Citrus Sinensis ID: 024566

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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-----
Protein Sequence
MGNTLQKKPNEYLEKGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKISKYEKNVLASIGSV
Secondary Structure (PSIPRED)
cccccccccHHHHHcccccccEEccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccccccccccccHHHHcccccHHHHHHHHHHHHHHHHcccccEEccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccHHHHHHHHHcccccccccccEEEccccccccEEcccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccEEEcccccccccccccccccHHHHHHHHHHHHEEEcccccEEEEcccccccccccHHHHHHHccHHHHHHHHHHHHHHHccccccccccccccccEEEEEcccccccEEEEEEccccEEEEcccccccccccHHHHHHHccccccHHHHHHHHHcccccccccccEEcccccccEEEEcccEEEEEEccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEcccc
Coil and Loop (DISEMBL)
mgntlqkkpneylekggggssftceiciepmaaskkfknrnlcthpfcqDCIARYIQVKvqddntakidcpgldckhnldpfacepvipaslfskwCDVLCEdyvlgfersycpntncmALVVNECersgkvkktqcpnckqwfcfqcklkwhagyrceesrnlrdqnDIVFGQLVERmkwarcpacghcverkdgcsvvmcrcntrfcyecgrkissgcscqtigfCQLTILTIAMMVIFHVIVLAGMKISKYEKNVLASIGSV
Flexible Loop (DISEMBL)
mgntlqkkpneylekggggsSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRceesrnlrdqnDIVFGQLVERMKWARCPACghcverkdgcsvVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKISKYEKNvlasigsv
Low Complexity Region (SEG)
MGNTLQKKPNEYLEKGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKISKYEKNVLASIGSV
Disordered region (IsUnstruct)
********************SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKISKYEKNVL******
Disordered Region (DISOPRED)
***********************CEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLR****IVFGQLVERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKISKYEKNVLAS****
Disordered Region (DISEMBL)
MGNTLQKKPNEYLEKGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKISKYEKNVLASIGSV
Disordered Region (DISPRO)
********************SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKISKYEKNVLASIG**
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGNTLQKKPNEYLEKGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKISKYEKNVLASIGSV
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	265	2.2.26 [Sep-21-2011]
Q4KLT0	282	Probable E3 ubiquitin-pro	N/A	no	0.671	0.631	0.312	8e-14
Q7Z419	303	E3 ubiquitin-protein liga	yes	no	0.735	0.643	0.266	5e-12
A4IIY1	292	Probable E3 ubiquitin-pro	no	no	0.626	0.568	0.277	5e-12
Q9NWF9	866	E3 ubiquitin-protein liga	no	no	0.667	0.204	0.283	7e-12
A5PK27	304	E3 ubiquitin-protein liga	no	no	0.735	0.641	0.261	2e-11
P50876	292	Probable E3 ubiquitin-pro	no	no	0.645	0.585	0.266	4e-11
Q8BKD6	301	E3 ubiquitin-protein liga	yes	no	0.735	0.647	0.243	2e-10
Q925F3	292	Probable E3 ubiquitin-pro	no	no	0.709	0.643	0.262	2e-10
D3YYI7	515	Probable E3 ubiquitin-pro	no	no	0.713	0.366	0.283	6e-10
Q9LVW9	529	Putative E3 ubiquitin-pro	no	no	0.750	0.376	0.255	8e-10

>sp|Q4KLT0|RN217_XENLA Probable E3 ubiquitin-protein ligase RNF217 OS=Xenopus laevis GN=rnf217 PE=2 SV=1

 Score = 77.8 bits (190), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 66/211 (31%), Positives = 95/211 (45%), Gaps = 33/211 (15%)

Query: 22  FTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP 81
            +C +C+E     +  K    C  P C +C+ RY+  +VQ    A+I CP  +C  +LD 
Sbjct: 1   MSCRVCLE----DRSIKPLPCCKKPVCDECLKRYLSSQVQLGQ-AEIQCPITECNKHLD- 54

Query: 82  FACEPVIPASLFSKWCDVLCEDYVLGFER---SYCPNTNCMAL--------VVNECERSG 130
              E  I  SL     D++   Y L   R   S  P   C           + N  +   
Sbjct: 55  ---ESTILYSLPHD--DIIKYKYFLELSRMDSSTKPCPQCKHFTTFKRKTHIPNPTKSEN 109

Query: 131 KVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRN----LRD-QNDIVFGQLVERMKWARCP 185
           K+K  QCP+C+  +CF+C   WH G  C E +     LR   N+I  GQ        +CP
Sbjct: 110 KLK-IQCPSCQFIWCFRCHAPWHEGVNCREYKKGDKLLRHWANEIEHGQ----RNAQKCP 164

Query: 186 ACGHCVERKDGCSVVMC-RCNTRFCYECGRK 215
            C   ++R +GC  + C +CNT FCY CG +
Sbjct: 165 RCKVHIQRTEGCDHMTCSQCNTNFCYRCGER 195

E3 ubiquitin-protein ligase which accepts ubiquitin from E2 ubiquitin-conjugating enzymes in the form of a thioester and then directly transfers the ubiquitin to targeted substrates.
Xenopus laevis (taxid: 8355)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q7Z419|R144B_HUMAN E3 ubiquitin-protein ligase RNF144B OS=Homo sapiens GN=RNF144B PE=1 SV=1

 Score = 71.6 bits (174), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 54/203 (26%), Positives = 95/203 (46%), Gaps = 8/203 (3%)

Query: 22  FTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHN--L 79
            TC++C+   +  K       C   FC  C+ +Y+Q+ +++   + I CP + C ++  L
Sbjct: 28  ITCKLCLCEQSLDK-MTTLQECQCIFCTACLKQYMQLAIREGCGSPITCPDMVCLNHGTL 86

Query: 80  DPFACEPVIPASLFSKWCDVLCEDYV-LGFERSYCPNTNCMALVVNECERSGKVKKTQCP 138
                  ++P   F  +  +  E  V L   R++CP  +C  +        G+    +CP
Sbjct: 87  QEAEIACLVPVDQFQLYQRLKFEREVHLDPYRTWCPVADCQTVCPVASSDPGQPVLVECP 146

