCSESVSS 433

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449528049|ref|XP_004171019.1| PREDICTED: E3 ubiquitin-protein ligase RNF167-like [Cucumis sativus]

 Score =  488 bits (1257), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 283/434 (65%), Positives = 331/434 (76%), Gaps = 39/434 (8%)

Query: 19  SANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSA 78
           +ANVVLIG NVTLSFD IEANFAP+I  SG+ GVLY+A+PLDACS L +KV    N SS 
Sbjct: 32  AANVVLIGANVTLSFDSIEANFAPSIESSGEPGVLYLAKPLDACSTLENKVVVPVNTSSP 91

Query: 79  FVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGE 138
           F L +RGGCSFEDKVR AQ AGF+AAI+YDNED G L+AMAG+SAGI+IHAVFV+K SGE
Sbjct: 92  FALIVRGGCSFEDKVRRAQVAGFKAAIIYDNEDGG-LIAMAGSSAGIRIHAVFVTKTSGE 150

Query: 139 KLKQYAGSTDMEIWIIPSFENSAWHRI-------------------------RREAPRAS 173
            LK+YAG  ++EIWI+PSFENSAW  +                         RR  PR+S
Sbjct: 151 TLKKYAGLANVEIWIVPSFENSAWSIMAISFISLLAMSAVLATCFFVRRHRIRRGRPRSS 210

Query: 174 RGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFC 233
             +EF GMSRR+VKAMPSLIFT  +EDNCTS TCAICLEDY+ GEKLRILPCRHKFHA C
Sbjct: 211 HTQEFRGMSRRVVKAMPSLIFTTALEDNCTSMTCAICLEDYTPGEKLRILPCRHKFHALC 270

Query: 234 VDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLL---SSSPASSSILSSIRSSLASSSA 290
           VDSWLT+WRTFCPVCKRDARTSTG+PP S STPLL    SS ASSSILSS RSSL  SSA
Sbjct: 271 VDSWLTAWRTFCPVCKRDARTSTGDPPPSASTPLLSSAPSSVASSSILSSSRSSLPPSSA 330

Query: 291 LHIPPSMSHSPSVSHIHSVASTPYIPQSL-RSYCQSPPISVSR--------SSLDLRHAS 341
           + I P++  SPSVS  HS++STPY+ QSL  SY QSP  S  +        SS++LR+AS
Sbjct: 331 IQISPAL-RSPSVSRNHSLSSTPYLHQSLISSYHQSPRSSYHQSPSLSVSRSSVELRNAS 389

Query: 342 SQRSHGSYIMSSHSIGYPSISPLNSRYMSPYLPSPSNASPSLVGSSSHQQHPLHYSESAT 401
           SQRS+ S+++S +S  YPS+SPL+SRYM P++PSPSNASPS++GSSSHQ +PLH S SA 
Sbjct: 390 SQRSYTSHLISPYSSCYPSVSPLHSRYMIPHIPSPSNASPSIIGSSSHQHNPLHCSGSAA 449

Query: 402 SFSPFASAQSLPEC 415
           S SPFAS +SLPEC
Sbjct: 450 SLSPFASTRSLPEC 463

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	419
TAIR|locus:2016044	448	AT1G71980 [Arabidopsis thalian	0.601	0.562	0.561	1e-128
TAIR|locus:2133697	448	AT4G09560 [Arabidopsis thalian	0.379	0.354	0.621	2e-91
TAIR|locus:2199665	422	AT1G22670 [Arabidopsis thalian	0.384	0.381	0.530	1.8e-90
TAIR|locus:2014726	318	AT1G35630 [Arabidopsis thalian	0.386	0.509	0.574	1.2e-75
TAIR|locus:2156872	310	RMR1 "receptor homology region	0.350	0.474	0.443	3.7e-50
TAIR|locus:2824666	201	AT1G35625 "AT1G35625" [Arabido	0.243	0.507	0.485	1.7e-36
UNIPROTKB|F1NUJ3	272	RNF13 "E3 ubiquitin-protein li	0.124	0.191	0.557	7.3e-26
FB|FBgn0037442	536	CG10277 [Drosophila melanogast	0.200	0.156	0.411	9.1e-26
UNIPROTKB|F1Q390	359	RNF167 "Uncharacterized protei	0.176	0.206	0.472	8.9e-25
UNIPROTKB|F1NA38	380	RNF13 "E3 ubiquitin-protein li	0.124	0.136	0.557	1.1e-24

TAIR|locus:2016044 AT1G71980 [Arabidopsis thaliana (taxid:3702)]

 Score = 707 (253.9 bits), Expect = 1.0e-128, Sum P(2) = 1.0e-128
 Identities = 147/262 (56%), Positives = 172/262 (65%)

Query:   163 HRIRREAPRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRI 222
             HRIRR   R+SR REFHGMSRRLVKAMPSLIF++  EDN T+ TCAICLEDY+VG+KLR+
Sbjct:   188 HRIRRRTSRSSRVREFHGMSRRLVKAMPSLIFSSFHEDNTTAFTCAICLEDYTVGDKLRL 247

Query:   223 LPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEXXXXXXXXXXXXXXXXXXXXXXXX 282
             LPC HKFHA CVDSWLTSWRTFCPVCKRDARTSTGE                        
Sbjct:   248 LPCCHKFHAACVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSSAASSFTSSSLHS 307

Query:   283 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXTPYIPQSLRSYC--QSPPISVSRSSLDLRH- 339
                                          + YI QS +S    +SPPISVSRSS+DLR  
Sbjct:   308 SVRSSALLIGPSLGSLPTSISFSPAYASSS-YIRQSFQSSSNRRSPPISVSRSSVDLRQQ 366

Query:   340 -AS-----SQRSHGSYIMSSHSIGYPSISPLNSRYMSPYLPSPSNASPSLVGSSSHQQHP 393
              AS     SQRS+ S++ S  S+GYP+ISP N+RYMSPY PSPSNASP++ GSS++  +P
Sbjct:   367 AASPSPSPSQRSYISHMASPQSLGYPTISPFNTRYMSPYRPSPSNASPAMAGSSNYPLNP 426

Query:   394 LHYSESATSFSPFASAQSLPEC 415
             L YSESA +FSP+ASA SLP+C
Sbjct:   427 LRYSESAGTFSPYASANSLPDC 448

GO:0005576 "extracellular region" evidence=ISM

GO:0008233 "peptidase activity" evidence=ISS

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

TAIR|locus:2133697 AT4G09560 [Arabidopsis thaliana (taxid:3702)]

 Score = 510 (184.6 bits), Expect = 2.0e-91, Sum P(3) = 2.0e-91
 Identities = 100/161 (62%), Positives = 125/161 (77%)

Query:     4 SVVYLLCVLLICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACS 63
             S + +L +LLI  L SA V+LIGN+ +LSFDD+EA F P I+ S   GVLYVAEPLDACS
Sbjct:     4 SSIVILSLLLISHLVSAKVLLIGNSTSLSFDDVEATFTPMIKRSDQGGVLYVAEPLDACS 63

Query:    64 NL--TSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGN 121
             +L  T  V+  + +S  +VL IRGGCSFEDK+RNAQKAG++AAIVYD ED G LV+MAGN
Sbjct:    64 DLVNTVNVKNGTTVSPPYVLIIRGGCSFEDKIRNAQKAGYKAAIVYDYEDFGFLVSMAGN 123

Query:   122 SAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIPSFENSAW 162
              +G+ I+  FVSKA+GE LK+YAG TD E+W++PSFE SAW
Sbjct:   124 PSGVLIYGTFVSKATGEVLKEYAGRTDFEVWLMPSFETSAW 164

GO:0005576 "extracellular region" evidence=ISM

GO:0008233 "peptidase activity" evidence=ISS

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

TAIR|locus:2199665 AT1G22670 [Arabidopsis thaliana (taxid:3702)]

 Score = 411 (149.7 bits), Expect = 1.8e-90, Sum P(3) = 1.8e-90
 Identities = 88/166 (53%), Positives = 121/166 (72%)

Query:     1 MNLSVVYLLCVLL--ICRLASAN-VVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAE 57
             MNL V+ +L +LL  +  +  A  V+L+ +N+T SF D+EA+F+P++  + + GV+YVAE
Sbjct:     1 MNLVVLLILTLLLFIVSYVVDAGQVILVDSNITRSFVDMEADFSPSVT-TVETGVVYVAE 59

Query:    58 PLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVA 117
             PL+AC NL +K E+    +S  VL IRGGCSFE KVRNAQ++GF+AAIVYDN D   L A
Sbjct:    60 PLNACRNLRNKPEQSPYGTSPLVLIIRGGCSFEYKVRNAQRSGFKAAIVYDNVDRNFLSA 119

Query:   118 MAGNSAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIP-SFENSAW 162
             M G+S GIKI AVFV K +GE LK+YAGS +ME+ ++P + E+S W
Sbjct:   120 MGGDSDGIKIQAVFVMKRAGEMLKKYAGSEEMEVMLVPPNTEDSVW 165

GO:0005576 "extracellular region" evidence=ISM

GO:0008233 "peptidase activity" evidence=ISS

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

TAIR|locus:2014726 AT1G35630 [Arabidopsis thaliana (taxid:3702)]

 Score = 504 (182.5 bits), Expect = 1.2e-75, Sum P(2) = 1.2e-75
 Identities = 93/162 (57%), Positives = 126/162 (77%)

Query:     1 MNLSVVYLLCVLLICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLD 60
             MN S + ++ +L+IC+LASA VVLIG N  LSFDD+EA F P +R SG+CG+LYVAEPL+
Sbjct:     1 MNYSWITIMSLLVICKLASAKVVLIGKNTILSFDDVEATFTPIVRNSGECGILYVAEPLE 60

Query:    61 ACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAG 120
             ACS++T+  EK S   S++VL + GGCSFE+KVR AQKAG++AAIVY++  D +LV MAG
Sbjct:    61 ACSDITNMAEKRSKYRSSYVLIVLGGCSFEEKVRKAQKAGYKAAIVYNDGYDELLVPMAG 120

Query:   121 NSAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIPSFENSAW 162
             NS+G+ IH + V++ASGE LK YA   +M++W+IP F  S+W
Sbjct:   121 NSSGVDIHGLLVTRASGEVLKGYADQDEMKLWLIPGFGISSW 162

GO:0005576 "extracellular region" evidence=ISM

GO:0008233 "peptidase activity" evidence=ISS

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

TAIR|locus:2156872 RMR1 "receptor homology region transmembrane domain ring H2 motif protein 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 305 (112.4 bits), Expect = 3.7e-50, Sum P(2) = 3.7e-50
 Identities = 67/151 (44%), Positives = 91/151 (60%)

Query:    14 ICRLASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEK-- 71
             + R++ A VVL  N+++ SF D+ A F  ++  +G CG LYVA+PLD CS L        
Sbjct:    19 LLRVSLATVVL--NSISASFADLPAKFDGSVTKNGICGALYVADPLDGCSPLLHAAASNW 76

Query:    72 VSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVF 131
               + ++ F L IRG CSFEDK+ NAQ +GF+A IVYDN D+  L+ M  N   I + AVF
Sbjct:    77 TQHRTTKFALIIRGECSFEDKLLNAQNSGFQAVIVYDNIDNEDLIVMKVNPQDITVDAVF 136

Query:   132 VSKASGEKLKQYAGSTDMEIWIIPSFENSAW 162
             VS  +GE L++YA   D E  + P    SAW
Sbjct:   137 VSNVAGEILRKYARGRDGECCLNPPDRGSAW 167

GO:0005576 "extracellular region" evidence=ISM

GO:0008233 "peptidase activity" evidence=ISS

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

GO:0000306 "extrinsic to vacuolar membrane" evidence=IDA

GO:0006886 "intracellular protein transport" evidence=IDA

GO:0006869 "lipid transport" evidence=RCA

GO:0006891 "intra-Golgi vesicle-mediated transport" evidence=RCA

GO:0009744 "response to sucrose stimulus" evidence=RCA

GO:0009750 "response to fructose stimulus" evidence=RCA

GO:0010351 "lithium ion transport" evidence=RCA

GO:0016558 "protein import into peroxisome matrix" evidence=RCA

TAIR|locus:2824666 AT1G35625 "AT1G35625" [Arabidopsis thaliana (taxid:3702)]

 Score = 281 (104.0 bits), Expect = 1.7e-36, Sum P(2) = 1.7e-36
 Identities = 50/103 (48%), Positives = 73/103 (70%)

Query:   153 IIPSFENSAWHRIRREAPRASRGREFHG-MSRRLVKAMPSLIFTAVVEDNCTSRTCAICL 211
             ++ S+ +   HRIR+       G + H  M + L+++MP+ ++T V+E+  TS TCAIC+
Sbjct:    61 VLASYFSVRRHRIRQHVRDLHHGGQGHSRMPKDLLQSMPTEVYTGVLEEGSTSVTCAICI 120

Query:   212 EDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART 254
             +DY VGE LRILPC+HK+HA C+DSWL   R+FCPVCK++ RT
Sbjct:   121 DDYRVGEILRILPCKHKYHAVCIDSWLGRCRSFCPVCKQNPRT 163

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008233 "peptidase activity" evidence=ISS

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

UNIPROTKB|F1NUJ3 RNF13 "E3 ubiquitin-protein ligase RNF13" [Gallus gallus (taxid:9031)]

 Score = 174 (66.3 bits), Expect = 7.3e-26, Sum P(2) = 7.3e-26
 Identities = 29/52 (55%), Positives = 36/52 (69%)

Query:   207 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGE 258
             CAICL++Y  G+KLRILPC H +H  CVD WLT  +  CPVCK+    S G+
Sbjct:   198 CAICLDEYEDGDKLRILPCSHAYHCKCVDPWLTKTKKTCPVCKQKVVPSQGD 249

GO:0008270 "zinc ion binding" evidence=IEA

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

GO:0005765 "lysosomal membrane" evidence=IEA

GO:0031902 "late endosome membrane" evidence=IEA

GO:0051865 "protein autoubiquitination" evidence=IEA

FB|FBgn0037442 CG10277 [Drosophila melanogaster (taxid:7227)]

 Score = 192 (72.6 bits), Expect = 9.1e-26, Sum P(2) = 9.1e-26
 Identities = 37/90 (41%), Positives = 53/90 (58%)

Query:   171 RASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSR--TCAICLEDYSVGEKLRILPCRHK 228
             R  R    H + + ++K +P L +T   ++N  ++  TC ICLED+   +KLR+LPC H 
Sbjct:   200 REQRRLRRHRLPKSMLKKLPVLRYT---KNNANNKYDTCVICLEDFIEDDKLRVLPCSHP 256

Query:   229 FHAFCVDSWLTSWRTFCPVCKRDARTSTGE 258
             +H  C+D WLT  R  CP+CKR   T  GE
Sbjct:   257 YHTHCIDPWLTENRRVCPICKRKVFTK-GE 285

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1Q390 RNF167 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 188 (71.2 bits), Expect = 8.9e-25, Sum P(2) = 8.9e-25
 Identities = 35/74 (47%), Positives = 43/74 (58%)

Query:   184 RLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRT 243
             RL +     I T   +       CAICL+ Y VGE+LR+LPC H +H+ CVD WLT  R 
Sbjct:   211 RLTREQLERIPTRDYQRGAPDDVCAICLDAYEVGERLRVLPCAHAYHSRCVDPWLTQTRR 270

Query:   244 FCPVCKRDARTSTG 257
              CPVCK+  R S G
Sbjct:   271 TCPVCKQPVRRSPG 284

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1NA38 RNF13 "E3 ubiquitin-protein ligase RNF13" [Gallus gallus (taxid:9031)]

 Score = 174 (66.3 bits), Expect = 1.1e-24, Sum P(2) = 1.1e-24
 Identities = 29/52 (55%), Positives = 36/52 (69%)

Query:   207 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGE 258
             CAICL++Y  G+KLRILPC H +H  CVD WLT  +  CPVCK+    S G+
Sbjct:   239 CAICLDEYEDGDKLRILPCSHAYHCKCVDPWLTKTKKTCPVCKQKVVPSQGD 290

GO:0008270 "zinc ion binding" evidence=IEA

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

GO:0005765 "lysosomal membrane" evidence=IEA

GO:0031902 "late endosome membrane" evidence=IEA

GO:0051865 "protein autoubiquitination" 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

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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

Your Input: GSVIVG00009141001 SubName- Full=Chromosome undetermined scaffold_221, whole genome shotgun sequence; (443 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	419
cd02123	153	cd02123, PA_C_RZF_like, PA_C-RZF_ like: Protease-a	4e-52
cd00538	126	cd00538, PA, PA: Protease-associated (PA) domain	2e-18
pfam02225	96	pfam02225, PA, PA domain	1e-15
cd04818	118	cd04818, PA_subtilisin_1, PA_subtilisin_1: Proteas	1e-15
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	6e-14
cd02133	143	cd02133, PA_C5a_like, PA_C5a_like: Protease-associ	2e-13
cd02132	139	cd02132, PA_GO-like, PA_GO-like: Protease-associat	8e-13
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-12
cd02126	126	cd02126, PA_EDEM3_like, PA_EDEM3_like: protease as	4e-12
cd02125	127	cd02125, PA_VSR, PA_VSR: Protease-associated (PA)	4e-11
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	5e-11
cd02127	118	cd02127, PA_hPAP21_like, PA_hPAP21_like: Protease-	4e-10
cd02130	122	cd02130, PA_ScAPY_like, PA_ScAPY_like: Protease-as	5e-10
cd04813	117	cd04813, PA_1, PA_1: Protease-associated (PA) doma	7e-10
smart00184	40	smart00184, RING, Ring finger	2e-09
cd04816	122	cd04816, PA_SaNapH_like, PA_SaNapH_like: Protease-	1e-08
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	1e-07
cd02124	129	cd02124, PA_PoS1_like, PA_PoS1_like: Protease-asso	8e-07
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	2e-06
cd02122	138	cd02122, PA_GRAIL_like, PA _GRAIL_like: Protease-a	9e-06
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-04
cd02120	126	cd02120, PA_subtilisin_like, PA_subtilisin_like: P	2e-04
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	3e-04
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	3e-04

>gnl|CDD|239038 cd02123, PA_C_RZF_like, PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like

 Score =  171 bits (435), Expect = 4e-52
 Identities = 70/155 (45%), Positives = 97/155 (62%), Gaps = 6/155 (3%)

Query: 11  VLLICRLASA-NVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKV 69
           +L++  LA+A  + L  +N+T  FDD+ ANF P   GSG  GVL VAEPL+ACS + +  
Sbjct: 1   LLVVSPLATADKLALADSNLTDEFDDLPANFGPIPPGSGLKGVLVVAEPLNACSPIENPP 60

Query: 70  EKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSA---GIK 126
              +   S  VL  RG CSFE KVRNAQ+AG++AAIVY++E +  L++M+GN     GI 
Sbjct: 61  LNSNASGSFIVLIRRGNCSFETKVRNAQRAGYKAAIVYNDESN-DLISMSGNDQEIKGID 119

Query: 127 IHAVFVSKASGEKLKQYAGSTDMEIWIIPSFENSA 161
           I +VFV K++GE LK+YA      + +IP      
Sbjct: 120 IPSVFVGKSTGEILKKYASYEKG-VILIPDLPLKI 153

This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo cells and is restricted mainly to brain and heart, it is localized to both the nucleus and endosomes. Additional C3H2C3 RING finger proteins belonging to this group, include Arabidopsis ReMembR-H2 protein and mouse sperizin. ReMembR-H2 is likely to be an integral membrane protein, and to traffic through the endosomal pathway. Sperizin is expressed in haploid germ cells and localized in the cytoplasm, it may participate in spermatogenesis. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Length = 153

>gnl|CDD|238300 cd00538, PA, PA: Protease-associated (PA) domain

 Score = 80.6 bits (199), Expect = 2e-18
 Identities = 37/99 (37%), Positives = 49/99 (49%), Gaps = 3/99 (3%)

Query: 52  VLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNED 111
           V  VA PL  C   T+      ++    VL  RGGCSF +KV+NAQKAG +A I+Y+N D
Sbjct: 23  VGVVAGPLVGCGYGTTDDSGA-DVKGKIVLVRRGGCSFSEKVKNAQKAGAKAVIIYNNGD 81

Query: 112 DGVL--VAMAGNSAGIKIHAVFVSKASGEKLKQYAGSTD 148
           D      ++   S    I  V +S A GE L     +  
Sbjct: 82  DPGPQMGSVGLESTDPSIPTVGISYADGEALLSLLEAGK 120

The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases including, hSPPL2a and 2b which catalyze the intramembrane proteolysis of tumor necrosis factor alpha, ii) various proteins containing a C3H2C3 RING finger including, Arabidopsis ReMembR-H2 protein and various E3 ubiquitin ligases such as human GRAIL (gene related to anergy in lymphocytes), iii) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), iv) various plant vacuolar sorting receptors such as Pisum sativum BP-80, v) glutamate carboxypeptidase II (GCPII), vi) yeast aminopeptidase Y, vii) Vibrio metschnikovii VapT, a sodium dodecyl sulfate (SDS) resistant extracellular alkaline serine protease, viii) lactocepin (a cell envelope-associated protease from Lactobacillus paracasei subsp. paracasei NCDO 151), ix) various subtilisin-like proteases such as melon Cucumisin, and x) human TfR (transferrin receptor) 1 and 2. Length = 126

>gnl|CDD|216938 pfam02225, PA, PA domain

 Score = 71.8 bits (176), Expect = 1e-15
 Identities = 29/88 (32%), Positives = 42/88 (47%), Gaps = 1/88 (1%)

Query: 53  LYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDD 112
           L      D       +    S++    VL  RGGCSF +K  NAQ+AG    I+Y+N+  
Sbjct: 10  LVYVGNGDDAGGCCPEDLADSDVKGKIVLVRRGGCSFVEKAENAQRAGAAGVIIYNNDTG 69

Query: 113 GVLVAMAGNSAGIKIHAVFVSKASGEKL 140
           G+     G+ + + I  VF+S   GE L
Sbjct: 70  GLGG-TVGDPSDVTIPVVFISYEDGEAL 96

The PA (Protease associated) domain is found as an insert domain in diverse proteases. The PA domain is also found in a plant vacuolar sorting receptor and members of the RZF family. It has been suggested that this domain forms a lid-like structure that covers the active site in active proteases, and is involved in protein recognition in vacuolar sorting receptors. Length = 96

>gnl|CDD|240122 cd04818, PA_subtilisin_1, PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1

 Score = 72.4 bits (178), Expect = 1e-15
 Identities = 39/121 (32%), Positives = 53/121 (43%), Gaps = 8/121 (6%)

Query: 37  EANFAPAIRGSGDCGVL---YVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKV 93
            A F PA+       VL     A   D C+  T+        +    L  RG C+F  KV
Sbjct: 2   SAGFGPALTNVTADVVLAGAAPASNTDGCTAFTNAAA----FAGKIALIDRGTCNFTVKV 57

Query: 94  RNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGEKLK-QYAGSTDMEIW 152
            NAQ AG  A IV +N   G  + M G+   I I AV +S+A G+ LK   A    + + 
Sbjct: 58  LNAQNAGAIAVIVANNVAGGAPITMGGDDPDITIPAVMISQADGDALKAALAAGGTVTVT 117

Query: 153 I 153
           +
Sbjct: 118 L 118

A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following subtilisin-like proteases: i) melon cucumisin, ii) Arabidopsis thaliana Ara12, iii) Alnus glutinosa ag12, iv) members of the tomato P69 family, and v) tomato LeSBT2. However, these proteins belong to other subtilisin-like subgroups. Relatively little is known about proteins in this subgroup. Length = 118

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

 Score = 65.5 bits (160), Expect = 6e-14
 Identities = 21/47 (44%), Positives = 30/47 (63%), Gaps = 1/47 (2%)

Query: 205 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD 251
             C ICL+++  GE++ +LPC H FH  C+D WL S  T CP+C+  
Sbjct: 1   DECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNT-CPLCRAP 46

Length = 46

>gnl|CDD|239048 cd02133, PA_C5a_like, PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase

 Score = 66.5 bits (163), Expect = 2e-13
 Identities = 25/63 (39%), Positives = 34/63 (53%), Gaps = 3/63 (4%)

Query: 80  VLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGEK 139
            L  RG  +F +K+ NA+ AG    I+Y+N  DG L+      A + I  VF+SK  GE 
Sbjct: 51  ALIQRGEITFVEKIANAKAAGAVGVIIYNN-VDG-LIPGTLGEA-VFIPVVFISKEDGEA 107

Query: 140 LKQ 142
           LK 
Sbjct: 108 LKA 110

This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from Bacillus subtilis, ii) a large molecular mass collagenolytic protease from Geobacillus collagenovorans MO-1, and iii) PrtS, a cell envelope protease from Streptococcus thermophilus CNRZ 385. Proteins in this group belong to the peptidase S8 family. C5a peptidase is a cell surface serine protease which specifically inactivates C5a [a chemotactic peptide, which attracts polymorphonuclear leukocytes (PMNs)], by cleaving it to release a 7-residue carboxy-terminal fragment which contains the PMN binding site. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Length = 143

>gnl|CDD|239047 cd02132, PA_GO-like, PA_GO-like: Protease-associated domain containing proteins like Arabidopsis thaliana growth-on protein GRO10

 Score = 65.1 bits (159), Expect = 8e-13
 Identities = 30/117 (25%), Positives = 52/117 (44%), Gaps = 15/117 (12%)

Query: 32  SFDDIEANFAPAIRGSGDCGV---LYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCS 88
               + A F  ++    D        +A PLD CS  TSK+      S +  L  RG C+
Sbjct: 18  ELVGVTARFGASLPSKEDNANKTRAVLANPLDCCSPSTSKL------SGSIALVERGECA 71

Query: 89  FEDKVRNAQKAGFEAAIVYDNEDDGVLVAMA----GNSAGIKIHAVFVSKASGEKLK 141
           F +K + A+  G  A ++ +++++  L  M       S  I I  V + +++G+ L 
Sbjct: 72  FTEKAKIAEAGGASALLIINDQEE--LYKMVCEDNDTSLNISIPVVMIPQSAGDALN 126

This group contains various PA domain-containing proteins similar to the functionally uncharacterized Arabidopsis GRO10. The PA domain may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Length = 139

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

 Score = 60.5 bits (147), Expect = 3e-12
 Identities = 19/46 (41%), Positives = 27/46 (58%), Gaps = 2/46 (4%)

Query: 206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD 251
            C ICLE++   E + +LPC H F   C+D WL S +  CP+C+  
Sbjct: 1   ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44

Length = 45

>gnl|CDD|239041 cd02126, PA_EDEM3_like, PA_EDEM3_like: protease associated domain (PA) domain-containing EDEM3-like proteins

 Score = 62.8 bits (153), Expect = 4e-12
 Identities = 33/101 (32%), Positives = 45/101 (44%), Gaps = 18/101 (17%)

Query: 51  GVLYVAEPLDACSNLTSK---VEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVY 107
           G +  A+P  ACS +T+      K++ M        RG C F +K R  QKAG    IV 
Sbjct: 19  GRVVKAKPYRACSEITNAEEVKGKIAIME-------RGDCMFVEKARRVQKAGAIGGIVI 71

Query: 108 DNE-----DDGVLVAMAGNSAG---IKIHAVFVSKASGEKL 140
           DN      D   + AM+G+      + I  VF+    G KL
Sbjct: 72  DNNEGSSSDTAPMFAMSGDGDSTDDVTIPVVFLFSKEGSKL 112

This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I alpha-mannosidases (gylcosyl hydrolase family 47), N-terminal to the PA domain. EDEM3 accelerates glycoprotein ERAD (ER-associated degradation). In transfected mammalian cells, overexpression of EDEM3 enhances the mannose trimming from the N-glycans, of a model misfolded protein [alpha1-antitrypsin null (Hong Kong)] as well as, from total glycoproteins. Mannose trimming appears to be involved in the selection of ERAD substrates. EDEM3 has a different specificity of trimming than ER alpha-mannosidase 1. The significance of the PA domain to EDEM3 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Length = 126

>gnl|CDD|239040 cd02125, PA_VSR, PA_VSR: Protease-associated (PA) domain-containing plant vacuolar sorting receptor (VSR)

 Score = 59.8 bits (145), Expect = 4e-11
 Identities = 33/108 (30%), Positives = 48/108 (44%), Gaps = 10/108 (9%)

Query: 52  VLYVAEPLDACSNLTSKVEKVSNMSSA---FVLTIRGGCSFEDKVRNAQKAGFEAAIVYD 108
           V+Y  E    C       +   +        +L  RGGC F  K  NAQ+AG  A +V D
Sbjct: 15  VVYPKENRTGCKEFDVFFKPKKSEPGRRPVILLLDRGGCFFTLKAWNAQQAGAAAVLVAD 74

Query: 109 NEDDGVLVAMAGNSAG-------IKIHAVFVSKASGEKLKQYAGSTDM 149
           N D+ +L       +G       I I +  ++KA GEKLK+   + +M
Sbjct: 75  NVDEPLLTMDTPEESGSADYIEKITIPSALITKAFGEKLKKAISNGEM 122

This group includes various PA domain-containing VSRs such as garden pea BP-80, pumpkin PV72, and various Arabidopsis VSRs including AtVSR1. In contrast to most eukaryotes, which only have one or two VSRs, plants have several. This may in part be a reflection of having a more complex vacuolar system with both lytic vacuoles and storage vacuoles. The lytic vacuole is thought to be equivalent to the mammalian lysosome and the yeast vacuole. Pea BP-80 is a type 1 transmembrane protein, involved in the targeting of proteins to the lytic vacuole; it has been suggested that this protein also mediates targeting to the storage vacuole. PV72 and AtVSR1 may mediate transport of seed storage proteins to protein storage vacuoles. The significance of the PA domain to VSRs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Length = 127

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

 Score = 63.5 bits (154), Expect = 5e-11
 Identities = 21/43 (48%), Positives = 30/43 (69%)

Query: 207 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCK 249
           CAIC+ ++   ++LR+LPC H+FH  CVD WL  +   CPVC+
Sbjct: 326 CAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCR 368

Length = 374

>gnl|CDD|239042 cd02127, PA_hPAP21_like, PA_hPAP21_like: Protease-associated domain containing proteins like the human secreted glycoprotein hPAP21 (human protease-associated domain-containing protein, 21kDa)

 Score = 56.6 bits (137), Expect = 4e-10
 Identities = 26/60 (43%), Positives = 33/60 (55%), Gaps = 4/60 (6%)

Query: 53  LYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDD 112
           L  A+PL+AC  L +  +   N+     L  RGGCSF  K  NAQKAG  A I+ D  +D
Sbjct: 15  LVPADPLEACEELRNIHDINGNI----ALIERGGCSFLTKAINAQKAGALAVIITDVNND 70

This group contains various PA domain-containing proteins similar to hPAP21. Complex N-glycosylation may be required for the secretion of hPAP21. The significance of the PA domain to hPAP21 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Length = 118

>gnl|CDD|239045 cd02130, PA_ScAPY_like, PA_ScAPY_like: Protease-associated domain containing proteins like Saccharomyces cerevisiae aminopeptidase Y (ScAPY)

 Score = 56.5 bits (137), Expect = 5e-10
 Identities = 23/70 (32%), Positives = 34/70 (48%)

Query: 73  SNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFV 132
           ++++    L  RG C F DK   A  AG  AAI+Y+N   G L    G  +G  +  V +
Sbjct: 41  ASVAGNIALIERGECPFGDKSALAGAAGAAAAIIYNNVPAGGLSGTLGEPSGPYVPTVGI 100

Query: 133 SKASGEKLKQ 142
           S+  G+ L  
Sbjct: 101 SQEDGKALVA 110

This group contains various PA domain-containing proteins similar to the S. cerevisiae APY, including Trichophyton rubrum leucine aminopeptidase 1(LAP1). Proteins in this group belong to the peptidase M28 family. ScAPY hydrolyzes amino acid-4-methylcoumaryl-7-amides (MCAs). ScAPY more rapidly hydrolyzes dipeptidyl-MCAs. Hydrolysis of amino acid-MCAs or dipeptides is stimulated by Co2+ while the hydrolysis of dipeptidyl-MCAs, tripeptides, and longer peptides is inhibited by Co2+. ScAPY is vacuolar and is activated by proteolytic processing. LAP1 is a secreted leucine aminopeptidase. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Length = 122

>gnl|CDD|240117 cd04813, PA_1, PA_1: Protease-associated (PA) domain subgroup 1

 Score = 55.9 bits (135), Expect = 7e-10
 Identities = 31/86 (36%), Positives = 41/86 (47%), Gaps = 7/86 (8%)

Query: 58  PLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVA 117
           P DACS                 L +RGGC F DKV  AQ+ G +A IV D+E    L+ 
Sbjct: 26  PTDACSLQEHAEIDGK-----VALVLRGGCGFLDKVMWAQRRGAKAVIVGDDEPGRGLIT 80

Query: 118 M--AGNSAGIKIHAVFVSKASGEKLK 141
           M   G++  + I A+F S+ S   L 
Sbjct: 81  MFSNGDTDNVTIPAMFTSRTSYHLLS 106

A subgroup of PA-domain containing proteins. Proteins in this subgroup contain a RING-finger (Really Interesting New Gene) domain C-terminal to this PA domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabidopsis ReMembR-H2 protein, iv) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), v) various plant vacuolar sorting receptors such as Pisum sativum BP-80, vi) prostate-specific membrane antigen (PSMA), vii) yeast aminopeptidase Y viii) Vibrio metschnikovii VapT, a sodium dodecyl sulfate (SDS) resistant extracellular alkaline serine protease, ix) various subtilisin-like proteases such as Cucumisin from the juice of melon fruits, and x) human TfR (transferrin receptor) 1 and human TfR2. The proteins listed above belong to other subgroups; relatively little is known about proteins in this subgroup. Length = 117

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

 Score = 52.5 bits (126), Expect = 2e-09
 Identities = 19/42 (45%), Positives = 23/42 (54%), Gaps = 2/42 (4%)

Query: 207 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVC 248
           C ICLE+Y   +   ILPC H F   C+  WL S    CP+C
Sbjct: 1   CPICLEEYL--KDPVILPCGHTFCRSCIRKWLESGNNTCPIC 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|240120 cd04816, PA_SaNapH_like, PA_SaNapH_like: Protease-associated domain containing proteins like Streptomyces anulatus N-acetylpuromycin N-acetylhydrolase (SaNapH)

 Score = 52.3 bits (126), Expect = 1e-08
 Identities = 24/74 (32%), Positives = 38/74 (51%), Gaps = 1/74 (1%)

Query: 74  NMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVA-MAGNSAGIKIHAVFV 132
           ++  A VL  RGGC F DK + A   G  A IV +N D G     +   +  +K+    +
Sbjct: 41  DVKGAIVLVDRGGCPFADKQKVAAARGAVAVIVVNNSDGGGTAGTLGAPNIDLKVPVGVI 100

Query: 133 SKASGEKLKQYAGS 146
           +KA+G  L++  G+
Sbjct: 101 TKAAGAALRRRLGA 114

This group contains various PA domain-containing proteins similar SaNapH. Proteins in this group belong to the peptidase M28 family. NapH is a terminal enzyme in the puromycin biosynthetic pathway; NapH hydrolyzes N-acetylpuromycin to the active antibiotic. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Length = 122

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

 Score = 47.5 bits (113), Expect = 1e-07
 Identities = 19/42 (45%), Positives = 25/42 (59%), Gaps = 2/42 (4%)

Query: 207 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVC 248
           C ICLE+    + + ILPC H F + C+ SWL S    CP+C
Sbjct: 1   CPICLEEPK--DPVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

>gnl|CDD|239039 cd02124, PA_PoS1_like, PA_PoS1_like: Protease-associated (PA) domain PoS1-like

 Score = 47.7 bits (114), Expect = 8e-07
 Identities = 27/92 (29%), Positives = 37/92 (40%), Gaps = 9/92 (9%)

Query: 58  PLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVA 117
             DAC  L    +   ++S   VL  RG C+F  K  NA   G +  ++Y+N        
Sbjct: 40  ADDACQPLP---DDTPDLSGYIVLVRRGTCTFATKAANAAAKGAKYVLIYNNGSG--PTD 94

Query: 118 MAGNSAGIKIHAVFVSKASGEKLKQ--YAGST 147
             G+ A   I A  V+   GE       AGS 
Sbjct: 95  QVGSDAD-SIIAA-VTPEDGEAWIDALAAGSN 124

This group includes various PA domain-containing proteins similar to Pleurotus ostreatus (Po)S1. PoSl, the main extracellular protease in P. ostreatus is a subtilisin-like serine protease belonging to the peptidase S8 family. Ca2+ and Mn2+ both stimulate the protease activity of (Po)S1. Ca2+ protects PoS1 from autolysis. PoS1 is a monomeric glycoprotein, which may play a role in the regulation of laccases in lignin formation. (Po)S1 participates in the degradation of POXA1b, and in the activation of POXA3, (POXA1b and POXA3 are laccase isoenzymes), but its effect may be indirect. The significance of the PA domain to PoS1 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Length = 129

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

 Score = 49.6 bits (118), Expect = 2e-06
 Identities = 40/166 (24%), Positives = 67/166 (40%), Gaps = 32/166 (19%)

Query: 173 SRGREFHGMSRRLVKAMPSLIFTAVVEDNCTS-RTCAICLEDY----------SVGEKLR 221
            R RE     RR  K + ++  TA  E    S RTC IC+++            +    +
Sbjct: 256 RRIREHARF-RRATKDLNAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPK 314

Query: 222 ILPCRHKFHAFCVDSWLTSWRTFCPVCKR----DARTS------------TGEPPASEST 265
            LPC H  H  C+ +WL   +T CP+C+R    D  +               + P  ++T
Sbjct: 315 RLPCGHILHLHCLKNWLERQQT-CPICRRPVIFDQSSPTPASPNVRNTQIATQVPNPDNT 373

Query: 266 PLLSSSPASSSILSSIRSSLASSSALHIPPSMSHSPSVSHIHSVAS 311
           P  ++ P    I +S       +S  +  P+ + S   +H   ++S
Sbjct: 374 PTTTAVPG---ITNSSNQGDPQASTFNGVPNANSSGFAAHTQDLSS 416

Length = 491

>gnl|CDD|239037 cd02122, PA_GRAIL_like, PA _GRAIL_like: Protease-associated (PA) domain GRAIL-like

 Score = 44.6 bits (106), Expect = 9e-06
 Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 13/57 (22%)

Query: 84  RGGCSFEDKVRNAQKAGFEAAIVYDNEDDG-------------VLVAMAGNSAGIKI 127
           RG C+FE+K++ A +    A ++Y+N   G             ++  M  N  G++I
Sbjct: 68  RGNCTFEEKIKLAAERNASAVVIYNNPGTGNETVKMSHPGTGDIVAIMITNPKGMEI 124