Query: 139 NCKQWFCFQCKLKWHAGYRCEESRN--LRDQNDIVFGQLVERMKWARCPACGHCVERKDG 196
           +C   FC  CK  WHA   C +S+   L  ++  +FG   E     +CP C   +ER +G
Sbjct: 147 SCHLKFCSCCKDAWHAEVSCRDSQPIVLPTEHRALFGTDAE-APIKQCPVCRVYIERNEG 205

Query: 197 CSVVMCR-CNTRFCYECGRKISS 218
           C+ +MC+ C   FC+ C + + +
Sbjct: 206 CAQMMCKNCKHTFCWYCLQNLDN 228

E3 ubiquitin-protein ligase which accepts ubiquitin from E2 ubiquitin-conjugating enzymes UBE2L3 and UBE2L6 in the form of a thioester and then directly transfers the ubiquitin to targeted substrates such as LCMT2, thereby promoting their degradation. Induces apoptosis via a p53/TP53-dependent but caspase-independent mechanism. However, its overexpression also produces a decrease of the ubiquitin-dependent stability of BAX, a pro-apoptotic protein, ultimately leading to protection of cell death; But, it is not an anti-apoptotic protein per se.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|A4IIY1|R144A_XENTR Probable E3 ubiquitin-protein ligase RNF144A OS=Xenopus tropicalis GN=rnf144a PE=2 SV=1

 Score = 71.6 bits (174), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 48/173 (27%), Positives = 83/173 (47%), Gaps = 7/173 (4%)

Query: 47  FCQDCIARYIQVKVQDDNTAKIDCPGLDC--KHNLDPFACEPVIPASLFSKWCDVLCEDY 104
           FC  C+ +Y+++ +++     I CP   C  + +L     E ++ A +  K+  +  E  
Sbjct: 42  FCTLCLKQYVELLIKEGLETAISCPDASCPKRGHLQENEIECMVAAEIMQKYKKLQFEKE 101

Query: 105 VLGFE-RSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRN 163
           +L    R++CP+++C A+   + +     +  QC  C   FC  CK  WH G  C E+  
Sbjct: 102 ILLDPCRTWCPSSSCQAVCKLQEKGIQNPQLVQCSACDIEFCSACKANWHPGQGCPENMA 161

Query: 164 ---LRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSVVMCR-CNTRFCYEC 212
              L   +   F  L + +   RCP C   +ER +GC+ +MC+ C   FC+ C
Sbjct: 162 ITFLPGDSSSFFKSLEDDVPIKRCPKCKVYIERDEGCAQMMCKNCKHAFCWYC 214

E3 ubiquitin-protein ligase which accepts ubiquitin from E2 ubiquitin-conjugating enzymes ube2l3 and ube2l6 in the form of a thioester and then directly transfers the ubiquitin to targeted substrates.

Xenopus tropicalis (taxid: 8364)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9NWF9|RN216_HUMAN E3 ubiquitin-protein ligase RNF216 OS=Homo sapiens GN=RNF216 PE=1 SV=3

 Score = 71.2 bits (173), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 59/208 (28%), Positives = 93/208 (44%), Gaps = 31/208 (14%)

Query: 45  HPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDY 104
           H FC++C+ RY Q  V      ++ C    C  +      E V+P ++  K+ +   E+ 
Sbjct: 534 HLFCKECLIRYAQEAVFGSGKLELSCMEGSCTCSFPTSELEKVLPQTILYKYYERKAEEE 593

Query: 105 VLGFERSY---CPNTNCMALVVNECERSGKVKKTQCPN--CKQWFCFQCKLKW--HAGYR 157
           V          CP+ +  AL+ ++      VK+  CPN  C++  C +C+  W  H G  
Sbjct: 594 VAAAYADELVRCPSCSFPALLDSD------VKRFSCPNPHCRKETCRKCQGLWKEHNGLT 647

Query: 158 CEESRNLRDQNDIVF-GQLVERMKWAR---CPACGHCVERKDGCSVVMCRCNTRFCYECG 213
           CEE   L +++DI +   + E+M  AR   C  CG  + + +GC+ + CRC  + CY C 
Sbjct: 648 CEE---LAEKDDIKYRTSIEEKMTAARIRKCHKCGTGLIKSEGCNRMSCRCGAQMCYLCR 704

Query: 214 RKI-----------SSGCSCQTIGFCQL 230
             I           S G  CQ    C L
Sbjct: 705 VSINGYDHFCQHPRSPGAPCQECSRCSL 732

Isoform 1 acts as an E3 ubiquitin ligase, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes, and then transfers it to substrates promoting their degradation by the proteasome. Promotes degradation of TRAF3, TLR4 and TLR9. Contributes to the regulation of antiviral responses. Down-regulates activation of NF-kappa-B, IRF3 activation and IFNB production. Isoform 3/ZIN inhibits TNF and IL-1 mediated activation of NF-kappa-B. Promotes TNF and RIP mediated apoptosis.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|A5PK27|R144B_BOVIN E3 ubiquitin-protein ligase RNF144B OS=Bos taurus GN=RNF144B PE=2 SV=1

 Score = 70.1 bits (170), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 53/203 (26%), Positives = 95/203 (46%), Gaps = 8/203 (3%)

Query: 22  FTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHN--L 79
            TC++C+   +  K       C   FC  C+ +Y+Q+ +++   + I CP + C ++  L
Sbjct: 29  VTCKLCLCEQSLDK-MTTLQECRCIFCTACLKQYMQLAIREGCGSPITCPDMVCLNHGTL 87

Query: 80  DPFACEPVIPASLFSKWCDVLCEDYV-LGFERSYCPNTNCMALVVNECERSGKVKKTQCP 138
                  ++P   F  +  +  E  V L   R++CP  +C  +        G+    +CP
Sbjct: 88  QEAEIACLVPVDQFQLYQRLKFEREVHLDPCRTWCPVADCQTVCPVATSDPGQPVLVECP 147

Query: 139 NCKQWFCFQCKLKWHAGYRCEESRN--LRDQNDIVFGQLVERMKWARCPACGHCVERKDG 196
           +C   FC  CK  WHA   C +S+   L  ++  +FG   +     +CP C   +ER +G
Sbjct: 148 SCHLKFCSCCKDAWHAEVSCRDSQPGILPTEHGTLFGTETD-APIKQCPVCRVYIERNEG 206