This group includes PA domain containing E3 (ubiquitin ligases) similar to human GRAIL (gene related to anergy in lymphocytes) protein. Proteins in this group contain a C3H2C3 RING finger. E3 ubiquitin ligase is part of an enzymic cascade, the end result of which is the ubiquitination of proteins. In this cascade, E1 activates the ubiquitin, the activated ubiquitin is carried by E2, and E3 recognizes the acceptor protein as well as catalyzes the transfer of the activated ubiquitin from E2 to this acceptor. GRAIL, a transmembrane protein localized in the endosomes, controls the development of T cell clonal anergy, and may ubiquitinate membrane-associated targets for T cell activation. GRAIL1 is associated with, and regulated by, two isoforms of otubain 1 (the ubiquitin-specific protease). Additional E3s belonging to this group include human (h)Goliath and Xenopus GREUL1 (Goliath Related E3 Ubiquitin Ligase 1). hGoliath and GRAIL both have the property of self-ubiquitination. hGoliath is expressed in leukocytes; its expression and localization is not modified in leukemia. GREUL1 may play a role in the generation of anterior ectoderm. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Length = 138

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

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 13/48 (27%), Positives = 23/48 (47%), Gaps = 3/48 (6%)

Query: 203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKR 250
               C ICL+     + + + PC H F   C+  +L   ++ CP+C+ 
Sbjct: 1   EELECPICLDLLR--DPVVLTPCGHVFCRECILRYLKK-KSKCPICRT 45

Length = 45

>gnl|CDD|239035 cd02120, PA_subtilisin_like, PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases

 Score = 40.9 bits (96), Expect = 2e-04
 Identities = 32/130 (24%), Positives = 46/130 (35%), Gaps = 15/130 (11%)

Query: 22  VVLIGNNVTL---SFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSA 78
           VV +GN  T+   S         P +  S + G +        C   +    KV      
Sbjct: 1   VVTLGNGKTIVGQSLYPGNLKTYPLVYKSANSGDVD----ASLCLPGSLDPSKVKGK--- 53

Query: 79  FVLTIRGG-CSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASG 137
            VL  RGG  S   K    + AG    I+ ++  DG+ V    +     + AV V    G
Sbjct: 54  IVLCDRGGNTSRVAKGDAVKAAGGAGMILANDPTDGLDVVADAHV----LPAVHVDYEDG 109

Query: 138 EKLKQYAGST 147
             +  Y  ST
Sbjct: 110 TAILSYINST 119

This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from Alnus glutinosa ag12, members of the tomato P69 family, and tomato LeSBT2. These proteins belong to the peptidase S8 family. Cucumisin from the juice of melon fruits is a thermostable serine peptidase, with a broad substrate specificity for oligopeptides and proteins. A. thaliana Ara12 is a thermostable, extracellular serine protease, found chiefly in silique tissue and stem tissue. Ara12 is stimulated by Ca2+ ions. A. glutinosa ag12 is expressed at high levels in the nodules, and at low levels in the shoot tips; it is implicated in both symbiotic and non-symbiotic processes in plant development. The tomato P69 protease family is comprised of various protein isoforms of approximately 69KDa. These isoforms accumulate extracellularly. Some of the P69 genes are tightly regulated in a tissue specific fashion, and by environmental and developmental signals. For example: infection with avirulent bacteria activates transcription of the genes for the P69 B and C isoforms, the P69 E transcript was detected only in roots, and the P69F transcript only in hydathodes. The Tomato LeSBT2 subtilase transcript was not detected in flowers and roots, but was present in cotyledons and leaves. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Length = 126

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

 Score = 43.1 bits (101), Expect = 3e-04
 Identities = 21/53 (39%), Positives = 30/53 (56%), Gaps = 11/53 (20%)

Query: 205  RTCAICLEDYSVGEKL-RILP------CRHKFHAFCVDSWL-TSWRTFCPVCK 249
              CAIC   YSV + + R LP      C++KFH  C+  W  +S R+ CP+C+
Sbjct: 1470 EECAIC---YSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCR 1519

Length = 1525

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

 Score = 38.6 bits (90), Expect = 3e-04
 Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 11/54 (20%)

Query: 206 TCAICLEDY--------SVGE--KLRILPCRHKFHAFCVDSWLTSWRTFCPVCK 249
            CAIC   +        S G+   +    C H FH  C+  WL + R  CP+C+
Sbjct: 21  VCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKT-RNTCPLCR 73

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	419
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	100.0
cd02123	153	PA_C_RZF_like PA_C-RZF_ like: Protease-associated	99.88
cd02126	126	PA_EDEM3_like PA_EDEM3_like: protease associated d	99.84
cd02127	118	PA_hPAP21_like PA_hPAP21_like: Protease-associated	99.84
cd02125	127	PA_VSR PA_VSR: Protease-associated (PA) domain-con	99.83
cd04813	117	PA_1 PA_1: Protease-associated (PA) domain subgrou	99.82
cd02122	138	PA_GRAIL_like PA _GRAIL_like: Protease-associated	99.82
cd02132	139	PA_GO-like PA_GO-like: Protease-associated domain	99.8
cd02129	120	PA_hSPPL_like PA_hSPPL_like: Protease-associated d	99.75
cd04818	118	PA_subtilisin_1 PA_subtilisin_1: Protease-associat	99.74
cd04816	122	PA_SaNapH_like PA_SaNapH_like: Protease-associated	99.72
cd02130	122	PA_ScAPY_like PA_ScAPY_like: Protease-associated d	99.67
KOG3920	193	consensus Uncharacterized conserved protein, conta	99.61
cd04817	139	PA_VapT_like PA_VapT_like: Protease-associated dom	99.6
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.56
cd02124	129	PA_PoS1_like PA_PoS1_like: Protease-associated (PA	99.54
PF02225	101	PA: PA domain; InterPro: IPR003137 The PA (Proteas	99.53
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.41
cd00538	126	PA PA: Protease-associated (PA) domain. The PA dom	99.33
cd02133	143	PA_C5a_like PA_C5a_like: Protease-associated domai	99.29
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.26
KOG2442	541	consensus Uncharacterized conserved protein, conta	99.15
PHA02929	238	N1R/p28-like protein; Provisional	99.12
cd04819	127	PA_2 PA_2: Protease-associated (PA) domain subgrou	99.11
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.07
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.05
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.01
cd04815	134	PA_M28_2 PA_M28_2: Protease-associated (PA) domain	98.98
cd02128	183	PA_TfR PA_TfR: Protease-associated domain containi	98.94
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.94
cd02120	126	PA_subtilisin_like PA_subtilisin_like: Protease-as	98.9
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.88
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.79
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.7
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.7
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.69
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.69
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.66
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.66
PHA02926	242	zinc finger-like protein; Provisional	98.64
PF14634	44	zf-RING_5: zinc-RING finger domain	98.63
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.61
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.48
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.34
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.34
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.3
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.29
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.28
cd04814	142	PA_M28_1 PA_M28_1: Protease-associated (PA) domain	98.24
cd04822	151	PA_M28_1_3 PA_M28_1_3: Protease-associated (PA) do	98.24
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.21
cd04820	137	PA_M28_1_1 PA_M28_1_1: Protease-associated (PA) do	98.2
cd02121	220	PA_GCPII_like PA_GCPII_like: Protease-associated d	98.19
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.19
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.14
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.05
cd02131	153	PA_hNAALADL2_like PA_hNAALADL2_like: Protease-asso	97.98
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.95
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.93
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.92
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.89
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.89
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.83
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.76
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.74
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.74
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.66
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.6
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.55
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.52
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.42
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.36
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.34
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.27
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.24
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.17
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.16
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.0
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.94
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.77
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.74
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.63
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	96.59
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.47
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.45
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.16
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.16
PHA02862	156	5L protein; Provisional	96.13
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	96.08
KOG0297	391	consensus TNF receptor-associated factor [Signal t	95.99
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	95.68
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	95.28
cd04821	157	PA_M28_1_2 PA_M28_1_2: Protease-associated (PA) do	95.19
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.13
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.08
COG5152	259	Uncharacterized conserved protein, contains RING a	95.0
KOG2660	331	consensus Locus-specific chromosome binding protei	94.96
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	94.93
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	94.59
KOG3039	303	consensus Uncharacterized conserved protein [Funct	94.52
PHA03096	284	p28-like protein; Provisional	94.5
COG5236	493	Uncharacterized conserved protein, contains RING Z	94.46
COG5175	480	MOT2 Transcriptional repressor [Transcription]	94.39
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	94.2
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	93.95
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	93.7
KOG4739	233	consensus Uncharacterized protein involved in syna	93.62
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	93.54
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	93.44
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	93.43
PF04641	260	Rtf2: Rtf2 RING-finger	93.42
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	93.23
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	92.9
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	92.69
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	92.61
KOG1001	674	consensus Helicase-like transcription factor HLTF/	91.67
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.32
KOG1940	276	consensus Zn-finger protein [General function pred	91.02
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	89.5
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	89.13
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	88.55
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	87.84
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	87.6
KOG1609	323	consensus Protein involved in mRNA turnover and st	86.3
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	85.31
KOG3002	299	consensus Zn finger protein [General function pred	85.21
KOG0825	1134	consensus PHD Zn-finger protein [General function	84.65
KOG3899	381	consensus Uncharacterized conserved protein [Funct	84.24
KOG3053	293	consensus Uncharacterized conserved protein [Funct	84.18
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	83.45
KOG0298	1394	consensus DEAD box-containing helicase-like transc	83.33
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	82.9
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	82.56
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	81.69

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

Probab=100.00  E-value=4.6e-51  Score=402.47  Aligned_cols=272  Identities=51%  Similarity=0.854  Sum_probs=234.0

Q ss_pred             ChhHHHHHHHHHHHhc---cceEEEEEEeCCeeEEecccccccCCcCCCCCeeEEEEecCCccCCCCCccCccccCCCcc
Q 014723            1 MNLSVVYLLCVLLICR---LASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSS   77 (419)
Q Consensus         1 m~~~~ll~~~ll~~~~---~~~a~vvv~~~~~~~~f~~~~A~Fg~~~~~~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~   77 (419)
                      |.+..|+++.+|+++.   ..++.|.+...|.+.+|.+.+|.||+.+..+++.|.++.++|.+||+++.+++........
T Consensus         1 ~~~~~l~~~~ll~~~~~~~~~a~~v~~~~~n~S~sf~d~~a~f~~s~~~e~~~G~l~~~ep~~aC~~i~~~p~~~~~~~~   80 (348)
T KOG4628|consen    1 MSKSRLVIVSLLLLLSPFRLRAVAVALVDRNTSLSFADLPALFGPSLPSEGNLGVLVVAEPLNACNPITNFPEHSTRSTS   80 (348)
T ss_pred             CceeeehHHHHHHHhhhhcccceEEEEccccccccccCCccccCCccccccceeeeecCCCccccCccccCccCCCCCcc
Confidence            3333444444444333   6688888889999999999999999999999999999999999999999987666666678


Q ss_pred             eEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCCcceeeccCCCCceEEeEEEeechhhHHHHHhhCCCcEEEEEec-c
Q 014723           78 AFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIP-S  156 (419)
Q Consensus        78 ~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~~~~~~m~g~~~~i~IPsv~Is~~~G~~L~~~l~~~~veV~IIp-~  156 (419)
                      ++|||+||+|+|++|+++||++|++|+|||||.+.+.++.|.++..++.|+++|++...|+.|.+|.+...+..+.++ .
T Consensus        81 ~laLI~Rg~CsFe~Kv~~AQ~aGfkaaIVynn~~~~~lv~~~~~~~~v~i~~~~vs~~~ge~l~~~~~~~~~~~~~~~~~  160 (348)
T KOG4628|consen   81 FLALIRRGGCSFEDKVLNAQRAGFKAAIVYNNVGSEDLVAMASNPSKVDIHIVFVSVFSGELLSSYAGRTEFECLLIPLG  160 (348)
T ss_pred             eEEEEEccCCchHHHHhhcccccCceEEEecCCCCchheeeccCCccceeEEEEEeeehHHHHHHhhcccceeeeecccc
Confidence            999999999999999999999999999999999888899999899999999999999999999999988888888887 5


Q ss_pred             ccccch-----------------------hhhccccccccccccccCchhhHHhcCCcceeccccccCCCCCccceecCc
Q 014723          157 FENSAW-----------------------HRIRREAPRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLED  213 (419)
Q Consensus       157 ~~~saW-----------------------~rirr~~~~~~~~r~~~g~~~~~i~~lp~~~~~~~~~~~~~~~~C~ICle~  213 (419)
                      +....|                       ++++++.+.+.+ .+.+++.++.++++|...|++..++... ++|+||+|+
T Consensus       161 ~~~~~ws~~~~~~i~~l~v~~il~~~f~i~~~~~~~~~r~~-~~~~r~~k~~l~~~p~~~f~~~~~~~~~-~~CaIClEd  238 (348)
T KOG4628|consen  161 FDTSPWSILAISLISLLTVVAILVTCFFIYRIRRLIRARNR-LRRNRLIKRLLKKLPVRTFTKGDDEDAT-DTCAICLED  238 (348)
T ss_pred             ccCCcchhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhH-hhhhhhHHHHHhhCCcEEeccccccCCC-ceEEEeecc
Confidence            666666                       233333222222 5678999999999999999988776655 899999999


Q ss_pred             ccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCCCCCCCCCCCCCCCCCCCC
Q 014723          214 YSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSSSPAS  274 (419)
Q Consensus       214 ~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~~~p~~~~~~~~~~~~~~~  274 (419)
                      |+.||++++|||+|.||..||++||.+++..||+||+++.+..+.+++.|++|+++..+++
T Consensus       239 Y~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~~~~~~e~tp~~~~~~~~  299 (348)
T KOG4628|consen  239 YEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSGSEPVSEDTPLLSQGPSS  299 (348)
T ss_pred             cccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCCCCCccCCCccccCCCCc
Confidence            9999999999999999999999999998888999999999999999999999998887765

>cd02123 PA_C_RZF_like PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like

Probab=99.88  E-value=9.6e-22  Score=176.61  Aligned_cols=125  Identities=51%  Similarity=0.796  Sum_probs=105.9

Q ss_pred             eeEEecccccccCCcCCCCCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEee
Q 014723           29 VTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYD  108 (419)
Q Consensus        29 ~~~~f~~~~A~Fg~~~~~~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~n  108 (419)
                      ....|+..+|.||+..++.++.|.|+.++|.+||+++...+.+..++.++||||+||+|+|.+|++|||++||+||||||
T Consensus        20 ~~~~~~~~~A~FG~~~~~~~~~g~lv~~~p~~gC~~~~~~~~~~~~~~g~IvLV~RG~CtF~~Kv~nAq~aGA~avII~n   99 (153)
T cd02123          20 LTDEFDDLPANFGPIPPGSGLKGVLVVAEPLNACSPIENPPLNSNASGSFIVLIRRGNCSFETKVRNAQRAGYKAAIVYN   99 (153)
T ss_pred             ccceEeeecccCCCCCCCCceEEEEEeCCccccCCCCcccccccccCCCeEEEEECCCCCHHHHHHHHHHCCCCEEEEEE
Confidence            55678999999999999899999999999999999987643233566899999999999999999999999999999999


Q ss_pred             cCCCcceeeccCCCC---ceEEeEEEeechhhHHHHHhhCCCcEEEEEec
Q 014723          109 NEDDGVLVAMAGNSA---GIKIHAVFVSKASGEKLKQYAGSTDMEIWIIP  155 (419)
Q Consensus       109 n~~~~~~~~m~g~~~---~i~IPsv~Is~~~G~~L~~~l~~~~veV~IIp  155 (419)
                      ++++ .+..|.++..   .+.||+++|++++|+.|++++..... +++++
T Consensus       100 ~~~~-~~~~m~~~~~~~~~v~IP~v~Is~~dg~~L~~~l~~~~~-~~~~~  147 (153)
T cd02123         100 DESN-DLISMSGNDQEIKGIDIPSVFVGKSTGEILKKYASYEKG-VILIP  147 (153)
T ss_pred             CCCC-cceeccCCCCCCcCCEEEEEEeeHHHHHHHHHHHhcCCc-EEECC
Confidence            9875 4556666543   78999999999999999999987665 44443

This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo cells and is restricted mainly to brain and heart, it is localized to both the nucleus and endosomes. Additional C3H2C3 RING finger proteins belonging to this group, include Arabidopsis ReMembR-H2 protein and mouse sperizin. ReMembR-H2 is likely to be an integral membrane protein, and to traffic through the endosomal pathway. Sperizin is expressed in haploid germ cells and localized in the cytoplasm, it may participate in spermatogenesis. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and acce

>cd02126 PA_EDEM3_like PA_EDEM3_like: protease associated domain (PA) domain-containing EDEM3-like proteins

Probab=99.84  E-value=1.6e-20  Score=163.42  Aligned_cols=113  Identities=30%  Similarity=0.510  Sum_probs=93.6

Q ss_pred             ccccccCCcCCC-CCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCCc
Q 014723           35 DIEANFAPAIRG-SGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDG  113 (419)
Q Consensus        35 ~~~A~Fg~~~~~-~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~~  113 (419)
                      ..+|.||..++. ..+.|.|+.++|.+||+++.+.    .++.|+|+||+||+|+|.+|+++||++||+||||||+.++.
T Consensus         2 ~~pa~FG~~~~~~~~~~g~l~~~~p~~gC~~~~~~----~~~~gkIaLv~RG~C~f~~K~~~Aq~aGA~avII~n~~~~~   77 (126)
T cd02126           2 AGPAQFGMDLTGDKAGVGRVVKAKPYRACSEITNA----EEVKGKIAIMERGDCMFVEKARRVQKAGAIGGIVIDNNEGS   77 (126)
T ss_pred             CCCcccCCcCCCCCCceEEEEeCCchhcccCCCCc----cccCceEEEEECCCCcHHHHHHHHHHCCCcEEEEEECCCCc
Confidence            358999999885 4789999999999999988652    24689999999999999999999999999999999986642


Q ss_pred             -----ceeeccCCC---CceEEeEEEeechhhHHHHHhhCCC-cEEE
Q 014723          114 -----VLVAMAGNS---AGIKIHAVFVSKASGEKLKQYAGST-DMEI  151 (419)
Q Consensus       114 -----~~~~m~g~~---~~i~IPsv~Is~~~G~~L~~~l~~~-~veV  151 (419)
                           .+..|.++.   +.+.||+++|++.+|+.|+..+..+ .+++
T Consensus        78 ~~~~~~~~~m~~~~~~~~~~~IP~v~I~~~dG~~L~~~l~~~~~~~~  124 (126)
T cd02126          78 SSDTAPMFAMSGDGDSTDDVTIPVVFLFSKEGSKLLAAIKEHQNVEV  124 (126)
T ss_pred             cccccceeEeecCCCCCCCCeEEEEEEEHHHHHHHHHHHHhCCceEE
Confidence                 345566654   4689999999999999999887653 4443

This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I alpha-mannosidases (gylcosyl hydrolase family 47), N-terminal to the PA domain. EDEM3 accelerates glycoprotein ERAD (ER-associated degradation). In transfected mammalian cells, overexpression of EDEM3 enhances the mannose trimming from the N-glycans, of a model misfolded protein [alpha1-antitrypsin null (Hong Kong)] as well as, from total glycoproteins. Mannose trimming appears to be involved in the selection of ERAD substrates. EDEM3 has a different specificity of trimming than ER alpha-mannosidase 1. The significance of the PA domain to EDEM3 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or pr

>cd02127 PA_hPAP21_like PA_hPAP21_like: Protease-associated domain containing proteins like the human secreted glycoprotein hPAP21 (human protease-associated domain-containing protein, 21kDa)

Probab=99.84  E-value=1.9e-20  Score=161.09  Aligned_cols=108  Identities=31%  Similarity=0.448  Sum_probs=92.4

Q ss_pred             ccCCcCCCCCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCC--ccee
Q 014723           39 NFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDD--GVLV  116 (419)
Q Consensus        39 ~Fg~~~~~~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~--~~~~  116 (419)
                      .||..+..+...|.|+.++|.+||++..+    .++++|+|+||+||+|+|.+|+++||++||+||||||+..+  ....
T Consensus         1 ~~~~~~~~~~~~~~lv~~~p~~gC~~~~~----~~~~~g~I~Lv~RG~C~F~~K~~~Aq~aGA~avII~n~~~~~~~~~~   76 (118)
T cd02127           1 DFGTIFNTRYKHVPLVPADPLEACEELRN----IHDINGNIALIERGGCSFLTKAINAQKAGALAVIITDVNNDSDEYYV   76 (118)
T ss_pred             CCCccccccccceEEEECCccccCCCCCC----ccccCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCCccccce
Confidence            48999999999999999999999998754    24578999999999999999999999999999999998654  2345


Q ss_pred             eccCC--CCceEEeEEEeechhhHHHHHhhCCCcEE
Q 014723          117 AMAGN--SAGIKIHAVFVSKASGEKLKQYAGSTDME  150 (419)
Q Consensus       117 ~m~g~--~~~i~IPsv~Is~~~G~~L~~~l~~~~ve  150 (419)
                      .|.++  ...+.||+++|++.+|+.|++.+..+.+.
T Consensus        77 ~m~~~~~~~~i~IP~v~Is~~dG~~L~~~l~~g~~~  112 (118)
T cd02127          77 EMIQDDSSRRADIPAAFLLGKNGYMIRKTLERLGLP  112 (118)
T ss_pred             EecCCCCCCCceEEEEEecHHHHHHHHHHHHcCCce
Confidence            56655  45789999999999999999988776544

This group contains various PA domain-containing proteins similar to hPAP21. Complex N-glycosylation may be required for the secretion of hPAP21. The significance of the PA domain to hPAP21 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.

>cd02125 PA_VSR PA_VSR: Protease-associated (PA) domain-containing plant vacuolar sorting receptor (VSR)

Probab=99.83  E-value=5.8e-20  Score=160.05  Aligned_cols=109  Identities=32%  Similarity=0.432  Sum_probs=89.1

Q ss_pred             ccCCcCCCCCeeEEEEec-CCccCCCCCccCccc---cCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCCcc
Q 014723           39 NFAPAIRGSGDCGVLYVA-EPLDACSNLTSKVEK---VSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGV  114 (419)
Q Consensus        39 ~Fg~~~~~~~~~G~l~~a-~p~daC~pl~~~~~~---~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~~~  114 (419)
                      +||...+++.+.|.|+.+ ++.+||+++......   .+...++||||+||+|+|.+|++|||++||+||||||+.++ .
T Consensus         1 ~FG~~~yg~~~~G~l~~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLv~RG~C~F~~K~~~Aq~aGA~avII~n~~~~-~   79 (127)
T cd02125           1 NFGLPQYGGTLTGVVVYPKENRTGCKEFDVFFKPKKSEPGRRPVILLLDRGGCFFTLKAWNAQQAGAAAVLVADNVDE-P   79 (127)
T ss_pred             CCCCCCcCCeeEEEEEecCCccccCCCCcccccccccccCCCceEEEEECCCcCHHHHHHHHHHCCCcEEEEEECCCC-c
Confidence            699999999999999776 679999999653211   12357899999999999999999999999999999999775 3


Q ss_pred             eeecc--------CCCCceEEeEEEeechhhHHHHHhhCCCc
Q 014723          115 LVAMA--------GNSAGIKIHAVFVSKASGEKLKQYAGSTD  148 (419)
Q Consensus       115 ~~~m~--------g~~~~i~IPsv~Is~~~G~~L~~~l~~~~  148 (419)
                      +..|.        +...++.||+++|++.+|+.|++.+..+.
T Consensus        80 ~~~m~~~~~~~~~~~~~~i~IP~v~Is~~~G~~L~~~l~~g~  121 (127)
T cd02125          80 LLTMDTPEESGSADYIEKITIPSALITKAFGEKLKKAISNGE  121 (127)
T ss_pred             cccccCcccccccccCCCceEeEEEECHHHHHHHHHHHhcCC
Confidence            44443        22346789999999999999999876643

This group includes various PA domain-containing VSRs such as garden pea BP-80, pumpkin PV72, and various Arabidopsis VSRs including AtVSR1. In contrast to most eukaryotes, which only have one or two VSRs, plants have several. This may in part be a reflection of having a more complex vacuolar system with both lytic vacuoles and storage vacuoles. The lytic vacuole is thought to be equivalent to the mammalian lysosome and the yeast vacuole. Pea BP-80 is a type 1 transmembrane protein, involved in the targeting of proteins to the lytic vacuole; it has been suggested that this protein also mediates targeting to the storage vacuole. PV72 and AtVSR1 may mediate transport of seed storage proteins to protein storage vacuoles. The significance of the PA domain to VSRs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may partic

>cd04813 PA_1 PA_1: Protease-associated (PA) domain subgroup 1

Probab=99.82  E-value=7e-20  Score=157.31  Aligned_cols=105  Identities=33%  Similarity=0.476  Sum_probs=86.9

Q ss_pred             ccccccCCcCCCCCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCCcc
Q 014723           35 DIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGV  114 (419)
Q Consensus        35 ~~~A~Fg~~~~~~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~~~  114 (419)
                      .+.|.|||.+... +.+... ++|.+||+++.     .++++|+||||+||+|+|.+|++|||++||+||||||+.++..
T Consensus         5 ~~~~~~~~~~~~~-~~~~~~-~~p~~gC~~~~-----~~~l~gkIvLV~RG~CsF~~K~~nAq~aGA~avII~n~~~~~~   77 (117)
T cd04813           5 GRYASFSPILNPH-LRGSYK-VSPTDACSLQE-----HAEIDGKVALVLRGGCGFLDKVMWAQRRGAKAVIVGDDEPGRG   77 (117)
T ss_pred             ccccccCCccCcc-cccccc-CCCCCCCCCCC-----cCCcCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCccc
Confidence            4679999999865 555433 89999999882     2567999999999999999999999999999999999877644


Q ss_pred             eeecc--CCCCceEEeEEEeechhhHHHHHhhCC
Q 014723          115 LVAMA--GNSAGIKIHAVFVSKASGEKLKQYAGS  146 (419)
Q Consensus       115 ~~~m~--g~~~~i~IPsv~Is~~~G~~L~~~l~~  146 (419)
                      +..|.  +....++||+++|++++|++|+.+++.
T Consensus        78 ~~~m~~~~~~~~v~IPav~Is~~~g~~L~~l~~~  111 (117)
T cd04813          78 LITMFSNGDTDNVTIPAMFTSRTSYHLLSSLLPK  111 (117)
T ss_pred             ceecccCCCCCCcEEEEEEEcHHHHHHHHHhccc
Confidence            55555  345578999999999999999988764

A subgroup of PA-domain containing proteins. Proteins in this subgroup contain a RING-finger (Really Interesting New Gene) domain C-terminal to this PA domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabid

>cd02122 PA_GRAIL_like PA _GRAIL_like: Protease-associated (PA) domain GRAIL-like

Probab=99.82  E-value=1.6e-19  Score=159.40  Aligned_cols=116  Identities=18%  Similarity=0.275  Sum_probs=93.2

Q ss_pred             ccccccCCcCCCCCeeEEEEecC---CccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCC
Q 014723           35 DIEANFAPAIRGSGDCGVLYVAE---PLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNED  111 (419)
Q Consensus        35 ~~~A~Fg~~~~~~~~~G~l~~a~---p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~  111 (419)
                      ..+|+||...+..++.|.|+.+.   +.+||+++.+. ...+++.++||||+||+|+|.+|++|||++||+||||||+.+
T Consensus        17 ~~~a~fg~~~~~~~~~G~l~~~~~~~~~~gC~~~~~~-~~~~~~~g~IaLV~RG~C~F~~K~~nA~~aGA~aVIIyn~~~   95 (138)
T cd02122          17 TESGRYGEHSPKEEAKGLVVVPDPPNDHYGCDPDTRF-PIPPNGEPWIALIQRGNCTFEEKIKLAAERNASAVVIYNNPG   95 (138)
T ss_pred             ccccccCCCCCCCccEEEEecCCCCCCcCCCCCCccc-cCCccCCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCC
Confidence            34799999999999999986544   58899998652 123467899999999999999999999999999999999987


Q ss_pred             -CcceeeccCCCCceEEeEEEeechhhHHHHHhhCCC-cEEEE
Q 014723          112 -DGVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGST-DMEIW  152 (419)
Q Consensus       112 -~~~~~~m~g~~~~i~IPsv~Is~~~G~~L~~~l~~~-~veV~  152 (419)
                       ......|..+. ...||+++|++.+|+.|++.+..+ .++++
T Consensus        96 ~~~~~~~m~~~~-~~~ip~v~Is~~~G~~l~~~l~~G~~Vtv~  137 (138)
T cd02122          96 TGNETVKMSHPG-TGDIVAIMITNPKGMEILELLERGISVTMV  137 (138)
T ss_pred             CCCceeeccCCC-CCcceEEEEcHHHHHHHHHHHHcCCcEEEe
Confidence             33455665443 347899999999999999988654 34443

This group includes PA domain containing E3 (ubiquitin ligases) similar to human GRAIL (gene related to anergy in lymphocytes) protein. Proteins in this group contain a C3H2C3 RING finger. E3 ubiquitin ligase is part of an enzymic cascade, the end result of which is the ubiquitination of proteins. In this cascade, E1 activates the ubiquitin, the activated ubiquitin is carried by E2, and E3 recognizes the acceptor protein as well as catalyzes the transfer of the activated ubiquitin from E2 to this acceptor. GRAIL, a transmembrane protein localized in the endosomes, controls the development of T cell clonal anergy, and may ubiquitinate membrane-associated targets for T cell activation. GRAIL1 is associated with, and regulated by, two isoforms of otubain 1 (the ubiquitin-specific protease). Additional E3s belonging to this group include human (h)Goliath and Xenopus GREUL1 (Goliath Related E3 Ubiquitin Ligase

>cd02132 PA_GO-like PA_GO-like: Protease-associated domain containing proteins like Arabidopsis thaliana growth-on protein GRO10

Probab=99.80  E-value=3.5e-19  Score=157.56  Aligned_cols=112  Identities=25%  Similarity=0.460  Sum_probs=93.1

Q ss_pred             CeeEEecccccccCCcCCC---CCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceE
Q 014723           28 NVTLSFDDIEANFAPAIRG---SGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAA  104 (419)
Q Consensus        28 ~~~~~f~~~~A~Fg~~~~~---~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~av  104 (419)
                      ...-+|.+.+|.||+.++.   .+..+.++.++|.+||+++.+      +++|+||||+||+|+|.+|++|||++||+||
T Consensus        14 ~~~~~~~~~~a~FG~~~p~~~~~~~~~~lv~~~~~~gC~~~~~------~~~g~IvLV~RG~C~F~~K~~nA~~aGA~av   87 (139)
T cd02132          14 DEGDELVGVTARFGASLPSKEDNANKTRAVLANPLDCCSPSTS------KLSGSIALVERGECAFTEKAKIAEAGGASAL   87 (139)
T ss_pred             ccccEEEeeccccCCCCCCcccCccEEEEEECCcccccCCCCc------ccCCeEEEEECCCCCHHHHHHHHHHcCCcEE
Confidence            3445789999999988764   467889999999999998842      5689999999999999999999999999999


Q ss_pred             EEeecCCCcceeeccCC----CCceEEeEEEeechhhHHHHHhhCCC
Q 014723          105 IVYDNEDDGVLVAMAGN----SAGIKIHAVFVSKASGEKLKQYAGST  147 (419)
Q Consensus       105 Iv~nn~~~~~~~~m~g~----~~~i~IPsv~Is~~~G~~L~~~l~~~  147 (419)
                      ||||+.++  +..|.+.    ...+.||+++|++.+|+.|++.+..+
T Consensus        88 Iv~n~~~~--~~~~~~~~~~~~~~~~IP~v~Is~~~G~~L~~~l~~g  132 (139)
T cd02132          88 LIINDQEE--LYKMVCEDNDTSLNISIPVVMIPQSAGDALNKSLDQG  132 (139)
T ss_pred             EEEECCCc--ccccccCCCCCCCCCcEeEEEecHHHHHHHHHHHHcC
Confidence            99998764  3344322    22578999999999999999988764

This group contains various PA domain-containing proteins similar to the functionally uncharacterized Arabidopsis GRO10. The PA domain may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.

>cd02129 PA_hSPPL_like PA_hSPPL_like: Protease-associated domain containing human signal peptide peptidase-like (hSPPL)-like

Probab=99.75  E-value=4.6e-18  Score=146.17  Aligned_cols=94  Identities=21%  Similarity=0.209  Sum_probs=76.9

Q ss_pred             eEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCCcceeeccCCCCceEEeE
Q 014723           50 CGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHA  129 (419)
Q Consensus        50 ~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~~~~~~m~g~~~~i~IPs  129 (419)
                      .-.|+.++|..||++....   ..+++|+|+||+||+|+|.+|++|||++||+|||||||++........++...++||+
T Consensus        21 ~~~~~~~~~~~gC~~~~~~---~~~l~gkIaLV~RG~CsF~~K~~~Aq~aGA~aVII~nn~~~~~~~~~~~~~~~v~IP~   97 (120)
T cd02129          21 LLPLRNLTSSVLCSASDVP---PGGLKGKAVVVMRGNCTFYEKARLAQSLGAEGLLIVSRERLVPPSGNRSEYEKIDIPV   97 (120)
T ss_pred             ceeeecCCCcCCCCccccC---ccccCCeEEEEECCCcCHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCCcCCcccE
Confidence            4467888999999987542   2457899999999999999999999999999999999976422222233346789999


Q ss_pred             EEeechhhHHHHHhhCC
Q 014723          130 VFVSKASGEKLKQYAGS  146 (419)
Q Consensus       130 v~Is~~~G~~L~~~l~~  146 (419)
                      ++|++++|+.|.+.++.
T Consensus        98 v~Is~~dG~~i~~~l~~  114 (120)
T cd02129          98 ALLSYKDMLDIQQTFGD  114 (120)
T ss_pred             EEEeHHHHHHHHHHhcc
Confidence            99999999999988874

This group contains various PA domain-containing proteins similar to hSPPL2a and 2b. These SPPLs are GxGD aspartic proteases. SPPL2a is sorted to the late endosomes, SPPL2b to the plasma membrane. In activated dendritic cells, hSPPL2a and 2b catalyze the intramembrane proteolysis of tumor necrosis factor alpha triggering IL-12 production. hSPPL2a and 2b may have a broad substrate spectrum. The significance of the PA domain to these SPPLs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.

>cd04818 PA_subtilisin_1 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1

Probab=99.74  E-value=2.4e-17  Score=141.57  Aligned_cols=113  Identities=32%  Similarity=0.463  Sum_probs=94.2

Q ss_pred             cccccCCcCCC---CCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCC
Q 014723           36 IEANFAPAIRG---SGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDD  112 (419)
Q Consensus        36 ~~A~Fg~~~~~---~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~  112 (419)
                      ++|.||+.+..   ..+.|.++.+++.++|++...    .++++|||+|++||+|+|.+|+++|+++||+|+||||+.+.
T Consensus         1 ~~a~fg~~~~~~~~~~~~~~~~~~~~~~~C~~~~~----~~~v~GkIvL~~rg~c~f~~k~~~a~~aGA~gvIi~~~~~~   76 (118)
T cd04818           1 VSAGFGPALTNVTADVVLAGAAPASNTDGCTAFTN----AAAFAGKIALIDRGTCNFTVKVLNAQNAGAIAVIVANNVAG   76 (118)
T ss_pred             CCcccCCcCccccccceeEEEecCCcccccCCCCc----CCCCCCEEEEEECCCCCHHHHHHHHHHCCCeEEEEEECCCC
Confidence            47999988885   568889999999999998864    24579999999999999999999999999999999998875


Q ss_pred             cceeeccCCCCceEEeEEEeechhhHHHHHhhCC-CcEEEE
Q 014723          113 GVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGS-TDMEIW  152 (419)
Q Consensus       113 ~~~~~m~g~~~~i~IPsv~Is~~~G~~L~~~l~~-~~veV~  152 (419)
                      .....|.++.....||+++|++++|+.|++++.. ..+.++
T Consensus        77 ~~~~~~~~~~~~~~iP~v~V~~~~g~~l~~~l~~g~~v~v~  117 (118)
T cd04818          77 GAPITMGGDDPDITIPAVMISQADGDALKAALAAGGTVTVT  117 (118)
T ss_pred             CcceeccCCCCCCEEeEEEecHHHHHHHHHHHhcCCcEEEe
Confidence            4444555554556899999999999999999874 455543

A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following subtilisin-like proteases: i) melon cucumisin, ii) Arabidopsis thaliana Ara12, iii) Alnus glutinosa ag12, iv) members of the tomato P69 family, and v) tomato LeSBT2. However, these proteins belong to other subtilisin-like subgroups. Relatively little is known about proteins in this subgroup.

>cd04816 PA_SaNapH_like PA_SaNapH_like: Protease-associated domain containing proteins like Streptomyces anulatus N-acetylpuromycin N-acetylhydrolase (SaNapH)

Probab=99.72  E-value=7.6e-17  Score=139.41  Aligned_cols=109  Identities=28%  Similarity=0.452  Sum_probs=88.8

Q ss_pred             ccccCCcCCCCCeeEEEEecCC--ccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCCcc
Q 014723           37 EANFAPAIRGSGDCGVLYVAEP--LDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGV  114 (419)
Q Consensus        37 ~A~Fg~~~~~~~~~G~l~~a~p--~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~~~  114 (419)
                      ...|++..+..+++|.|++.++  .+||+++...   ..+++||||||+||+|.|.+|+++||++||+|+||||+.++..
T Consensus         5 ~~~~~~~~~~~gi~~~lv~~~~~~~~gC~~~~~~---~~~~~GkIvLv~rg~c~f~~K~~~A~~aGA~avIi~n~~~~~~   81 (122)
T cd04816           5 SLSYSPSTPPGGVTAPLVPLDPERPAGCDASDYD---GLDVKGAIVLVDRGGCPFADKQKVAAARGAVAVIVVNNSDGGG   81 (122)
T ss_pred             EEeccCCCCCCCcEEEEEEcCCCCccCCCccccC---CCCcCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEeCCCCcc
Confidence            4678888888999999988776  4899987432   3467999999999999999999999999999999999877533


Q ss_pred             eeeccCC-CCceEEeEEEeechhhHHHHHhhCCCc
Q 014723          115 LVAMAGN-SAGIKIHAVFVSKASGEKLKQYAGSTD  148 (419)
Q Consensus       115 ~~~m~g~-~~~i~IPsv~Is~~~G~~L~~~l~~~~  148 (419)
                      ...+.+. .....||+++|++.+|+.|+++++.+.
T Consensus        82 ~~~~~~~~~~~~~iP~~~Is~~~G~~l~~~l~~g~  116 (122)
T cd04816          82 TAGTLGAPNIDLKVPVGVITKAAGAALRRRLGAGE  116 (122)
T ss_pred             ccccccCCCCCCeeeEEEEcHHHHHHHHHHHcCCC
Confidence            3222222 256789999999999999999987654

This group contains various PA domain-containing proteins similar SaNapH. Proteins in this group belong to the peptidase M28 family. NapH is a terminal enzyme in the puromycin biosynthetic pathway; NapH hydrolyzes N-acetylpuromycin to the active antibiotic. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.

>cd02130 PA_ScAPY_like PA_ScAPY_like: Protease-associated domain containing proteins like Saccharomyces cerevisiae aminopeptidase Y (ScAPY)

Probab=99.67  E-value=7.2e-16  Score=133.25  Aligned_cols=112  Identities=27%  Similarity=0.402  Sum_probs=84.9

Q ss_pred             EecccccccCCcCCCCCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCC
Q 014723           32 SFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNED  111 (419)
Q Consensus        32 ~f~~~~A~Fg~~~~~~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~  111 (419)
                      .|+.....|.+.   .+.+|.|+.. +.+||.+....    .+++||||||+||+|+|.+|+++|+++||++|||||+..
T Consensus         8 ~~~~~~~~~~~~---~~~~g~lv~~-~~~gC~~~~~~----~~~~gkIvlv~rg~c~f~~K~~~A~~aGA~~vIv~n~~~   79 (122)
T cd02130           8 AIPTTAFTYSPA---GEVTGPLVVV-PNLGCDAADYP----ASVAGNIALIERGECPFGDKSALAGAAGAAAAIIYNNVP   79 (122)
T ss_pred             EEeeeecccCCC---CCcEEEEEEe-CCCCCCcccCC----cCCCCEEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCC
Confidence            455544444443   4457988875 46899976542    357999999999999999999999999999999999884


Q ss_pred             CcceeeccCCCCceEEeEEEeechhhHHHHHhhCCC-cEEE
Q 014723          112 DGVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGST-DMEI  151 (419)
Q Consensus       112 ~~~~~~m~g~~~~i~IPsv~Is~~~G~~L~~~l~~~-~veV  151 (419)
                      .+....+.++..+..||+++|++++|+.|++.+..+ .+.+
T Consensus        80 ~~~~~~~~~~~~~~~Ip~v~Is~~~G~~L~~~l~~g~~v~~  120 (122)
T cd02130          80 AGGLSGTLGEPSGPYVPTVGISQEDGKALVAALANGGEVSA  120 (122)
T ss_pred             CcccccccCCCCCCEeeEEEecHHHHHHHHHHHhcCCcEEE
Confidence            333333445545678999999999999999887764 4443

This group contains various PA domain-containing proteins similar to the S. cerevisiae APY, including Trichophyton rubrum leucine aminopeptidase 1(LAP1). Proteins in this group belong to the peptidase M28 family. ScAPY hydrolyzes amino acid-4-methylcoumaryl-7-amides (MCAs). ScAPY more rapidly hydrolyzes dipeptidyl-MCAs. Hydrolysis of amino acid-MCAs or dipeptides is stimulated by Co2+ while the hydrolysis of dipeptidyl-MCAs, tripeptides, and longer peptides is inhibited by Co2+. ScAPY is vacuolar and is activated by proteolytic processing. LAP1 is a secreted leucine aminopeptidase. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stab

>KOG3920 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]

Probab=99.61  E-value=2.3e-16  Score=138.39  Aligned_cols=117  Identities=26%  Similarity=0.343  Sum_probs=94.1

Q ss_pred             EEeCCeeEEeccccc-ccCCcCCCCCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCc
Q 014723           24 LIGNNVTLSFDDIEA-NFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFE  102 (419)
Q Consensus        24 v~~~~~~~~f~~~~A-~Fg~~~~~~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~  102 (419)
                      +.+..+.|+|...+| +||......-..-.|+.++|..||+.+.|.-    ...|.|+|++||+|+|..|.++++++||.
T Consensus        38 lsP~~l~Yty~~~pAkdfG~~F~~r~e~~~lV~adPp~aC~elrN~~----f~~d~vaL~eRGeCSFl~Ktl~~e~aGa~  113 (193)
T KOG3920|consen   38 LSPYTLAYTYQMKPAKDFGVHFPDRFENLELVLADPPHACEELRNEI----FAPDSVALMERGECSFLVKTLNGEKAGAT  113 (193)
T ss_pred             cCcccEEEEEEecchhhhccccchhhcCcceeecCChhHHHHHhhcc----cCCCcEEEEecCCceeeehhhhhhhcCce
Confidence            345568899999888 8999998665555789999999999998743    34689999999999999999999999999


Q ss_pred             eEEEeecCCCc----ceeeccCCC--CceEEeEEEeechhhHHHHHhh
Q 014723          103 AAIVYDNEDDG----VLVAMAGNS--AGIKIHAVFVSKASGEKLKQYA  144 (419)
Q Consensus       103 avIv~nn~~~~----~~~~m~g~~--~~i~IPsv~Is~~~G~~L~~~l  144 (419)
                      ++||-|+...+    ..+.|+.+.  ...+||++|+-..+|-.++.-+
T Consensus       114 aiiitd~~~~~~sf~~YveMI~D~sq~~AniPa~fllg~~Gy~ir~sL  161 (193)
T KOG3920|consen  114 AIIITDSQNYEYSFHQYVEMIPDESQDRANIPAVFLLGVTGYYIRVSL  161 (193)
T ss_pred             EEEEecCCCCchhHHHHHHhcCcccccccCCceEEEeccceEEEehhH
Confidence            99998765432    256787654  3678999999999886554433

>cd04817 PA_VapT_like PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530

Probab=99.60  E-value=7.8e-15  Score=129.45  Aligned_cols=102  Identities=30%  Similarity=0.380  Sum_probs=76.7

Q ss_pred             ccCCcCCCCCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCC-----HHHHHHHHHHcCCceEEEeecCCC-
Q 014723           39 NFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCS-----FEDKVRNAQKAGFEAAIVYDNEDD-  112 (419)
Q Consensus        39 ~Fg~~~~~~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~Cs-----F~~Kv~nAq~aGA~avIv~nn~~~-  112 (419)
                      .|........++|.|+.... .+|+-.      ..+++|||+||+||+|+     |.+|+++||++||+|||||||.+. 
T Consensus        26 ~~~s~~~~g~~tg~lv~~g~-~g~d~~------~~d~~GkIaLI~RG~c~~~~~~f~~Kv~~A~~aGA~avIIyNn~~~~   98 (139)
T cd04817          26 SYASMPVTGSATGSLYYCGT-SGGSYI------CGGMAGKICLIERGGNSKSVYPEIDKVKACQNAGAIAAIVYSNAALA   98 (139)
T ss_pred             cccccccCCcceEEEEEccC-CCcccc------CCCcCccEEEEECCCCCCCcccHHHHHHHHHHCCCeEEEEEeCCCCC
Confidence            33334444567888887764 347311      12568999999999999     999999999999999999999832 


Q ss_pred             cceeeccCCCC-ceEEeEEEeechhhHHHHHhhCCC
Q 014723          113 GVLVAMAGNSA-GIKIHAVFVSKASGEKLKQYAGST  147 (419)
Q Consensus       113 ~~~~~m~g~~~-~i~IPsv~Is~~~G~~L~~~l~~~  147 (419)
                      +.+..+.++.. .+.||+++|++++|+.|+..++..
T Consensus        99 g~~~~~lg~~~~~~~IP~v~is~~dG~~L~~~l~~~  134 (139)
T cd04817          99 GLQNPFLVDTNNDTTIPSVSVDRADGQALLAALGQS  134 (139)
T ss_pred             CcccccccCCCCCceEeEEEeeHHHHHHHHHHhcCC
Confidence            22333445443 789999999999999999887643

This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from the psychotroph Shewanella strain Ac10 and the Apa1 protease from the psychrotroph Pseudoalteromonas Sp. As-11. VapT is a sodium dodecyl sulfate (SDS) resistant extracellular alkaline serine protease showing high activity over a broad pH range and temperature. SapSh has a high level of protease activity at low temperatures. Apa1 is also cold-adapted. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.

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

Probab=99.56  E-value=1.4e-15  Score=145.86  Aligned_cols=53  Identities=40%  Similarity=1.012  Sum_probs=48.4

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      ..+.+|+||+++|..+|++++|||.|.||..|+++|+...+..||+||..+.+
T Consensus       321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            34589999999999999999999999999999999999778889999998754

>cd02124 PA_PoS1_like PA_PoS1_like: Protease-associated (PA) domain PoS1-like

Probab=99.54  E-value=3.3e-14  Score=124.26  Aligned_cols=88  Identities=27%  Similarity=0.387  Sum_probs=67.6

Q ss_pred             EEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCCcceeeccCCCCceEEeEEEe
Q 014723           53 LYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFV  132 (419)
Q Consensus        53 l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~~~~~~m~g~~~~i~IPsv~I  132 (419)
                      +..+++.+||+++..   ..++++|+||||+||+|+|.+|++|||++||++|||||+.++. +. +.+... ..++.+++
T Consensus        35 ~~~~~~~~gC~~~~~---~~~~~~g~IaLv~rg~c~f~~K~~nA~~aGA~aviiyn~~~~~-~~-~~~~~~-~~~~~~~~  108 (129)
T cd02124          35 LDTSVADDACQPLPD---DTPDLSGYIVLVRRGTCTFATKAANAAAKGAKYVLIYNNGSGP-TD-QVGSDA-DSIIAAVT  108 (129)
T ss_pred             cccCCCcccCcCCCc---ccccccCeEEEEECCCCCHHHHHHHHHHcCCcEEEEEECCCCc-cc-ccCCCC-cceeeEEe
Confidence            345578899998733   3346799999999999999999999999999999999988652 22 223222 34556666


Q ss_pred             echhhHHHHHhhCCC
Q 014723          133 SKASGEKLKQYAGST  147 (419)
Q Consensus       133 s~~~G~~L~~~l~~~  147 (419)
                       +++|+.|++.+..+
T Consensus       109 -~~~G~~l~~~l~~G  122 (129)
T cd02124         109 -PEDGEAWIDALAAG  122 (129)
T ss_pred             -HHHHHHHHHHHhcC
Confidence             99999999887654

This group includes various PA domain-containing proteins similar to Pleurotus ostreatus (Po)S1. PoSl, the main extracellular protease in P. ostreatus is a subtilisin-like serine protease belonging to the peptidase S8 family. Ca2+ and Mn2+ both stimulate the protease activity of (Po)S1. Ca2+ protects PoS1 from autolysis. PoS1 is a monomeric glycoprotein, which may play a role in the regulation of laccases in lignin formation. (Po)S1 participates in the degradation of POXA1b, and in the activation of POXA3, (POXA1b and POXA3 are laccase isoenzymes), but its effect may be indirect. The significance of the PA domain to PoS1 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.

>PF02225 PA: PA domain; InterPro: IPR003137 The PA (Protease associated) domain is found as an insert domain in diverse proteases, which include the MEROPS peptidase families A22B, M28, and S8A []

Probab=99.53  E-value=8.3e-15  Score=121.31  Aligned_cols=98  Identities=33%  Similarity=0.405  Sum_probs=67.5

Q ss_pred             CCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCCcceeeccCCCCceE
Q 014723           47 SGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIK  126 (419)
Q Consensus        47 ~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~~~~~~m~g~~~~i~  126 (419)
                      ....|.|+.+.....+...........+++|+||||+||+|+|.+|+++||++||+||||+|+.................
T Consensus         4 ~~~~~~lV~~~~~~~~~~~~~~~~~~~~~~gkIvlv~rg~~~~~~k~~~a~~~GA~gvIi~~~~~~~~~~~~~~~~~~~~   83 (101)
T PF02225_consen    4 GTVTGPLVPAGNGIDEGDCCPSDYNGSDVKGKIVLVERGSCSFDDKVRNAQKAGAKGVIIYNPPPNNGSMIDSEDPDPID   83 (101)
T ss_dssp             EEEEEEEEEETTEEECCHHHHHHTSTSTCTTSEEEEESTSSCHHHHHHHHHHTTESEEEEE-TSCSCTTTTCEBTTTSTB
T ss_pred             CCEEEEEEEecCCCCcccccccccCCccccceEEEEecCCCCHHHHHHHHHHcCCEEEEEEeCCccccCcccccCCCCcE
Confidence            34677777444433322221112234567999999999999999999999999999999999322222222223445678


Q ss_pred             EeEEEeechhhHHHHHhh
Q 014723          127 IHAVFVSKASGEKLKQYA  144 (419)
Q Consensus       127 IPsv~Is~~~G~~L~~~l  144 (419)
                      ||+++|++.+|+.|++++
T Consensus        84 iP~v~I~~~~g~~L~~~i  101 (101)
T PF02225_consen   84 IPVVFISYEDGEALLAYI  101 (101)
T ss_dssp             SEEEEE-HHHHHHHHHHH
T ss_pred             EEEEEeCHHHHhhhhccC
Confidence            999999999999998874

The PA domain is also found in a plant vacuolar sorting receptor O22925 from SWISSPROT and members of the RZF family, e.g. O43567 from SWISSPROT.; PDB: 3EIF_A 1XF1_B 3BXM_A 2C6P_A 1Z8L_C 3SJF_A 3BHX_A 2C6G_A 3D7F_A 2XEG_A ....

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

Probab=99.41  E-value=7e-14  Score=99.32  Aligned_cols=44  Identities=48%  Similarity=1.142  Sum_probs=39.4

Q ss_pred             CccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccc
Q 014723          205 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCK  249 (419)
Q Consensus       205 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr  249 (419)
                      ++|+||+++|..++.+..++|+|.||.+||.+|++.+ .+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~-~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN-NSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS-SB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC-CcCCccC
Confidence            4799999999999999999999999999999999984 5799997

...

>cd00538 PA PA: Protease-associated (PA) domain

Probab=99.33  E-value=4.6e-12  Score=108.78  Aligned_cols=92  Identities=40%  Similarity=0.552  Sum_probs=71.3

Q ss_pred             EecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCCc-ceeeccCC-CCceEEeEEE
Q 014723           54 YVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDG-VLVAMAGN-SAGIKIHAVF  131 (419)
Q Consensus        54 ~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~~-~~~~m~g~-~~~i~IPsv~  131 (419)
                      ....+.++|.+... .....+++|||||++||+|+|.+|+++|+++||+||||+|+.+.. ....+.++ .....||+++
T Consensus        25 ~~~~~~~~C~~~~~-~~~~~~~~GkIvl~~~g~~~~~~k~~~a~~~GA~gvii~~~~~~~~~~~~~~~~~~~~~~iP~~~  103 (126)
T cd00538          25 VVAGPLVGCGYGTT-DDSGADVKGKIVLVRRGGCSFSEKVKNAQKAGAKAVIIYNNGDDPGPQMGSVGLESTDPSIPTVG  103 (126)
T ss_pred             ccccceEEEecCcc-cccCCCccceEEEEECCCcCHHHHHHHHHHCCCEEEEEEECCCCcccccccccCCCCCCcEeEEE
Confidence            34567789988752 122356799999999999999999999999999999999987642 22222221 2456799999


Q ss_pred             eechhhHHHHHhhCC
Q 014723          132 VSKASGEKLKQYAGS  146 (419)
Q Consensus       132 Is~~~G~~L~~~l~~  146 (419)
                      |+.++|+.|++++..
T Consensus       104 is~~~g~~l~~~~~~  118 (126)
T cd00538         104 ISYADGEALLSLLEA  118 (126)
T ss_pred             eCHHHHHHHHHHHhc
Confidence            999999999999875

The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases including, hSPPL2a and 2b which catalyze the intramembrane proteolysis of tumor necrosis factor alpha, ii) various proteins containing a C3H2C3 RING finger including, Arabidopsis ReMembR-H2 protein and various E3 ubiquitin ligases such as human GRAIL (gene related to anergy in lymphocytes), iii) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), iv) various plant vacuolar sorting receptors such as Pisum sativum BP-80, v) g

>cd02133 PA_C5a_like PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase

Probab=99.29  E-value=3.3e-11  Score=107.01  Aligned_cols=100  Identities=27%  Similarity=0.259  Sum_probs=74.0

Q ss_pred             cccCCcCCCCCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCCcceee
Q 014723           38 ANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVA  117 (419)
Q Consensus        38 A~Fg~~~~~~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~~~~~~  117 (419)
                      ..|+.+....+..+.|+.+..   |.+...   ...+++||||||+||+|+|.+|+++|+++||+||||||+..+.  ..
T Consensus        15 ~~~~~~~~~~~~~~~lv~~g~---g~~~d~---~~~dv~GkIvL~~rg~c~~~~K~~~a~~aGA~gvIi~n~~~~~--~~   86 (143)
T cd02133          15 AFSGNPTDLLGKTYELVDAGL---GTPEDF---EGKDVKGKIALIQRGEITFVEKIANAKAAGAVGVIIYNNVDGL--IP   86 (143)
T ss_pred             ccCCCcCCCCCcEEEEEEccC---Cchhcc---CCCCccceEEEEECCCCCHHHHHHHHHHCCCeEEEEeecCCCc--cc
Confidence            445555555667888777542   222111   1246799999999999999999999999999999999988652  22


Q ss_pred             ccCCCCceEEeEEEeechhhHHHHHhhCC
Q 014723          118 MAGNSAGIKIHAVFVSKASGEKLKQYAGS  146 (419)
Q Consensus       118 m~g~~~~i~IPsv~Is~~~G~~L~~~l~~  146 (419)
                      +.... ...||+++|++.+|+.|++++..
T Consensus        87 ~~~~~-~~~iP~v~Is~~dG~~L~~~l~~  114 (143)
T cd02133          87 GTLGE-AVFIPVVFISKEDGEALKAALES  114 (143)
T ss_pred             ccCCC-CCeEeEEEecHHHHHHHHHHHhC
Confidence            22111 35799999999999999999876

This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from Bacillus subtilis, ii) a large molecular mass collagenolytic protease from Geobacillus collagenovorans MO-1, and iii) PrtS, a cell envelope protease from Streptococcus thermophilus CNRZ 385. Proteins in this group belong to the peptidase S8 family. C5a peptidase is a cell surface serine protease which specifically inactivates C5a [a chemotactic peptide, which attracts polymorphonuclear leukocytes (PMNs)], by cleaving it to release a 7-residue carboxy-terminal fragment which contains the PMN binding site. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promotin

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

Probab=99.26  E-value=7.1e-12  Score=123.45  Aligned_cols=78  Identities=27%  Similarity=0.674  Sum_probs=56.9

Q ss_pred             ccCchhhHHhcCCcceeccccccCCCCCccceecCcc-cCC---------CeeEEecCCChhhHHhHHHHHhcCCCCCcc
Q 014723          178 FHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDY-SVG---------EKLRILPCRHKFHAFCVDSWLTSWRTFCPV  247 (419)
Q Consensus       178 ~~g~~~~~i~~lp~~~~~~~~~~~~~~~~C~ICle~~-~~~---------~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~  247 (419)
                      +++..+++.+.+++...+..   ..++..|.||+|++ ..+         .+-+.|||||.||.+|++.|+++.++ ||+
T Consensus       264 ~~r~~kdl~~~~~t~t~eql---~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQT-CPI  339 (491)
T COG5243         264 FRRATKDLNAMYPTATEEQL---TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQT-CPI  339 (491)
T ss_pred             HHHHhhHHHhhcchhhhhhh---cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccC-CCc
Confidence            34556677777766554443   23478999999995 333         24578999999999999999999665 999


Q ss_pred             cccc-cccCCCCC
Q 014723          248 CKRD-ARTSTGEP  259 (419)
Q Consensus       248 Cr~~-~~~~~~~p  259 (419)
                      ||.+ +..+.++.
T Consensus       340 Cr~p~ifd~~~~~  352 (491)
T COG5243         340 CRRPVIFDQSSPT  352 (491)
T ss_pred             ccCccccccCCCC
Confidence            9999 45555433

>KOG2442 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]

Probab=99.15  E-value=6.9e-11  Score=120.35  Aligned_cols=111  Identities=32%  Similarity=0.536  Sum_probs=83.0

Q ss_pred             cccccccCCcCCCCCeeE---EEEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecC
Q 014723           34 DDIEANFAPAIRGSGDCG---VLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNE  110 (419)
Q Consensus        34 ~~~~A~Fg~~~~~~~~~G---~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~  110 (419)
                      -...|.||.......-..   .+..++|.|.|++++.+      +++++++|.||+|+|.+|+++||++||.|++|.||.
T Consensus        56 a~~~~~~~~t~~~~~~~a~~~~~a~~~pld~cs~~~~k------l~~~~~~v~RGnC~Ft~Ka~~Aq~aGAsaLliin~~  129 (541)
T KOG2442|consen   56 AGMLARFGITLPSKCKAADIPHLAQVDPLDSCSTLQSK------LSGKVALVFRGNCSFTEKAKLAQAAGASALLIINNK  129 (541)
T ss_pred             hhhhhhcCCcCCCCccccccchhhhcCCccccCCCCcc------ccceeEEEecccceeehhhhhhhhcCceEEEEEcCc
Confidence            345688987666443333   23567899999988653      489999999999999999999999999999999986


Q ss_pred             CCcceeeccC---CCCceEEeEEEeechhhHHHHHhhCC-CcEEE
Q 014723          111 DDGVLVAMAG---NSAGIKIHAVFVSKASGEKLKQYAGS-TDMEI  151 (419)
Q Consensus       111 ~~~~~~~m~g---~~~~i~IPsv~Is~~~G~~L~~~l~~-~~veV  151 (419)
                      .+ .+.+..+   ...++.||+++|++.+|+.+.+.... ..+++
T Consensus       130 ~d-~~~~~~~~~~~~~dv~IPv~mi~~~~~~~l~~~~~~~~~V~~  173 (541)
T KOG2442|consen  130 KD-LLFMPCGNKETSLDVTIPVAMISYSDGRDLNKSTRSNDNVEL  173 (541)
T ss_pred             hh-hccCCCCCCCccccccceEEEEEhhhHHHHHhhhccCCeEEE
Confidence            64 2222222   23489999999999999999865443 33444

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.12  E-value=4e-11  Score=114.53  Aligned_cols=74  Identities=26%  Similarity=0.543  Sum_probs=54.9

Q ss_pred             cCchhhHHhcCCcceeccccc-cCCCCCccceecCcccCCCe-----eEEecCCChhhHHhHHHHHhcCCCCCccccccc
Q 014723          179 HGMSRRLVKAMPSLIFTAVVE-DNCTSRTCAICLEDYSVGEK-----LRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA  252 (419)
Q Consensus       179 ~g~~~~~i~~lp~~~~~~~~~-~~~~~~~C~ICle~~~~~~~-----~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~  252 (419)
                      ++..+.+++.+|....+-... +...+.+|+||+|.+.+++.     ...++|+|.||..||.+|++. +.+||+||..+
T Consensus       148 ~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCPlCR~~~  226 (238)
T PHA02929        148 GKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCPVCRTPF  226 (238)
T ss_pred             cchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-CCCCCCCCCEe
Confidence            456788888998875443221 23346899999999876531     234469999999999999987 55699999877


Q ss_pred             c
Q 014723          253 R  253 (419)
Q Consensus       253 ~  253 (419)
                      .
T Consensus       227 ~  227 (238)
T PHA02929        227 I  227 (238)
T ss_pred             e
Confidence            5

>cd04819 PA_2 PA_2: Protease-associated (PA) domain subgroup 2

Probab=99.11  E-value=6e-10  Score=97.08  Aligned_cols=96  Identities=19%  Similarity=0.099  Sum_probs=70.8

Q ss_pred             CCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCC--CHHHHHHHHHHcCCceEEEeecCCCccee-eccCC--
Q 014723           47 SGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGC--SFEDKVRNAQKAGFEAAIVYDNEDDGVLV-AMAGN--  121 (419)
Q Consensus        47 ~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~C--sF~~Kv~nAq~aGA~avIv~nn~~~~~~~-~m~g~--  121 (419)
                      ..+.|.++.+.  .| .+-+.   ...+++||||||+||.|  +|.+|+++|+++||+||||||+.++.... ...+.  
T Consensus        21 ~~~~~~lV~~g--~G-~~~d~---~~~~v~GkIvlv~~g~~~~~~~~k~~~A~~~GA~avi~~~~~~g~~~~~~~~~~~~   94 (127)
T cd04819          21 GEAKGEPVDAG--YG-LPKDF---DGLDLEGKIAVVKRDDPDVDRKEKYAKAVAAGAAAFVVVNTVPGVLPATGDEGTED   94 (127)
T ss_pred             CCeeEEEEEeC--CC-CHHHc---CCCCCCCeEEEEEcCCCchhHHHHHHHHHHCCCEEEEEEeCCCCcCcccccccccC
Confidence            44688888765  22 11111   12357999999999999  99999999999999999999877653221 11122  


Q ss_pred             CCceEEeEEEeechhhHHHHHhhCCCc
Q 014723          122 SAGIKIHAVFVSKASGEKLKQYAGSTD  148 (419)
Q Consensus       122 ~~~i~IPsv~Is~~~G~~L~~~l~~~~  148 (419)
                      .....||++.|+.++|+.|...+..+.
T Consensus        95 ~~~~~IP~v~Is~edg~~L~~~l~~g~  121 (127)
T cd04819          95 GPPSPIPAASVSGEDGLRLARVAERND  121 (127)
T ss_pred             CCCCCCCEEEEeHHHHHHHHHHHhcCC
Confidence            234679999999999999998887644

A subgroup of PA-domain containing proteins. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabidopsis ReMembR-H2 protein, iv) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), v) various plant vacuola

>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=99.07  E-value=8.9e-11  Score=92.61  Aligned_cols=45  Identities=36%  Similarity=0.840  Sum_probs=35.4

Q ss_pred             CCccceecCcccCC----------CeeEEecCCChhhHHhHHHHHhcCCCCCcccc
Q 014723          204 SRTCAICLEDYSVG----------EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCK  249 (419)
Q Consensus       204 ~~~C~ICle~~~~~----------~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr  249 (419)
                      ++.|+||+++|.+.          -.+...+|+|.||..||.+||+... +||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~-~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN-TCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS-B-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC-cCCCCC
Confidence            45699999999433          3455668999999999999998855 699997

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 ....

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

Probab=99.05  E-value=4e-10  Score=105.63  Aligned_cols=61  Identities=30%  Similarity=0.522  Sum_probs=47.5

Q ss_pred             CCCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhc--CCCCCcccccccccCCCCCCCCCC
Q 014723          201 NCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS--WRTFCPVCKRDARTSTGEPPASES  264 (419)
Q Consensus       201 ~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~--~~~~CP~Cr~~~~~~~~~p~~~~~  264 (419)
                      .....+|.||||.-+++  +..| |||.||+.||.+||+.  .+..||+||..+...+..|.....
T Consensus        44 ~~~~FdCNICLd~akdP--VvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG  106 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDP--VVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRG  106 (230)
T ss_pred             CCCceeeeeeccccCCC--EEee-cccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccC
Confidence            34568999999996655  5544 9999999999999976  344599999998877666655543

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.01  E-value=4e-10  Score=103.75  Aligned_cols=57  Identities=30%  Similarity=0.560  Sum_probs=45.2

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhc---------------CCCCCcccccccccCCCCCCCC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS---------------WRTFCPVCKRDARTSTGEPPAS  262 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~---------------~~~~CP~Cr~~~~~~~~~p~~~  262 (419)
                      ++.+|+||++.++++   ++++|+|.||+.||.+|+..               ....||+||.++......|--.
T Consensus        17 ~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiyg   88 (193)
T PLN03208         17 GDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYG   88 (193)
T ss_pred             CccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeec
Confidence            468999999998776   66789999999999999852               2346999999997765544443

>cd04815 PA_M28_2 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2

Probab=98.98  E-value=1.2e-09  Score=96.17  Aligned_cols=104  Identities=17%  Similarity=0.150  Sum_probs=76.4

Q ss_pred             ccCCcCCCCCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCC------CHHHH-------HHHHHHcCCceEE
Q 014723           39 NFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGC------SFEDK-------VRNAQKAGFEAAI  105 (419)
Q Consensus        39 ~Fg~~~~~~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~C------sF~~K-------v~nAq~aGA~avI  105 (419)
                      .|.+..++.+++|.++.....+   .+..  .+..+++||||||.||.|      +|.+|       .++|+++||.|+|
T Consensus         7 ~~s~~t~~~gvta~vv~v~~~~---~~~~--~~~~~v~GKIvlv~~~~~~~~~~~~~~~k~~~r~~~~~~A~~~GA~avI   81 (134)
T cd04815           7 GGSVATPPEGITAEVVVVKSFD---ELKA--APAGAVKGKIVFFNQPMVRTQTGSGYGPTVAYRRRGAVEAAKKGAVAVL   81 (134)
T ss_pred             CCCCCCCCCCcEEEEEEECCHH---HHHh--cchhhcCCeEEEecCCccccCchhhcCchhhhhhHHHHHHHhCCCEEEE
Confidence            4566667778999988776432   1211  113467999999999999      99999       7999999999999


Q ss_pred             EeecCCCcc--e-eeccCC-CCceEEeEEEeechhhHHHHHhhCCC
Q 014723          106 VYDNEDDGV--L-VAMAGN-SAGIKIHAVFVSKASGEKLKQYAGST  147 (419)
Q Consensus       106 v~nn~~~~~--~-~~m~g~-~~~i~IPsv~Is~~~G~~L~~~l~~~  147 (419)
                      ++|+.+...  . ..+.+. .....||++.|+.++|..|...+..+
T Consensus        82 v~s~~~~~~~~~~~G~~~~~~~~~~IP~v~is~ed~~~L~r~l~~g  127 (134)
T cd04815          82 IRSIGTDSHRSPHTGMMSYDDGVPKIPAAAISVEDADMLERLAARG  127 (134)
T ss_pred             EEecCcccCCCCcCCccccCCCCCCCCEEEechhcHHHHHHHHhCC
Confidence            999753311  1 222333 33467999999999999998887754

A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subfamilies; relatively little is known a

>cd02128 PA_TfR PA_TfR: Protease-associated domain containing proteins like transferrin receptor (TfR)

Probab=98.94  E-value=2.4e-09  Score=98.61  Aligned_cols=115  Identities=22%  Similarity=0.222  Sum_probs=77.7

Q ss_pred             EecccccccCCcCCCCCeeEEEEecCCccCCC-CCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecC
Q 014723           32 SFDDIEANFAPAIRGSGDCGVLYVAEPLDACS-NLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNE  110 (419)
Q Consensus        32 ~f~~~~A~Fg~~~~~~~~~G~l~~a~p~daC~-pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~  110 (419)
                      ++.-.+..|.+..+...++|.|+.++  .|-. .+..-....-+++|+||||+||+|.|.+|+++|+++||+|||||++.
T Consensus        12 ~~~l~~~~f~~~s~~G~v~g~lVyvn--~G~~~Df~~L~~~gv~v~GkIvLvr~G~~~~~~Kv~~A~~~GA~gvIiy~Dp   89 (183)
T cd02128          12 ELVENPGGYVAYSAAGTVTGKLVYAN--YGRKKDFEDLQSVGVSVNGSVVLVRAGKISFAEKVANAEKLGAVGVLIYPDP   89 (183)
T ss_pred             ceecccccccCCCCCCceEEEEEEcC--CCCHHHHHHHHhcCCCCCCeEEEEECCCCCHHHHHHHHHHCCCEEEEEecCH
Confidence            34445556777777677899998874  3321 11100011236799999999999999999999999999999999884


Q ss_pred             CCcce-------e---e-ccCC------------------C-CceEEeEEEeechhhHHHHHhhCCCc
Q 014723          111 DDGVL-------V---A-MAGN------------------S-AGIKIHAVFVSKASGEKLKQYAGSTD  148 (419)
Q Consensus       111 ~~~~~-------~---~-m~g~------------------~-~~i~IPsv~Is~~~G~~L~~~l~~~~  148 (419)
                      .+...       .   . ..|+                  . .--+||++-|+..++..|++.++...
T Consensus        90 ~d~~~~~~~~~~~g~~~~~~GDplTPG~ps~~~~~~~~~~~~~lP~IPs~PIS~~da~~lL~~l~G~~  157 (183)
T cd02128          90 ADFPIDPSETALFGHVHLGTGDPYTPGFPSFNHTQFPPSQSSGLPNIPAQTISAAAAAKLLSKMGGPV  157 (183)
T ss_pred             HHcCcccCcceeecceeccCCCcCCCCCccccccccCcccccCCCCCCEeccCHHHHHHHHHHcCCCC
Confidence            22100       0   0 0110                  0 12369999999999999988887653

This group contains various PA domain-containing proteins similar to human TfR1 and TfR2. TfR1 and TfR2 are type II membrane proteins, belonging to the peptidase M28 family. TfR1 is homodimeric, widely expressed, and a key player in the uptake of iron-loaded transferrin (Tf) into cells. The TfR1 homodimer binds two molecules of Tf and this complex is internalized. In addition to its role in iron uptake, TfR1 may participate in cell growth and proliferation. TfR2 also binds Tf but with a significantly lower affinity than does TfR1. TfR2 is expressed chiefly in hepatocytes, hematopoietic cells, and duodenal crypt cells; its expression overlaps with that of hereditary hemochromatosis protein (HFE). TfR2 is involved in iron homeostasis. HFE and TfR2 interact in cells. By one model for serum iron sensing, at low or basal iron concentrations, HFE and TFR1 form a complex at the plasma membra

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

Probab=98.94  E-value=5.7e-10  Score=107.46  Aligned_cols=50  Identities=32%  Similarity=0.768  Sum_probs=43.3

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      ....|.+|||...++   ..+||||+||+.||..|...+ ..||+||.++.+.+
T Consensus       238 a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek-~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  238 ATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEK-AECPLCREKFQPSK  287 (293)
T ss_pred             CCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccc-cCCCcccccCCCcc
Confidence            357899999998777   788999999999999999984 45999999887654

>cd02120 PA_subtilisin_like PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases

Probab=98.90  E-value=5.2e-09  Score=90.30  Aligned_cols=83  Identities=25%  Similarity=0.295  Sum_probs=66.1

Q ss_pred             CccCCCCCccCccccCCCcceEEEEecCCC-CHHHHHHHHHHcCCceEEEeecCCCcceeeccCCCCceEEeEEEeechh
Q 014723           58 PLDACSNLTSKVEKVSNMSSAFVLTIRGGC-SFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKAS  136 (419)
Q Consensus        58 p~daC~pl~~~~~~~~~~~~~IaLV~RG~C-sF~~Kv~nAq~aGA~avIv~nn~~~~~~~~m~g~~~~i~IPsv~Is~~~  136 (419)
                      ...+|++....   ..+++|||||++||.| .|.+|+++|+++||.|+|++|+..+..  .+..  ....||+++|..++
T Consensus        36 ~~~~C~~~~~~---~~~v~GkIVlc~~~~~~~~~~k~~~~~~~GA~gvI~~~~~~~~~--~~~~--~~~~iP~v~I~~~~  108 (126)
T cd02120          36 DASLCLPGSLD---PSKVKGKIVLCDRGGNTSRVAKGDAVKAAGGAGMILANDPTDGL--DVVA--DAHVLPAVHVDYED  108 (126)
T ss_pred             ccccCCCCCCC---hhhccccEEEEeCCCCccHHHHHHHHHHcCCcEEEEEecCCCCc--eecc--cccccceEEECHHH
Confidence            34689876432   2457899999999999 999999999999999999998876521  1211  13579999999999


Q ss_pred             hHHHHHhhCCC
Q 014723          137 GEKLKQYAGST  147 (419)
Q Consensus       137 G~~L~~~l~~~  147 (419)
                      |+.|++|+...
T Consensus       109 g~~l~~y~~~~  119 (126)
T cd02120         109 GTAILSYINST  119 (126)
T ss_pred             HHHHHHHHHcC
Confidence            99999998754

This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from Alnus glutinosa ag12, members of the tomato P69 family, and tomato LeSBT2. These proteins belong to the peptidase S8 family. Cucumisin from the juice of melon fruits is a thermostable serine peptidase, with a broad substrate specificity for oligopeptides and proteins. A. thaliana Ara12 is a thermostable, extracellular serine protease, found chiefly in silique tissue and stem tissue. Ara12 is stimulated by Ca2+ ions. A. glutinosa ag12 is expressed at high levels in the nodules, and at low levels in the shoot tips; it is implicated in both symbiotic and non-symbiotic processes in plant development. The tomato P69 protease family is comprised of various protein isoforms of approximately 69KDa. These isoforms accu

>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=98.88  E-value=1.6e-09  Score=75.51  Aligned_cols=45  Identities=42%  Similarity=1.088  Sum_probs=37.1

Q ss_pred             ccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccc
Q 014723          206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA  252 (419)
Q Consensus       206 ~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~  252 (419)
                      +|+||++.+.  +.+..++|+|.||..|++.|++.....||+||..+
T Consensus         1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            5999999983  34566669999999999999987566799998754

>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=98.79  E-value=2.6e-09  Score=73.80  Aligned_cols=39  Identities=36%  Similarity=0.997  Sum_probs=33.2

Q ss_pred             cceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccc
Q 014723          207 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVC  248 (419)
Q Consensus       207 C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~C  248 (419)
                      |+||++.+.+  .+..++|||.||.+||.+|++. +..||+|
T Consensus         1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEK-NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred             CCCCCCcccC--cCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence            8999999876  4678999999999999999999 6679998

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

Probab=98.70  E-value=1.6e-08  Score=81.24  Aligned_cols=50  Identities=28%  Similarity=0.758  Sum_probs=38.8

Q ss_pred             CCccceecCcccCC--------C--eeEEecCCChhhHHhHHHHHhcC--CCCCcccccccc
Q 014723          204 SRTCAICLEDYSVG--------E--KLRILPCRHKFHAFCVDSWLTSW--RTFCPVCKRDAR  253 (419)
Q Consensus       204 ~~~C~ICle~~~~~--------~--~~~~LpC~H~Fh~~Ci~~Wl~~~--~~~CP~Cr~~~~  253 (419)
                      ++.|.||+..|...        +  .+..-.|+|.||..||.+||...  +..||+||++..
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            68899999888522        2  34444599999999999999863  467999998753

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

Probab=98.70  E-value=7.4e-09  Score=72.87  Aligned_cols=39  Identities=33%  Similarity=0.784  Sum_probs=30.9

Q ss_pred             cceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCC---CCccc
Q 014723          207 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRT---FCPVC  248 (419)
Q Consensus       207 C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~---~CP~C  248 (419)
                      |+||++.|+++   +.|+|||.|+..||..|.+....   .||+|
T Consensus         1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999988   88999999999999999976433   59988

>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=98.69  E-value=7.2e-09  Score=75.54  Aligned_cols=47  Identities=30%  Similarity=0.817  Sum_probs=38.3

Q ss_pred             CCccceecCcccCCCeeEEecCCCh-hhHHhHHHHHhcCCCCCccccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHK-FHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      +..|.||++...+   +..+||+|. ||..|+.+|++. +..||+||+++..
T Consensus         2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~-~~~CP~Cr~~i~~   49 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKR-KKKCPICRQPIES   49 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHT-TSBBTTTTBB-SE
T ss_pred             cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhccc-CCCCCcCChhhcC
Confidence            4689999998654   688899999 999999999996 5569999998753

...