Query: 197 CSVVMCR-CNTRFCYECGRKISS 218
           C+ +MC+ C   FC+ C + + +
Sbjct: 207 CAQMMCKNCKHTFCWYCLQNLDN 229

E3 ubiquitin-protein ligase which accepts ubiquitin from E2 ubiquitin-conjugating enzymes UBE2L3 and UBE2L6 in the form of a thioester and then directly transfers the ubiquitin to targeted substrates such as LCMT2, thereby promoting their degradation. Induces apoptosis via a p53/TP53-dependent but caspase-independent mechanism. However, its overexpression also produces a decrease of the ubiquitin-dependent stability of BAX, a pro-apoptotic protein, ultimately leading to protection of cell death; But, it is not an anti-apoptotic protein per se.

Bos taurus (taxid: 9913)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P50876|R144A_HUMAN Probable E3 ubiquitin-protein ligase RNF144A OS=Homo sapiens GN=RNF144A PE=1 SV=2

 Score = 68.9 bits (167), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 48/180 (26%), Positives = 82/180 (45%), Gaps = 9/180 (5%)

Query: 47  FCQDCIARYIQVKVQDDNTAKIDCPGLDC--KHNLDPFACEPVIPASLFSKWCDVLCEDY 104
           FC  C+ +Y+++ +++     I CP   C  + +L     E ++ A +  ++  +  E  
Sbjct: 42  FCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQENEIECMVAAEIMQRYKKLQFERE 101

Query: 105 VLGFE--RSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESR 162
           VL F+  R++CP + C A+   +       +  QC  C+  FC  CK  WH G  C E+ 
Sbjct: 102 VL-FDPCRTWCPASTCQAVCQLQDVGLQTPQPVQCKACRMEFCSTCKASWHPGQGCPETM 160

Query: 163 N---LRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSVVMCR-CNTRFCYECGRKISS 218
               L  +    F    +     RCP C   +ER +GC+ +MC+ C   FC+ C   +  
Sbjct: 161 PITFLPGETSAAFKMEEDDAPIKRCPKCKVYIERDEGCAQMMCKNCKHAFCWYCLESLDD 220

E3 ubiquitin-protein ligase which accepts ubiquitin from E2 ubiquitin-conjugating enzymes UBE2L3 and UBE2L6 in the form of a thioester and then directly transfers the ubiquitin to targeted substrates.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8BKD6|R144B_MOUSE E3 ubiquitin-protein ligase RNF144B OS=Mus musculus GN=Rnf144b PE=2 SV=2

 Score = 66.6 bits (161), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 49/201 (24%), Positives = 94/201 (46%), Gaps = 6/201 (2%)

Query: 22  FTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHN--L 79
            TC++C+   +  K    +  C   FC  C+ +Y+ + +++   + I CP + C ++  L
Sbjct: 28  VTCKLCLCEQSLDKMTMLQE-CQCIFCTPCLKQYMVLSIREGCGSPITCPDMVCLNHGTL 86

Query: 80  DPFACEPVIPASLFSKWCDVLCEDYV-LGFERSYCPNTNCMALVVNECERSGKVKKTQCP 138
                  ++P   F  +  +  E  V +   R++CP  +C  +        G+    +CP
Sbjct: 87  QETEIACLVPLDEFQLYQRLKFEREVHMDPLRTWCPVADCQTVCHISAGDPGQPVLVECP 146

Query: 139 NCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCS 198
           +C   FC  CK  WH    C +S++   ++  +FG   +     +CP C   +ER +GC+
Sbjct: 147 SCHLKFCSCCKDAWHEESSCRDSQSAMPEHGALFGTDAD-APIKQCPVCRIYIERNEGCA 205

Query: 199 VVMCR-CNTRFCYECGRKISS 218
            +MC+ C   FC+ C + + +
Sbjct: 206 QMMCKNCKHTFCWYCLQNLDN 226

E3 ubiquitin-protein ligase which accepts ubiquitin from E2 ubiquitin-conjugating enzymes UBE2L3 and UBE2L6 in the form of a thioester and then directly transfers the ubiquitin to targeted substrates such as LCMT2, thereby promoting their degradation. Induces apoptosis via a p53/TP53-dependent but caspase-independent mechanism. However, its overexpression also produces a decrease of the ubiquitin-dependent stability of BAX, a pro-apoptotic protein, ultimately leading to protection of cell death; But, it is not an anti-apoptotic protein per se.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q925F3|R144A_MOUSE Probable E3 ubiquitin-protein ligase RNF144A OS=Mus musculus GN=Rnf144a PE=1 SV=1

 Score = 66.2 bits (160), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 52/198 (26%), Positives = 90/198 (45%), Gaps = 10/198 (5%)

Query: 23  TCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDC--KHNLD 80
           +C++C+    A ++      C   FC  C+ +Y+++ +++     I CP   C  + +L 
Sbjct: 19  SCKLCLGEYPA-EQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQ 77

Query: 81  PFACEPVIPASLFSKWCDVLCEDYVLGFE--RSYCPNTNCMALVVNECERSGKVKKTQCP 138
               E ++ A +  ++  +  E  VL F+  R++CP + C A+   +       +  QC 
Sbjct: 78  ENEIECMVAAEIMQRYKKLQFEREVL-FDPCRTWCPASTCQAVCQLQDIGLQTPQLVQCK 136

Query: 139 NCKQWFCFQCKLKWHAGYRCEESRN---LRDQNDIVFGQLVERMKWARCPACGHCVERKD 195
            C   FC  CK +WH G  C E+     L  +    F          RCP C   +ER +
Sbjct: 137 ACDMEFCSACKARWHPGQGCPETMPITFLPGETSSAFKMEEGDAPIKRCPKCRVYIERDE 196