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

Probab=98.69  E-value=8.1e-09  Score=110.58  Aligned_cols=55  Identities=33%  Similarity=0.742  Sum_probs=46.2

Q ss_pred             CCCccceecCcccCCCe--eEEecCCChhhHHhHHHHHhcCCCCCcccccccccCCCC
Q 014723          203 TSRTCAICLEDYSVGEK--LRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGE  258 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~--~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~~~  258 (419)
                      .+..|+||+|++..+.+  .+.|+|+|+||..|+++|+++.+ +||+||..+......
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~q-tCP~CR~~~~~~~~~  346 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQ-TCPTCRTVLYDYVLW  346 (543)
T ss_pred             cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhC-cCCcchhhhhccccc
Confidence            46899999999988755  78899999999999999999944 599999966655443

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

Probab=98.66  E-value=1.5e-08  Score=91.41  Aligned_cols=51  Identities=25%  Similarity=0.597  Sum_probs=41.3

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      +...|+|||+.+..... .-..|||+||..||+..++..+. ||+|++++...
T Consensus       130 ~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~-CP~C~kkIt~k  180 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNK-CPTCRKKITHK  180 (187)
T ss_pred             cccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCC-CCCcccccchh
Confidence            44789999999876533 23569999999999999998555 99999987654

>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=98.66  E-value=1.2e-08  Score=71.01  Aligned_cols=40  Identities=43%  Similarity=1.035  Sum_probs=34.9

Q ss_pred             cceecCcccCCCeeEEecCCChhhHHhHHHHHh-cCCCCCccc
Q 014723          207 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLT-SWRTFCPVC  248 (419)
Q Consensus       207 C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~-~~~~~CP~C  248 (419)
                      |+||++.+..+  ...++|+|.||..||.+|++ .....||+|
T Consensus         1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998766  46899999999999999998 556679998

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 ....

>PHA02926 zinc finger-like protein; Provisional

Probab=98.64  E-value=2.1e-08  Score=93.63  Aligned_cols=53  Identities=26%  Similarity=0.714  Sum_probs=39.1

Q ss_pred             CCCCccceecCcccCC-----CeeEEe-cCCChhhHHhHHHHHhcC-----CCCCccccccccc
Q 014723          202 CTSRTCAICLEDYSVG-----EKLRIL-PCRHKFHAFCVDSWLTSW-----RTFCPVCKRDART  254 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~-----~~~~~L-pC~H~Fh~~Ci~~Wl~~~-----~~~CP~Cr~~~~~  254 (419)
                      ..+.+|+||+|..-..     ....+| +|+|.||..||..|...+     ...||+||..+..
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~  231 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN  231 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence            3468999999986332     122344 599999999999999753     2349999987653

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.63  E-value=3.1e-08  Score=70.30  Aligned_cols=44  Identities=32%  Similarity=0.815  Sum_probs=37.7

Q ss_pred             ccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccc
Q 014723          206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKR  250 (419)
Q Consensus       206 ~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~  250 (419)
                      .|.||+++|...+....++|+|.||..|++++. .....||+||+
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            499999999666678899999999999999998 33556999985

>smart00184 RING Ring finger

Probab=98.61  E-value=4e-08  Score=66.03  Aligned_cols=39  Identities=44%  Similarity=1.125  Sum_probs=33.0

Q ss_pred             cceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccc
Q 014723          207 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVC  248 (419)
Q Consensus       207 C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~C  248 (419)
                      |+||++..   +....++|+|.||..|++.|++..+..||+|
T Consensus         1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            78999983   4468889999999999999998545679987

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

>smart00504 Ubox Modified RING finger domain

Probab=98.48  E-value=1.1e-07  Score=72.04  Aligned_cols=46  Identities=26%  Similarity=0.402  Sum_probs=40.0

Q ss_pred             CccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          205 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       205 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      ..|+||++.|.++   ..++|||.|++.||.+|++. +..||+|+..+..
T Consensus         2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~~   47 (63)
T smart00504        2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLS-HGTDPVTGQPLTH   47 (63)
T ss_pred             cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHH-CCCCCCCcCCCCh
Confidence            4699999999887   67899999999999999988 5569999987743

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

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.34  E-value=2.5e-07  Score=94.59  Aligned_cols=49  Identities=31%  Similarity=0.763  Sum_probs=41.9

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      ....|+||++.|..+   ++++|+|.||..||..|+... ..||+||..+...
T Consensus        25 ~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~-~~CP~Cr~~~~~~   73 (397)
T TIGR00599        25 TSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQ-PKCPLCRAEDQES   73 (397)
T ss_pred             cccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCC-CCCCCCCCccccc
Confidence            467999999999876   578999999999999999874 4699999987653

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

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

Probab=98.34  E-value=2.7e-07  Score=88.21  Aligned_cols=51  Identities=29%  Similarity=0.712  Sum_probs=43.0

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHH-HHhcCCCCCcccccccccCC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDS-WLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~-Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      .+..|.||+|....+   ..++|||+||+.||-. |-+.+-..||+||+.+.+.+
T Consensus       214 ~d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         214 ADYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             cccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            468999999998766   7788999999999999 87775555999999887654

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

Probab=98.30  E-value=2.6e-07  Score=65.31  Aligned_cols=39  Identities=38%  Similarity=0.780  Sum_probs=22.8

Q ss_pred             cceecCcccCCC-eeEEecCCChhhHHhHHHHHhcC---CCCCc
Q 014723          207 CAICLEDYSVGE-KLRILPCRHKFHAFCVDSWLTSW---RTFCP  246 (419)
Q Consensus       207 C~ICle~~~~~~-~~~~LpC~H~Fh~~Ci~~Wl~~~---~~~CP  246 (419)
                      |+||+| |...+ .-++|+|||.|+++||++|+...   ...||
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 86644 45779999999999999999853   34576

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

Probab=98.29  E-value=6.7e-07  Score=70.35  Aligned_cols=49  Identities=24%  Similarity=0.672  Sum_probs=33.6

Q ss_pred             cceecCcccCCCeeEE--ecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          207 CAICLEDYSVGEKLRI--LPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       207 C~ICle~~~~~~~~~~--LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      |+-|.-.+..+++..+  =-|.|.||..||.+||.. +..||+||++..-.+
T Consensus        34 C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~T-k~~CPld~q~w~~~~   84 (88)
T COG5194          34 CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDT-KGVCPLDRQTWVLAD   84 (88)
T ss_pred             CcccccCCCCCCcceEEEEecchHHHHHHHHHHHhh-CCCCCCCCceeEEec
Confidence            3333333334443332  239999999999999999 556999999875443

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

Probab=98.28  E-value=3.1e-07  Score=87.77  Aligned_cols=55  Identities=31%  Similarity=0.767  Sum_probs=43.6

Q ss_pred             CCCCCccceecCcccCC-------CeeEEecCCChhhHHhHHHHHhc-CCCCCcccccccccC
Q 014723          201 NCTSRTCAICLEDYSVG-------EKLRILPCRHKFHAFCVDSWLTS-WRTFCPVCKRDARTS  255 (419)
Q Consensus       201 ~~~~~~C~ICle~~~~~-------~~~~~LpC~H~Fh~~Ci~~Wl~~-~~~~CP~Cr~~~~~~  255 (419)
                      ..++..|+||-..+...       |+.-+|.|+|+||..||+-|-.. ++.+||.||+.+.-+
T Consensus       221 hl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~  283 (328)
T KOG1734|consen  221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK  283 (328)
T ss_pred             CCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence            34578999999777444       37889999999999999999753 355699999987644

>cd04814 PA_M28_1 PA_M28_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1

Probab=98.24  E-value=3.7e-06  Score=74.63  Aligned_cols=62  Identities=11%  Similarity=0.035  Sum_probs=47.8

Q ss_pred             CeeEEEEecC---CccCCCCCccCccccCCCcceEEEEecCCC------------------CHHHHHHHHHHcCCceEEE
Q 014723           48 GDCGVLYVAE---PLDACSNLTSKVEKVSNMSSAFVLTIRGGC------------------SFEDKVRNAQKAGFEAAIV  106 (419)
Q Consensus        48 ~~~G~l~~a~---p~daC~pl~~~~~~~~~~~~~IaLV~RG~C------------------sF~~Kv~nAq~aGA~avIv  106 (419)
                      .+.|.|+.+.   ...+|.-.+.   ..-|++||||||.||+|                  +|..|+++|+++||+|||+
T Consensus        19 ~~~aelVfvGyGi~a~~~~~dDY---ag~DVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~~~A~~~GA~gvIi   95 (142)
T cd04814          19 IKDAPLVFVGYGIKAPELSWDDY---AGLDVKGKVVVVLRNDPQGEPGAGDFGGKAMTYYGRWTYKYEEAARHGAAGVLI   95 (142)
T ss_pred             ccceeeEEecCCcCCCCCChhhc---CCCCCCCcEEEEEcCCCCcccccccccccccccccCHHHHHHHHHHCCCcEEEE
Confidence            4567776654   2345664332   23478999999999999                  6999999999999999999


Q ss_pred             eecCCC
Q 014723          107 YDNEDD  112 (419)
Q Consensus       107 ~nn~~~  112 (419)
                      +|+.+.
T Consensus        96 i~~~~~  101 (142)
T cd04814          96 VHELAP  101 (142)
T ss_pred             EeCCCc
Confidence            998654

A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subfamilies, relatively little is known a

>cd04822 PA_M28_1_3 PA_M28_1_3: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 3

Probab=98.24  E-value=3.7e-06  Score=75.45  Aligned_cols=63  Identities=17%  Similarity=0.168  Sum_probs=49.6

Q ss_pred             CCeeEEEEecC---CccCCCCCccCccccCCCcceEEEEecCC------------------CCHHHHHHHHHHcCCceEE
Q 014723           47 SGDCGVLYVAE---PLDACSNLTSKVEKVSNMSSAFVLTIRGG------------------CSFEDKVRNAQKAGFEAAI  105 (419)
Q Consensus        47 ~~~~G~l~~a~---p~daC~pl~~~~~~~~~~~~~IaLV~RG~------------------CsF~~Kv~nAq~aGA~avI  105 (419)
                      ..++|.|+.+.   ..++|.....   ..-+++||||||.||+                  |+|..|+++|+++||+|||
T Consensus        18 g~vtg~lVfvGyGi~~~~~~~~Dy---~giDVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~~~A~~~GA~aVI   94 (151)
T cd04822          18 GAVTAPVVFAGYGITAPELGYDDY---AGLDVKGKIVLVLRHEPQEDDANSRFNGPGLTRHAGLRYKATNARRHGAAAVI   94 (151)
T ss_pred             CCceEeEEEecCCcCccccchhhc---cCCCCCCeEEEEEcCCcccccccccccccccccccCHHHHHHHHHHCCCeEEE
Confidence            45788887765   3456764432   2347899999999884                  9999999999999999999


Q ss_pred             EeecCCC
Q 014723          106 VYDNEDD  112 (419)
Q Consensus       106 v~nn~~~  112 (419)
                      |||+...
T Consensus        95 v~~d~~~  101 (151)
T cd04822          95 VVNGPNS  101 (151)
T ss_pred             EEeCCcc
Confidence            9998654

A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt

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

Probab=98.21  E-value=5.4e-07  Score=70.28  Aligned_cols=50  Identities=30%  Similarity=0.775  Sum_probs=36.4

Q ss_pred             CCccceecCcccCC--------CeeE-Ee-cCCChhhHHhHHHHHhc--CCCCCcccccccc
Q 014723          204 SRTCAICLEDYSVG--------EKLR-IL-PCRHKFHAFCVDSWLTS--WRTFCPVCKRDAR  253 (419)
Q Consensus       204 ~~~C~ICle~~~~~--------~~~~-~L-pC~H~Fh~~Ci~~Wl~~--~~~~CP~Cr~~~~  253 (419)
                      +++|.||+-.|..-        |..- ++ -|.|.||..||.+|+..  .+..||+||++..
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            45899999888432        2211 22 29999999999999965  3456999998753

>cd04820 PA_M28_1_1 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1

Probab=98.20  E-value=5.2e-06  Score=73.29  Aligned_cols=65  Identities=17%  Similarity=0.133  Sum_probs=50.1

Q ss_pred             CCCCeeEEEEecC---CccCCCCCccCccccCCCcceEEEEecCCCC------------HHHHHHHHHHcCCceEEEeec
Q 014723           45 RGSGDCGVLYVAE---PLDACSNLTSKVEKVSNMSSAFVLTIRGGCS------------FEDKVRNAQKAGFEAAIVYDN  109 (419)
Q Consensus        45 ~~~~~~G~l~~a~---p~daC~pl~~~~~~~~~~~~~IaLV~RG~Cs------------F~~Kv~nAq~aGA~avIv~nn  109 (419)
                      +...+.|.|+.+.   ..++|.-.+.   ..-+++||||||.+|.|.            +.+|+++|+++||+|||||++
T Consensus        18 ~~g~v~gelVfvGyG~~~~~~~~~Dy---~~iDVkGKIVlv~~g~p~~~~~~~~~~~~~~~~K~~~A~~~GA~aVIi~~d   94 (137)
T cd04820          18 PAASVEAPLVFVGYGLVAPELGHDDY---AGLDVKGKIVVVLSGGPAGIPSEEGAHAHSSNEKARYAAKAGAIGMITLTT   94 (137)
T ss_pred             CCCCceEeEEEecCCcCccCcCHhhc---cCCCCCCeEEEEEcCCCCccccccccccccHHHHHHHHHHCCCeEEEEEeC
Confidence            3356788887765   3356664332   234789999999999995            889999999999999999998


Q ss_pred             CCC
Q 014723          110 EDD  112 (419)
Q Consensus       110 ~~~  112 (419)
                      ...
T Consensus        95 ~~~   97 (137)
T cd04820          95 PRS   97 (137)
T ss_pred             Ccc
Confidence            654

A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt

>cd02121 PA_GCPII_like PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like

Probab=98.19  E-value=5.4e-06  Score=78.81  Aligned_cols=61  Identities=25%  Similarity=0.174  Sum_probs=46.5

Q ss_pred             CCeeEEEEecCCccCCCCCcc--CccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecC
Q 014723           47 SGDCGVLYVAEPLDACSNLTS--KVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNE  110 (419)
Q Consensus        47 ~~~~G~l~~a~p~daC~pl~~--~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~  110 (419)
                      ..+.|.|+.+.   .|..-+.  .....-+++||||||++|.|.+.+|+++|+++||+|||||++.
T Consensus        43 g~v~g~lVyvn---yG~~~D~~~L~~~gvdv~GKIvLvr~G~~~~~~Kv~~A~~~GA~gVIiy~Dp  105 (220)
T cd02121          43 GNVTAELVYAN---YGSPEDFEYLEDLGIDVKGKIVIARYGGIFRGLKVKNAQLAGAVGVIIYSDP  105 (220)
T ss_pred             CCceEEEEEcC---CCcHHHHHHHhhcCCCCCCeEEEEECCCccHHHHHHHHHHcCCEEEEEEeCc
Confidence            45788888876   3332211  0112346799999999999999999999999999999999863

This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to the peptidase M28 family. GCPII is also known N-acetylated-alpha-linked acidic dipeptidase (NAALDase1), folate hydrolase or prostate-specific membrane antigen (PSMA). GCPII is found in various human tissues including prostate, small intestine, and the central nervous system. In the brain, GCPII is known as NAALDase1, it functions as a NAALDase hydrolyzing the neuropeptide N-acetyl-L-aspartyl-L-glutamate (alpha-NAAG), to release free glutamate. In the small intestine, GCPII releases the terminal glutamate from poly-gamma-glutamated folates. GCPII (PSMA) is a useful cancer marker; its expression is markedly increased in prostate cancer and in tumor-associated neovasculature. GCPIII hydrolyzes alpha-NAAG with a lower

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

Probab=98.19  E-value=7.4e-07  Score=91.27  Aligned_cols=52  Identities=27%  Similarity=0.846  Sum_probs=40.5

Q ss_pred             CCCccceecCcccCC--------------CeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          203 TSRTCAICLEDYSVG--------------EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       203 ~~~~C~ICle~~~~~--------------~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      ....|+||+.+...-              ......||.|+||..|++.|+...+..||+||.++.+
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            347899999776321              1234569999999999999999767779999998753

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

Probab=98.14  E-value=2.4e-06  Score=62.19  Aligned_cols=43  Identities=28%  Similarity=0.770  Sum_probs=33.2

Q ss_pred             ccceecCcccCCCeeEEecCC-----ChhhHHhHHHHHhcC-CCCCcccc
Q 014723          206 TCAICLEDYSVGEKLRILPCR-----HKFHAFCVDSWLTSW-RTFCPVCK  249 (419)
Q Consensus       206 ~C~ICle~~~~~~~~~~LpC~-----H~Fh~~Ci~~Wl~~~-~~~CP~Cr  249 (419)
                      .|.||++.. .++...+.||.     |.+|..|+++|+... +..||+|+
T Consensus         1 ~CrIC~~~~-~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEG-DEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCC-CCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            489999943 34445578985     889999999999764 45799995

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

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

Probab=98.05  E-value=1.4e-06  Score=68.57  Aligned_cols=49  Identities=22%  Similarity=0.320  Sum_probs=38.8

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      ...|+||.+-|.++   +++||||.|.+.||..|+..+...||+|+..+...
T Consensus         4 ~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    4 EFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSES   52 (73)
T ss_dssp             GGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred             ccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence            46899999999988   78899999999999999999667799998877654

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 ....

>cd02131 PA_hNAALADL2_like PA_hNAALADL2_like: Protease-associated domain containing proteins like human N-acetylated alpha-linked acidic dipeptidase-like 2 protein (hNAALADL2)

Probab=97.98  E-value=9.1e-06  Score=72.43  Aligned_cols=63  Identities=14%  Similarity=0.167  Sum_probs=46.4

Q ss_pred             CCCeeEEEEecCC--ccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCC
Q 014723           46 GSGDCGVLYVAEP--LDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDD  112 (419)
Q Consensus        46 ~~~~~G~l~~a~p--~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~  112 (419)
                      ...++|.++.++=  .+-=+.|..    .-+++|||||++.|...+..|++|||++||.|||||.+..+
T Consensus        12 sG~Vtg~~VYvNyG~~eDf~~L~~----~V~v~GkIvi~RyG~~~RG~Kv~~A~~~GA~GviIYsDP~d   76 (153)
T cd02131          12 KGTLQAEVVDVQYGSVEDLRRIRD----NMNVTNQIALLKLGQAPLLYKLSLLEEAGFGGVLLYVDPCD   76 (153)
T ss_pred             CCceEEEEEEecCCCHHHHHHHHh----CCCccceEEEEeccCcchHHHHHHHHHCCCeEEEEecChhh
Confidence            4557888887761  100011111    13579999999999999999999999999999999988544

This group contains various PA domain-containing proteins similar to hNAALADL2. The function of hNAALADL2 is unknown. This gene has been mapped to a chromosomal region associated with Cornelia de Lange syndrome. The significance of the PA domain to hNAALADL2 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.

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

Probab=97.95  E-value=3e-06  Score=83.35  Aligned_cols=48  Identities=31%  Similarity=0.817  Sum_probs=42.6

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      -..|.||.|-|..+   .+.||+|.||..||...|.. ++.||.|+.++.+.
T Consensus        23 lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~-~p~CP~C~~~~~Es   70 (442)
T KOG0287|consen   23 LLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSY-KPQCPTCCVTVTES   70 (442)
T ss_pred             HHHHhHHHHHhcCc---eeccccchHHHHHHHHHhcc-CCCCCceecccchh
Confidence            46899999999988   78899999999999999988 56699999887665

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

Probab=97.93  E-value=2.7e-06  Score=92.66  Aligned_cols=53  Identities=30%  Similarity=0.751  Sum_probs=38.2

Q ss_pred             CCCCCccceecCcccCCC----eeEEecCCChhhHHhHHHHHhc-CCCCCcccccccc
Q 014723          201 NCTSRTCAICLEDYSVGE----KLRILPCRHKFHAFCVDSWLTS-WRTFCPVCKRDAR  253 (419)
Q Consensus       201 ~~~~~~C~ICle~~~~~~----~~~~LpC~H~Fh~~Ci~~Wl~~-~~~~CP~Cr~~~~  253 (419)
                      -.+-.+|+||+..+..-|    ..+.-.|.|+||..|+.+|+.. .+.+||+||.++.
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            345689999996664221    1122239999999999999986 4567999997653

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.92  E-value=7.7e-06  Score=80.84  Aligned_cols=53  Identities=26%  Similarity=0.540  Sum_probs=39.2

Q ss_pred             CCccceecCc-ccCCC-eeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          204 SRTCAICLED-YSVGE-KLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       204 ~~~C~ICle~-~~~~~-~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      +..|+||..+ +..++ ++.+-+|||.||..||+..+......||.|+..+....
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            5789999975 33333 23333799999999999977665667999988776553

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).

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

Probab=97.89  E-value=5.9e-06  Score=85.56  Aligned_cols=53  Identities=30%  Similarity=0.587  Sum_probs=40.2

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcC----CCCCcccccccccCCCCC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW----RTFCPVCKRDARTSTGEP  259 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~----~~~CP~Cr~~~~~~~~~p  259 (419)
                      +..|+|||+....+  +++. |||+||..||-..+...    -..||+|+..+...+..|
T Consensus       186 ~~~CPICL~~~~~p--~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~p  242 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP--VRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLP  242 (513)
T ss_pred             CCcCCcccCCCCcc--cccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhccccceee
Confidence            67899999997766  3444 99999999998866432    235999999888754433

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

Probab=97.89  E-value=4.5e-06  Score=80.17  Aligned_cols=43  Identities=37%  Similarity=0.799  Sum_probs=38.9

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCK  249 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr  249 (419)
                      +...|+||++.|..+   +++||+|.||..||..|.. ....||.||
T Consensus        12 ~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr   54 (386)
T KOG2177|consen   12 EELTCPICLEYFREP---VLLPCGHNFCRACLTRSWE-GPLSCPVCR   54 (386)
T ss_pred             ccccChhhHHHhhcC---ccccccchHhHHHHHHhcC-CCcCCcccC
Confidence            468999999999988   8899999999999999988 456799999

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

Probab=97.83  E-value=7.9e-06  Score=78.97  Aligned_cols=48  Identities=33%  Similarity=0.735  Sum_probs=41.3

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      -..|-||-+.|..+   ...+|||.||..||...|.. +..||+||.+..+.
T Consensus        25 ~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~-qp~CP~Cr~~~~es   72 (391)
T COG5432          25 MLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGT-QPFCPVCREDPCES   72 (391)
T ss_pred             HHHhhhhhheeecc---eecccccchhHHHHHHHhcC-CCCCccccccHHhh
Confidence            47899999999887   67789999999999999998 55699999876543

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

Probab=97.76  E-value=1.9e-05  Score=65.26  Aligned_cols=28  Identities=32%  Similarity=0.952  Sum_probs=24.1

Q ss_pred             cCCChhhHHhHHHHHhcCCCCCccccccc
Q 014723          224 PCRHKFHAFCVDSWLTSWRTFCPVCKRDA  252 (419)
Q Consensus       224 pC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~  252 (419)
                      .|.|.||..||.+||++++ .||+|.++-
T Consensus        80 ~CNHaFH~hCisrWlktr~-vCPLdn~eW  107 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRN-VCPLDNKEW  107 (114)
T ss_pred             ecchHHHHHHHHHHHhhcC-cCCCcCcce
Confidence            3999999999999999954 599997753

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

Probab=97.74  E-value=5.4e-06  Score=64.85  Aligned_cols=50  Identities=28%  Similarity=0.668  Sum_probs=23.2

Q ss_pred             CCccceecCcccCCCeeEEe-----cCCChhhHHhHHHHHhc---CC-------CCCcccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRIL-----PCRHKFHAFCVDSWLTS---WR-------TFCPVCKRDAR  253 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~L-----pC~H~Fh~~Ci~~Wl~~---~~-------~~CP~Cr~~~~  253 (419)
                      +.+|.||++.+...+.+-.+     .|+..||..||.+||..   .+       ..||.|++++.
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            46899999887633222111     38899999999999953   11       14999998774

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

Probab=97.74  E-value=9.9e-06  Score=82.51  Aligned_cols=47  Identities=34%  Similarity=0.818  Sum_probs=37.8

Q ss_pred             CCccceecCcccCC-CeeEEecCCChhhHHhHHHHHhcCCCCCcccccccc
Q 014723          204 SRTCAICLEDYSVG-EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       204 ~~~C~ICle~~~~~-~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      -.+|+||||.|... ..++...|.|.||..|+.+|-..   +||+||....
T Consensus       175 LPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~---scpvcR~~q~  222 (493)
T KOG0804|consen  175 LPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS---SCPVCRYCQS  222 (493)
T ss_pred             CCCcchhHhhcCccccceeeeecccccchHHHhhcccC---cChhhhhhcC
Confidence            47899999999544 24566669999999999999654   7999998654

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

Probab=97.66  E-value=3.1e-05  Score=77.25  Aligned_cols=50  Identities=28%  Similarity=0.668  Sum_probs=40.0

Q ss_pred             CCCCccceecCcccCCCeeEEecCCCh-hhHHhHHHHHhcCCCCCcccccccccC
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHK-FHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      +...+|.||+.+-.+   ..+|||.|. .|..|.+.-.-+ ...||+||+++.+.
T Consensus       288 ~~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q-~n~CPICRqpi~~l  338 (349)
T KOG4265|consen  288 ESGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQ-TNNCPICRQPIEEL  338 (349)
T ss_pred             cCCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHh-hcCCCccccchHhh
Confidence            346899999998655   489999998 999999886544 34599999988654

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

Probab=97.60  E-value=3.2e-05  Score=75.40  Aligned_cols=50  Identities=24%  Similarity=0.522  Sum_probs=41.7

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      ..+|.||+....-+   ..|+|+|+||..||+--....+..|++||.++....
T Consensus         7 ~~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i   56 (324)
T KOG0824|consen    7 KKECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI   56 (324)
T ss_pred             CCcceeeeccCCcC---ccccccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence            47899999987666   778999999999999866665566999999987653

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

Probab=97.55  E-value=1.7e-05  Score=78.83  Aligned_cols=53  Identities=25%  Similarity=0.469  Sum_probs=42.4

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      ..+..|+|||+-++..  .....|.|.||..||.+-+......||.||+.+....
T Consensus        41 ~~~v~c~icl~llk~t--mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skr   93 (381)
T KOG0311|consen   41 DIQVICPICLSLLKKT--MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKR   93 (381)
T ss_pred             hhhhccHHHHHHHHhh--cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccc
Confidence            3468999999987654  2233499999999999999988888999999876553

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

Probab=97.52  E-value=5.9e-05  Score=76.18  Aligned_cols=49  Identities=35%  Similarity=0.927  Sum_probs=38.5

Q ss_pred             CCccceecCcccCC--CeeEEecCCChhhHHhHHHHHhc-CCCCCccccccc
Q 014723          204 SRTCAICLEDYSVG--EKLRILPCRHKFHAFCVDSWLTS-WRTFCPVCKRDA  252 (419)
Q Consensus       204 ~~~C~ICle~~~~~--~~~~~LpC~H~Fh~~Ci~~Wl~~-~~~~CP~Cr~~~  252 (419)
                      ..+|+||++.++..  ..+..|.|+|.|...||++||.+ ....||.|..+.
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            57899999999765  34556679999999999999953 234699997543

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

Probab=97.42  E-value=8.4e-05  Score=74.60  Aligned_cols=49  Identities=29%  Similarity=0.698  Sum_probs=35.6

Q ss_pred             CccceecCcccC-CCeeEEec-CCChhhHHhHHHHHhcCC--CCCccccccccc
Q 014723          205 RTCAICLEDYSV-GEKLRILP-CRHKFHAFCVDSWLTSWR--TFCPVCKRDART  254 (419)
Q Consensus       205 ~~C~ICle~~~~-~~~~~~Lp-C~H~Fh~~Ci~~Wl~~~~--~~CP~Cr~~~~~  254 (419)
                      ..|.|| +++.+ .+.+.-+. |||+||..|+..|+....  ..||.|+-.+..
T Consensus         5 A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~   57 (465)
T KOG0827|consen    5 AECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQE   57 (465)
T ss_pred             ceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccc
Confidence            579999 55544 34555555 999999999999997632  259999854443

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

Probab=97.36  E-value=0.0012  Score=61.95  Aligned_cols=55  Identities=22%  Similarity=0.570  Sum_probs=43.8

Q ss_pred             CCCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcC-------CCCCcccccccccCC
Q 014723          201 NCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW-------RTFCPVCKRDARTST  256 (419)
Q Consensus       201 ~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~-------~~~CP~Cr~~~~~~~  256 (419)
                      .+-...|..|-..+..+|.++.. |.|.||++|+.+|-...       --+||-|..++++..
T Consensus        47 sDY~pNC~LC~t~La~gdt~RLv-CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~  108 (299)
T KOG3970|consen   47 SDYNPNCRLCNTPLASGDTTRLV-CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI  108 (299)
T ss_pred             cCCCCCCceeCCccccCcceeeh-hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence            33457899999999999887755 99999999999998431       125999999988763

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

Probab=97.34  E-value=3.9e-05  Score=82.55  Aligned_cols=53  Identities=23%  Similarity=0.380  Sum_probs=43.5

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      +....|++|+..+.++......+|+|.||..||..|-+.-+ +||+||..+...
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aq-TCPiDR~EF~~v  173 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQ-TCPVDRGEFGEV  173 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcc-cCchhhhhhhee
Confidence            34567999999988887777778999999999999998745 599999876543

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

Probab=97.27  E-value=0.00012  Score=71.17  Aligned_cols=55  Identities=29%  Similarity=0.751  Sum_probs=44.2

Q ss_pred             ccCCCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHh------------------c----CCCCCcccccccc
Q 014723          199 EDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLT------------------S----WRTFCPVCKRDAR  253 (419)
Q Consensus       199 ~~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~------------------~----~~~~CP~Cr~~~~  253 (419)
                      +.+.....|.|||--|..++...+.+|.|.||..|+..+|+                  .    ....||+||..+.
T Consensus       110 ~nn~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  110 ENNHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             cCCCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            34445688999999999999999999999999999988771                  1    1235999998764

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

Probab=97.24  E-value=0.00014  Score=73.24  Aligned_cols=52  Identities=29%  Similarity=0.823  Sum_probs=38.7

Q ss_pred             CCCCccceecCcccCCC----eeEEec-CCChhhHHhHHHHHhcCC------CCCcccccccc
Q 014723          202 CTSRTCAICLEDYSVGE----KLRILP-CRHKFHAFCVDSWLTSWR------TFCPVCKRDAR  253 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~----~~~~Lp-C~H~Fh~~Ci~~Wl~~~~------~~CP~Cr~~~~  253 (419)
                      ..+.+|.||+|...+.-    ...+|| |.|.||..||.+|-...+      ..||.||....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            34689999999875442    134456 999999999999984433      46999997553

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

Probab=97.17  E-value=8.3e-05  Score=56.65  Aligned_cols=47  Identities=28%  Similarity=0.619  Sum_probs=24.5

Q ss_pred             CccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          205 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       205 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      -.|.+|.+-|..+  +....|.|+||..||..-+..   .||+|+.+...++
T Consensus         8 LrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~~---~CPvC~~Paw~qD   54 (65)
T PF14835_consen    8 LRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIGS---ECPVCHTPAWIQD   54 (65)
T ss_dssp             TS-SSS-S--SS---B---SSS--B-TTTGGGGTTT---B-SSS--B-S-SS
T ss_pred             cCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcCC---CCCCcCChHHHHH
Confidence            5799999998766  555569999999999886554   5999998876554

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

Probab=97.16  E-value=0.00014  Score=53.34  Aligned_cols=47  Identities=23%  Similarity=0.540  Sum_probs=35.1

Q ss_pred             CCccceecCcccCCCeeEEecCCCh-hhHHhHHHHHhcCCCCCcccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHK-FHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      +++|.||+|.--+.   +.-.|||. .|.+|-.+-++..+..||+||+++.
T Consensus         7 ~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            48999999974433   33359998 8999976655545667999999774

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

Probab=97.00  E-value=0.00022  Score=77.37  Aligned_cols=49  Identities=22%  Similarity=0.550  Sum_probs=40.1

Q ss_pred             CccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          205 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       205 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      ..|+.|-+.+.+.   ++..|+|.||..||.+-+..++..||.|...+...+
T Consensus       644 LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  644 LKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             eeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            6799999776654   555599999999999999887778999988775443

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

Probab=96.94  E-value=0.0005  Score=69.18  Aligned_cols=47  Identities=34%  Similarity=0.808  Sum_probs=39.1

Q ss_pred             CCccceecCcccC-CCeeEEecCCChhhHHhHHHHHhcCC-CCCccccc
Q 014723          204 SRTCAICLEDYSV-GEKLRILPCRHKFHAFCVDSWLTSWR-TFCPVCKR  250 (419)
Q Consensus       204 ~~~C~ICle~~~~-~~~~~~LpC~H~Fh~~Ci~~Wl~~~~-~~CP~Cr~  250 (419)
                      +..|..|-|.+.. ++.+..|||.|+||..|+.+.|+.+- .+||.||+
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            5689999999854 46888999999999999999997632 35999984

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

Probab=96.77  E-value=0.0011  Score=75.33  Aligned_cols=73  Identities=22%  Similarity=0.441  Sum_probs=52.8

Q ss_pred             hhhHHhcCCcceeccccccCCCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcC---------CCCCccccccc
Q 014723          182 SRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW---------RTFCPVCKRDA  252 (419)
Q Consensus       182 ~~~~i~~lp~~~~~~~~~~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~---------~~~CP~Cr~~~  252 (419)
                      -+....-+|-+.-++....++.++.|-||+.+--.....++|.|+|+||..|...-|+.+         -..||+|+.++
T Consensus      3464 vkNEE~CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3464 VKNEEHCLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred             ccchhhcccccccChhhhhcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence            344555666666555555666789999999665555678899999999999998755431         12599999877


Q ss_pred             cc
Q 014723          253 RT  254 (419)
Q Consensus       253 ~~  254 (419)
                      ..
T Consensus      3544 nH 3545 (3738)
T KOG1428|consen 3544 NH 3545 (3738)
T ss_pred             hh
Confidence            53

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

Probab=96.74  E-value=0.00057  Score=51.28  Aligned_cols=42  Identities=24%  Similarity=0.498  Sum_probs=29.6

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhc-CCCCCcc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS-WRTFCPV  247 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~-~~~~CP~  247 (419)
                      ...|+|.+..|+++  ++...|+|.|-++.|.+|++. ....||+
T Consensus        11 ~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            57899999998866  777789999999999999943 3456998

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

Probab=96.63  E-value=0.00093  Score=69.55  Aligned_cols=57  Identities=23%  Similarity=0.518  Sum_probs=42.5

Q ss_pred             cccCCCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhc----CCCCCcccccccccCCC
Q 014723          198 VEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS----WRTFCPVCKRDARTSTG  257 (419)
Q Consensus       198 ~~~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~----~~~~CP~Cr~~~~~~~~  257 (419)
                      ..++.+..+|.+|-|+-++.   ....|.|.||+.||+++...    .+.+||+|...+.-...
T Consensus       530 ~~enk~~~~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDls  590 (791)
T KOG1002|consen  530 PDENKGEVECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLS  590 (791)
T ss_pred             CccccCceeecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccccc
Confidence            34455678999999885544   55669999999999998843    35679999876654433

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

Probab=96.59  E-value=0.0011  Score=68.32  Aligned_cols=49  Identities=27%  Similarity=0.626  Sum_probs=41.4

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      ..+.+|.||+.-+..+   +.+||||.||..||+.-+.. ...||.||..+.+
T Consensus        82 ~sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~-~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQ-ETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCC---ccccccccccHHHHHHHhcc-CCCCccccccccc
Confidence            3568999999888776   67799999999999997664 6669999998876

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

Probab=96.47  E-value=0.0009  Score=59.87  Aligned_cols=28  Identities=39%  Similarity=0.905  Sum_probs=26.5

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhH
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHA  231 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~  231 (419)
                      ..+|.||||+++.++.+..|||-++||+
T Consensus       177 kGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  177 KGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             CCcEEEEhhhccCCCceeccceEEEeec
Confidence            5789999999999999999999999996

>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length

Probab=96.45  E-value=0.0014  Score=57.23  Aligned_cols=35  Identities=20%  Similarity=0.484  Sum_probs=30.6

Q ss_pred             CCccceecCcccCCCeeEEecCC------ChhhHHhHHHHH
Q 014723          204 SRTCAICLEDYSVGEKLRILPCR------HKFHAFCVDSWL  238 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~------H~Fh~~Ci~~Wl  238 (419)
                      ..+|.||++.+...+.++.++|+      |.||.+|+++|-
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~   66 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR   66 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence            47899999999886668888886      899999999994

The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.16  E-value=0.0064  Score=54.55  Aligned_cols=49  Identities=20%  Similarity=0.603  Sum_probs=36.7

Q ss_pred             CCCccceecCcccCCCeeEEecCCC-----hhhHHhHHHHHhc-CCCCCcccccccccC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRH-----KFHAFCVDSWLTS-WRTFCPVCKRDARTS  255 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H-----~Fh~~Ci~~Wl~~-~~~~CP~Cr~~~~~~  255 (419)
                      .+..|-||.++-.  +.  .-||..     ..|.+|++.|+.. +...|++|+.++.-.
T Consensus         7 ~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          7 MDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            4689999998843  22  247754     5699999999975 355699999887654

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

Probab=96.16  E-value=0.0028  Score=64.41  Aligned_cols=47  Identities=30%  Similarity=0.602  Sum_probs=38.0

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhc-------CCCCCcccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS-------WRTFCPVCK  249 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~-------~~~~CP~Cr  249 (419)
                      .-..|.||+++....+....|||+|+||+.|++..+..       ....||-|+
T Consensus       183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~  236 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK  236 (445)
T ss_pred             hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence            35789999999877688999999999999999999843       233587554

>PHA02862 5L protein; Provisional

Probab=96.13  E-value=0.0052  Score=54.15  Aligned_cols=48  Identities=25%  Similarity=0.526  Sum_probs=36.0

Q ss_pred             CCccceecCcccCCCeeEEecCCC-----hhhHHhHHHHHhc-CCCCCcccccccccC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRH-----KFHAFCVDSWLTS-WRTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H-----~Fh~~Ci~~Wl~~-~~~~CP~Cr~~~~~~  255 (419)
                      ++.|-||+++-.  +.  .-||..     ..|.+|+.+|+.. ++..|++|+.++.-.
T Consensus         2 ~diCWIC~~~~~--e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik   55 (156)
T PHA02862          2 SDICWICNDVCD--ER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK   55 (156)
T ss_pred             CCEEEEecCcCC--CC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence            468999999843  22  357754     6899999999975 455799999987644

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

Probab=96.08  E-value=0.0028  Score=64.11  Aligned_cols=47  Identities=30%  Similarity=0.772  Sum_probs=37.3

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcC-CCCCcccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW-RTFCPVCKRDAR  253 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~-~~~CP~Cr~~~~  253 (419)
                      -..|-||-|.=   ..+++-||||..|..|+..|-... ...||.||.++-
T Consensus       369 FeLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK  416 (563)
T KOG1785|consen  369 FELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK  416 (563)
T ss_pred             HHHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence            36799999862   346778999999999999998543 446999998764

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

Probab=95.99  E-value=0.0035  Score=64.83  Aligned_cols=54  Identities=24%  Similarity=0.539  Sum_probs=43.1

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCCCC
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGE  258 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~~~  258 (419)
                      ..+..|+||...+.++  +....|+|.||..|+.+|+.. +..||.|+..+......
T Consensus        19 ~~~l~C~~C~~vl~~p--~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~~~~   72 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDP--VQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQAEEL   72 (391)
T ss_pred             cccccCccccccccCC--CCCCCCCCcccccccchhhcc-CcCCcccccccchhhcc
Confidence            3468899999998887  222579999999999999998 55699998877655443

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

Probab=95.68  E-value=0.008  Score=58.26  Aligned_cols=49  Identities=20%  Similarity=0.508  Sum_probs=39.0

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhc-CCCCCcccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS-WRTFCPVCKRDAR  253 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~-~~~~CP~Cr~~~~  253 (419)
                      .+.+|++|-+.-+.+  ....+|+|+||.-||.+-+.. -..+||.|...+.
T Consensus       238 ~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  238 SDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             CCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            468999999997766  566789999999999987653 2347999977665

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

Probab=95.28  E-value=0.0073  Score=43.45  Aligned_cols=41  Identities=37%  Similarity=0.854  Sum_probs=26.9

Q ss_pred             cceecCcccCCCeeEEecCCC-----hhhHHhHHHHHhc-CCCCCccc
Q 014723          207 CAICLEDYSVGEKLRILPCRH-----KFHAFCVDSWLTS-WRTFCPVC  248 (419)
Q Consensus       207 C~ICle~~~~~~~~~~LpC~H-----~Fh~~Ci~~Wl~~-~~~~CP~C  248 (419)
                      |-||+++-...+ .-+.||..     ..|..|+.+|+.. .+..|++|
T Consensus         1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            779998866554 34567653     6899999999975 34569887

>cd04821 PA_M28_1_2 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2

Probab=95.19  E-value=0.023  Score=51.37  Aligned_cols=40  Identities=15%  Similarity=0.232  Sum_probs=32.4

Q ss_pred             cCCCcceEEEEecCCCCH-------------------HHHHHHHHHcCCceEEEeecCC
Q 014723           72 VSNMSSAFVLTIRGGCSF-------------------EDKVRNAQKAGFEAAIVYDNED  111 (419)
Q Consensus        72 ~~~~~~~IaLV~RG~CsF-------------------~~Kv~nAq~aGA~avIv~nn~~  111 (419)
                      .-|++||||||.+|+=.|                   ..|.+.|+++||+|||++++..
T Consensus        45 g~DVkGKiVvvl~~~P~~~~~~~~~f~~~~~~~~~~~~~K~~~A~~~GA~gvi~v~~~~  103 (157)
T cd04821          45 GLDVKGKTVVILVNDPGFATPDSGLFNGKAMTYYGRWTYKYEEAARQGAAGALIVHETE  103 (157)
T ss_pred             CCCcCCcEEEEEcCCCCcccccccccCcccccccccHHHHHHHHHHCCCeEEEEEeCCC
Confidence            457899999999876433                   3599999999999999997643

A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt

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

Probab=95.13  E-value=0.013  Score=42.34  Aligned_cols=45  Identities=24%  Similarity=0.614  Sum_probs=21.9

Q ss_pred             cceecCcccCCCeeEEec--CCChhhHHhHHHHHhcCCCCCccccccc
Q 014723          207 CAICLEDYSVGEKLRILP--CRHKFHAFCVDSWLTSWRTFCPVCKRDA  252 (419)
Q Consensus       207 C~ICle~~~~~~~~~~Lp--C~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~  252 (419)
                      |++|.|++... ....+|  |++..+..|...-++.....||-||+++
T Consensus         1 cp~C~e~~d~~-d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDET-DKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CC-CTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccC-CCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            78999998322 223445  7899999998887765566799999864

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

Probab=95.08  E-value=0.022  Score=55.77  Aligned_cols=44  Identities=25%  Similarity=0.520  Sum_probs=35.0

Q ss_pred             CccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccc
Q 014723          205 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKR  250 (419)
Q Consensus       205 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~  250 (419)
                      ..|+.|..-+..+  ++.--|+|.||.+||..-|......||.|.+
T Consensus       275 LkCplc~~Llrnp--~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNP--MKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCc--ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            6799998877665  3332389999999999998876677999965

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

Probab=95.00  E-value=0.01  Score=54.89  Aligned_cols=44  Identities=27%  Similarity=0.604  Sum_probs=36.7

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD  251 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~  251 (419)
                      ...|.||-++|+.+   ++..|||.||..|.-.-++.. ..|-+|.+.
T Consensus       196 PF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg-~~C~~Cgk~  239 (259)
T COG5152         196 PFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKG-DECGVCGKA  239 (259)
T ss_pred             ceeehhchhhccch---hhhhcchhHHHHHHHHHhccC-Ccceecchh
Confidence            46899999999887   667799999999998877774 459999764

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

Probab=94.96  E-value=0.0069  Score=60.12  Aligned_cols=48  Identities=25%  Similarity=0.580  Sum_probs=38.9

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      ..+|.+|-.-|-+..  .+.-|-|.||+.||-+.|+. ...||.|...+..
T Consensus        15 ~itC~LC~GYliDAT--TI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih~   62 (331)
T KOG2660|consen   15 HITCRLCGGYLIDAT--TITECLHTFCKSCIVKYLEE-SKYCPTCDIVIHK   62 (331)
T ss_pred             ceehhhccceeecch--hHHHHHHHHHHHHHHHHHHH-hccCCccceeccC
Confidence            578999998887762  34459999999999999998 5569999876543

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

Probab=94.93  E-value=0.021  Score=57.43  Aligned_cols=45  Identities=27%  Similarity=0.635  Sum_probs=32.8

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccc
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      ...+.|.||+++..+   ..-+||||+-|  |..--.  +...||+||+.+.
T Consensus       303 ~~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs~--~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  303 PQPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCSK--HLPQCPVCRQRIR  347 (355)
T ss_pred             CCCCceEEecCCccc---eeeecCCcEEE--chHHHh--hCCCCchhHHHHH
Confidence            345789999998765   58889999855  654433  2445999998664

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

Probab=94.59  E-value=0.015  Score=48.25  Aligned_cols=32  Identities=25%  Similarity=0.685  Sum_probs=27.5

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHH
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVD  235 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~  235 (419)
                      .+..|++|-..+.. ......||+|+||..|++
T Consensus        77 ~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   77 ESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            35789999999977 567888999999999975

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 [].

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.52  E-value=0.032  Score=53.33  Aligned_cols=52  Identities=15%  Similarity=0.292  Sum_probs=43.7

Q ss_pred             CCccceecCcccCCCeeEEe-cCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          204 SRTCAICLEDYSVGEKLRIL-PCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      ...|+||.+.+++...+..| ||||+|+.+|+++.+.... .||+|-+++.+.+
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~-v~pv~d~plkdrd  273 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDM-VDPVTDKPLKDRD  273 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccc-cccCCCCcCcccc
Confidence            47899999999998877777 5999999999999887744 4999988776543

>PHA03096 p28-like protein; Provisional

Probab=94.50  E-value=0.02  Score=56.58  Aligned_cols=36  Identities=36%  Similarity=0.930  Sum_probs=28.7

Q ss_pred             CccceecCcccCC----CeeEEec-CCChhhHHhHHHHHhc
Q 014723          205 RTCAICLEDYSVG----EKLRILP-CRHKFHAFCVDSWLTS  240 (419)
Q Consensus       205 ~~C~ICle~~~~~----~~~~~Lp-C~H~Fh~~Ci~~Wl~~  240 (419)
                      ..|.||+|.....    ..-..|+ |.|.||..||..|...
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~  219 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE  219 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence            6899999887543    2344676 9999999999999864

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

Probab=94.46  E-value=0.037  Score=55.25  Aligned_cols=65  Identities=22%  Similarity=0.492  Sum_probs=45.1

Q ss_pred             hhHHhcCCcceeccccccCCCCCccceecCcccCCCeeEEecCCChhhHHhHHHH--HhcCCCCCcccccc
Q 014723          183 RRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSW--LTSWRTFCPVCKRD  251 (419)
Q Consensus       183 ~~~i~~lp~~~~~~~~~~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~W--l~~~~~~CP~Cr~~  251 (419)
                      +..+...|.+......+...+...|.||-+..+   ....+||+|..|-.|--.-  |-. +..||+||.+
T Consensus        40 KNnlsaEPnlttsSaddtDEen~~C~ICA~~~T---Ys~~~PC~H~~CH~Ca~RlRALY~-~K~C~~CrTE  106 (493)
T COG5236          40 KNNLSAEPNLTTSSADDTDEENMNCQICAGSTT---YSARYPCGHQICHACAVRLRALYM-QKGCPLCRTE  106 (493)
T ss_pred             ccccccCCccccccccccccccceeEEecCCce---EEEeccCCchHHHHHHHHHHHHHh-ccCCCccccc
Confidence            444455566555555555556688999998864   4588999999999997542  333 3359999975

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=94.39  E-value=0.031  Score=55.66  Aligned_cols=53  Identities=23%  Similarity=0.620  Sum_probs=37.2

Q ss_pred             CCCccceecCcccCCCe-eEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          203 TSRTCAICLEDYSVGEK-LRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~-~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      +++.|+.|+|+|...|+ ..--|||...|.-|-..--+.-+.+||-||+.+.+.
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de   66 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE   66 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence            35679999999976653 334468877777775554444566899999876543

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

Probab=94.20  E-value=0.018  Score=63.41  Aligned_cols=48  Identities=29%  Similarity=0.658  Sum_probs=35.1

Q ss_pred             CCCccceecCcccCCCee-EEecCCChhhHHhHHHHHhcC------CCCCccccc
Q 014723          203 TSRTCAICLEDYSVGEKL-RILPCRHKFHAFCVDSWLTSW------RTFCPVCKR  250 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~-~~LpC~H~Fh~~Ci~~Wl~~~------~~~CP~Cr~  250 (419)
                      +..+|.||+|.+...+.+ .--.|.|+||..||++|-...      .-.||.|+.
T Consensus       190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            468999999998655422 122388999999999998541      115999974

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=93.95  E-value=0.029  Score=41.57  Aligned_cols=47  Identities=23%  Similarity=0.424  Sum_probs=33.1

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      ...|..|...=.   +-.++||+|+.+..|.+-|-   -+-||.|.+++...+
T Consensus         7 ~~~~~~~~~~~~---~~~~~pCgH~I~~~~f~~~r---YngCPfC~~~~~~~~   53 (55)
T PF14447_consen    7 EQPCVFCGFVGT---KGTVLPCGHLICDNCFPGER---YNGCPFCGTPFEFDD   53 (55)
T ss_pred             ceeEEEcccccc---ccccccccceeeccccChhh---ccCCCCCCCcccCCC
Confidence            355666765533   34789999999999977652   235999988876543

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

Probab=93.70  E-value=0.038  Score=54.66  Aligned_cols=49  Identities=35%  Similarity=0.760  Sum_probs=40.8

Q ss_pred             CCccceecCcccCCC---eeEEecCCChhhHHhHHHHHhcCCCCCccccccc
Q 014723          204 SRTCAICLEDYSVGE---KLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA  252 (419)
Q Consensus       204 ~~~C~ICle~~~~~~---~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~  252 (419)
                      -..|.||-++|...+   .-+.|.|||.|+..|+.+-+......||.||...
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            367999999997763   3456779999999999988887777799999875

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

Probab=93.62  E-value=0.029  Score=53.59  Aligned_cols=46  Identities=28%  Similarity=0.666  Sum_probs=34.5

Q ss_pred             ccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       206 ~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      .|.-|.---. ++....+.|.|+||..|...-...   .||+||+.+...
T Consensus         5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~~~---~C~lCkk~ir~i   50 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKASSPD---VCPLCKKSIRII   50 (233)
T ss_pred             EeccccccCC-CCceeeeechhhhhhhhcccCCcc---ccccccceeeee
Confidence            4776765433 778889999999999998664332   699999986544

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

Probab=93.54  E-value=0.019  Score=56.10  Aligned_cols=43  Identities=28%  Similarity=0.597  Sum_probs=33.0

Q ss_pred             CCccceecCcccCCCeeEEecCCCh-hhHHhHHHHHhcCCCCCccccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHK-FHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      ...|+||++.-.+   ...|+|||. -|.+|-+.     -..||+||+.+..
T Consensus       300 ~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkr-----m~eCPICRqyi~r  343 (350)
T KOG4275|consen  300 RRLCAICMDAPRD---CVFLECGHMVTCTKCGKR-----MNECPICRQYIVR  343 (350)
T ss_pred             HHHHHHHhcCCcc---eEEeecCcEEeehhhccc-----cccCchHHHHHHH
Confidence            5689999997544   588999997 78888644     2369999987754

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

Probab=93.44  E-value=0.12  Score=47.25  Aligned_cols=51  Identities=25%  Similarity=0.666  Sum_probs=34.3

Q ss_pred             CCccceecCcccCC----CeeEEecCCChhhHHhHHHHHhc----CCC------CCccccccccc
Q 014723          204 SRTCAICLEDYSVG----EKLRILPCRHKFHAFCVDSWLTS----WRT------FCPVCKRDART  254 (419)
Q Consensus       204 ~~~C~ICle~~~~~----~~~~~LpC~H~Fh~~Ci~~Wl~~----~~~------~CP~Cr~~~~~  254 (419)
                      -..|.||+.---+|    +..--..|+.-||.-|+..||+.    ++.      .||.|-.++.-
T Consensus       165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            35688888433233    22334569999999999999943    121      39999877653

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

Probab=93.43  E-value=0.067  Score=53.66  Aligned_cols=49  Identities=22%  Similarity=0.493  Sum_probs=38.8

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      .+++.|+||.-.--   .....||+|.-|..||.+-+...+ .|=.|+..+..
T Consensus       420 sEd~lCpICyA~pi---~Avf~PC~H~SC~~CI~qHlmN~k-~CFfCktTv~~  468 (489)
T KOG4692|consen  420 SEDNLCPICYAGPI---NAVFAPCSHRSCYGCITQHLMNCK-RCFFCKTTVID  468 (489)
T ss_pred             cccccCcceecccc---hhhccCCCCchHHHHHHHHHhcCC-eeeEecceeee
Confidence            35689999986532   236678999999999999998744 49999998774

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.42  E-value=0.073  Score=52.01  Aligned_cols=53  Identities=17%  Similarity=0.332  Sum_probs=40.6

Q ss_pred             CCCCccceecCcccCCCeeEE-ecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          202 CTSRTCAICLEDYSVGEKLRI-LPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~-LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      .....|+|+..+|......+. .||||+|...+|++--  ....||+|-.++...+
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~~D  164 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTEED  164 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccccCC
Confidence            456899999999966554444 4899999999999873  2345999988877553

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

Probab=93.23  E-value=0.034  Score=54.57  Aligned_cols=45  Identities=22%  Similarity=0.442  Sum_probs=37.3

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA  252 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~  252 (419)
                      ...|-||.+.|..+   ++..|+|.||..|--+-++... .|.+|.+..
T Consensus       241 Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~-~c~vC~~~t  285 (313)
T KOG1813|consen  241 PFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGE-KCYVCSQQT  285 (313)
T ss_pred             Cccccccccccccc---hhhcCCceeehhhhccccccCC-cceeccccc
Confidence            46799999999887   6667999999999988887744 599997644

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

Probab=92.90  E-value=0.037  Score=39.07  Aligned_cols=42  Identities=24%  Similarity=0.634  Sum_probs=24.2

Q ss_pred             cceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCC-CCccc
Q 014723          207 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRT-FCPVC  248 (419)
Q Consensus       207 C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~-~CP~C  248 (419)
                      |.+|.+-...|+.-..-.|.-.+|..|++.++...+. .||.|
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            6788888877744433358889999999999987543 59987

; PDB: 3NW0_A 2CT0_A.

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

Probab=92.69  E-value=0.0079  Score=60.79  Aligned_cols=50  Identities=24%  Similarity=0.624  Sum_probs=43.3

Q ss_pred             CccceecCcccCC-CeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          205 RTCAICLEDYSVG-EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       205 ~~C~ICle~~~~~-~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      ..|+||.+.++.. +++..+-|+|.+|.+||.+||.. +..||.|++++...
T Consensus       197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~-~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT-KRKLPSCRRELPKN  247 (465)
T ss_pred             hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH-HHHhHHHHhhhhhh
Confidence            6799999999776 77888889999999999999988 45599999987654

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

Probab=92.61  E-value=0.12  Score=52.77  Aligned_cols=30  Identities=27%  Similarity=0.757  Sum_probs=22.8

Q ss_pred             CCChhhHHhHHHHHhcC------------CCCCccccccccc
Q 014723          225 CRHKFHAFCVDSWLTSW------------RTFCPVCKRDART  254 (419)
Q Consensus       225 C~H~Fh~~Ci~~Wl~~~------------~~~CP~Cr~~~~~  254 (419)
                      |.-.+|.+|+.+|+-.+            +..||+||+++.-
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            55678999999999432            3359999998653

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

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

Probab=91.67  E-value=0.085  Score=58.19  Aligned_cols=47  Identities=23%  Similarity=0.595  Sum_probs=37.6

Q ss_pred             CccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCC-CCcccccccccC
Q 014723          205 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRT-FCPVCKRDARTS  255 (419)
Q Consensus       205 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~-~CP~Cr~~~~~~  255 (419)
                      ..|.||++    .+.....+|+|.||.+|+.+-++.... .||+||..+.+.
T Consensus       455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~  502 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEK  502 (674)
T ss_pred             cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHH
Confidence            78999999    455677789999999999998765333 499999877654

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

Probab=91.32  E-value=0.12  Score=57.09  Aligned_cols=42  Identities=21%  Similarity=0.657  Sum_probs=33.4

Q ss_pred             CccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccc
Q 014723          205 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA  252 (419)
Q Consensus       205 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~  252 (419)
                      ..|..|--.+..+  .+..-|+|.||..|+.    .+...||.|+.++
T Consensus       841 skCs~C~~~LdlP--~VhF~CgHsyHqhC~e----~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  841 SKCSACEGTLDLP--FVHFLCGHSYHQHCLE----DKEDKCPKCLPEL  882 (933)
T ss_pred             eeecccCCccccc--eeeeecccHHHHHhhc----cCcccCCccchhh
Confidence            5899998887766  5666699999999998    3345699998744

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

Probab=91.02  E-value=0.11  Score=51.12  Aligned_cols=46  Identities=28%  Similarity=0.693  Sum_probs=38.5

Q ss_pred             CCccceecCcccCC-CeeEEecCCChhhHHhHHHHHhcCCCCCccccc
Q 014723          204 SRTCAICLEDYSVG-EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKR  250 (419)
Q Consensus       204 ~~~C~ICle~~~~~-~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~  250 (419)
                      ...|+||.|.+... +.+..++|+|.-|..|+.+....+ -.||+|.+
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc
Confidence            34599999988666 356778999999999999988886 77999988

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

Probab=89.50  E-value=0.19  Score=55.97  Aligned_cols=35  Identities=23%  Similarity=0.585  Sum_probs=29.1

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHH
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWL  238 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl  238 (419)
                      .++.|.+|...+... .-.+.||+|.||+.||.+-.
T Consensus       816 p~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  816 PQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             CccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence            468999999887553 56788999999999998765

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

Probab=89.13  E-value=0.18  Score=49.89  Aligned_cols=42  Identities=31%  Similarity=0.667  Sum_probs=27.2

Q ss_pred             ccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccc
Q 014723          206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA  252 (419)
Q Consensus       206 ~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~  252 (419)
                      .|.-|-..+.  -.-|.+||+|+||.+|-..  ...+ .||.|-..|
T Consensus        92 fCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK-~Cp~C~d~V  133 (389)
T KOG2932|consen   92 FCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDK-ICPLCDDRV  133 (389)
T ss_pred             eecccCCcce--eeecccccchhhhhhhhhc--Cccc-cCcCcccHH
Confidence            4555544432  2357899999999999754  2223 499886544

>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=88.55  E-value=0.24  Score=47.31  Aligned_cols=49  Identities=33%  Similarity=0.714  Sum_probs=37.7

Q ss_pred             CCccceecCc-ccCCC-eeEEec-CCChhhHHhHHHHHhcCCCCCc--cccccc
Q 014723          204 SRTCAICLED-YSVGE-KLRILP-CRHKFHAFCVDSWLTSWRTFCP--VCKRDA  252 (419)
Q Consensus       204 ~~~C~ICle~-~~~~~-~~~~Lp-C~H~Fh~~Ci~~Wl~~~~~~CP--~Cr~~~  252 (419)
                      +..|+||..+ |-.++ ++-+-| |-|..|..|++.-+..+...||  -|.+-+
T Consensus        10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL   63 (314)
T COG5220          10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL   63 (314)
T ss_pred             cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence            5689999944 45554 333446 9999999999999999888999  785543

>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=87.84  E-value=0.49  Score=46.49  Aligned_cols=48  Identities=31%  Similarity=0.604  Sum_probs=36.4

Q ss_pred             ccceec-CcccCCC-eeEEecCCChhhHHhHHHHHhcCCCCCcccccccc
Q 014723          206 TCAICL-EDYSVGE-KLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       206 ~C~ICl-e~~~~~~-~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      .|++|. +.|..++ ++.+=+|+|..|..|++.-+..+...||.|-..+.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence            589998 4445554 33333799999999999999888888999966543

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

Probab=87.60  E-value=0.4  Score=47.87  Aligned_cols=47  Identities=21%  Similarity=0.432  Sum_probs=34.7

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA  252 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~  252 (419)
                      ....|++|+..-.++.  ...--|-+||..||-+.+..++ .||+=..+.
T Consensus       299 ~~~~CpvClk~r~Npt--vl~vSGyVfCY~Ci~~Yv~~~~-~CPVT~~p~  345 (357)
T KOG0826|consen  299 DREVCPVCLKKRQNPT--VLEVSGYVFCYPCIFSYVVNYG-HCPVTGYPA  345 (357)
T ss_pred             ccccChhHHhccCCCc--eEEecceEEeHHHHHHHHHhcC-CCCccCCcc
Confidence            3578999999876652  2222589999999999999755 599865443

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

Probab=86.30  E-value=0.54  Score=46.45  Aligned_cols=53  Identities=26%  Similarity=0.573  Sum_probs=38.4

Q ss_pred             CCccceecCcccCCCe-eEEecCC-----ChhhHHhHHHHHhc-CCCCCcccccccccCC
Q 014723          204 SRTCAICLEDYSVGEK-LRILPCR-----HKFHAFCVDSWLTS-WRTFCPVCKRDARTST  256 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~-~~~LpC~-----H~Fh~~Ci~~Wl~~-~~~~CP~Cr~~~~~~~  256 (419)
                      +..|-||.++...... ....||.     +..|..|++.|+.. ....|-+|+.......
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~~  137 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINVG  137 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceecc
Confidence            4789999987654321 4567774     46899999999974 3456999988665543

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

Probab=85.31  E-value=0.66  Score=47.47  Aligned_cols=46  Identities=20%  Similarity=0.293  Sum_probs=39.4

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCC--CCCcccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWR--TFCPVCK  249 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~--~~CP~Cr  249 (419)
                      -..|+|=.|.=.+...-..|.|||+..++-|.+-.+.+.  ..||.|=
T Consensus       334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP  381 (394)
T KOG2817|consen  334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCP  381 (394)
T ss_pred             eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCC
Confidence            478999888877777888999999999999999887766  6799993

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

Probab=85.21  E-value=0.47  Score=47.38  Aligned_cols=43  Identities=23%  Similarity=0.552  Sum_probs=33.6

Q ss_pred             CCccceecCcccCCCeeEEecC--CChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPC--RHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC--~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      -.+|+||.+.+..+    +..|  ||.-|..|-.+-    ...||.||.++..
T Consensus        48 lleCPvC~~~l~~P----i~QC~nGHlaCssC~~~~----~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   48 LLDCPVCFNPLSPP----IFQCDNGHLACSSCRTKV----SNKCPTCRLPIGN   92 (299)
T ss_pred             hccCchhhccCccc----ceecCCCcEehhhhhhhh----cccCCcccccccc
Confidence            47899999999887    5567  699999997532    4469999988763

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

Probab=84.65  E-value=0.55  Score=51.73  Aligned_cols=52  Identities=19%  Similarity=0.231  Sum_probs=37.3

Q ss_pred             CCCCccceecCcccCC-CeeEEec---CCChhhHHhHHHHHhc-----CCCCCcccccccc
Q 014723          202 CTSRTCAICLEDYSVG-EKLRILP---CRHKFHAFCVDSWLTS-----WRTFCPVCKRDAR  253 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~-~~~~~Lp---C~H~Fh~~Ci~~Wl~~-----~~~~CP~Cr~~~~  253 (419)
                      ...+.|.+|.-++..+ +..-.+|   |+|.||..||..|+..     ....|+.|..-|.
T Consensus        94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~  154 (1134)
T KOG0825|consen   94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG  154 (1134)
T ss_pred             ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence            3457788888777663 2344455   9999999999999954     3445888877554

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.24  E-value=0.67  Score=45.57  Aligned_cols=30  Identities=20%  Similarity=0.578  Sum_probs=23.3

Q ss_pred             CCChhhHHhHHHHHhc------------CCCCCccccccccc
Q 014723          225 CRHKFHAFCVDSWLTS------------WRTFCPVCKRDART  254 (419)
Q Consensus       225 C~H~Fh~~Ci~~Wl~~------------~~~~CP~Cr~~~~~  254 (419)
                      |...+|.+|+-+|+..            ++.+||+||+++.-
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci  366 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI  366 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence            5678999999999932            34579999998753

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.18  E-value=0.63  Score=44.99  Aligned_cols=55  Identities=24%  Similarity=0.564  Sum_probs=36.7

Q ss_pred             CCCCCccceecCcccCCCee-EEecCC-----ChhhHHhHHHHHhcC-------CCCCcccccccccC
Q 014723          201 NCTSRTCAICLEDYSVGEKL-RILPCR-----HKFHAFCVDSWLTSW-------RTFCPVCKRDARTS  255 (419)
Q Consensus       201 ~~~~~~C~ICle~~~~~~~~-~~LpC~-----H~Fh~~Ci~~Wl~~~-------~~~CP~Cr~~~~~~  255 (419)
                      .+.+..|=||+..=++.... =+-||.     |-.|..|+..|+..+       ...||-|+.++...
T Consensus        17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv   84 (293)
T KOG3053|consen   17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIV   84 (293)
T ss_pred             cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheee
Confidence            34568899999764443111 123663     679999999999542       22599999876543

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=83.45  E-value=1.2  Score=32.97  Aligned_cols=32  Identities=22%  Similarity=0.737  Sum_probs=27.3

Q ss_pred             CCccceecCcccCCCeeEEec-CCChhhHHhHH
Q 014723          204 SRTCAICLEDYSVGEKLRILP-CRHKFHAFCVD  235 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~Ci~  235 (419)
                      ...|.+|-+.|++++.+++-| |+-.+|+.|-+
T Consensus         5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~   37 (54)
T PF14446_consen    5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE   37 (54)
T ss_pred             CccChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence            468999999999887777777 99999999953

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

Probab=83.33  E-value=0.39  Score=55.54  Aligned_cols=47  Identities=30%  Similarity=0.628  Sum_probs=36.8

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA  252 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~  252 (419)
                      +...|.||++.+....  .+..|+|.+|..|+..|+.. +..||.|+...
T Consensus      1152 ~~~~c~ic~dil~~~~--~I~~cgh~~c~~c~~~~l~~-~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQG--GIAGCGHEPCCRCDELWLYA-SSRCPICKSIK 1198 (1394)
T ss_pred             cccchHHHHHHHHhcC--CeeeechhHhhhHHHHHHHH-hccCcchhhhh
Confidence            4568999999987331  34459999999999999998 44599998533

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

Probab=82.90  E-value=0.47  Score=44.91  Aligned_cols=39  Identities=36%  Similarity=0.922  Sum_probs=28.8

Q ss_pred             cceecCcccCCCeeEEecCCCh-hhHHhHHHHHhcCCCCCcccccccc
Q 014723          207 CAICLEDYSVGEKLRILPCRHK-FHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       207 C~ICle~~~~~~~~~~LpC~H~-Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      |-.|.+.   +-.+..|||.|. +|..|-.. +    ..||+|+....
T Consensus       161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~-~----~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLPCRHLCLCGICDES-L----RICPICRSPKT  200 (207)
T ss_pred             ceecCcC---CceEEeecccceEeccccccc-C----ccCCCCcChhh
Confidence            8888775   345788999986 99999654 2    24999987553

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

Probab=82.56  E-value=0.45  Score=51.31  Aligned_cols=43  Identities=35%  Similarity=0.695  Sum_probs=29.8

Q ss_pred             CccceecCcccCCC-eeEEecCCChhhHHhHHHHHhcCCCCCcccccc
Q 014723          205 RTCAICLEDYSVGE-KLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD  251 (419)
Q Consensus       205 ~~C~ICle~~~~~~-~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~  251 (419)
                      ..|.||+..|.... .-+-|-|+|..|..|++.-...   +|| |+++
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~---scp-~~~D   55 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA---SCP-TKRD   55 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc---cCC-CCcc
Confidence            46889987765442 2344569999999999876554   588 6553

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

Probab=81.69  E-value=1.2  Score=49.37  Aligned_cols=49  Identities=24%  Similarity=0.635  Sum_probs=34.4

Q ss_pred             CCCccceecCcccCCCeeEEecCCC-----hhhHHhHHHHHhc-CCCCCccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRH-----KFHAFCVDSWLTS-WRTFCPVCKRDA  252 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H-----~Fh~~Ci~~Wl~~-~~~~CP~Cr~~~  252 (419)
                      ++..|-||..+=..++++- =||++     ..|.+|+.+|+.- ....|-+|+.++
T Consensus        11 d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~   65 (1175)
T COG5183          11 DKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEY   65 (1175)
T ss_pred             cchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeeccee
Confidence            3588999996644443332 35653     4899999999974 344699998765

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	419
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		1e-09
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		3e-07
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		6e-07
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		1e-06
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		6e-06
2ek8_A	421	Aminopeptidase From Aneurinibacillus Sp. Strain Am-		1e-05
3eif_A	936	1.9 Angstrom Crystal Structure Of The Active Form O		3e-05
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		6e-05

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

Iteration: 1
 Score = 60.8 bits (146), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 25/51 (49%), Positives = 36/51 (70%), Gaps = 1/51 (1%)
Query: 207 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTG 257
           C +C+ D+   + LR+LPC H+FHA CVD WL + RT CP+C+ D+  S+G
Sbjct: 26  CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRT-CPICRADSGPSSG 75

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 21/44 (47%), Positives = 29/44 (65%), Gaps = 1/44 (2%)
Query: 207 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKR 250
           C +C EDY++GE +R LPC H FH  C+  WL    + CPVC++
Sbjct: 18  CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDS-CPVCRK 60

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 22/45 (48%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 207 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD 251
           C ICL     GE +R LPC H FH  CVD WL + +  CP+C+ D
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKK-CPICRVD 60

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/44 (54%), Positives = 29/44 (65%), Gaps = 2/44 (4%)
Query: 207 CAICLEDYSVGEKLRILP-CRHKFHAFCVDSWLTSWRTFCPVCK 249
           CA+CL +   GE+ R LP C H FHA CVD WL S  T CP+C+
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHST-CPLCR 50

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/42 (47%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 207 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVC 248
           CA+CLED+   ++L I PC+H FH  C+  WL   R  CP+C
Sbjct: 18  CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEV-RKVCPLC 58

>pdb|2EK8|A Chain A, Aminopeptidase From Aneurinibacillus Sp. Strain Am-1 Length = 421

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/67 (40%), Positives = 37/67 (55%), Gaps = 1/67 (1%)
Query: 74  NMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVS 133
           +++    L  RG  SF DKVRNA K G +A I+Y+N  DG L    G S    + AV ++
Sbjct: 112 DLNGKIALIQRGNISFADKVRNAAKQGAKAVIIYNNT-DGKLNGTLGGSDASFVAAVGIT 170
Query: 134 KASGEKL 140
           K  G+ L
Sbjct: 171 KQEGDAL 177

>pdb|3EIF|A Chain A, 1.9 Angstrom Crystal Structure Of The Active Form Of The C5a Peptidase From Streptococcus Pyogenes (Scpa) Length = 936

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 26/87 (29%), Positives = 43/87 (49%), Gaps = 3/87 (3%)
Query: 61  ACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAG 120
           A +N   K +   ++     L  RG   F+DK+ NA+KAG    ++YDN+D G  + +  
Sbjct: 274 AYANRGMKEDDFKDVKGKIALIERGDIDFKDKIANAKKAGAVGVLIYDNQDKGFPIELPN 333
Query: 121 NSAGIKIHAVFVSKASGEKLKQYAGST 147
                ++ A F+S+  G  LK  +  T
Sbjct: 334 VD---QMPAAFISRKDGLLLKDNSKKT 357

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 37/72 (51%), Gaps = 9/72 (12%)
Query: 182 SRRLVKAMPSLIFT----AVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSW 237
           S+  + A+P ++ T    AV ++ C    C IC  +Y  G+    LPC H FH  CV  W
Sbjct: 18  SKESIDALPEILVTEDHGAVGQEMC----CPICCSEYVKGDVATELPCHHYFHKPCVSIW 73
Query: 238 LTSWRTFCPVCK 249
           L    T CPVC+
Sbjct: 74  LQKSGT-CPVCR 84

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	419
3icu_A	194	E3 ubiquitin-protein ligase RNF128; E3 ligase, ene	3e-27
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	5e-25
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	1e-22
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	9e-21
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	9e-21
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-18
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	5e-17
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-14
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	4e-13
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-12
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	3e-12
1xf1_A	926	C5A peptidase, SCP; hydrolase; HET: CIT; 1.90A {St	6e-12
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-09
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	9e-09
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	8e-08
3h0g_A	1752	DNA-directed RNA polymerase II subunit RPB1; trans	2e-07
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	2e-07
1twf_A	1733	B220, DNA-directed RNA polymerase II largest subun	3e-07
1twf_A	1733	B220, DNA-directed RNA polymerase II largest subun	1e-06
1twf_A	1733	B220, DNA-directed RNA polymerase II largest subun	3e-05
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-06
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	4e-06
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	4e-06
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	1e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-05
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	3e-05
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	4e-05
2ek8_A	421	Aminopeptidase; metalloproteinase, hydrolase; 1.80	4e-05
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	6e-05
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	9e-05
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	9e-05
3nw0_A	238	Non-structural maintenance of chromosomes element	1e-04
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	1e-04
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	1e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-04
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	3e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	3e-04
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	4e-04
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	4e-04
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	4e-04
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	4e-04
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	5e-04
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	8e-04

>3icu_A E3 ubiquitin-protein ligase RNF128; E3 ligase, energy, PA domain, transmembrane,protein turnover conjugation pathway; HET: NAG; 2.10A {Homo sapiens} Length = 194

 Score =  106 bits (266), Expect = 3e-27
 Identities = 34/153 (22%), Positives = 55/153 (35%), Gaps = 9/153 (5%)

Query: 19  SANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYV---AEPLDACSNLT----SKVEK 71
           S  V   G N T+     E  +          GVL        L+AC+  T      V  
Sbjct: 40  SWRVPHTGVNRTVWELSEEGVYGQDSPLEPVAGVLVPPDGPGALNACNPHTNFTVPTVWG 99

Query: 72  VSNMSSAFVLTIRGG-CSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAV 130
            +   S   L  RGG C+F DK+  A + G   A++++       V    +   + I A+
Sbjct: 100 STVQVSWLALIQRGGGCTFADKIHLAYERGASGAVIFNFPGTRNEVIPMSHPGAVDIVAI 159

Query: 131 FVSKASGEKLKQY-AGSTDMEIWIIPSFENSAW 162
            +    G K+ Q       + + I    ++  W
Sbjct: 160 MIGNLKGTKILQSIQRGIQVTMVIEVGKKHGPW 192

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

 Score = 96.2 bits (240), Expect = 5e-25
 Identities = 29/76 (38%), Positives = 41/76 (53%), Gaps = 2/76 (2%)

Query: 182 SRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW 241
           S      +PS  F            C +C+ D+   + LR+LPC H+FHA CVD WL + 
Sbjct: 2   SSGSSGQLPSYRFNPN-NHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN 60

Query: 242 RTFCPVCKRDARTSTG 257
           RT CP+C+ D+  S+G
Sbjct: 61  RT-CPICRADSGPSSG 75

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens} Length = 69

 Score = 89.7 bits (223), Expect = 1e-22
 Identities = 26/66 (39%), Positives = 32/66 (48%), Gaps = 5/66 (7%)

Query: 199 EDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGE 258
            +  T   C ICL     GE +R LPC H FH  CVD WL + +  CP+C+ D       
Sbjct: 9   TEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKK-CPICRVDIEA---- 63

Query: 259 PPASES 264
              SES
Sbjct: 64  QLPSES 69

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

 Score = 85.5 bits (212), Expect = 9e-21
 Identities = 24/72 (33%), Positives = 32/72 (44%), Gaps = 1/72 (1%)

Query: 180 GMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLT 239
             S+  + A+P ++ T           C IC  +Y  G+    LPC H FH  CV  WL 
Sbjct: 16  PASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQ 75

Query: 240 SWRTFCPVCKRD 251
              T CPVC+  
Sbjct: 76  KSGT-CPVCRCM 86

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

 Score = 84.8 bits (210), Expect = 9e-21
 Identities = 21/66 (31%), Positives = 31/66 (46%), Gaps = 1/66 (1%)

Query: 198 VEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTG 257
           V++      CA+CLED+   ++L I PC+H FH  C+  WL   +  CP+C         
Sbjct: 9   VKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKV-CPLCNMPVLQLAQ 67

Query: 258 EPPASE 263
               S 
Sbjct: 68  LSGPSS 73

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

 Score = 79.0 bits (195), Expect = 1e-18
 Identities = 23/62 (37%), Positives = 32/62 (51%), Gaps = 3/62 (4%)

Query: 206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART--STGEPPASE 263
            C +C EDY++GE +R LPC H FH  C+  WL    + CPVC++      +   PP   
Sbjct: 17  ECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDS-CPVCRKSLTGQNTATNPPGLT 75

Query: 264 ST 265
             
Sbjct: 76  GV 77

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

 Score = 73.8 bits (182), Expect = 5e-17
 Identities = 24/46 (52%), Positives = 29/46 (63%), Gaps = 2/46 (4%)

Query: 207 CAICLEDYSVGEKLRILP-CRHKFHAFCVDSWLTSWRTFCPVCKRD 251
           CA+CL +   GE+ R LP C H FHA CVD WL S  T CP+C+  
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHST-CPLCRLT 52

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A Length = 55

 Score = 66.1 bits (162), Expect = 2e-14
 Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 2/53 (3%)

Query: 201 NCTSRTCAICLEDYSVGEKL-RILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA 252
           +  S  C ICLED      +  +LPC H  H  C +  L      CP+C   +
Sbjct: 2   SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYR-CPLCSGPS 53

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

 Score = 63.2 bits (154), Expect = 4e-13
 Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 6/58 (10%)