Query: 196 GCSVVMCR-CNTRFCYEC 212
           GC+ +MC+ C   FC+ C
Sbjct: 197 GCAQMMCKNCKHAFCWYC 214

E3 ubiquitin-protein ligase which accepts ubiquitin from E2 ubiquitin-conjugating enzymes UBE2L3 and UBE2L6 in the form of a thioester and then directly transfers the ubiquitin to targeted substrates.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|D3YYI7|RN217_MOUSE Probable E3 ubiquitin-protein ligase RNF217 OS=Mus musculus GN=Rnf217 PE=3 SV=2

 Score = 64.7 bits (156), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 64/226 (28%), Positives = 94/226 (41%), Gaps = 37/226 (16%)

Query: 12  YLEKGGGGSSFT------CEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNT 65
           Y   GG G  +       C +C+E     K  K    C    C++C+  Y+  +VQ    
Sbjct: 218 YSGLGGVGDPYAPLMVLMCRVCLE----DKPIKPLPCCKKAVCEECLKIYLSSQVQLGQV 273

Query: 66  AKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFER---SYCPNTNCMALV 122
            +I CP  +C   L+    E  +  +L  +  D +   Y L   R   S  P   C    
Sbjct: 274 -EIKCPVTECFEFLE----ETTVVYNLTHE--DSIKYKYFLELGRIDSSTKPCPQCKHFT 326

Query: 123 -------VNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRN----LRD-QNDI 170
                  +    RS    K QCP C+  +CF+C   WH G  C+E +     LR   ++I
Sbjct: 327 TFKKKGHIPTPSRSESRYKIQCPTCQLIWCFKCHSPWHEGVNCKEYKKGDKLLRHWASEI 386

Query: 171 VFGQLVERMKWARCPACGHCVERKDGCSVVMC-RCNTRFCYECGRK 215
             GQ        +CP C   ++R +GC  + C +CNT FCY CG +
Sbjct: 387 EHGQ----RNAQKCPKCKIHIQRTEGCDHMTCSQCNTNFCYRCGER 428

E3 ubiquitin-protein ligase which accepts ubiquitin from E2 ubiquitin-conjugating enzymes in the form of a thioester and then directly transfers the ubiquitin to targeted substrates.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9LVW9|ARI4_ARATH Putative E3 ubiquitin-protein ligase ARI4 OS=Arabidopsis thaliana GN=ARI4 PE=5 SV=2

 Score = 64.3 bits (155), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 54/211 (25%), Positives = 88/211 (41%), Gaps = 12/211 (5%)

Query: 21  SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD 80
           +  C+IC+E    SK    R  C H FC DC   +  V++ +    +I C    C    D
Sbjct: 116 TMKCDICMEE-DLSKYAMTRMECGHRFCNDCWKEHFTVRINEGEGKRIRCMAYKCNTICD 174

Query: 81  PFACEPVIPASLFSKWCDVLCEDYVLGFER-SYCPNTNCMALVVNECERSGKVKKTQCPN 139
                 ++   L  K+   L E YV       +CP+T      +   +  G V + +C +
Sbjct: 175 E--ARQLVSTELAEKFDRFLIESYVEDNNMVKWCPSTPHCGNAIRNIKDDGDVDEVEC-S 231

Query: 140 CKQWFCFQCKLKWHAGYRCEE----SRNLRDQNDIVFGQLVERMKWARCPACGHCVERKD 195
           C   FCF C  + H+   C       +   D+++ V    V       CP C   ++++D
Sbjct: 232 CGLQFCFSCLSESHSPCSCLMWKLWKKKCEDESETVNWMTVNT---KLCPKCSKPIQKRD 288

Query: 196 GCSVVMCRCNTRFCYECGRKISSGCSCQTIG 226
           GC+ + C+C   FC+ CG+      S  +I 
Sbjct: 289 GCNHMTCKCGQHFCWLCGQATGRDHSYSSIA 319

Might act as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	265
255578926	255	zinc finger protein, putative [Ricinus c	0.894	0.929	0.497	3e-62
224135813	228	predicted protein [Populus trichocarpa]	0.815	0.947	0.531	2e-61
255578922	213	zinc finger protein, putative [Ricinus c	0.777	0.967	0.559	4e-60
224146525	241	predicted protein [Populus trichocarpa]	0.815	0.896	0.513	9e-60
359478253	212	PREDICTED: LOW QUALITY PROTEIN: probable	0.686	0.858	0.562	2e-57
224068789	237	predicted protein [Populus trichocarpa]	0.826	0.924	0.454	2e-50
356522438	303	PREDICTED: probable E3 ubiquitin-protein	0.762	0.666	0.404	2e-40
356522436	292	PREDICTED: probable E3 ubiquitin-protein	0.781	0.708	0.404	2e-40
225444595	358	PREDICTED: probable E3 ubiquitin-protein	0.754	0.558	0.375	4e-38
297738503	329	unnamed protein product [Vitis vinifera]	0.754	0.607	0.375	4e-38

>gi|255578926|ref|XP_002530316.1| zinc finger protein, putative [Ricinus communis] gi|223530172|gb|EEF32083.1| zinc finger protein, putative [Ricinus communis]

 Score =  244 bits (622), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 122/245 (49%), Positives = 159/245 (64%), Gaps = 8/245 (3%)

Query: 1   MGNTLQKKPN-----EYLEKGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARY 55
           MGN LQK        E+ +K    SSFTCEICIEPM ++KKF+N +LCTHPFC DCI++Y
Sbjct: 1   MGNKLQKPQETNVVEEHEQKEEVVSSFTCEICIEPMLSNKKFENASLCTHPFCLDCISKY 60

Query: 56  IQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPN 115
           ++VKV+      I CPG  CKH LDP +C  +I   +F KWCD+LC+  V G ER YCP 
Sbjct: 61  VEVKVEG-FIGNIKCPGTSCKHPLDPLSCRSIISKPVFDKWCDLLCDSVVSGVERCYCPY 119

Query: 116 TNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQL 175
            +C ALV+NEC+   K+KK +CPNCK+  C+ CK+ WHAGY+C ES  LRD+ND++ G+L
Sbjct: 120 RDCSALVLNECK--DKLKKIKCPNCKKNLCYVCKIPWHAGYQCNESGQLRDRNDVLIGEL 177