Query: 206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD-ARTSTGEPPAS 262
            C IC++  +      ILPC H F   C+D W    R  CP+C+      +    P+S
Sbjct: 17  ECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRN-CPICRLQMTGANESSGPSS 69

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

 Score = 60.9 bits (148), Expect = 2e-12
 Identities = 19/49 (38%), Positives = 23/49 (46%), Gaps = 3/49 (6%)

Query: 203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD 251
            +  C ICLED S       LPC H F   C+  W+    T CP+CK  
Sbjct: 4   VAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPT-CPLCKVP 49

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

 Score = 60.7 bits (147), Expect = 3e-12
 Identities = 15/62 (24%), Positives = 24/62 (38%), Gaps = 8/62 (12%)

Query: 197 VVEDNCT------SRTCAICLEDYSVGEKLRILP-CRHKFHAFCVDSWLTSWRTFCPVCK 249
           V  D C          C  C  +    + + +   C H FH  C+  W+      CP+C+
Sbjct: 13  VECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQ-NNRCPLCQ 71

Query: 250 RD 251
           +D
Sbjct: 72  QD 73

>1xf1_A C5A peptidase, SCP; hydrolase; HET: CIT; 1.90A {Streptococcus pyogenes} PDB: 3eif_A* Length = 926

 Score = 66.6 bits (162), Expect = 6e-12
 Identities = 26/130 (20%), Positives = 46/130 (35%), Gaps = 6/130 (4%)

Query: 18  ASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSS 77
           + +    +   V +   D +    P +  +                      + V     
Sbjct: 225 SYSPDKQLTETVRVKTADQQDKEMPVLSTNRFEPNKAYDYAYANRGTKEDDFKDVKG--- 281

Query: 78  AFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASG 137
              L  RG   F+DK+  A+KAG    ++YDN+D G  + +       ++ A F+S+  G
Sbjct: 282 KIALIERGDIDFKDKIAKAKKAGAVGVLIYDNQDKGFPIELPNVD---QMPAAFISRKDG 338

Query: 138 EKLKQYAGST 147
             LK     T
Sbjct: 339 LLLKDNPQKT 348

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

 Score = 53.0 bits (127), Expect = 2e-09
 Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 5/51 (9%)

Query: 204 SRTCAICLEDYS----VGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKR 250
           + +C IC++ YS     G  +    C H F + C+   L +  T CP C++
Sbjct: 15  TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT-CPTCRK 64

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

 Score = 50.5 bits (121), Expect = 9e-09
 Identities = 15/54 (27%), Positives = 24/54 (44%), Gaps = 5/54 (9%)

Query: 206 TCAICLEDYS----VGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS 255
           +C IC++ YS     G  +    C H F + C+   L +  T CP C++     
Sbjct: 5   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT-CPTCRKKINHK 57

>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 = 50.2 bits (120), Expect = 1e-08
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 5/56 (8%)

Query: 204 SRTCAICLEDYS----VGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS 255
           + +C IC++ YS     G  +    C H F + C+   L +  T CP C++     
Sbjct: 10  TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT-CPTCRKKINHK 64

>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 = 53.2 bits (127), Expect = 8e-08
 Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 3/53 (5%)

Query: 199 EDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD 251
           E   T + C IC E+      ++I PC H     C+ SW  S    CP C+ +
Sbjct: 327 EMGSTFQLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCE 376

>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Length = 1752

 Score = 52.8 bits (126), Expect = 2e-07
 Identities = 48/165 (29%), Positives = 64/165 (38%), Gaps = 9/165 (5%)

Query: 252  ARTSTGEPPASESTPLLSSSPASSSILSSIRSSLASSSALHIPPSMSHSPSVSHIHSVAS 311
              TS      S    L S S + SS   S   +   SS  + P S S+SP+ S  +S  S
Sbjct: 1538 GYTSPFSSAMSPGYGLTSPSYSPSSPGYSTSPAYMPSSPSYSPTSPSYSPT-SPSYSPTS 1596

Query: 312  TPYIPQSLRSYCQSPPIS-----VSRSSLDLRHASSQRSHGSYIMSSHSIGYPSISPLNS 366
              Y P S      SP  S      S +S      S   S  S   S  S  Y   SP  S
Sbjct: 1597 PSYSPTSPSYSATSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1656

Query: 367  RYMSPYLPSPSNASPSLVGSSSHQQHPLHYSESATSFSPFASAQS 411
                 Y P+  + SP+   S S+      YS ++ S+SP + + S
Sbjct: 1657 PTSPSYSPTSPSYSPT---SPSYSPTSPSYSPTSPSYSPTSPSYS 1698

>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 = 47.2 bits (112), Expect = 2e-07
 Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 3/48 (6%)

Query: 205 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWL-TSWRTFCPVCKRD 251
           + C IC      G+      C  + H  CV  +  ++    CP C   
Sbjct: 16  KICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDY 61

>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ... Length = 1733

 Score = 52.0 bits (124), Expect = 3e-07
 Identities = 41/158 (25%), Positives = 59/158 (37%), Gaps = 5/158 (3%)

Query: 254  TSTGEPPASESTPLLSSSPASSSILSSIRSSLASSSALHIPPSMSHSPSVSHIHSVASTP 313
             + GE P S    + S   + +S   S  S   S ++    P+       S  +S  S  
Sbjct: 1524 GAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1583

Query: 314  YIPQSLRSYCQSPPISVSRSSLDLRHASSQRSHGSYIMSSHSIGYPSISPLNSRYMSPYL 373
            Y P S      SP  S +  S      S   S  S   S  S  Y   SP  S     Y 
Sbjct: 1584 YSPTSPSYSPTSPSYSPT--SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1641

Query: 374  PSPSNASPSLVGSSSHQQHPLHYSESATSFSPFASAQS 411
            P+  + SP+   S S+      YS ++ S+SP + + S
Sbjct: 1642 PTSPSYSPT---SPSYSPTSPAYSPTSPSYSPTSPSYS 1676

>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ... Length = 1733

 Score = 50.1 bits (119), Expect = 1e-06
 Identities = 43/164 (26%), Positives = 58/164 (35%), Gaps = 12/164 (7%)

Query: 252  ARTSTGEPPASESTPLLSSSPASSSILSSIRSSLASSSALHIPPSMSHSPSVSHIHSVAS 311
               S      +        +    +         A +S      S   SP+ S  +S  S
Sbjct: 1495 LVDSGSNDAMAGGFTAYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPT-SPTYSPTS 1553

Query: 312  TPYIPQSLRSYCQSP---PISVSRSSLDLRHASSQRSHG--SYIMSSHSIGY----PSIS 362
              Y P S      SP   P S S S     ++ +  S+   S   S  S  Y    PS S
Sbjct: 1554 PAYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1613

Query: 363  PLNSRYMSPYLPSPSNASPSL-VGSSSHQQHPLHYSESATSFSP 405
            P +  Y SP  PS S  SPS    S S+      YS ++ S+SP
Sbjct: 1614 PTSPSY-SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSP 1656

>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ... Length = 1733

 Score = 45.5 bits (107), Expect = 3e-05
 Identities = 48/158 (30%), Positives = 66/158 (41%), Gaps = 19/158 (12%)

Query: 259  PPASESTPLLSSSPASSSILSSIRSSLAS----SSALHIPPSMSHSPSVSHIHSVASTPY 314
            P  S ++P  S +  S S  S   S  +     +S  + P S S+SP+ S  +S  S  Y
Sbjct: 1554 PAYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPT-SPSYSPTSPSY 1612

Query: 315  IPQSLRSYCQSPPISVSRSSLDLRHASSQRSHGSYIMSSHSIGYPSISPLNSRYMSPYLP 374
             P S      SP  S S +S      S   S  S          PS SP +  Y SP  P
Sbjct: 1613 SPTSPSYSPTSP--SYSPTSPSYSPTSPSYSPTS----------PSYSPTSPSY-SPTSP 1659

Query: 375  SPSNASPSLVGSS-SHQQHPLHYSESATSFSPFASAQS 411
            + S  SPS   +S S+      YS ++ S+SP +   S
Sbjct: 1660 AYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPNYS 1697

>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 = 45.7 bits (108), Expect = 1e-06
 Identities = 15/59 (25%), Positives = 20/59 (33%), Gaps = 2/59 (3%)

Query: 197 VVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS 255
            VE       C IC+E     +      C       C+  WLT  R  CP C+   +  
Sbjct: 15  SVESIAEVFRCFICMEKLR--DARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR 71

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

 Score = 43.5 bits (102), Expect = 4e-06
 Identities = 10/47 (21%), Positives = 18/47 (38%), Gaps = 1/47 (2%)

Query: 206 TCAICLEDYSVGEK-LRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD 251
            C +C+E   + +       C ++   FC     T     CP C++ 
Sbjct: 13  ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 59

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

 Score = 44.4 bits (104), Expect = 4e-06
 Identities = 18/74 (24%), Positives = 23/74 (31%), Gaps = 19/74 (25%)

Query: 206 TCAICLEDYSVGEK---------------LRILPCRHKFHAFCVDSWL----TSWRTFCP 246
            C IC+E  +V                   R+  C H FH  C+ +            CP
Sbjct: 27  DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 247 VCKRDARTSTGEPP 260
            CK      TG  P
Sbjct: 87  SCKTIYGEKTGTQP 100

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

 Score = 46.0 bits (108), Expect = 1e-05
 Identities = 16/67 (23%), Positives = 22/67 (32%), Gaps = 15/67 (22%)

Query: 207 CAICLEDYSVGEKLRI-----LPCRHKFHAFCVDSWLTSWRTF----------CPVCKRD 251
           C IC      G ++ +       C  K HA C++ W  +              CP CK  
Sbjct: 311 CNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAK 370

Query: 252 ARTSTGE 258
             TS   
Sbjct: 371 LSTSFAA 377

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

 Score = 45.6 bits (107), Expect = 3e-05
 Identities = 55/388 (14%), Positives = 108/388 (27%), Gaps = 93/388 (23%)

Query: 27  NNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSK-VEKVSNMSSAFVLTIRG 85
                 + DI + F  A   + DC    V +   +   L+ + ++ +     A   T+R 
Sbjct: 12  GEHQYQYKDILSVFEDAFVDNFDCK--DVQDMPKSI--LSKEEIDHIIMSKDAVSGTLRL 67

Query: 86  GCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAG 145
             +   K     +   E        +   L++         I      +      + Y  
Sbjct: 68  FWTLLSKQEEMVQKFVEEV---LRINYKFLMS--------PIKT--EQRQPSMMTRMYIE 114

Query: 146 STDMEIWIIPSFENSAWHRIRREAP-----------RASRGREFHGM------------- 181
             D        F     + + R  P           R ++     G+             
Sbjct: 115 QRDRLYNDNQVFAK---YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVC 171

Query: 182 -SRRLVKAMPSLIF--------------------TAVVEDNCTSR---TCAICLEDYSVG 217
            S ++   M   IF                       ++ N TSR   +  I L  +S+ 
Sbjct: 172 LSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ 231

Query: 218 EKLRILPCRHKF-HAFCV--DSW-LTSWRTFCPVCK-----RDAR-------TSTGEPPA 261
            +LR L     + +   V  +     +W  F   CK     R  +        +T     
Sbjct: 232 AELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISL 291

Query: 262 SESTPLLSSSPASSSILSSIRSSLASSSALHIPPSM-SHSP-SVSHI-HSVASTPYIPQS 318
              +  L +     S+L              +P  + + +P  +S I  S+        +
Sbjct: 292 DHHSMTL-TPDEVKSLLLKY----LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN 346

Query: 319 LRSYCQSPPISVSRSSLDLRHASSQRSH 346
            +        ++  SSL++   +  R  
Sbjct: 347 WKHVNCDKLTTIIESSLNVLEPAEYRKM 374

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

 Score = 41.4 bits (97), Expect = 3e-05
 Identities = 11/53 (20%), Positives = 18/53 (33%), Gaps = 4/53 (7%)

Query: 199 EDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD 251
           E+      C IC + +       +  CRH F   C      +    C +C + 
Sbjct: 10  EEEEIPFRCFICRQAFQNP---VVTKCRHYFCESCALEHFRA-TPRCYICDQP 58

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

 Score = 41.4 bits (97), Expect = 4e-05
 Identities = 10/40 (25%), Positives = 18/40 (45%)

Query: 201 NCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS 240
           +  S  C +CL +Y V +   I  C+  F   C+  ++  
Sbjct: 2   SSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVEL 41

>2ek8_A Aminopeptidase; metalloproteinase, hydrolase; 1.80A {Aneurinibacillus SP} PDB: 2ek9_A* Length = 421

 Score = 44.7 bits (105), Expect = 4e-05
 Identities = 27/73 (36%), Positives = 36/73 (49%), Gaps = 1/73 (1%)

Query: 73  SNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFV 132
            +++    L  RG  SF DKVRNA K G +A I+Y N  DG L    G S    + AV +
Sbjct: 111 KDLNGKIALIQRGNISFADKVRNAAKQGAKAVIIY-NNTDGKLNGTLGGSDASFVAAVGI 169

Query: 133 SKASGEKLKQYAG 145
           +K  G+ L     
Sbjct: 170 TKQEGDALAANLR 182

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

 Score = 39.8 bits (93), Expect = 6e-05
 Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 4/58 (6%)

Query: 206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEPPASE 263
            CAICL+          LPC+H F   CV       +  C +C+++      +   S 
Sbjct: 17  ECAICLQTC---VHPVSLPCKHVFCYLCVKGASWLGKR-CALCRQEIPEDFLDSGPSS 70

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

 Score = 39.3 bits (92), Expect = 9e-05
 Identities = 11/48 (22%), Positives = 19/48 (39%), Gaps = 7/48 (14%)

Query: 206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR 253
            C  C  +    +  ++LPC H   + C    L +    CP+C+    
Sbjct: 8   RCQQCQAEA---KCPKLLPCLHTLCSGC----LEASGMQCPICQAPWP 48

>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 = 40.6 bits (95), Expect = 9e-05
 Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 3/46 (6%)

Query: 206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD 251
            C +C   +   +   I+ C H F   C+  +L +   +CP+C   
Sbjct: 17  MCVLCGGYFI--DATTIIECLHSFCKTCIVRYLET-SKYCPICDVQ 59

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

 Score = 42.4 bits (99), Expect = 1e-04
 Identities = 13/77 (16%), Positives = 23/77 (29%), Gaps = 3/77 (3%)

Query: 176 REFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVD 235
            E  G      +A+  +            + C IC     + +      C  + H  CV 
Sbjct: 152 IEKEGEFTLHGRAILEMEQYIRETYPDAVKICNICHS--LLIQGQSCETCGIRMHLPCVA 209

Query: 236 SWL-TSWRTFCPVCKRD 251
            +  ++    CP C   
Sbjct: 210 KYFQSNAEPRCPHCNDY 226

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

 Score = 40.7 bits (95), Expect = 1e-04
 Identities = 19/92 (20%), Positives = 29/92 (31%), Gaps = 10/92 (10%)

Query: 179 HGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWL 238
             +  R     P  +F + VE+      C  C E      +     C+H     C+D   
Sbjct: 30  ASLKDRPASGSPFQLFLSKVEETFQ---CICCQELV---FRPITTVCQHNVCKDCLDRSF 83

Query: 239 TSWRTFCPVCKRDARTSTGEPPASESTPLLSS 270
            +    CP C    R   G   A +    L +
Sbjct: 84  RAQVFSCPAC----RYDLGRSYAMQVNQPLQT 111

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

 Score = 39.7 bits (93), Expect = 1e-04
 Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 3/48 (6%)

Query: 206 TCAICLEDYSVGEKL-RILPCRHKFHAFCVDSWLT-SWRTF-CPVCKR 250
            C IC+E ++  +   ++L C H     C++  L  S     CP C +
Sbjct: 17  ECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSK 64

>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 = 39.9 bits (93), Expect = 2e-04
 Identities = 14/48 (29%), Positives = 18/48 (37%), Gaps = 5/48 (10%)

Query: 206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR 253
            C+ C       E + +  C H F + CV        T CPVC   A 
Sbjct: 24  RCSRCTNILR--EPVCLGGCEHIFCSNCVSDC---IGTGCPVCYTPAW 66

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

 Score = 38.2 bits (89), Expect = 3e-04
 Identities = 11/44 (25%), Positives = 14/44 (31%), Gaps = 3/44 (6%)

Query: 206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCK 249
            C+IC       +   I  C H F   C+          CP C 
Sbjct: 17  LCSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNR-CPKCN 57

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

 Score = 38.0 bits (88), Expect = 3e-04
 Identities = 12/51 (23%), Positives = 16/51 (31%), Gaps = 2/51 (3%)

Query: 205 RTCAICLEDYSVGEKLRIL--PCRHKFHAFCVDSWLTSWRTFCPVCKRDAR 253
           + C  C         L+++   C H     CVD         CP C    R
Sbjct: 4   QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR 54

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A Length = 106

 Score = 39.0 bits (90), Expect = 4e-04
 Identities = 16/66 (24%), Positives = 22/66 (33%), Gaps = 16/66 (24%)

Query: 201 NCTSRTCAICL---------------EDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFC 245
           +     CAIC                   S    +    C H FH  C+  WL + R  C
Sbjct: 34  DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVC 92

Query: 246 PVCKRD 251
           P+  R+
Sbjct: 93  PLDNRE 98

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

 Score = 39.6 bits (92), Expect = 4e-04
 Identities = 15/51 (29%), Positives = 26/51 (50%), Gaps = 4/51 (7%)

Query: 206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST 256
            C IC E +        L C H F ++C++ W+      CP+C++D ++ T
Sbjct: 66  QCIICSEYFIEA---VTLNCAHSFCSYCINEWMKRKIE-CPICRKDIKSKT 112

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

 Score = 39.1 bits (90), Expect = 4e-04
 Identities = 15/66 (22%), Positives = 21/66 (31%), Gaps = 16/66 (24%)

Query: 201 NCTSRTCAICLEDYSV---------------GEKLRILPCRHKFHAFCVDSWLTSWRTFC 245
           +     CAIC                        +    C H FH  C+  WL + R  C
Sbjct: 45  DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVC 103

Query: 246 PVCKRD 251
           P+  R+
Sbjct: 104 PLDNRE 109

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

 Score = 38.0 bits (88), Expect = 4e-04
 Identities = 15/52 (28%), Positives = 20/52 (38%), Gaps = 7/52 (13%)

Query: 204 SRTCAICLEDYSVGEKLRILPCR-----HKFHAFCVDSWL-TSWRTFCPVCK 249
              C IC  +      L I PC      H  H  C+  W+ +S    C +CK
Sbjct: 15  QDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCK 65

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

 Score = 39.0 bits (90), Expect = 5e-04
 Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 5/49 (10%)

Query: 206 TCAICLEDYSVGEKLR----ILPCRHKFHAFCVDSWLTSWRTFCPVCKR 250
           +C IC++ YS   +         C H F + C+   L +  T CP C++
Sbjct: 9   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT-CPTCRK 56

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

 Score = 36.7 bits (85), Expect = 8e-04
 Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 3/46 (6%)

Query: 206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD 251
            C  C     V    +   C H+F   C+ + L+S    C  C+  
Sbjct: 17  KCEKCHL---VLCSPKQTECGHRFCESCMAALLSSSSPKCTACQES 59

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	419
3icu_A	194	E3 ubiquitin-protein ligase RNF128; E3 ligase, ene	99.84
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.61
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.52
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.44
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.44
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.4
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.39
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.38
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.28
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.28
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.27
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.24
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.24
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.2
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.19
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.18
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.17
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.16
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.15
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.15
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.15
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.14
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.11
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.1
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.08
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.08
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.07
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.06
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.04
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.03
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.03
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.02
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.01
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.01
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.0
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.99
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.99
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.95
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.91
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.9
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.9
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.89
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.88
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.86
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.85
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.83
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.83
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.82
2ek8_A	421	Aminopeptidase; metalloproteinase, hydrolase; 1.80	98.8
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.78
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.77
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.74
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.72
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.7
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.7
3iib_A	444	Peptidase M28; YP_926796.1, structural genomics, J	98.67
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.66
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.64
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.62
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.6
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.55
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.55
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.52
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.5
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.48
3fed_A	707	Glutamate carboxypeptidase III; metallopeptidase,	98.47
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.45
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.41
3kas_A	640	Transferrin receptor protein 1; transferrin recept	98.37
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.35
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.3
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.21
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.17
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.13
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.02
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.89
1y9z_A	441	Alkaline serine protease; subtilisin-like alpha/be	97.79
3i6s_A	649	Subtilisin-like protease; PA-domain, FN3-domain, h	97.77
1xf1_A	926	C5A peptidase, SCP; hydrolase; HET: CIT; 1.90A {St	97.72
3nw0_A	238	Non-structural maintenance of chromosomes element	97.54
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	93.81
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	92.03
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	91.95
3vta_A	621	Cucumisin; subtilisin-like fold, serine protease,	85.54
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	80.24

>3icu_A E3 ubiquitin-protein ligase RNF128; E3 ligase, energy, PA domain, transmembrane,protein turnover conjugation pathway; HET: NAG; 2.10A {Homo sapiens}

Probab=99.84  E-value=1e-20  Score=174.15  Aligned_cols=126  Identities=23%  Similarity=0.309  Sum_probs=101.5

Q ss_pred             CeeEEecccccccCCcCCCCCeeEEEEecC---CccCCCCCccCccccC----CCcceEEEEecCC-CCHHHHHHHHHHc
Q 014723           28 NVTLSFDDIEANFAPAIRGSGDCGVLYVAE---PLDACSNLTSKVEKVS----NMSSAFVLTIRGG-CSFEDKVRNAQKA   99 (419)
Q Consensus        28 ~~~~~f~~~~A~Fg~~~~~~~~~G~l~~a~---p~daC~pl~~~~~~~~----~~~~~IaLV~RG~-CsF~~Kv~nAq~a   99 (419)
                      |.++.|.+.+|.||...+..++.|.|+.+.   +.+||++++++.....    ..+++||||+||+ |+|.+|++|||++
T Consensus        49 n~t~~~~~e~a~FG~~~p~~~v~G~lv~~~~~~~~~GC~~~~~~~~~~~~~~~~~~gkIaLV~RG~~CsF~~Kv~nAq~a  128 (194)
T 3icu_A           49 NRTVWELSEEGVYGQDSPLEPVAGVLVPPDGPGALNACNPHTNFTVPTVWGSTVQVSWLALIQRGGGCTFADKIHLAYER  128 (194)
T ss_dssp             TCEEEEEEEEEEECTTSCCSCEEEEEECBSSTTCTTCCSTTCCBCCCBCTTSSCBCCEEEEEESCTTCCHHHHHHHHHHT
T ss_pred             cceeeecccccccCCCCCCCCcEEEEEecCCCCCcCCCCCCccccCCcccccccCCCeEEEEECCCCcCHHHHHHHHHHC
Confidence            567789999999999999999999998764   7899999876433211    2478999999999 9999999999999


Q ss_pred             CCceEEEeecC-CCcceeeccCCCCceEEeEEEeechhhHHHHHhhCCC-cEEEEEe
Q 014723          100 GFEAAIVYDNE-DDGVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGST-DMEIWII  154 (419)
Q Consensus       100 GA~avIv~nn~-~~~~~~~m~g~~~~i~IPsv~Is~~~G~~L~~~l~~~-~veV~II  154 (419)
                      ||+||||||++ ++.....|.... ...||++||++.+|+.|++.+..+ .+.+.|.
T Consensus       129 GA~avIIyNn~~~g~~~~~m~~~~-~~~IPsv~Is~~~G~~L~~~L~~G~~Vtvti~  184 (194)
T 3icu_A          129 GASGAVIFNFPGTRNEVIPMSHPG-AVDIVAIMIGNLKGTKILQSIQRGIQVTMVIE  184 (194)
T ss_dssp             TCSEEEEECCTTCTTCCCCCCCTT-CCSSEEEEECHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CCcEEEEEeCCCCCCceeeecCCC-CCceeEEEECHHHHHHHHHHHHCCCeEEEEEE
Confidence            99999999985 333455565433 357999999999999999988654 4555543

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

Probab=99.61  E-value=4.5e-16  Score=126.46  Aligned_cols=79  Identities=29%  Similarity=0.554  Sum_probs=68.5

Q ss_pred             cccccCchhhHHhcCCcceeccccccCCCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          175 GREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       175 ~r~~~g~~~~~i~~lp~~~~~~~~~~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      ....++++++.++.||...+.........+..|+||+++|..++.++.|||+|.||..||++|++.+ ..||+||+.+..
T Consensus        11 ~~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~~~   89 (91)
T 2l0b_A           11 MVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKS-GTCPVCRCMFPP   89 (91)
T ss_dssp             SSCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTT-CBCTTTCCBSSC
T ss_pred             CcCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcC-CcCcCcCccCCC
Confidence            3456789999999999988887665556678999999999999999999999999999999999874 569999998754

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

Probab=99.52  E-value=3.1e-15  Score=116.76  Aligned_cols=71  Identities=35%  Similarity=0.815  Sum_probs=57.5

Q ss_pred             hHHhcCCcceeccccccCCCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          184 RLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       184 ~~i~~lp~~~~~~~~~~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      ..++.+|...++... ...++.+|+||+++|..++.++.+||+|.||..||++|++.+ ..||+||+.+.+..
T Consensus         4 ~~i~~lp~~~~~~~~-~~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~-~~CP~Cr~~~~~~~   74 (75)
T 1x4j_A            4 GSSGQLPSYRFNPNN-HQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN-RTCPICRADSGPSS   74 (75)
T ss_dssp             CCCSSCCCEEBCSSS-CSSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHC-SSCTTTCCCCCCCC
T ss_pred             hhHhhCCcEEecCcc-ccCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcC-CcCcCcCCcCCCCC
Confidence            345677777776533 233468999999999999999999999999999999999884 46999999887643

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

Probab=99.44  E-value=7.6e-14  Score=108.34  Aligned_cols=54  Identities=35%  Similarity=0.864  Sum_probs=47.6

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      ..+..|+||+++|..++.++.|+|+|.||..||.+|++.+. .||+||+.+....
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~-~CP~Cr~~~~~~~   66 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRK-VCPLCNMPVLQLA   66 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCS-BCTTTCCBCSSCC
T ss_pred             CCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCC-cCCCcCccccccc
Confidence            34679999999999999999999999999999999999854 6999999887543

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

Probab=99.44  E-value=5.7e-14  Score=110.14  Aligned_cols=58  Identities=36%  Similarity=0.896  Sum_probs=49.8

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCCCCCC
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEPP  260 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~~~p~  260 (419)
                      ..+.+|+||++.|..++.++.++|+|.||..||.+|++.+ ..||+||+.+......+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~-~~CP~Cr~~~~~~~~~~~   70 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQH-DSCPVCRKSLTGQNTATN   70 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTT-CSCTTTCCCCCCSCSCCC
T ss_pred             CCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcC-CcCcCcCCccCCcccCCC
Confidence            3468999999999999889999999999999999999874 569999999887654433

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens}

Probab=99.40  E-value=2e-13  Score=104.56  Aligned_cols=54  Identities=43%  Similarity=0.939  Sum_probs=47.3

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      ..+..|+||++.|..++.++.++|+|.||..||.+|++... .||+||..+....
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~-~CP~Cr~~~~~~~   65 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNK-KCPICRVDIEAQL   65 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCS-BCTTTCSBSCSCC
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCC-CCcCcCccccCcC
Confidence            34688999999999888899999999999999999999844 5999999886543

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

Probab=99.39  E-value=3.3e-13  Score=113.41  Aligned_cols=63  Identities=29%  Similarity=0.567  Sum_probs=50.2

Q ss_pred             CCccceecCcccCCC---------------eeEEecCCChhhHHhHHHHHh----cCCCCCcccccccccCCCCCCCCCC
Q 014723          204 SRTCAICLEDYSVGE---------------KLRILPCRHKFHAFCVDSWLT----SWRTFCPVCKRDARTSTGEPPASES  264 (419)
Q Consensus       204 ~~~C~ICle~~~~~~---------------~~~~LpC~H~Fh~~Ci~~Wl~----~~~~~CP~Cr~~~~~~~~~p~~~~~  264 (419)
                      +..|+||+++|..+.               .++.++|+|.||..||.+|+.    ..+..||+||+.+....++.|...-
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~g~qp~g~m  104 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGTQPWGKM  104 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSSSCTTSSC
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCCCCCCCCeE
Confidence            568999999997653               445789999999999999995    2355799999999888777766554


Q ss_pred             CC
Q 014723          265 TP  266 (419)
Q Consensus       265 ~~  266 (419)
                      +-
T Consensus       105 ~~  106 (114)
T 1v87_A          105 EV  106 (114)
T ss_dssp             CC
T ss_pred             EE
Confidence            43

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

Probab=99.38  E-value=1.2e-13  Score=100.99  Aligned_cols=50  Identities=46%  Similarity=1.023  Sum_probs=44.6

Q ss_pred             CCCccceecCcccCCCeeEEec-CCChhhHHhHHHHHhcCCCCCcccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILP-CRHKFHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      ++.+|+||+++|..++....++ |+|.||..||.+|++. +..||+||+.+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT-CCSCSSSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHc-CCcCcCCCCEeE
Confidence            3578999999999998899998 9999999999999988 456999998764

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

Probab=99.28  E-value=1e-12  Score=104.26  Aligned_cols=51  Identities=29%  Similarity=0.711  Sum_probs=40.4

Q ss_pred             CCccceecCcccC-----------CCeeEEec-CCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          204 SRTCAICLEDYSV-----------GEKLRILP-CRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~-----------~~~~~~Lp-C~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      ++.|+||+++|..           ++.++.++ |+|.||..||++||+.+ .+||+||+++...
T Consensus        15 ~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~~~~~   77 (81)
T 2ecl_A           15 CDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQN-NRCPLCQQDWVVQ   77 (81)
T ss_dssp             CSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTC-CBCTTTCCBCCEE
T ss_pred             CCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhC-CCCCCcCCCcchh
Confidence            4668888877754           45566666 99999999999999985 4699999987643

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

Probab=99.28  E-value=1.8e-12  Score=102.88  Aligned_cols=57  Identities=28%  Similarity=0.603  Sum_probs=46.2

Q ss_pred             cCCCCCccceecCcccCCCeeEEecCC-----ChhhHHhHHHHHhcCC-CCCcccccccccCCC
Q 014723          200 DNCTSRTCAICLEDYSVGEKLRILPCR-----HKFHAFCVDSWLTSWR-TFCPVCKRDARTSTG  257 (419)
Q Consensus       200 ~~~~~~~C~ICle~~~~~~~~~~LpC~-----H~Fh~~Ci~~Wl~~~~-~~CP~Cr~~~~~~~~  257 (419)
                      ....+..|.||+++|..++.+ ++||.     |.||..||++||.... .+||+||..+.....
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~~   73 (80)
T 2d8s_A           11 TPSSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMETK   73 (80)
T ss_dssp             CCTTSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCCC
T ss_pred             CCCCCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCcc
Confidence            334468899999999877776 58996     9999999999998743 579999999875543

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A

Probab=99.27  E-value=1.8e-12  Score=94.48  Aligned_cols=50  Identities=34%  Similarity=0.721  Sum_probs=42.8

Q ss_pred             CCCccceecCcccCC-CeeEEecCCChhhHHhHHHHHhcCCCCCcccccccc
Q 014723          203 TSRTCAICLEDYSVG-EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       203 ~~~~C~ICle~~~~~-~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      .+.+|+||+++|.++ +..+.++|+|.||..||++|++.. ..||+||+.+.
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            467899999999654 467889999999999999999985 56999998764

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

Probab=99.24  E-value=2.8e-12  Score=98.31  Aligned_cols=53  Identities=25%  Similarity=0.607  Sum_probs=44.7

Q ss_pred             CCCccceecCcccCC----CeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          203 TSRTCAICLEDYSVG----EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       203 ~~~~C~ICle~~~~~----~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      ++.+|+||++.|.++    +....++|+|.||..||++|++.. ..||+||+.+....
T Consensus         9 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~~~~   65 (71)
T 3ng2_A            9 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINHKR   65 (71)
T ss_dssp             TCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHC-SBCTTTCCBCCCCS
T ss_pred             CCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcC-CCCCCCCCccChhh
Confidence            467899999999764    566889999999999999999885 46999999887543

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

Probab=99.24  E-value=2.5e-12  Score=97.82  Aligned_cols=52  Identities=25%  Similarity=0.639  Sum_probs=43.5

Q ss_pred             CCCCccceecCcccCC----CeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          202 CTSRTCAICLEDYSVG----EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~----~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      .....|+||++.|.++    +.+..++|+|.||..||++|++. +..||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINH   68 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHH-CSSCTTTCCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHc-CCCCCCCCCccCc
Confidence            3468899999999764    45578999999999999999988 4569999998753

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

Probab=99.20  E-value=4.9e-12  Score=94.77  Aligned_cols=51  Identities=25%  Similarity=0.639  Sum_probs=43.6

Q ss_pred             CCccceecCcccCC----CeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          204 SRTCAICLEDYSVG----EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~~----~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      +.+|+||++.|.++    +.+..++|+|.||..||++|++. +..||+||+.+...
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~   57 (64)
T 2xeu_A            3 MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHK   57 (64)
T ss_dssp             CCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHH-CSBCTTTCCBCTTT
T ss_pred             CCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHc-CCCCCCCCccCCcc
Confidence            57899999999764    55688899999999999999988 55699999988654

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

Probab=99.19  E-value=9.1e-12  Score=104.07  Aligned_cols=50  Identities=30%  Similarity=0.659  Sum_probs=42.1

Q ss_pred             CCCccceecCcccCC---------------CeeEEecCCChhhHHhHHHHHhcCCCCCcccccccc
Q 014723          203 TSRTCAICLEDYSVG---------------EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       203 ~~~~C~ICle~~~~~---------------~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      .++.|+||++.|...               ..++.++|+|.||..||++||.. +.+||+||+++.
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            467899999999754               13677899999999999999998 556999999854

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

Probab=99.18  E-value=1.5e-11  Score=95.05  Aligned_cols=52  Identities=21%  Similarity=0.400  Sum_probs=42.5

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCCC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTG  257 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~~  257 (419)
                      ....|+||++.|.++  +..++|+|.||..||.+|++. +..||+||+.+...+.
T Consensus        14 ~~~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~~   65 (72)
T 2djb_A           14 PYILCSICKGYLIDA--TTITECLHTFCKSCIVRHFYY-SNRCPKCNIVVHQTQP   65 (72)
T ss_dssp             GGGSCTTTSSCCSSC--EECSSSCCEECHHHHHHHHHH-CSSCTTTCCCCCSSCS
T ss_pred             CCCCCCCCChHHHCc--CEECCCCCHHHHHHHHHHHHc-CCcCCCcCcccCcccc
Confidence            357899999999875  333499999999999999987 4569999998875543

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

Probab=99.17  E-value=4.8e-12  Score=97.53  Aligned_cols=50  Identities=30%  Similarity=0.593  Sum_probs=42.6

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      .++..|+||++.+.++   +.++|+|.||..||.+|+... ..||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~~~~   62 (71)
T 2d8t_A           13 LTVPECAICLQTCVHP---VSLPCKHVFCYLCVKGASWLG-KRCALCRQEIPED   62 (71)
T ss_dssp             SSCCBCSSSSSBCSSE---EEETTTEEEEHHHHHHCTTCS-SBCSSSCCBCCHH
T ss_pred             CCCCCCccCCcccCCC---EEccCCCHHHHHHHHHHHHCC-CcCcCcCchhCHh
Confidence            3467899999998665   678999999999999999874 5699999988654

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

Probab=99.16  E-value=9.9e-12  Score=95.23  Aligned_cols=50  Identities=30%  Similarity=0.836  Sum_probs=42.5

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      .....|+||++.+.+    ..++|+|.||..||.+|+.. +..||+||+.+....
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDR-HRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCC-CSSCHHHHHCTTCCC
T ss_pred             CCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHC-cCcCCCcCCcccCCC
Confidence            346899999999876    77899999999999999986 556999999887543

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

Probab=99.15  E-value=1.3e-11  Score=93.54  Aligned_cols=50  Identities=20%  Similarity=0.454  Sum_probs=42.1

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      ....|+||++.+.++   ..++|+|.||..||.+|++..+..||+||+.+...
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           14 DKYKCEKCHLVLCSP---KQTECGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCEECTTTCCEESSC---CCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             cCCCCCCCChHhcCe---eECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            467899999999877   34799999999999999965566799999987654

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

Probab=99.15  E-value=2.4e-11  Score=96.92  Aligned_cols=53  Identities=26%  Similarity=0.655  Sum_probs=44.7

Q ss_pred             CCCccceecCcccCCCe-eEEecCCChhhHHhHHHHHhcC--CCCCcccccccccC
Q 014723          203 TSRTCAICLEDYSVGEK-LRILPCRHKFHAFCVDSWLTSW--RTFCPVCKRDARTS  255 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~-~~~LpC~H~Fh~~Ci~~Wl~~~--~~~CP~Cr~~~~~~  255 (419)
                      ...+|+||++.|.+.+. .+.++|+|.||..||.+|++..  ...||+||+.+...
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           14 EVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             SCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             CCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            46789999999988654 6788999999999999999874  35699999987654

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

Probab=99.15  E-value=1.8e-11  Score=93.16  Aligned_cols=49  Identities=37%  Similarity=0.809  Sum_probs=41.9

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      +..|+||++.+.++  .+.++|+|.||..||.+|++.. ..||+||..+...
T Consensus         5 ~~~C~IC~~~~~~~--~~~~~C~H~fc~~Ci~~~~~~~-~~CP~Cr~~~~~~   53 (68)
T 1chc_A            5 AERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQN-PTCPLCKVPVESV   53 (68)
T ss_dssp             CCCCSSCCSCCCSC--EEETTTTEEESTTHHHHHHHHS-CSTTTTCCCCCCE
T ss_pred             CCCCeeCCccccCC--cEecCCCCeeHHHHHHHHHhCc-CcCcCCChhhHhh
Confidence            57899999998754  5789999999999999999874 5699999988643

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

Probab=99.14  E-value=2.1e-11  Score=93.96  Aligned_cols=51  Identities=25%  Similarity=0.518  Sum_probs=42.1

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhc--CCCCCcccccccccC
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS--WRTFCPVCKRDARTS  255 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~--~~~~CP~Cr~~~~~~  255 (419)
                      ..+..|+||++.|.++   ..++|+|.||..||.+|++.  ....||+||+.+...
T Consensus        18 ~~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   70 (73)
T 2ysl_A           18 QEEVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN   70 (73)
T ss_dssp             CCCCBCTTTCSBCSSE---EECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCC
T ss_pred             ccCCEeccCCcccCCe---EEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcc
Confidence            3468999999998764   66799999999999999973  355799999987643

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

Probab=99.11  E-value=3.2e-11  Score=93.70  Aligned_cols=50  Identities=20%  Similarity=0.569  Sum_probs=41.6

Q ss_pred             CCCccceecCcccCCCeeEEec-CCChhhHHhHHHHHhcC-CCCCcccccccccC
Q 014723          203 TSRTCAICLEDYSVGEKLRILP-CRHKFHAFCVDSWLTSW-RTFCPVCKRDARTS  255 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~Ci~~Wl~~~-~~~CP~Cr~~~~~~  255 (419)
                      .+..|+||++.|.++   +.++ |+|.||..||..|++.. ...||+||+.+...
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2yur_A           14 DELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSP   65 (74)
T ss_dssp             GGGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCT
T ss_pred             CCCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCc
Confidence            357899999999876   6699 99999999999999863 24699999975543

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

Probab=99.10  E-value=3.9e-11  Score=94.66  Aligned_cols=48  Identities=21%  Similarity=0.497  Sum_probs=41.2

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccc
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      .....|+||++.|.++   .+++|+|.||..||.+|++. ...||+||+.+.
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQNP---VVTKCRHYFCESCALEHFRA-TPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCSE---EECTTSCEEEHHHHHHHHHH-CSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcCe---eEccCCCHhHHHHHHHHHHC-CCcCCCcCcccc
Confidence            3457899999999765   56899999999999999987 456999999875

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

Probab=99.08  E-value=5e-11  Score=90.08  Aligned_cols=52  Identities=27%  Similarity=0.510  Sum_probs=43.0

Q ss_pred             CCccceecC-cccCCCe-eEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          204 SRTCAICLE-DYSVGEK-LRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle-~~~~~~~-~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      +..|+||++ .|.++.. ...++|||.||..||++|+......||+||+.+...
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   56 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccc
Confidence            578999999 7777643 356799999999999999877666799999988654

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

Probab=99.08  E-value=5.4e-11  Score=93.02  Aligned_cols=49  Identities=18%  Similarity=0.337  Sum_probs=42.5

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      .+..|+||++.|.++   +.++|||.||..||.+|+...+..||+||+.+..
T Consensus         7 ~~~~C~IC~~~~~~P---v~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            7 EYFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             ccCCCCCccccccCC---EEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            468999999999876   6679999999999999998756679999998754

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

Probab=99.07  E-value=7.7e-11  Score=88.38  Aligned_cols=44  Identities=25%  Similarity=0.530  Sum_probs=37.5

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhc--CCCCCccc
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS--WRTFCPVC  248 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~--~~~~CP~C  248 (419)
                      ..+..|+||++.|.++   +.++|+|.||..||.+|++.  .+..||+|
T Consensus        18 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSBCSSC---EECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             ccCCCCCcCCchhCCe---EEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            3468999999999876   66799999999999999984  35569998

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

Probab=99.06  E-value=1.8e-11  Score=103.91  Aligned_cols=50  Identities=32%  Similarity=0.703  Sum_probs=1.0

Q ss_pred             CCCccceecCcccCC-------------C--eeEEecCCChhhHHhHHHHHhcCCCCCcccccccc
Q 014723          203 TSRTCAICLEDYSVG-------------E--KLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       203 ~~~~C~ICle~~~~~-------------~--~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      .++.|+||+++|...             +  .+..++|+|.||..||++||+. +..||+||+++.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~-~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWE  111 (117)
T ss_dssp             CC----------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHc-CCcCCCCCCeee
Confidence            357899999999753             2  2334589999999999999998 456999999854

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

Probab=99.04  E-value=1.3e-10  Score=91.64  Aligned_cols=50  Identities=30%  Similarity=0.521  Sum_probs=42.4

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcC-----CCCCcccccccccC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW-----RTFCPVCKRDARTS  255 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~-----~~~CP~Cr~~~~~~  255 (419)
                      .+..|+||++.|.++   ..++|+|.||..||..|+...     ...||+||..+...
T Consensus        18 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           18 EEVTCPICLELLKEP---VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             TTTSCTTTCSCCSSC---EECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             cCCCCcCCChhhCcc---eeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            467999999999876   578999999999999999872     45699999987643

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

Probab=99.03  E-value=1e-10  Score=85.85  Aligned_cols=44  Identities=32%  Similarity=0.805  Sum_probs=37.0

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhc--CCCCCccc
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS--WRTFCPVC  248 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~--~~~~CP~C  248 (419)
                      .....|+||++.+.++   +.++|+|.||..||.+|+..  .+..||+|
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKEP---VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSSC---CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCcc---EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            3467999999999876   55899999999999999754  45679998

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

Probab=99.03  E-value=7.9e-11  Score=96.97  Aligned_cols=49  Identities=27%  Similarity=0.560  Sum_probs=41.6

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      +..|+||++.|.++  +..++|+|.||..||.+|+...+..||+||..+..
T Consensus        22 ~~~C~IC~~~~~~p--~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           22 VFRCFICMEKLRDA--RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             HTBCTTTCSBCSSE--EECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCccCCccccCc--cccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            47899999999764  33389999999999999999865679999998854

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

Probab=99.02  E-value=7.9e-11  Score=102.54  Aligned_cols=47  Identities=30%  Similarity=0.946  Sum_probs=40.6

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      +..|+||++.|.++   +.+||||.||..||..|+.. +..||+||+++..
T Consensus        53 ~~~C~iC~~~~~~~---~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           53 ELQCIICSEYFIEA---VTLNCAHSFCSYCINEWMKR-KIECPICRKDIKS   99 (138)
T ss_dssp             HSBCTTTCSBCSSE---EEETTSCEEEHHHHHHHTTT-CSBCTTTCCBCCC
T ss_pred             cCCCcccCcccCCc---eECCCCCCccHHHHHHHHHc-CCcCCCCCCcCCC
Confidence            46899999999765   67899999999999999987 4569999998753

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

Probab=99.01  E-value=3.8e-11  Score=93.82  Aligned_cols=50  Identities=28%  Similarity=0.485  Sum_probs=42.2

Q ss_pred             CCCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcC------CCCCccccccccc
Q 014723          202 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW------RTFCPVCKRDART  254 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~------~~~CP~Cr~~~~~  254 (419)
                      ..+..|+||++.|.++   +.++|+|.||..||.+|+...      ...||+||..+..
T Consensus        10 ~~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A           10 QEEVTCPICLELLTEP---LSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCCCEETTTTEECSSC---CCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             ccCCCCcCCCcccCCe---eECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            3468899999999876   558999999999999999763      4569999998864

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

Probab=99.01  E-value=1.5e-10  Score=90.33  Aligned_cols=53  Identities=23%  Similarity=0.463  Sum_probs=42.3

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcC-CCCCcccccccccCCC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW-RTFCPVCKRDARTSTG  257 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~-~~~CP~Cr~~~~~~~~  257 (419)
                      ...+|+||++.+..++..  ..|+|.||..||++||+.. +.+||+||++......
T Consensus        14 ~i~~C~IC~~~i~~g~~C--~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~~   67 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQSC--ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIP   67 (74)
T ss_dssp             SSCBCSSSCCBCSSSEEC--SSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCCC
T ss_pred             CCCcCcchhhHcccCCcc--CCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCCC
Confidence            357899999999876433  3799999999999999874 2569999988764433

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

Probab=99.00  E-value=1.6e-10  Score=91.10  Aligned_cols=50  Identities=30%  Similarity=0.585  Sum_probs=42.1

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhc-----CCCCCcccccccccC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS-----WRTFCPVCKRDARTS  255 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~-----~~~~CP~Cr~~~~~~  255 (419)
                      ....|+||++.|.++   ..++|+|.||..||..|+..     ....||+||..+...
T Consensus        18 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecv_A           18 EEVTCPICLELLTQP---LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPE   72 (85)
T ss_dssp             CCCCCTTTCSCCSSC---BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSS
T ss_pred             CCCCCCCCCcccCCc---eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHH
Confidence            467999999999876   56799999999999999976     245699999988753

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

Probab=98.99  E-value=2e-10  Score=92.56  Aligned_cols=49  Identities=20%  Similarity=0.547  Sum_probs=41.6

Q ss_pred             CCCCccceecCcccCCCeeEEec-CCChhhHHhHHHHHhcC-CCCCcccccccc
Q 014723          202 CTSRTCAICLEDYSVGEKLRILP-CRHKFHAFCVDSWLTSW-RTFCPVCKRDAR  253 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~Ci~~Wl~~~-~~~CP~Cr~~~~  253 (419)
                      ..+..|+||++.|.++   +.++ |+|.||..||..|+... ...||+||..+.
T Consensus        11 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           11 PDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CTTTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CcCCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            3468999999999877   6889 99999999999999753 357999999864

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

Probab=98.99  E-value=2.3e-10  Score=97.56  Aligned_cols=48  Identities=23%  Similarity=0.411  Sum_probs=42.1

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      +..|+||++.|.++   +.++|||.||..||..|+......||+||..+..
T Consensus        52 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           52 TFQCICCQELVFRP---ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HTBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCCCCcCChHHcCc---EEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            47899999999866   6789999999999999998656579999998865

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

Probab=98.95  E-value=2.2e-10  Score=97.73  Aligned_cols=53  Identities=25%  Similarity=0.605  Sum_probs=44.5

Q ss_pred             CCCccceecCcccCC----CeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          203 TSRTCAICLEDYSVG----EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       203 ~~~~C~ICle~~~~~----~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      ++.+|+||++.|.++    +..+.++|||.||..||++|++... .||+||+.+....
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKINHKR   62 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCS-BCTTTCCBCTTTC
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCC-CCCCCCCcCcccc
Confidence            357899999999764    5568899999999999999998854 6999999886543

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

Probab=98.91  E-value=4.6e-10  Score=91.82  Aligned_cols=48  Identities=27%  Similarity=0.778  Sum_probs=40.1

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      ...|+||++.|.++  +..++|||.||..||..|+.. +..||+||..+..
T Consensus        22 ~~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   69 (99)
T 2y43_A           22 LLRCGICFEYFNIA--MIIPQCSHNYCSLCIRKFLSY-KTQCPTCCVTVTE   69 (99)
T ss_dssp             HTBCTTTCSBCSSE--EECTTTCCEEEHHHHHHHHTT-CCBCTTTCCBCCG
T ss_pred             CCCcccCChhhCCc--CEECCCCCHhhHHHHHHHHHC-CCCCCCCCCcCCh
Confidence            47899999999864  333489999999999999987 4569999998765

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

Probab=98.90  E-value=6.7e-10  Score=98.24  Aligned_cols=49  Identities=22%  Similarity=0.399  Sum_probs=42.7

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      ...|+||++.|.++   +.++|+|.||..||..|+......||+||..+...
T Consensus        78 ~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           78 SFMCVCCQELVYQP---VTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HTBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             CCEeecCChhhcCC---EEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            47899999999876   56899999999999999997665799999988754

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

Probab=98.90  E-value=5.1e-10  Score=100.09  Aligned_cols=49  Identities=29%  Similarity=0.600  Sum_probs=41.4

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      ...|+||++.|.++  +..++|+|.||..||.+|+......||+||..+..
T Consensus        54 ~~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           54 ELMCPICLDMLKNT--MTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHBCTTTSSBCSSE--EEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCcccChHhhCc--CEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            46899999999864  44459999999999999999756679999998853

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

Probab=98.89  E-value=5e-10  Score=93.16  Aligned_cols=49  Identities=22%  Similarity=0.663  Sum_probs=40.9

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      +..|+||++.|.++  +..++|||.||..||..|+... ..||+||..+...
T Consensus        15 ~~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           15 HLMCVLCGGYFIDA--TTIIECLHSFCKTCIVRYLETS-KYCPICDVQVHKT   63 (108)
T ss_dssp             GTBCTTTSSBCSSE--EEETTTCCEEEHHHHHHHHTSC-SBCTTTCCBSCSS
T ss_pred             cCCCccCChHHhCc--CEeCCCCChhhHHHHHHHHHhC-CcCcCCCcccccc
Confidence            57899999999764  4444999999999999999874 5699999987643

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

Probab=98.88  E-value=1.5e-09  Score=85.62  Aligned_cols=53  Identities=19%  Similarity=0.574  Sum_probs=41.9

Q ss_pred             CCCccceecCcccCCCeeEEe--cCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          203 TSRTCAICLEDYSVGEKLRIL--PCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~L--pC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      ++.+|+||+|.+...+. ..+  +|||.||..|+..|+......||+||+.+....
T Consensus        10 ~~~~CpICle~~~~~d~-~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A           10 DPVECPLCMEPLEIDDI-NFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCBCTTTCCBCCTTTT-TCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             cCCcCCccCccCccccc-cccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            46789999999865432 334  499999999999998665667999999887653

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

Probab=98.86  E-value=3.1e-10  Score=95.45  Aligned_cols=48  Identities=29%  Similarity=0.648  Sum_probs=42.0

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      +..|+||++.|.++   +.++|+|.||..||..|+......||+||..+..
T Consensus        15 ~~~C~iC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           15 ECQCGICMEILVEP---VTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHBCTTTCSBCSSC---EECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCccCCcccCce---eEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            46899999999876   6779999999999999998756679999998763

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

Probab=98.85  E-value=9.6e-10  Score=91.54  Aligned_cols=49  Identities=33%  Similarity=0.648  Sum_probs=41.0

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCC--CCCcccccccccC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWR--TFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~--~~CP~Cr~~~~~~  255 (419)
                      ...|+||++.|.++   ..++|+|.||..||..|+....  ..||+||..+...
T Consensus        21 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (112)
T 1jm7_A           21 ILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (112)
T ss_dssp             HTSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             CCCCcccChhhcCe---EECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHh
Confidence            46899999999876   4579999999999999998643  4699999987653

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

Probab=98.83  E-value=8.4e-10  Score=93.36  Aligned_cols=49  Identities=24%  Similarity=0.455  Sum_probs=42.2

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      ...|+||++.|.++   +.++|+|.||..||.+|+......||+||..+...
T Consensus        18 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           18 KYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             GGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCcCChhhcCe---EECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            57899999999876   66899999999999999987555799999987653

>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=98.83  E-value=1.3e-09  Score=91.63  Aligned_cols=50  Identities=24%  Similarity=0.553  Sum_probs=42.6

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      +..|+||++.|.++   ..++|||.||..||..|+......||+||..+....
T Consensus        23 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           23 SISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCcHhcCc---EEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            47899999999765   558999999999999999875567999999886543

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

Probab=98.82  E-value=1.2e-09  Score=93.09  Aligned_cols=52  Identities=25%  Similarity=0.618  Sum_probs=43.6

Q ss_pred             CCCccceecCcccCC----CeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          203 TSRTCAICLEDYSVG----EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       203 ~~~~C~ICle~~~~~----~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      +...|+||++.|..+    +..+.++|+|.||..||++|++..+ .||+||..+...
T Consensus        71 ~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-~CP~Cr~~~~~~  126 (133)
T 4ap4_A           71 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKINHK  126 (133)
T ss_dssp             SSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCS-BCTTTCCBCCGG
T ss_pred             CCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCC-CCCCCCCcCChh
Confidence            367899999998753    4557889999999999999999854 699999988654

>2ek8_A Aminopeptidase; metalloproteinase, hydrolase; 1.80A {Aneurinibacillus SP} PDB: 2ek9_A*

Probab=98.80  E-value=2.5e-08  Score=101.88  Aligned_cols=92  Identities=30%  Similarity=0.379  Sum_probs=68.7

Q ss_pred             CCCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCCcceeeccCCCCce
Q 014723           46 GSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGI  125 (419)
Q Consensus        46 ~~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~~~~~~m~g~~~~i  125 (419)
                      ..++.|.|+.+.-. ..+.+     ...+++||||||+||+|.|.+|+++|+++||+||||||+.+. ....+.+.....
T Consensus        90 ~g~v~a~lv~~~~G-~~~D~-----~~~dv~GkIvlv~~g~~~~~~k~~~A~~~GA~gvIi~~~~~~-~~~g~~~~~~~~  162 (421)
T 2ek8_A           90 NSDVTAELVYVGLG-TTADV-----AGKDLNGKIALIQRGNISFADKVRNAAKQGAKAVIIYNNTDG-KLNGTLGGSDAS  162 (421)
T ss_dssp             CEEEEEEEEECTTC-CTTTT-----TTSCCTTSEEEEECCSSCHHHHHHHHHHTTCSEEEEECSSSS-CCCCBCSSCCTT
T ss_pred             CCCcceEEEECCCC-Chhhc-----CCCCcCceEEEEeCCCCCHHHHHHHHHHCCCeEEEEEeCCCc-ccccccCCCCCC
Confidence            34678888665422 11211     123679999999999999999999999999999999998754 222233333456


Q ss_pred             EEeEEEeechhhHHHHHhh
Q 014723          126 KIHAVFVSKASGEKLKQYA  144 (419)
Q Consensus       126 ~IPsv~Is~~~G~~L~~~l  144 (419)
                      .||++.|+.++++.|...+
T Consensus       163 ~IP~~~Is~~~a~~L~~~l  181 (421)
T 2ek8_A          163 FVAAVGITKQEGDALAANL  181 (421)
T ss_dssp             CCEEEEECHHHHHHHHHHH
T ss_pred             CccEEEeCHHHHHHHHHHh
Confidence            8999999999999998887

>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=98.78  E-value=1.2e-09  Score=95.75  Aligned_cols=48  Identities=23%  Similarity=0.513  Sum_probs=41.7

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      ....|+||++.|.++   .+++|||.||..||.+|+......||+||.++.
T Consensus        30 ~~~~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           30 AKYLCSACRNVLRRP---FQAQCGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             GGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             cCcCCCCCChhhcCc---EECCCCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            357899999999877   668999999999999999876657999999764

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

Probab=98.77  E-value=1.1e-09  Score=80.59  Aligned_cols=47  Identities=21%  Similarity=0.574  Sum_probs=39.3

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      +...|+||++.|.++   +.|+|+|.||..||..|    ...||+||+.+....
T Consensus         5 ~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~----~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            5 QFLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS----GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS----SSSCSSCCSSSSCCS
T ss_pred             cCCCceEeCCccCCe---EEcCCCCcccHHHHccC----CCCCCcCCcEeecCC
Confidence            467899999999876   67899999999999884    446999999876543

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=98.74  E-value=4.8e-09  Score=83.85  Aligned_cols=48  Identities=8%  Similarity=-0.080  Sum_probs=42.3

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      ....|+||++.|+++   ++++|||.|++.||..|+.. ..+||+|+..+..
T Consensus        13 ~~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~~   60 (85)
T 2kr4_A           13 DEFRDPLMDTLMTDP---VRLPSGTVMDRSIILRHLLN-SPTDPFNRQMLTE   60 (85)
T ss_dssp             TTTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHH-CSBCTTTCCBCCG
T ss_pred             hheECcccCchhcCC---eECCCCCEECHHHHHHHHhc-CCCCCCCcCCCCh
Confidence            468999999999988   78899999999999999987 4569999987754

>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=98.72  E-value=4.1e-09  Score=106.24  Aligned_cols=49  Identities=31%  Similarity=0.678  Sum_probs=41.8

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      ...|+||++.+.++   +.+||+|.||..||..|+......||+||..+...
T Consensus       332 ~~~C~ICle~~~~p---v~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSBCCE---EEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCCCCe---EEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            47999999998654   78999999999999999985456799999988654

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=98.70  E-value=5.6e-09  Score=86.12  Aligned_cols=48  Identities=8%  Similarity=-0.062  Sum_probs=42.4

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      ....|+||++.|.++   ++++|||.|++.||..|+.. ..+||+||.++..
T Consensus        28 ~~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~~   75 (100)
T 2kre_A           28 DEFRDPLMDTLMTDP---VRLPSGTIMDRSIILRHLLN-SPTDPFNRQTLTE   75 (100)
T ss_dssp             TTTBCTTTCSBCSSE---EEETTTEEEEHHHHHHHTTS-CSBCSSSCCBCCT
T ss_pred             HhhCCcCccCcccCC---eECCCCCEEchHHHHHHHHc-CCCCCCCCCCCCh
Confidence            468999999999988   77899999999999999986 5679999988754

>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.2

Probab=98.70  E-value=6.1e-09  Score=85.58  Aligned_cols=48  Identities=13%  Similarity=-0.004  Sum_probs=42.4

Q ss_pred             CCCccceecCcccCCCeeEEecCC-ChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCR-HKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~-H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      .+..|+||++.|+++   ++++|| |.|++.||..|+.. ...||+||.++..
T Consensus        21 ~~~~CpI~~~~m~dP---V~~~cG~htf~r~cI~~~l~~-~~~cP~~~~~l~~   69 (98)
T 1wgm_A           21 DEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLTM   69 (98)
T ss_dssp             TTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBCCT
T ss_pred             HhcCCcCccccccCC---eECCCCCeEECHHHHHHHHHh-CCCCCCCCCCCCh
Confidence            368999999999988   778999 99999999999987 4579999988764

>3iib_A Peptidase M28; YP_926796.1, structural genomics, J center for structural genomics, JCSG, protein structure INI PSI-2; HET: PGE; 1.70A {Shewanella amazonensis SB2B}

Probab=98.67  E-value=1.3e-07  Score=97.52  Aligned_cols=107  Identities=11%  Similarity=0.038  Sum_probs=78.0

Q ss_pred             cccccCCcCCCCCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCC---------HHHHH----HHHHHcCCc
Q 014723           36 IEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCS---------FEDKV----RNAQKAGFE  102 (419)
Q Consensus        36 ~~A~Fg~~~~~~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~Cs---------F~~Kv----~nAq~aGA~  102 (419)
                      ....|++..+..+++|.|+.++..+.|....     ..+++||||||.||.|.         |..|.    .+|+++||+
T Consensus        93 ~~l~~s~~tp~~~vta~lV~v~~~~~~~~~~-----~~dvkGKIVlv~~~~~~~~~~~~y~~~~~kr~~~a~~A~~aGA~  167 (444)
T 3iib_A           93 TALGGSIATPAQGLSATIVRFDTLQDLQNAE-----AGSLNDKIAFIDAKTERHRDGKGYGQTASGRSRGAVAAAEKGAV  167 (444)
T ss_dssp             EECBTCCCCCTTCEEEEEEEESSHHHHHTSC-----TTTTTTCEEEECCCCCCCTTCHHHHHHHHHHHHHHHHHHHTTCS
T ss_pred             EeccCCCCCCCCCeEEEEEecCCHHHHhhcc-----ccccCccEEEEeCCCCCCcccccccchhhhhhhHHHHHHHCCCe
Confidence            3345666666788999999887766665431     24679999999999995         66774    579999999


Q ss_pred             eEEEeecCCCcc---eeeccC-CCCceEEeEEEeechhhHHHHHhhCCC
Q 014723          103 AAIVYDNEDDGV---LVAMAG-NSAGIKIHAVFVSKASGEKLKQYAGST  147 (419)
Q Consensus       103 avIv~nn~~~~~---~~~m~g-~~~~i~IPsv~Is~~~G~~L~~~l~~~  147 (419)
                      ||||+|+.....   ...+.+ ......||++.|+..+|+.|+..+..+
T Consensus       168 avIi~~~~~~~~~~~~tg~~~~~~~~~~IP~~~Is~~da~~L~~~l~~g  216 (444)
T 3iib_A          168 GIIIRSIGTDHDRMAHTGMMRYEEGVTAIPAAAISNPDADLINAMLKRD  216 (444)
T ss_dssp             EEEEECSCSCCSSCCCCCBCCCCTTSCCCCEEEECHHHHHHHHHHHTTT
T ss_pred             EEEEEccCCcccccccCCccccCCCCCCCCeEEecHHHHHHHHHHHhCC
Confidence            999999754321   111112 223468999999999999998887654

>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=98.66  E-value=5.1e-09  Score=79.16  Aligned_cols=46  Identities=24%  Similarity=0.450  Sum_probs=38.0

Q ss_pred             CCccceecCcccCCCeeEEe--cCCCh-hhHHhHHHHHhcCCCCCcccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRIL--PCRHK-FHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~L--pC~H~-Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      +.+|.||++.+.+.   ..+  ||||. |+..|++.|.+.. ..||+||+++.
T Consensus         8 ~~~C~IC~~~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~-~~CPiCR~~i~   56 (64)
T 2vje_A            8 IEPCVICQGRPKNG---CIVHGKTGHLMACFTCAKKLKKRN-KPCPVCRQPIQ   56 (64)
T ss_dssp             GSCCTTTSSSCSCE---EEEETTEEEEEECHHHHHHHHHTT-CCCTTTCCCCC
T ss_pred             cCCCCcCCCCCCCE---EEECCCCCChhhHHHHHHHHHHcC-CcCCCcCcchh
Confidence            56899999987554   444  99999 8999999999874 45999999875

>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=98.64  E-value=6.3e-09  Score=99.54  Aligned_cols=49  Identities=16%  Similarity=0.135  Sum_probs=42.8

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      ....|+||++.|.++   ++++|||.||+.||..|+.....+||+||.++..
T Consensus       207 ~~~~c~i~~~~~~dP---v~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          207 DYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             STTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             cccCCcCcCCHhcCC---eECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            468899999999988   7789999999999999998755559999998754

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

Probab=98.62  E-value=5.3e-09  Score=88.24  Aligned_cols=44  Identities=32%  Similarity=0.560  Sum_probs=38.7

Q ss_pred             CCccceecCcccCCCeeEEe-cCCChhhHHhHHHHHhcCCCCCcccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRIL-PCRHKFHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      ...|+||++.|.++   +.+ +|||.||..||..|+.   ..||+||..+.
T Consensus        22 ~~~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~   66 (117)
T 1jm7_B           22 LLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG---TGCPVCYTPAW   66 (117)
T ss_dssp             TTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT---TBCSSSCCBCS
T ss_pred             CCCCCCCChHhhCc---cEeCCCCCHHHHHHHHHHhc---CCCcCCCCcCc
Confidence            57899999999876   566 8999999999999987   46999999874

>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=98.60  E-value=9.2e-09  Score=77.49  Aligned_cols=46  Identities=22%  Similarity=0.545  Sum_probs=38.0

Q ss_pred             CCccceecCcccCCCeeEEe--cCCCh-hhHHhHHHHHhcCCCCCcccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRIL--PCRHK-FHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~L--pC~H~-Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      +..|.||++.+.+.   ..+  ||||. ||..|+..|.+.. ..||+||+++.
T Consensus         7 ~~~C~IC~~~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~-~~CPiCR~~i~   55 (63)
T 2vje_B            7 LKPCSLCEKRPRDG---NIIHGRTGHLVTCFHCARRLKKAG-ASCPICKKEIQ   55 (63)
T ss_dssp             GSBCTTTSSSBSCE---EEEETTEEEEEECHHHHHHHHHTT-CBCTTTCCBCC
T ss_pred             CCCCcccCCcCCCe---EEEecCCCCHhHHHHHHHHHHHhC-CcCCCcCchhh
Confidence            57899999986543   444  99998 9999999998774 56999999875

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=98.55  E-value=1.3e-08  Score=78.95  Aligned_cols=43  Identities=23%  Similarity=0.585  Sum_probs=36.8

Q ss_pred             CCccceecCcccCCCeeEEecCCCh-hhHHhHHHHHhcCCCCCccccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHK-FHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      +..|.||++.+.+.   ..+||+|. ||..|+..|     ..||+||+.+..
T Consensus        24 ~~~C~iC~~~~~~~---~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMDRNIAI---VFVPCGHLVTCKQCAEAV-----DKCPMCYTVITF   67 (74)
T ss_dssp             HTBCTTTSSSBCCE---EEETTCCBCCCHHHHTTC-----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCCCCE---EEcCCCChhHHHHhhhcC-----ccCCCcCcCccC
Confidence            46899999997654   77899999 999999998     459999998754

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.55  E-value=2.6e-08  Score=80.98  Aligned_cols=46  Identities=22%  Similarity=0.495  Sum_probs=38.8

Q ss_pred             CCCccceecCcccCCCeeEEec-CCChhhHHhHHHHHhcC-----CCCCcc--cccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILP-CRHKFHAFCVDSWLTSW-----RTFCPV--CKRD  251 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~Ci~~Wl~~~-----~~~CP~--Cr~~  251 (419)
                      ....|+||++.|.++   ++++ |||.|++.||..|+...     ...||+  |++.
T Consensus         6 ~~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            6 SGFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SCCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             cEeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            357899999999987   6675 99999999999999763     346999  9865

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

Probab=98.52  E-value=2.4e-08  Score=89.45  Aligned_cols=49  Identities=24%  Similarity=0.455  Sum_probs=42.2

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      ...|+||++.|.++   +.++|||.||..||.+|+......||+||..+...
T Consensus        18 ~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           18 KYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             GGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCChhhcCc---EECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            57899999999876   56899999999999999987555799999887653

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

Probab=98.50  E-value=4.5e-08  Score=73.18  Aligned_cols=48  Identities=29%  Similarity=0.654  Sum_probs=37.7

Q ss_pred             CCCccceecCcccCCCeeEEecCC--C---hhhHHhHHHHHhc-CCCCCcccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCR--H---KFHAFCVDSWLTS-WRTFCPVCKRDAR  253 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~--H---~Fh~~Ci~~Wl~~-~~~~CP~Cr~~~~  253 (419)
                      +...|.||+++.  ++.+ ++||.  |   .||..||.+|+.. .+..||+|+..+.
T Consensus         5 ~~~~CrIC~~~~--~~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            5 DVPVCWICNEEL--GNER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEEC--SCCC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCEeEEeecCC--CCce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            467899999983  3344 68965  4   8999999999975 4567999998764

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

Probab=98.48  E-value=1.5e-08  Score=99.89  Aligned_cols=53  Identities=28%  Similarity=0.576  Sum_probs=40.2

Q ss_pred             CCCCccceecCcccCCC----eeE-EecCCChhhHHhHHHHHhcCC----------CCCccccccccc
Q 014723          202 CTSRTCAICLEDYSVGE----KLR-ILPCRHKFHAFCVDSWLTSWR----------TFCPVCKRDART  254 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~----~~~-~LpC~H~Fh~~Ci~~Wl~~~~----------~~CP~Cr~~~~~  254 (419)
                      .+..+|+||++.+.+..    +.. ...|+|.||..||.+||+...          ..||+||+++..
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            45689999999987732    222 346999999999999997521          359999998753

>3fed_A Glutamate carboxypeptidase III; metallopeptidase, bimetallic active site, N-glycosylation, C cation, chloride anion, zinc IONS, dipept glycoprotein; HET: NAG BIX; 1.29A {Homo sapiens} PDB: 3fec_A* 3fee_A* 3ff3_A* 2c6c_A* 2c6g_A* 2c6p_A* 2cij_A* 2jbj_A* 2jbk_A* 3rbu_A* 3bi1_A* 2oot_A* 2pvv_A* 2pvw_A* 2xei_A* 2or4_A* 3bi0_A* 3bhx_A* 3d7d_A* 3d7f_A* ...

Probab=98.47  E-value=1.1e-07  Score=103.00  Aligned_cols=105  Identities=22%  Similarity=0.200  Sum_probs=71.4

Q ss_pred             cCCcCCCCCeeEEEEecCCccCCCCCccC-cc-ccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCC-----
Q 014723           40 FAPAIRGSGDCGVLYVAEPLDACSNLTSK-VE-KVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDD-----  112 (419)
Q Consensus        40 Fg~~~~~~~~~G~l~~a~p~daC~pl~~~-~~-~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~-----  112 (419)
                      |-..-+...++|.|+.++  .||...-.. .. .+.+++||||||+||+|.|.+|+++|+++||+||||||+..+     
T Consensus       118 f~ays~~G~v~g~lV~v~--~G~~~Df~~L~~~~~~~v~GkIvlv~~G~~~~~~Kv~~A~~~GA~gviiy~dp~d~~~~g  195 (707)
T 3fed_A          118 YNAFSAQGMPEGDLVYVN--YARTEDFFKLEREMGINCTGKIVIARYGKIFRGNKVKNAMLAGAIGIILYSDPADYFAPE  195 (707)
T ss_dssp             CCTTCCCBCCEECEEECT--TCCHHHHHHHHHTSCCCCTTCEEEEECCSSCHHHHHHHHHHTTCSEEEEECCHHHHCCTT
T ss_pred             ccccCCCCceEEEEEEec--CCchhhHHHHHhccCCCCCCeEEEEECCCCCHhHHHHHHHHCCCEEEEEEcCchhccccc
Confidence            444344566889988875  566321000 00 034679999999999999999999999999999999986210     


Q ss_pred             -----------------cceeecc--CCC--------------------CceEEeEEEeechhhHHHHHhhCC
Q 014723          113 -----------------GVLVAMA--GNS--------------------AGIKIHAVFVSKASGEKLKQYAGS  146 (419)
Q Consensus       113 -----------------~~~~~m~--g~~--------------------~~i~IPsv~Is~~~G~~L~~~l~~  146 (419)
                                       +.+..+.  |+.                    ...+||++-|+..+++.|+..+..
T Consensus       196 ~~~yP~~~~~p~~~vqrGsv~~~~~~GDp~TPG~ps~~~~~r~~~~~~~~~p~IP~~pIS~~da~~Ll~~l~g  268 (707)
T 3fed_A          196 VQPYPKGWNLPGTAAQRGNVLNLNGAGDPLTPGYPAKEYTFRLDVEEGVGIPRIPVHPIGYNDAEILLRYLGG  268 (707)
T ss_dssp             CCBTTTSSBCCTTCCCCCCCCCCTTCCSTTCTTSCCCTTCCCCCGGGCTTCCSSCEEEECHHHHHHHHHTBCB
T ss_pred             cccCCCCccCCCccccccceecccCCCCCCCCCCcccCCCcccChhhccCCCCCCeEecCHHHHHHHHHHhcC
Confidence                             0000000  110                    125799999999999999887653

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=98.45  E-value=4.1e-08  Score=89.17  Aligned_cols=49  Identities=16%  Similarity=0.125  Sum_probs=42.1

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      ....|+||++.|.++   ++++|||.|++.||..|+.....+||+|+.++..
T Consensus       105 ~~f~CPI~~elm~DP---V~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          105 DYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             GGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             HhhcccCccccCCCC---eECCCCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            458899999999987   7789999999999999998743469999987754

>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=7.2e-08  Score=78.06  Aligned_cols=48  Identities=27%  Similarity=0.713  Sum_probs=39.6

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhc----C---CCCCcc--cccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS----W---RTFCPV--CKRD  251 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~----~---~~~CP~--Cr~~  251 (419)
                      ..+|+||++++..++.+...+|+|.||..|+..+++.    .   ...||.  |+..
T Consensus         5 ~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            5689999999987766666689999999999999863    1   346999  9987

>3kas_A Transferrin receptor protein 1; transferrin receptor 1, arenavirus, cell MEMB disulfide bond, endocytosis, HOST-virus inter receptor, secreted, transmembrane; HET: NAG FUC BMA MAN; 2.40A {Homo sapiens} PDB: 1de4_C* 3s9l_A* 3s9m_A* 3s9n_A* 1cx8_A* 1suv_A 2nsu_A

Probab=98.37  E-value=4.2e-07  Score=97.56  Aligned_cols=96  Identities=21%  Similarity=0.213  Sum_probs=66.3

Q ss_pred             CCCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCCccee-------e-
Q 014723           46 GSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLV-------A-  117 (419)
Q Consensus        46 ~~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~~~~~-------~-  117 (419)
                      ...+.|.|+.+.  .||... ..... -+++||||||+||+|.|.+|+++|+++||+|||||++..+....       + 
T Consensus       105 ~g~v~g~lV~vg--~G~~~D-~~~l~-vdv~GkIvlv~~g~~~~~~K~~~A~~~GA~gvii~~~~~~~~~~~~~~~~~G~  180 (640)
T 3kas_A          105 AATVTGKLVHAN--FGTKKD-FEDLY-TPVNGSIVIVRAGKITFAEKVANAESLNAIGVLIYMDQTKFPIVNAELSFFGH  180 (640)
T ss_dssp             CEEEEECEEECT--TCCHHH-HHTCS-SCCTTSEEEEESCSSCHHHHHHHHHTTTCSEEEEECCTTTCCCSCTTCCCCEE
T ss_pred             CCceEEEEEEec--CCChhh-HHHhh-cccCCcEEEEecCCCCHHHHHHHHHHCCCeEEEEEeccccccccccccccccc
Confidence            345778887764  455321 10000 36799999999999999999999999999999999975421110       0 


Q ss_pred             --c-cCC-------------------CCceEEeEEEeechhhHHHHHhhC
Q 014723          118 --M-AGN-------------------SAGIKIHAVFVSKASGEKLKQYAG  145 (419)
Q Consensus       118 --m-~g~-------------------~~~i~IPsv~Is~~~G~~L~~~l~  145 (419)
                        . .|+                   .....||++.|+..+++.|...++
T Consensus       181 ~~~~~Gdp~tpg~ps~~~~~~~~~~~~~~p~IP~~~Is~~~a~~Ll~~l~  230 (640)
T 3kas_A          181 AHLGTGDPYTPGFPSFNHTQFPPSRSSGLPNIPVQTISRAAAEKLFGNME  230 (640)
T ss_dssp             CCSSSSCSCCCSSCC---CCCCCCSSCCCCSSCEEECCHHHHHHHHTTEE
T ss_pred             cccCCCCCCCCCcccccccccccccccCCCCCCEEecCHHHHHHHHHHcc
Confidence              0 011                   012369999999999999987653

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

Probab=98.35  E-value=9.2e-08  Score=74.25  Aligned_cols=43  Identities=23%  Similarity=0.585  Sum_probs=35.4

Q ss_pred             CCccceecCcccCCCeeEEecCCCh-hhHHhHHHHHhcCCCCCccccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHK-FHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      +.+|.||++.+.+.   ..+||+|. ||..|+..+     ..||+||..+..
T Consensus        25 ~~~C~IC~~~~~~~---~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~   68 (75)
T 2ecg_A           25 EKLCKICMDRNIAI---VFVPCGHLVTCKQCAEAV-----DKCPMCYTVITF   68 (75)
T ss_dssp             HHSCSSSCSSCCCB---CCSSSCCCCBCHHHHHHC-----SBCTTTCCBCCC
T ss_pred             CCCCCcCCCCCCCE---EEecCCCHHHHHHHhhCC-----CCCccCCceecC
Confidence            46799999998664   67899999 999999642     459999998754

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

Probab=98.30  E-value=2.5e-07  Score=70.68  Aligned_cols=45  Identities=31%  Similarity=0.729  Sum_probs=36.7

Q ss_pred             CCCccceecCcccCCCeeEEecCCCh-hhHHhHHHHHhcCCCCCcccccccccC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHK-FHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      ++..|.||++.+.+   ...+||+|. ||..|+..     ...||+||..+...
T Consensus        14 ~~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~-----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           14 NSKDCVVCQNGTVN---WVLLPCRHTCLCDGCVKY-----FQQCPMCRQFVQES   59 (68)
T ss_dssp             CSSCCSSSSSSCCC---CEETTTTBCCSCTTHHHH-----CSSCTTTCCCCCCE
T ss_pred             CCCCCCCcCcCCCC---EEEECCCChhhhHHHHhc-----CCCCCCCCcchhce
Confidence            45789999998755   488999999 99999984     24599999988653

>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=98.21  E-value=2.3e-07  Score=73.04  Aligned_cols=44  Identities=25%  Similarity=0.606  Sum_probs=36.7