Query: 176 VERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTI 235
           +E  KW RC  CGH VER  GC  V C+C  RFC++CG +   G      G  +L   T 
Sbjct: 178 IEEKKWTRCYNCGHSVERVSGCRDVKCKCGVRFCHQCGGRFHLGPCVGEAGQIKLLFFTG 237

Query: 236 AMMVI 240
              ++
Sbjct: 238 TPAIL 242

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224135813|ref|XP_002327310.1| predicted protein [Populus trichocarpa] gi|222835680|gb|EEE74115.1| predicted protein [Populus trichocarpa]

 Score =  241 bits (616), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 119/224 (53%), Positives = 153/224 (68%), Gaps = 8/224 (3%)

Query: 1   MGNTLQKKPNEYLEKGG-----GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARY 55
           MGNT+QK     +E+ G       S+FTCEIC EPM A +KFKN +LC HPFC DCIA+Y
Sbjct: 1   MGNTMQKSEETKVEEPGLLRQEEDSNFTCEICTEPMLAIRKFKNGSLCKHPFCLDCIAKY 60

Query: 56  IQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPN 115
           I+V V++ +T  I+CPGL+CK  LDP +C  +I   +F KWCD LC+  VLG E  YCP 
Sbjct: 61  IEVTVEE-STGCIECPGLNCKQPLDPLSCRRIISKPIFEKWCDHLCDSTVLGSESCYCPY 119

Query: 116 TNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQL 175
            +C  LV+NEC     +KK +CPNCK+ FCF CK+ WHAGYRC ESR+LRD+NDI+ G+L
Sbjct: 120 RDCSVLVLNEC--MDNLKKIKCPNCKKNFCFLCKIPWHAGYRCNESRHLRDRNDILVGEL 177

Query: 176 VERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSG 219
           +E  +W RC  CGH VER  GC  + C+C  +FC++CG     G
Sbjct: 178 IEEKRWTRCYNCGHSVERVSGCRDIKCKCGVQFCHQCGGPFHFG 221

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255578922|ref|XP_002530314.1| zinc finger protein, putative [Ricinus communis] gi|223530170|gb|EEF32081.1| zinc finger protein, putative [Ricinus communis]

 Score =  237 bits (604), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 117/209 (55%), Positives = 144/209 (68%), Gaps = 3/209 (1%)

Query: 21  SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD 80
           +FTCEICIEP  +++KFKN N CTHPFC DCIA+Y++VKV D N A I CP L C   L+
Sbjct: 6   NFTCEICIEPTLSNRKFKNGNGCTHPFCNDCIAKYVEVKVID-NVANIKCPSLGCDRPLE 64

Query: 81  PFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNC 140
           P +C  +IP ++F KW D+LCE  VL +ER YCP  NC AL++NEC R  KVKK  CPNC
Sbjct: 65  PTSCMALIPKAIFDKWSDLLCEVRVLEWERCYCPYENCSALILNEC-RYHKVKKVTCPNC 123

Query: 141 KQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSVV 200
           K+ FCF CK+ WH GY C ESR LRD ND++ G+L+E  +W RC  CGH VER DGC  +
Sbjct: 124 KKNFCFNCKIPWHGGYWCRESRQLRDGNDVLAGELIENQRWTRCYNCGHSVERVDGCKFI 183

Query: 201 MCRCNTRFCYECGRKISSG-CSCQTIGFC 228
            CRC   FC+ECG +   G CS +    C
Sbjct: 184 SCRCGVEFCHECGYRAHCGPCSLEKRAVC 212

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224146525|ref|XP_002326038.1| predicted protein [Populus trichocarpa] gi|222862913|gb|EEF00420.1| predicted protein [Populus trichocarpa]

 Score =  236 bits (601), Expect = 9e-60,   Method: Compositional matrix adjust.
 Identities = 115/224 (51%), Positives = 150/224 (66%), Gaps = 8/224 (3%)

Query: 1   MGNTLQKKPNEYLE-----KGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARY 55
           MGNT+QK     +E     +    S+FTCEIC +PM +++ FKN  +C HPFC DCI +Y
Sbjct: 1   MGNTMQKPQGTEVEGTEQLQQEEDSNFTCEICSDPMLSTRNFKNGIVCKHPFCLDCITKY 60

Query: 56  IQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPN 115
           I++ V++  +  I+CPGL+CK  LDP +C P+I   +F KWCD LC+  VLG E  YCP 
Sbjct: 61  IEITVEE-TSGCIECPGLNCKQLLDPLSCRPIISKPIFEKWCDRLCDSMVLGSESCYCPY 119

Query: 116 TNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQL 175
            +C  LV+NEC+   K+KK  CPNCK+ FCF CK+ WH GYRC ESR+LRD+NDI+ G+L
Sbjct: 120 RDCSVLVLNECK--DKLKKINCPNCKKNFCFLCKIPWHTGYRCSESRHLRDRNDILAGEL 177

Query: 176 VERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSG 219
           +E  KW RC  C H VER  GC  + CRC  RFC++CG    SG
Sbjct: 178 IEEKKWTRCYNCSHSVERVSGCRDIKCRCGFRFCHQCGGPFHSG 221

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359478253|ref|XP_003632093.1| PREDICTED: LOW QUALITY PROTEIN: probable E3 ubiquitin-protein ligase RNF144A-like [Vitis vinifera]

 Score =  228 bits (581), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 104/185 (56%), Positives = 137/185 (74%), Gaps = 3/185 (1%)

Query: 20  SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL 79
           S+  CEICIEP++++KKFKN + CTH FC DC+A YIQVKV+D     + CP LDC H L
Sbjct: 25  STLACEICIEPISSNKKFKNNHNCTHSFCMDCMASYIQVKVEDXYVPDVACPALDCGHLL 84

Query: 80  DPFACEPVIPASLFSKWCDVLCEDYVL-GFERSYCPNTNCMALVVNECERSGKVKKTQCP 138
           +P    P++PA+LF+KW D+LC+  VL GFER Y PN  C  L+VNEC   G V++++CP
Sbjct: 85  NPLHYLPILPATLFTKWSDLLCKKVVLLGFERCYYPNQTCSVLIVNEC--GGNVRRSKCP 142

Query: 139 NCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCS 198
           NCK+ FCFQCK  WH+GYRC++   +RD ND++FG+LVE  KW+RCP+CGHCVE  +GC 
Sbjct: 143 NCKKLFCFQCKSPWHSGYRCDKREEMRDVNDMLFGELVETKKWSRCPSCGHCVELVEGCP 202

Query: 199 VVMCR 203
            V C+
Sbjct: 203 NVSCK 207

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224068789|ref|XP_002326200.1| predicted protein [Populus trichocarpa] gi|222833393|gb|EEE71870.1| predicted protein [Populus trichocarpa]

 Score =  204 bits (520), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 114/251 (45%), Positives = 148/251 (58%), Gaps = 32/251 (12%)

Query: 1   MGNTLQKKPNEYLEKGGG-----GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARY 55
           MGNT QK     +E+ G       S+FTCEICIEPM A +KFKN +LC HPFC DCIA+Y
Sbjct: 1   MGNTTQKSQETKVEEPGQLQQEEDSNFTCEICIEPMLAIRKFKNGSLCKHPFCLDCIAKY 60

Query: 56  IQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPN 115
           I+VKV ++ T  I+CPGL+CK  LDP +C  +I                           
Sbjct: 61  IEVKV-EETTGCIECPGLNCKQLLDPLSCNCIISKPYL---------------------R 98

Query: 116 TNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQL 175
            +C  LV+NEC    K+ K +CPNCK+ FCF CK+ WHAGY+C ESR+LRD+NDI+ G+L
Sbjct: 99  NDCSVLVLNECR--DKLTKIKCPNCKKSFCFLCKIPWHAGYQCNESRHLRDRNDILVGEL 156

Query: 176 VERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSG-CSCQTIG--FCQLTI 232
           +E  KW RC  CGH VER  GC  + C+C  RFC++CG     G CS +  G   C L I
Sbjct: 157 IEEKKWTRCYNCGHSVERVSGCRDMKCKCGVRFCHQCGGPFHFGPCSHRRCGAVLCNLFI 216

Query: 233 LTIAMMVIFHV 243
             +   + + +
Sbjct: 217 FVVLSALCYFL 227

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356522438|ref|XP_003529853.1| PREDICTED: probable E3 ubiquitin-protein ligase RNF144A-like [Glycine max]

 Score =  171 bits (434), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 85/210 (40%), Positives = 123/210 (58%), Gaps = 8/210 (3%)

Query: 14  EKGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGL 73
           E G       C IC++     + F+N+N C+H FC DCI RY+  KVQ+ N + + CP  
Sbjct: 90  ETGESSQQVYCGICMDAKYGEEMFRNQN-CSHSFCDDCIGRYVATKVQE-NISMVKCPHP 147

Query: 74  DCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVK 133
            CK  ++P  C   IP  +F +W + LCE+ VLG ++ YCP  +C A+++N+ E    V 
Sbjct: 148 KCKGVIEPQYCRSFIPKEVFDRWENALCENLVLGSQKFYCPFKDCSAVLINDAEEI--VT 205

Query: 134 KTQCPNCKQWFCFQCKLKWHAGYRCEESRNL----RDQNDIVFGQLVERMKWARCPACGH 189
            ++CP+C + FC QCK+ WHAG  C+E +NL    R++ D++  +L +   W RCP C  
Sbjct: 206 VSECPHCNRLFCAQCKVSWHAGVDCKEFQNLKEYEREREDLMVMELAKNKSWKRCPKCIF 265

Query: 190 CVERKDGCSVVMCRCNTRFCYECGRKISSG 219
            VER DGC+ + CRC   FCY CG   S G
Sbjct: 266 YVERIDGCTRITCRCGNEFCYACGSSWSGG 295

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356522436|ref|XP_003529852.1| PREDICTED: probable E3 ubiquitin-protein ligase ARI3-like [Glycine max]

 Score =  171 bits (434), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 87/215 (40%), Positives = 125/215 (58%), Gaps = 8/215 (3%)

Query: 14  EKGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGL 73
           E G       C IC++     + F+N+N C+H FC DCI RY+  KVQ+ N + + CP  
Sbjct: 80  ETGECSRQVYCGICMDAKYGEEMFRNQN-CSHSFCDDCIGRYVATKVQE-NISMVKCPHP 137

Query: 74  DCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVK 133
            CK  ++P  C   IP  +F +W D LCE+ V G ++ YCP  +C A+++N+ E    V 
Sbjct: 138 KCKGVIEPQYCRSFIPKEVFDRWEDALCENLVPGSQKFYCPFKDCSAMLINDAEEI--VT 195

Query: 134 KTQCPNCKQWFCFQCKLKWHAGYRCEESRNL----RDQNDIVFGQLVERMKWARCPACGH 189
            ++CP+C + FC QCK+ WHAG  C+E +NL    R++ D++  +L +   W RCP C  
Sbjct: 196 VSECPHCNRLFCAQCKVSWHAGVECKEFQNLKEYEREREDLMVMELAKNKNWKRCPKCSF 255

Query: 190 CVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQT 224
            VER DGC+ + CRC   FCY CG K  S  +C T
Sbjct: 256 YVERIDGCTHISCRCGNEFCYACGSKWGSHHACVT 290

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225444595|ref|XP_002277363.1| PREDICTED: probable E3 ubiquitin-protein ligase RNF144A-B-like [Vitis vinifera]

 Score =  164 bits (414), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 78/208 (37%), Positives = 120/208 (57%), Gaps = 8/208 (3%)

Query: 15  KGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLD 74
           K     +F CEICI+P   +  F  +  C H +C DC+ +Y+  K+QD N ++I CP  +
Sbjct: 116 KPDPPPTFVCEICIDPKPLNHSFSIKG-CPHSYCSDCMTKYVASKLQD-NVSRISCPAPN 173

Query: 75  CKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKK 134
           C   L+P  C P++P+ +F +W + LCE  +LG ++ YCP  +C AL++   +    +K+
Sbjct: 174 CTGVLEPQQCRPILPSHVFDRWGNALCEALILGSQKFYCPYKDCSALLIR--DEGEVIKE 231