Q ss_pred             CCccceecCcccCCCeeEEecCCCh-hhHHhHHHHHhcCCCCCcccccccccC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHK-FHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      +..|.||++.+.+   ...+||||. ||..|+..|.     .||+||..+...
T Consensus        18 ~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~~~-----~CP~Cr~~i~~~   62 (79)
T 2yho_A           18 AMLCMVCCEEEIN---STFCPCGHTVCCESCAAQLQ-----SCPVCRSRVEHV   62 (79)
T ss_dssp             HTBCTTTSSSBCC---EEEETTCBCCBCHHHHTTCS-----BCTTTCCBCCEE
T ss_pred             CCEeEEeCcccCc---EEEECCCCHHHHHHHHHhcC-----cCCCCCchhhCe
Confidence            4689999998765   478899999 9999998872     699999988654

>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=98.17  E-value=5.1e-07  Score=86.21  Aligned_cols=50  Identities=24%  Similarity=0.493  Sum_probs=41.1

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcC-CCCCcc--ccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW-RTFCPV--CKRDART  254 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~-~~~CP~--Cr~~~~~  254 (419)
                      .+..|+||++.|.++  ++.+.|||.|++.||..|+... ...||+  |++.+..
T Consensus       180 ~el~CPIcl~~f~DP--Vts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          180 IELTCPITCKPYEAP--LISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM  232 (267)
T ss_dssp             CCSBCTTTSSBCSSE--EEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECG
T ss_pred             eeeECcCccCcccCC--eeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCch
Confidence            347899999999876  5556899999999999999763 346999  9987654

>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=98.13  E-value=4.9e-07  Score=67.69  Aligned_cols=49  Identities=12%  Similarity=0.099  Sum_probs=40.8

Q ss_pred             CCccceecCcccCCCeeEEe-cCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          204 SRTCAICLEDYSVGEKLRIL-PCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      ...|+||++.|.++   ..+ +|||.|.+.||.+|++.+. +||+++.++...+
T Consensus         3 ~~~CpIs~~~m~dP---V~~~~sG~~yer~~I~~~l~~~~-~cP~t~~~L~~~~   52 (61)
T 2bay_A            3 HMLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTG-NDPITNEPLSIEE   52 (61)
T ss_dssp             -CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHS-BCTTTCCBCCGGG
T ss_pred             eEEecCCCCCCCCC---EEeCCCCcEEcHHHHHHHHHhCC-CCcCCcCCCChhh
Confidence            36799999999976   556 8999999999999998754 5999999886543

>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=98.02  E-value=6.9e-07  Score=89.14  Aligned_cols=44  Identities=27%  Similarity=0.688  Sum_probs=37.6

Q ss_pred             CCCccceecCcccCCCeeEEecCCCh-hhHHhHHHHHhcCCCCCccccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHK-FHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      .+..|+||++.+.+.   ..+||||. ||..|+..|     ..||+||..+..
T Consensus       294 ~~~~C~IC~~~~~~~---v~lpCgH~~fC~~C~~~~-----~~CP~CR~~i~~  338 (345)
T 3t6p_A          294 EERTCKVCMDKEVSV---VFIPCGHLVVCQECAPSL-----RKCPICRGIIKG  338 (345)
T ss_dssp             TTCBCTTTSSSBCCE---EEETTCCEEECTTTGGGC-----SBCTTTCCBCCE
T ss_pred             CCCCCCccCCcCCce---EEcCCCChhHhHHHHhcC-----CcCCCCCCCccC
Confidence            457899999998664   77899999 999999988     359999998754

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

Probab=97.89  E-value=5.7e-06  Score=67.36  Aligned_cols=48  Identities=23%  Similarity=0.434  Sum_probs=39.1

Q ss_pred             ccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       206 ~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      -|.+|--.+.  ...|.+||+|+||.+|+..|.++....||.|+.++...
T Consensus         3 fC~~C~~Pi~--iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rV   50 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRI   50 (101)
T ss_dssp             BCTTTCSBCS--EEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEE
T ss_pred             ecCccCCCeE--EEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeee
Confidence            3777766654  45799999999999999999977666799999988644

>1y9z_A Alkaline serine protease; subtilisin-like alpha/beta domain, insert beta barrel domain hydrolase; HET: PMS; 1.40A {Pseudoalteromonas SP} PDB: 1v6c_A* 1wvm_A*

Probab=97.79  E-value=3.6e-05  Score=78.93  Aligned_cols=86  Identities=24%  Similarity=0.302  Sum_probs=63.3

Q ss_pred             cCCCCCccCccccCCCcceEEEEecCCC-----CHHHHHHHHHHcCCceEEEeecCCCccee--eccCCCCceEEeEEEe
Q 014723           60 DACSNLTSKVEKVSNMSSAFVLTIRGGC-----SFEDKVRNAQKAGFEAAIVYDNEDDGVLV--AMAGNSAGIKIHAVFV  132 (419)
Q Consensus        60 daC~pl~~~~~~~~~~~~~IaLV~RG~C-----sF~~Kv~nAq~aGA~avIv~nn~~~~~~~--~m~g~~~~i~IPsv~I  132 (419)
                      ++|.+... .....+++|||+|++||+|     .|.+|+++++++||+++|||||.....+.  ..........||+++|
T Consensus       258 ~~C~~~~~-~~~~~~~~gkivl~~rg~~~~~~~~~~~~~~~~~~aGa~gvii~~~~~~~g~~~~~~~~~~~~~~~p~~~v  336 (441)
T 1y9z_A          258 AECTVNGT-SFSCGNMANKICLVERVGNQGSSYPEINSTKACKTAGAKGIIVYSNSALPGLQNPFLVDANSDITVPSVSV  336 (441)
T ss_dssp             EEEEEETT-EEECCCCTTEEEEEECCSCSSSSCTHHHHHHHHHHTTCSEEEEECCTTSCSCCCCEEECTTCCCCSCEEEE
T ss_pred             hccccccc-cccCCCccccEEEEeccccCcccccHHHHHHHHHhcCCeEEEEEeCCCccccccccccccccCccccEEEE
Confidence            45765421 1234578999999999987     89999999999999999999986532111  1111223457899999


Q ss_pred             echhhHHHHHhhCC
Q 014723          133 SKASGEKLKQYAGS  146 (419)
Q Consensus       133 s~~~G~~L~~~l~~  146 (419)
                      +..+|+.|+.+++.
T Consensus       337 ~~~~g~~l~~~~~~  350 (441)
T 1y9z_A          337 DRATGLALKAKLGQ  350 (441)
T ss_dssp             CHHHHHHHHTTTTS
T ss_pred             eHHHHHHHHHHhcC
Confidence            99999999988764

>3i6s_A Subtilisin-like protease; PA-domain, FN3-domain, hydrolase; HET: NAG FUC; 2.50A {Solanum lycopersicum} PDB: 3i74_A*

Probab=97.77  E-value=2.1e-05  Score=84.68  Aligned_cols=86  Identities=14%  Similarity=0.116  Sum_probs=67.1

Q ss_pred             EEEEecCCccCCCCCccCccccCCC--cceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCCcceeeccCCCCceEEe
Q 014723           51 GVLYVAEPLDACSNLTSKVEKVSNM--SSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIH  128 (419)
Q Consensus        51 G~l~~a~p~daC~pl~~~~~~~~~~--~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~~~~~~m~g~~~~i~IP  128 (419)
                      ..|+.+...+.|.+...   +...+  +|||+|++||.|.|.+|..+++++||.++|++|+...  +.   .  ....+|
T Consensus       259 ~plv~~~~~~~C~~~~l---~~~~vdl~GkIvlc~~g~~~~~~k~~~~~~~Ga~g~i~~n~~~~--~~---~--~~~~~P  328 (649)
T 3i6s_A          259 SPVIYNKTLSDCSSEEL---LSQVENPENTIVICDDNGDFSDQMRIITRARLKAAIFISEDPGV--FR---S--ATFPNP  328 (649)
T ss_dssp             EEEECCTTTTTCCCHHH---HTTSSSGGGCEEEECCCSCHHHHHHHHHHHTCSEEEEECCCGGG--GG---C--CCCCSC
T ss_pred             eeeEecccccccccccc---cccccccCCcEEEEeCCCccHHHHHHHHHhcCceEEEEecCccc--cc---c--ccCcCC
Confidence            34555556678987532   22334  8999999999999999999999999999999998721  11   1  234689


Q ss_pred             EEEeechhhHHHHHhhCC
Q 014723          129 AVFVSKASGEKLKQYAGS  146 (419)
Q Consensus       129 sv~Is~~~G~~L~~~l~~  146 (419)
                      +++|...+|+.|+.|+..
T Consensus       329 ~~~v~~~~g~~i~~yi~s  346 (649)
T 3i6s_A          329 GVVVNKKEGKQVINYVKN  346 (649)
T ss_dssp             EEEECHHHHHHHHHHHHT
T ss_pred             EEEEcHHHHHHHHHHHhc
Confidence            999999999999998865

>1xf1_A C5A peptidase, SCP; hydrolase; HET: CIT; 1.90A {Streptococcus pyogenes} PDB: 3eif_A*

Probab=97.72  E-value=6e-05  Score=84.27  Aligned_cols=75  Identities=28%  Similarity=0.468  Sum_probs=59.8

Q ss_pred             cCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCCcceeeccCCCCceEEeEEEeechhhHH
Q 014723           60 DACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGEK  139 (419)
Q Consensus        60 daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~~~~~~m~g~~~~i~IPsv~Is~~~G~~  139 (419)
                      ++|.+...     .+++|||||++||.|+|.+|+.+++++||.++|+||+..+.....+.   ....||+++|+..+|..
T Consensus       269 ~g~~~~~~-----~~v~Gkivl~~rg~~~~~~k~~~~~~~Ga~gvi~~n~~~~~~~~~~~---~~~~iP~~~i~~~~g~~  340 (926)
T 1xf1_A          269 RGTKEDDF-----KDVKGKIALIERGDIDFKDKIAKAKKAGAVGVLIYDNQDKGFPIELP---NVDQMPAAFISRKDGLL  340 (926)
T ss_dssp             TSCSTTTT-----TTCTTSEEEEECCSSCHHHHHHHHHHTTCSEEEEECSSTTCCCEECC---CSTTCCEEEECHHHHHH
T ss_pred             CCCCccch-----hhcCCeEEEEECCCCCHHHHHHHHHhCCCcEEEEEecCCCCcccccC---ccccccEEEEeHHHHHH
Confidence            47764321     46799999999999999999999999999999999987654333322   23468999999999998


Q ss_pred             HHH
Q 014723          140 LKQ  142 (419)
Q Consensus       140 L~~  142 (419)
                      |+.
T Consensus       341 l~~  343 (926)
T 1xf1_A          341 LKD  343 (926)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            875

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

Probab=97.54  E-value=3.4e-05  Score=73.02  Aligned_cols=50  Identities=24%  Similarity=0.522  Sum_probs=39.8

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcC-CCCCcccccccccC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW-RTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~-~~~CP~Cr~~~~~~  255 (419)
                      -..|.||.+-...+....  .|+|.||..|+++|++.+ ...||.|+......
T Consensus       180 i~~C~iC~~iv~~g~~C~--~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          180 VKICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             CCBCTTTCSBCSSCEECS--SSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCcCcchhhHHhCCcccC--ccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            578999999998773332  399999999999999764 34799998875544

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=92.03  E-value=0.079  Score=39.81  Aligned_cols=47  Identities=28%  Similarity=0.467  Sum_probs=32.6

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcC---CCCCccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW---RTFCPVCKRDA  252 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~---~~~CP~Cr~~~  252 (419)
                      .+..|.||.+.   ++-+.--.|...||..|++..|...   .-.||.|+...
T Consensus        11 ~~~~C~vC~~~---~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C           11 PGARCGVCGDG---TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             TTCCCTTTSCC---TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCcCCCCCC---CeEEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            35779999853   3333333488999999999888652   22699997643

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=91.95  E-value=0.057  Score=43.35  Aligned_cols=34  Identities=15%  Similarity=0.368  Sum_probs=25.8

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHH
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSW  237 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~W  237 (419)
                      +..|.||++++...-...-+.|+|.||..|+..|
T Consensus         3 e~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCCCceEECCcCChHHhHHHCHHH
Confidence            5789999987533323334889999999999983

>3vta_A Cucumisin; subtilisin-like fold, serine protease, hydrolase; HET: DFP NAG FUC BMA MAN; 2.75A {Cucumis melo}

Probab=85.54  E-value=0.71  Score=49.08  Aligned_cols=71  Identities=10%  Similarity=0.089  Sum_probs=52.3

Q ss_pred             CCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeecCCCcceeeccCCCCceEEeEEEeechhhHHH
Q 014723           61 ACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGEKL  140 (419)
Q Consensus        61 aC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn~~~~~~~~m~g~~~~i~IPsv~Is~~~G~~L  140 (419)
                      .|.+...   ....+.++|+|++|+   |..|..+++.+||.++|++++..+.        .....+|.+.+...++..+
T Consensus       269 ~~~~~~~---~~~~v~gkivl~~~~---~~~~~~~~~~~Ga~gvi~~~~~~~~--------~~~~~lP~~~v~~~~g~~i  334 (621)
T 3vta_A          269 FCTDKSV---NPNLLKGKIVVCEAS---FGPHEFFKSLDGAAGVLMTSNTRDY--------ADSYPLPSSVLDPNDLLAT  334 (621)
T ss_dssp             TTCTTCS---CGGGTTTSEEECSSC---CCHHHHHHHHTTCSEEEEECSCCSS--------CCCCSSSEEEECHHHHHHH
T ss_pred             ccccccc---ccccccceEEEEecC---CChhHHhhhhcceeEEEEEecCCCc--------ccccccceEEECHHHHHHH
Confidence            4555432   234568999998754   6689999999999999999886542        1223578999999999998


Q ss_pred             HHhhC
Q 014723          141 KQYAG  145 (419)
Q Consensus       141 ~~~l~  145 (419)
                      +.+..
T Consensus       335 ~~~~~  339 (621)
T 3vta_A          335 LRYIY  339 (621)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            87754

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=80.24  E-value=0.78  Score=35.98  Aligned_cols=31  Identities=23%  Similarity=0.726  Sum_probs=22.6

Q ss_pred             CCCccceecCcccCCCeeEEec---CCChhhHHhHHHH
Q 014723          203 TSRTCAICLEDYSVGEKLRILP---CRHKFHAFCVDSW  237 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~Lp---C~H~Fh~~Ci~~W  237 (419)
                      .++.|.||- .|...   ..+|   |+-+||..|+++-
T Consensus        14 ~D~~C~VC~-~~t~~---~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           14 NDEMCDVCE-VWTAE---SLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTTC-CCCSS---CCSSCSSSSSCCCHHHHHHH
T ss_pred             CCcccCccc-ccccc---ceeccccccccccHhhcccc
Confidence            478899995 33343   2344   7899999999996

---

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	419
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	9e-14
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	6e-12
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	3e-11
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	1e-10
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	2e-10
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	5e-09
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-08
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	3e-08
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	2e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	4e-06
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	6e-06
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	8e-06
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	4e-04

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 63.4 bits (154), Expect = 9e-14
 Identities = 24/47 (51%), Positives = 29/47 (61%), Gaps = 2/47 (4%)

Query: 206 TCAICLEDYSVGEKLRILP-CRHKFHAFCVDSWLTSWRTFCPVCKRD 251
            CA+CL +   GE+ R LP C H FHA CVD WL S  T CP+C+  
Sbjct: 7   ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHST-CPLCRLT 52

>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 = 58.9 bits (142), Expect = 6e-12
 Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 3/58 (5%)

Query: 198 VEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS 255
            E   T + C IC E+    + ++I PC H     C+ SW  S    CP C+ + + +
Sbjct: 17  CEMGSTFQLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 71

>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 = 56.3 bits (135), Expect = 3e-11
 Identities = 12/51 (23%), Positives = 16/51 (31%), Gaps = 2/51 (3%)

Query: 205 RTCAICLEDYSVGEKLRIL--PCRHKFHAFCVDSWLTSWRTFCPVCKRDAR 253
           + C  C         L+++   C H     CVD         CP C    R
Sbjct: 4   QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR 54

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.7 bits (131), Expect = 1e-10
 Identities = 10/46 (21%), Positives = 18/46 (39%), Gaps = 1/46 (2%)

Query: 207 CAICLEDYSVGEK-LRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD 251
           C +C+E   + +       C ++   FC     T     CP C++ 
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 48

>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 = 54.2 bits (130), Expect = 2e-10
 Identities = 19/49 (38%), Positives = 23/49 (46%), Gaps = 3/49 (6%)

Query: 203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD 251
            +  C ICLED S       LPC H F   C+  W+    T CP+CK  
Sbjct: 4   VAERCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPT-CPLCKVP 49

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.9 bits (121), Expect = 5e-09
 Identities = 15/66 (22%), Positives = 22/66 (33%), Gaps = 16/66 (24%)

Query: 201 NCTSRTCAICLEDY---------------SVGEKLRILPCRHKFHAFCVDSWLTSWRTFC 245
           +     CAIC                   S    +    C H FH  C+  WL + +  C
Sbjct: 18  DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQV-C 76

Query: 246 PVCKRD 251
           P+  R+
Sbjct: 77  PLDNRE 82

>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 = 48.7 bits (116), Expect = 1e-08
 Identities = 11/54 (20%), Positives = 21/54 (38%), Gaps = 7/54 (12%)

Query: 206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEP 259
            C  C  +    +  ++LPC H   + C+++        CP+C+         P
Sbjct: 8   RCQQCQAEA---KCPKLLPCLHTLCSGCLEASGMQ----CPICQAPWPLGADTP 54

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 47.9 bits (113), Expect = 3e-08
 Identities = 13/53 (24%), Positives = 17/53 (32%), Gaps = 3/53 (5%)

Query: 205 RTCAICLEDYSVGEKL--RILPCRHKFHAFCVDSWLTS-WRTFCPVCKRDART 254
             C IC E+                  H  C+ +WLT    T C +C     T
Sbjct: 7   PVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT 59

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.5 bits (102), Expect = 2e-06
 Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 7/53 (13%)

Query: 204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS-------WRTFCPVCK 249
           S  C +CL +Y V +   I  C+  F   C+  ++             CP   
Sbjct: 5   SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>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 = 42.6 bits (100), Expect = 4e-06
 Identities = 15/71 (21%), Positives = 23/71 (32%), Gaps = 3/71 (4%)

Query: 191 SLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKR 250
            L+          S +C IC              C+H F   C+   L    ++CP C+ 
Sbjct: 10  KLLAVDFPAHFVKSISCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCPSCRY 66

Query: 251 DARTSTGEPPA 261
               +  E P 
Sbjct: 67  PCFPTDLESPV 77

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.7 bits (99), Expect = 6e-06
 Identities = 21/94 (22%), Positives = 30/94 (31%), Gaps = 20/94 (21%)

Query: 200 DNCTSRTCAICLEDYSV---------------GEKLRILPCRHKFHAFCVDSWLTS---- 240
                  C IC+E  +V                   R+  C H FH  C+ +   +    
Sbjct: 21  KVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKD 80

Query: 241 WRTFCPVCKRDARTSTGEPPASESTPLLSSSPAS 274
               CP CK      TG  P  +   +  S P+S
Sbjct: 81  GSLQCPSCKTIYGEKTGTQPWGKME-VFRSGPSS 113

>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 = 42.4 bits (99), Expect = 8e-06
 Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 5/48 (10%)

Query: 206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRT--FCPVCKRD 251
            C ICLE     ++     C H F  FC+   L   +    CP+CK D
Sbjct: 23  ECPICLELI---KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKND 67

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.1 bits (85), Expect = 4e-04
 Identities = 11/60 (18%), Positives = 20/60 (33%), Gaps = 4/60 (6%)

Query: 196 AVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFC--PVCKRDAR 253
           A ++       C+ C           +  C H F + CV   + +    C  P   +D +
Sbjct: 14  AALDRLEKLLRCSRCTNILREPV--CLGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQDLK 71

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	419
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.52
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.38
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.35
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.33
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.28
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.28
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.24
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.19
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.09
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.01
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.97
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.9
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.88
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.87
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.76
d1de4c2	193	Transferrin receptor ectodomain, apical domain {Hu	98.75
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.45
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.38
d3bi1a2	233	Glutamate carboxypeptidase II {Human (Homo sapiens	98.18
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	84.1
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	82.51
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	80.84

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=99.52  E-value=1.2e-15  Score=110.87  Aligned_cols=49  Identities=47%  Similarity=1.044  Sum_probs=43.9

Q ss_pred             CCccceecCcccCCCeeEEec-CCChhhHHhHHHHHhcCCCCCcccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILP-CRHKFHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~Lp-C~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      +.+|+||+++|..++.+++++ |+|.||..||++|++. +..||+||+++.
T Consensus         5 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i~   54 (55)
T d1iyma_           5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV   54 (55)
T ss_dssp             SCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT-CCSCSSSCCCSC
T ss_pred             CCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHh-CCcCCCCCCEeE
Confidence            568999999999999998886 9999999999999998 456999999774

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.38  E-value=2.2e-13  Score=113.01  Aligned_cols=60  Identities=30%  Similarity=0.604  Sum_probs=47.6

Q ss_pred             CCccceecCcccCC---------------CeeEEecCCChhhHHhHHHHHhcC----CCCCcccccccccCCCCCCCCC
Q 014723          204 SRTCAICLEDYSVG---------------EKLRILPCRHKFHAFCVDSWLTSW----RTFCPVCKRDARTSTGEPPASE  263 (419)
Q Consensus       204 ~~~C~ICle~~~~~---------------~~~~~LpC~H~Fh~~Ci~~Wl~~~----~~~CP~Cr~~~~~~~~~p~~~~  263 (419)
                      ++.|+||+++|...               ..++.++|+|.||..||.+||+..    +.+||+||+.+....+..|..+
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~~~qP~~~  103 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGTQPWGK  103 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSSSCTTSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccCcCCCCCCc
Confidence            56899999998542               346778899999999999999753    3469999999988777665543

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=5.6e-14  Score=100.75  Aligned_cols=49  Identities=20%  Similarity=0.569  Sum_probs=41.9

Q ss_pred             ccceecCcccCCCe-eEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          206 TCAICLEDYSVGEK-LRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       206 ~C~ICle~~~~~~~-~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      +|+||+++|..++. ++.++|+|.||..||++|++..+..||+||+++.+
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            79999999987654 45568999999999999998767789999998754

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=99.33  E-value=2.2e-13  Score=102.92  Aligned_cols=48  Identities=38%  Similarity=0.845  Sum_probs=41.4

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCccccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART  254 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~  254 (419)
                      .++|+||++.|.+  .++.++|+|.||..||.+|++.+ ..||+||.++..
T Consensus         5 ~d~C~IC~~~~~~--~~~~~~C~H~Fc~~Ci~~w~~~~-~~CP~CR~~i~~   52 (68)
T d1chca_           5 AERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQN-PTCPLCKVPVES   52 (68)
T ss_dssp             CCCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHS-CSTTTTCCCCCC
T ss_pred             CCCCccCCcCccC--CcEEeCCCCcCcHHHHHHHHHhC-CcCCCCCcchHh
Confidence            5789999999865  46779999999999999999984 569999998754

>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=99.28  E-value=4.2e-13  Score=104.38  Aligned_cols=50  Identities=30%  Similarity=0.698  Sum_probs=42.6

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      ...|+||++.+.+   .+.+||||.||..||..||..+...||+||..+....
T Consensus        23 ~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          23 FQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TTBCTTTSSSBCC---EECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCCccCCCcCCC---eEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            3579999999865   4889999999999999999876667999999987543

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.28  E-value=8.8e-13  Score=98.71  Aligned_cols=53  Identities=26%  Similarity=0.453  Sum_probs=42.5

Q ss_pred             CCCccceecCcccCC--CeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          203 TSRTCAICLEDYSVG--EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       203 ~~~~C~ICle~~~~~--~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      ++..|+||++++..+  ..+..++|+|.||..||.+|++..+..||+||+.+...
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~   56 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccc
Confidence            367899999987543  24566789999999999999977666799999987543

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.24  E-value=2e-12  Score=102.44  Aligned_cols=50  Identities=28%  Similarity=0.617  Sum_probs=41.5

Q ss_pred             CCCccceecCcccCCC---------------eeEEecCCChhhHHhHHHHHhcCCCCCcccccccc
Q 014723          203 TSRTCAICLEDYSVGE---------------KLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR  253 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~---------------~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~  253 (419)
                      .++.|+||++++....               .+..++|+|.||..||++||+.+ .+||+||++..
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~~~   84 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-QVCPLDNREWE   84 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC-SBCSSSCSBCC
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHC-CcCCCCCCccc
Confidence            3567999999886542               46788999999999999999985 56999999865

>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=3.2e-12  Score=100.83  Aligned_cols=53  Identities=25%  Similarity=0.520  Sum_probs=45.1

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCCCCC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEP  259 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~~~p  259 (419)
                      ...|+||+|.|.++   ++++|||.||+.||.+|++.+...||+||.++.+.+..+
T Consensus        23 ~l~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~~   75 (86)
T d1rmda2          23 SISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLES   75 (86)
T ss_dssp             HTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBC
T ss_pred             CcCCccCCcchhcc---eecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhccC
Confidence            46899999999776   778999999999999999876667999999887665543

>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=99.09  E-value=5e-12  Score=91.74  Aligned_cols=48  Identities=21%  Similarity=0.562  Sum_probs=40.0

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccCCCC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGE  258 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~~~  258 (419)
                      ..+|+||++.|.++   +++||+|.||..||++|    +..||+||+++....+.
T Consensus         6 ~l~C~IC~~~~~~p---~~lpCgH~fC~~Ci~~~----~~~CP~Cr~~~~~~~~~   53 (56)
T d1bora_           6 FLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS----GMQCPICQAPWPLGADT   53 (56)
T ss_dssp             CSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS----SSSCSSCCSSSSCCSSC
T ss_pred             CCCCcccCcccCCC---EEecCCCHHhHHHHHcC----CCcCcCCCCcccCCCCC
Confidence            46899999999876   67899999999999876    44699999998755543

>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=99.01  E-value=1.7e-11  Score=99.69  Aligned_cols=48  Identities=33%  Similarity=0.663  Sum_probs=40.5

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCC--CCCccccccccc
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWR--TFCPVCKRDART  254 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~--~~CP~Cr~~~~~  254 (419)
                      ...|+||++.|.++   +.++|||.||..||..|++..+  ..||+||+++..
T Consensus        21 ~l~CpIC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (103)
T d1jm7a_          21 ILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (103)
T ss_dssp             HTSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             CcCCCccCchhCCe---EEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCCh
Confidence            35799999999876   5689999999999999997643  469999998754

>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=98.97  E-value=5.2e-11  Score=86.21  Aligned_cols=47  Identities=13%  Similarity=0.116  Sum_probs=39.6

Q ss_pred             ccceecCcccCCCeeEEe-cCCChhhHHhHHHHHhcCCCCCcccccccccCC
Q 014723          206 TCAICLEDYSVGEKLRIL-PCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST  256 (419)
Q Consensus       206 ~C~ICle~~~~~~~~~~L-pC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~~  256 (419)
                      .|+||++.|+++   ..+ .|||.||++||.+||+.+. .||+||+++...+
T Consensus         2 ~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~-~CP~c~~~l~~~d   49 (56)
T d2baya1           2 LCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTG-NDPITNEPLSIEE   49 (56)
T ss_dssp             CCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHS-BCTTTCCBCCGGG
T ss_pred             CCccCCchHHhc---CccCCCCCcccHHHHHHHHhhcc-CCCccCCcCCHHh
Confidence            599999999866   455 5999999999999999854 5999999886553

>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=98.90  E-value=2.2e-10  Score=83.86  Aligned_cols=48  Identities=29%  Similarity=0.627  Sum_probs=37.8

Q ss_pred             CCCccceecCcccCCCeeEEecC-----CChhhHHhHHHHHhc-CCCCCcccccccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPC-----RHKFHAFCVDSWLTS-WRTFCPVCKRDAR  253 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC-----~H~Fh~~Ci~~Wl~~-~~~~CP~Cr~~~~  253 (419)
                      +...|.||++++...   ...||     +|.||..||.+|+.. ++.+||+||+++.
T Consensus         5 d~~~C~IC~~~~~~~---~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           5 DVPVCWICNEELGNE---RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECSCC---CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCccCCccCCCc---eeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            467899999998654   23344     599999999999964 4567999999864

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.88  E-value=2.8e-10  Score=87.62  Aligned_cols=50  Identities=18%  Similarity=0.337  Sum_probs=43.4

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      ++..|+||++.|.++   ++++|||.||+.||.+|+..+...||.|+.++...
T Consensus         7 ~~l~CpIc~~~m~dP---V~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~   56 (78)
T d1t1ha_           7 EYFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             ccCCCcCcCchhhCc---eEccCCCcchHHHHHHHHHHCCCCCCcccccCCcc
Confidence            468899999999887   67899999999999999987666799999877543

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.87  E-value=3.2e-10  Score=87.79  Aligned_cols=50  Identities=16%  Similarity=0.133  Sum_probs=43.4

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      ++..|+||++-|.++   ++++|||.|+..||.+|+...+..||+|+.++...
T Consensus         6 ~~l~CpIc~~l~~dP---v~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~   55 (80)
T d2c2la2           6 DYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQE   55 (80)
T ss_dssp             STTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             ccccCcCcCchhhhh---cccCCcCeecHHHHHHHHhcCCccCCCcccccccc
Confidence            367899999999887   67899999999999999987666799999887543

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.76  E-value=5.1e-10  Score=89.70  Aligned_cols=47  Identities=26%  Similarity=0.494  Sum_probs=38.7

Q ss_pred             CCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          204 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       204 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      ..+|+||++.|.++  +...+|||.||..||.+|+..   .||+||..+...
T Consensus        22 ~l~C~IC~~~~~~p--v~~~~CgH~fC~~Ci~~~~~~---~CP~Cr~~~~~~   68 (97)
T d1jm7b_          22 LLRCSRCTNILREP--VCLGGCEHIFCSNCVSDCIGT---GCPVCYTPAWIQ   68 (97)
T ss_dssp             TTSCSSSCSCCSSC--BCCCSSSCCBCTTTGGGGTTT---BCSSSCCBCSCS
T ss_pred             cCCCccCCchhhcC--ceeCCCCCchhHHHHHHHHhc---cccccCCcCchh
Confidence            46899999999876  444579999999999999854   499999877543

>d1de4c2 c.8.4.1 (C:190-382) Transferrin receptor ectodomain, apical domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: The "swivelling" beta/beta/alpha domain
superfamily: PA domain
family: PA domain
domain: Transferrin receptor ectodomain, apical domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.75  E-value=1e-08  Score=91.63  Aligned_cols=124  Identities=17%  Similarity=0.219  Sum_probs=80.7

Q ss_pred             eEEEEEEeCCeeEEec-ccccccCCcCCCCCeeEEEEecCCccCCCCCccCccccCCCcceEEEEecCCCCHHHHHHHHH
Q 014723           19 SANVVLIGNNVTLSFD-DIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQ   97 (419)
Q Consensus        19 ~a~vvv~~~~~~~~f~-~~~A~Fg~~~~~~~~~G~l~~a~p~daC~pl~~~~~~~~~~~~~IaLV~RG~CsF~~Kv~nAq   97 (419)
                      ...+.+.+.+..+.|. ..+..|-..-+...++|.|+.++=  | ..-+. .....+++||||||+||+|.|.+|+++||
T Consensus         8 ~n~~~~~d~~g~~~~~~~~p~~~~ays~~G~v~g~lVy~n~--G-~~~Df-~~L~~~v~GkI~l~r~G~~~~~~Kv~~A~   83 (193)
T d1de4c2           8 QNSVIIVDKNGRLVYLVENPGGYVAYSKAATVTGKLVHANF--G-TKKDF-EDLYTPVNGSIVIVRAGKITFAEKVANAE   83 (193)
T ss_dssp             CCEEEEEETTTTEECCCBCCSCCEETCCCEEEEECEEECST--T-CHHHH-HTCSSCCTTSEEEEESCSSCHHHHHHHHH
T ss_pred             cceEEEEcCCCCEEeccCCCCceeccCCCCceeEEEEEccC--C-CHHHH-HHhccccCceEEEEeCCCCCHHHHHHHHH
Confidence            3455666655444443 344456555555678899888752  2 11000 01123678999999999999999999999


Q ss_pred             HcCCceEEEeecCCCcc-------eee----ccCCC-------------------CceEEeEEEeechhhHHHHHhhCC
Q 014723           98 KAGFEAAIVYDNEDDGV-------LVA----MAGNS-------------------AGIKIHAVFVSKASGEKLKQYAGS  146 (419)
Q Consensus        98 ~aGA~avIv~nn~~~~~-------~~~----m~g~~-------------------~~i~IPsv~Is~~~G~~L~~~l~~  146 (419)
                      ++||+|||||.+..+..       ...    +.|+.                   .--+||++-|+..+++.|++.+..
T Consensus        84 ~~GA~gviiysDp~d~~~~~~~~~~~g~~~~~~GDPlTPg~ps~~~~~~~~~~~~~lP~IP~~PIS~~dA~~lL~~L~G  162 (193)
T d1de4c2          84 SLNAIGVLIYMDQTKFPIVNAELSFFGHAHLGTGDPYTPGFPSFNHTQFPPSRSSGLPNIPVQTISRAAAEKLFGNMEG  162 (193)
T ss_dssp             HTTCCCEEEECCTTTSCCSCTTCCCCEECCSSSSCTTSTTSCCCGGGTCCSCCCTTSCSSCEEECCHHHHHHHHTTBCS
T ss_pred             HcCceEEEEecCccccCCcCcccccccccccCCCCCCCCCcccccccccCccccCCCCcCCeeeCCHHHHHHHHHHcCC
Confidence            99999999998633210       000    11110                   123699999999999999888764

>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=98.45  E-value=3.4e-08  Score=79.16  Aligned_cols=49  Identities=12%  Similarity=-0.033  Sum_probs=41.4

Q ss_pred             CCCccceecCcccCCCeeEEecCC-ChhhHHhHHHHHhcCCCCCcccccccccC
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCR-HKFHAFCVDSWLTSWRTFCPVCKRDARTS  255 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~-H~Fh~~Ci~~Wl~~~~~~CP~Cr~~~~~~  255 (419)
                      ++..|+||++-|.++   ++++|+ |.|++.||..||..+ ..||+|++++...
T Consensus        21 ~~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~-~~~P~~~~~l~~~   70 (98)
T d1wgma_          21 DEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSD-QTDPFNRSPLTMD   70 (98)
T ss_dssp             TTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTS-CBCTTTCSBCCTT
T ss_pred             HHhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhc-CCcccccccccch
Confidence            368999999999988   788866 589999999999874 4699999987543

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.38  E-value=4.6e-08  Score=77.30  Aligned_cols=47  Identities=26%  Similarity=0.642  Sum_probs=37.8

Q ss_pred             CCCccceecCcccCCCeeEEecCCChhhHHhHHHHHhcC-------CCCCcccc
Q 014723          203 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW-------RTFCPVCK  249 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~-------~~~CP~Cr  249 (419)
                      +..+|+||++++...+....++|+|.||.+|+..|++..       ...||.|+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            457899999999777767777899999999999999531       22599864

>d3bi1a2 c.8.4.1 (A:118-350) Glutamate carboxypeptidase II {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: The "swivelling" beta/beta/alpha domain
superfamily: PA domain
family: PA domain
domain: Glutamate carboxypeptidase II
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.18  E-value=1.1e-06  Score=80.48  Aligned_cols=61  Identities=25%  Similarity=0.207  Sum_probs=45.7

Q ss_pred             CCCeeEEEEecCCccCCCCCccC-c--cccCCCcceEEEEecCCCCHHHHHHHHHHcCCceEEEeec
Q 014723           46 GSGDCGVLYVAEPLDACSNLTSK-V--EKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDN  109 (419)
Q Consensus        46 ~~~~~G~l~~a~p~daC~pl~~~-~--~~~~~~~~~IaLV~RG~CsF~~Kv~nAq~aGA~avIv~nn  109 (419)
                      ...++|.||.++=   |..-+.. -  ...-+++|+||||++|++.|.+|+++||++||+|||||++
T Consensus        50 ~G~v~g~~Vyvny---G~~~Df~~L~~~~gi~~~gkIvl~ryG~~~~~~Kv~~A~~~GA~GviiysD  113 (233)
T d3bi1a2          50 QGMPEGDLVYVNY---ARTEDFFKLERDMKINCSGKIVIARYGKVFRGNKVKNAQLAGAKGVILYSD  113 (233)
T ss_dssp             CBCCEECEEECTT---CCHHHHHHHHHTSCCCCTTCEEEEECCSSCHHHHHHHHHHTTCSEEEEECC
T ss_pred             CCceeEEEEEecC---CcHHHHHHHHHhcCCcccceEEEEeCCCCchhHHHHHHHHcCceEEEEecC
Confidence            3457888887763   2211110 0  1134679999999999999999999999999999999986

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.10  E-value=0.13  Score=34.44  Aligned_cols=45  Identities=24%  Similarity=0.581  Sum_probs=28.5

Q ss_pred             ccceecCcccCCCeeEEecCCChhhHHhHHHHHhcC---CCCCccccc
Q 014723          206 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW---RTFCPVCKR  250 (419)
Q Consensus       206 ~C~ICle~~~~~~~~~~LpC~H~Fh~~Ci~~Wl~~~---~~~CP~Cr~  250 (419)
                      .|.||...-...+-+.--.|...||..|++.-+...   .-.||.||.
T Consensus         2 ~C~vC~~~~~~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            478887653322222222378999999999876542   225999964

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=82.51  E-value=0.13  Score=36.25  Aligned_cols=49  Identities=29%  Similarity=0.499  Sum_probs=33.4

Q ss_pred             CCCccceecCcccCCCeeE-EecCCChhhHHhHHHH---Hhc-CCCCCcccccc
Q 014723          203 TSRTCAICLEDYSVGEKLR-ILPCRHKFHAFCVDSW---LTS-WRTFCPVCKRD  251 (419)
Q Consensus       203 ~~~~C~ICle~~~~~~~~~-~LpC~H~Fh~~Ci~~W---l~~-~~~~CP~Cr~~  251 (419)
                      .+..|.+|.+...+++..+ --.|+.-||..|+..=   ... ..-.||.|+..
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            3578999998876665433 2348999999999642   111 23469999764

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.84  E-value=0.32  Score=36.04  Aligned_cols=32  Identities=25%  Similarity=0.774  Sum_probs=25.2

Q ss_pred             CCCCccceecCcccCCCeeEEec---CCChhhHHhHHHH
Q 014723          202 CTSRTCAICLEDYSVGEKLRILP---CRHKFHAFCVDSW  237 (419)
Q Consensus       202 ~~~~~C~ICle~~~~~~~~~~Lp---C~H~Fh~~Ci~~W  237 (419)
                      ..+..|.|| +.|+..+   ++|   |+-+||..|+++-
T Consensus        13 ~~D~mC~vC-~v~t~~~---l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          13 VNDEMCDVC-EVWTAES---LFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTT-CCCCSSC---CSSCSSSSSCCCHHHHHHH
T ss_pred             CcCcccccc-Ccccccc---eecceeecchhhHHHHHHh
Confidence            347899999 7777663   345   6789999999987