Query: 135 TQCPNCKQWFCFQCKLKWHAGYRCEESRNL----RDQNDIVFGQLVERMKWARCPACGHC 190
           ++CPNC++ FC QC++ WH+G  C E + L    R + DI+   L +   W RCP C   
Sbjct: 232 SECPNCRRLFCAQCEVPWHSGIDCGEFQKLNKDERGREDILMMNLAKTNNWKRCPKCKFY 291

Query: 191 VERKDGCSVVMCRCNTRFCYECGRKISS 218
           VE+  GC  + CRC   FCY CG   S+
Sbjct: 292 VEKSFGCMYIRCRCGFAFCYNCGAPSST 319

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297738503|emb|CBI27748.3| unnamed protein product [Vitis vinifera]

 Score =  164 bits (414), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 78/208 (37%), Positives = 120/208 (57%), Gaps = 8/208 (3%)

Query: 15  KGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLD 74
           K     +F CEICI+P   +  F  +  C H +C DC+ +Y+  K+QD N ++I CP  +
Sbjct: 116 KPDPPPTFVCEICIDPKPLNHSFSIKG-CPHSYCSDCMTKYVASKLQD-NVSRISCPAPN 173

Query: 75  CKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKK 134
           C   L+P  C P++P+ +F +W + LCE  +LG ++ YCP  +C AL++   +    +K+
Sbjct: 174 CTGVLEPQQCRPILPSHVFDRWGNALCEALILGSQKFYCPYKDCSALLIR--DEGEVIKE 231

Query: 135 TQCPNCKQWFCFQCKLKWHAGYRCEESRNL----RDQNDIVFGQLVERMKWARCPACGHC 190
           ++CPNC++ FC QC++ WH+G  C E + L    R + DI+   L +   W RCP C   
Sbjct: 232 SECPNCRRLFCAQCEVPWHSGIDCGEFQKLNKDERGREDILMMNLAKTNNWKRCPKCKFY 291

Query: 191 VERKDGCSVVMCRCNTRFCYECGRKISS 218
           VE+  GC  + CRC   FCY CG   S+
Sbjct: 292 VEKSFGCMYIRCRCGFAFCYNCGAPSST 319

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	265
TAIR|locus:2091030	303	AT3G14250 [Arabidopsis thalian	0.8	0.699	0.352	1e-43
TAIR|locus:2084116	320	AT3G53690 [Arabidopsis thalian	0.762	0.631	0.375	3.2e-42
TAIR|locus:2085612	348	AT3G45540 [Arabidopsis thalian	0.732	0.557	0.321	1e-29
TAIR|locus:1006230127	384	AT2G26135 [Arabidopsis thalian	0.728	0.502	0.321	2.7e-29
TAIR|locus:2085622	222	AT3G45470 [Arabidopsis thalian	0.750	0.896	0.304	6.4e-28
TAIR|locus:2133935	532	AT4G19670 [Arabidopsis thalian	0.728	0.362	0.310	1.6e-27
TAIR|locus:2101074	346	AT3G43750 [Arabidopsis thalian	0.690	0.528	0.304	4.5e-27
TAIR|locus:2151689	444	AT5G37560 [Arabidopsis thalian	0.743	0.443	0.287	1.7e-26
TAIR|locus:2057401	398	AT2G26130 [Arabidopsis thalian	0.701	0.467	0.313	2.5e-26
TAIR|locus:2085672	408	AT3G45580 [Arabidopsis thalian	0.735	0.477	0.300	2.5e-26

TAIR|locus:2091030 AT3G14250 [Arabidopsis thaliana (taxid:3702)]

 Score = 461 (167.3 bits), Expect = 1.0e-43, P = 1.0e-43
 Identities = 79/224 (35%), Positives = 128/224 (57%)

Query:     7 KKPNEYLEKGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTA 66
             K  NE +E     S   C IC++   +S  F+    CTH +C DC  RY+  K+++ N +
Sbjct:    82 KAENEPMEP----SRRLCMICMDEKPSSDIFRGTTNCTHAYCTDCTVRYVATKIKE-NAS 136

Query:    67 KIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNEC 126
             +I CP ++C   ++P+ C  +IP  +F +W  +LCE  +  +++ YCP  +C A++VN  
Sbjct:   137 RIKCPDVECTRLIEPYTCRDLIPKDVFDRWEKILCESLISSWDKFYCPFKDCSAMMVNNE 196

Query:   127 ERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESR---NLR----DQNDIVFGQLVERM 179
                  V +T+C +C + FC QCK+ WHAG  C+E +   N +    D++D +  Q+ +  
Sbjct:   197 NGDANVTQTECRSCHRLFCVQCKVTWHAGIGCDEFQRFGNTKKKSSDEDDALLIQMAKNK 256

Query:   180 KWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQ 223
             +W RCP+C   V++ +GC  + CRC  +FCY CG   SS  +CQ
Sbjct:   257 QWRRCPSCKFYVDKVEGCQHIKCRCGYQFCYGCGSVWSSSHACQ 300

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2084116 AT3G53690 [Arabidopsis thaliana (taxid:3702)]

 Score = 447 (162.4 bits), Expect = 3.2e-42, P = 3.2e-42
 Identities = 80/213 (37%), Positives = 120/213 (56%)

Query:     9 PNEYLEKGGGGSS----FTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDN 64
             P  + EKG   SS    F CEIC++  +  + F+    C+H +C DC+++YI  K+QD N
Sbjct:    96 PPIHREKGQSSSSKTATFDCEICVDSKSIIESFRIGG-CSHFYCNDCVSKYIAAKLQD-N 153

Query:    65 TAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVN 124
                I+CP   C   L+P  C  ++P  +F +W D LCE  V+  ++ YCP  +C ALV  
Sbjct:   154 ILSIECPVSGCSGRLEPDQCRQILPKEVFDRWGDALCEAVVMRSKKFYCPYKDCSALVFL 213

Query:   125 ECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNL----RDQNDIVFGQLVERMK 180
             E E   K+K ++CP+C +  C +C  +WH    CEE + L    R ++DI+   + ++ K
Sbjct:   214 E-ESEVKMKDSECPHCHRMVCVECGTQWHPEMTCEEFQKLAANERGRDDILLATMAKQKK 272

Query:   181 WARCPACGHCVERKDGCSVVMCRCNTRFCYECG 213
             W RCP+C   +E+  GC  + CRC   FCY CG
Sbjct:   273 WKRCPSCKFYIEKSQGCLYMKCRCGLAFCYNCG 305

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2085612 AT3G45540 [Arabidopsis thaliana (taxid:3702)]

 Score = 329 (120.9 bits), Expect = 1.0e-29, P = 1.0e-29
 Identities = 66/205 (32%), Positives = 101/205 (49%)

Query:    23 TCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF 82
             TC+IC++      +      C H FC DC+ R+I+V++ + +  +  CP   CK  L   
Sbjct:    99 TCKICLDDDINENQMFCVGKCRHRFCSDCMRRHIEVRLLEGSVMR--CPHYRCKTTLKFG 156

Query:    83 ACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQ----CP 138
              C  ++   +   W   + ED +    R YCPN+ C AL+ +E E S   K+ +    C 
Sbjct:   157 GCINLLTPKIREMWQQRIKEDLIPVTGRIYCPNSRCSALM-SETELSISTKEDEVRRCCF 215

Query:   139 NCKQWFCFQCKLKWHAGYRCEESRNLRD---QNDIVFGQLVERMKWARCPACGHCVERKD 195
              C Q FC +CK+ WH+   C + + L     +ND     L  + +W +C  C H +E   
Sbjct:   216 KCGQIFCIKCKVSWHSNLSCNDYKKLNPYPTENDGKIKALANQKRWRQCGKCQHMIELSK 275

Query:   196 GCSVVMCRCNTRFCYECGRKISSGC 220
             GC  V CRC  +FCY CG + + GC
Sbjct:   276 GCVQVKCRCGHKFCYRCGVQ-AGGC 299

GO:0008270 "zinc ion binding" evidence=IEA

GO:0048446 "petal morphogenesis" evidence=RCA

TAIR|locus:1006230127 AT2G26135 [Arabidopsis thaliana (taxid:3702)]

 Score = 325 (119.5 bits), Expect = 2.7e-29, P = 2.7e-29
 Identities = 65/202 (32%), Positives = 96/202 (47%)

Query:    23 TCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF 82
             TC IC +    +      + C H FC +C+ R+I+V +   +   I CP   CK  L   
Sbjct:   152 TCTICFDDDINADMMFYIDQCGHMFCSECVKRHIEVSLLQGSL--ITCPSYRCKSKLTYG 209

Query:    83 ACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALV-VNECERSGKVKKTQCPNCK 141
             +C  ++   +   W   + ED +   +R YCPN  C AL+ V E ++    K+  C  C 
Sbjct:   210 SCVNILTPKVKEMWIQRMGEDSIPVTDRVYCPNPTCSALMSVTELDQLTGSKRC-CVKCG 268

Query:   142 QWFCFQCKLKWHAGYRCEESRNL---RDQNDIVFGQLVERMKWARCPACGHCVERKDGCS 198
             + FC +CK+ WH    C+  + L   R  ND    +L  +  W +C  C H +E   GC 
Sbjct:   269 ESFCIKCKVPWHDNLSCKRYKKLHSNRTTNDKQLNELANQESWRQCSKCKHMIELTQGCV 328

Query:   199 VVMCRCNTRFCYECGRKISSGC 220
              V+CRC   FCY CG    +GC
Sbjct:   329 RVICRCGHEFCYGCGA--DAGC 348

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016020 "membrane" evidence=ISS

TAIR|locus:2085622 AT3G45470 [Arabidopsis thaliana (taxid:3702)]

 Score = 312 (114.9 bits), Expect = 6.4e-28, P = 6.4e-28
 Identities = 63/207 (30%), Positives = 95/207 (45%)

Query:    23 TCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF 82
             TC IC+E   A + F   + C H  C  C+ + ++VK+++       C   +CK  L   
Sbjct:     5 TCVICLEETKADRMFV-MDKCLHRHCYPCVNQLVEVKLRNGTVPT--CLDYECKLKLSLE 61

Query:    83 ACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVN-ECERSGKVKKTQCPNCK 141
              C  V+   +   W  ++ E+ +   +R YCP  NC  L+   E  RS K     C  C 
Sbjct:    62 NCFKVLKPKVIELWKHMMKEESIPLAKRIYCPYINCSTLMSKTEISRSNKSNDRACIKCS 121

Query:   142 QWFCFQCKLKWHAGYRCEESRNLRDQ---NDIVFGQLVERMKWARCPACGHCVERKDGCS 198
                C  CK+ WH+   C E + L      +D+    L    KW +C  C H +E   GC+
Sbjct:   122 GLVCIDCKVPWHSDLSCAEYKKLHPDPVLDDLTLKLLANDQKWRQCVKCRHLIELNQGCN 181

Query:   199 VVMCRCNTRFCYECGRKISSG-CSCQT 224
              + CRC  +FCY+CG +   G  +C T
Sbjct:   182 HMTCRCGYQFCYKCGVEWKKGQVTCPT 208

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2133935 AT4G19670 [Arabidopsis thaliana (taxid:3702)]

 Score = 313 (115.2 bits), Expect = 1.6e-27, P = 1.6e-27
 Identities = 68/219 (31%), Positives = 99/219 (45%)

Query:    24 CEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA 83
             C IC E   +      +  CTH FC  C+  Y++ KV+      I CP + CKH L    
Sbjct:   207 CSICCEDRQSEMMLSLK--CTHKFCSHCMKTYVEGKVKTSEVP-IRCPQVQCKHYLSAAE 263

Query:    84 CEPVIPASLFSKWCDV-LCEDYVLGFERSYCPNTNCMALV-VNECERSGKVKKT------ 135
             C+  +P + F  + +  +C        + YCP  NC  L+   EC  SG+   +      
Sbjct:   264 CKSFLPVTTFKSFEEANVCSK---NNGKIYCPYPNCSFLLDPQECLSSGRASSSSSTQSE 320

Query:   136 -----QCPNCKQWFCFQCKLKWHAGYRCEESRNL----RDQNDIVFGQLVERMKWARCPA 186
                  +CP C+++ C  C + WHA   CEE + L    R  +DI   +L    +W RC  
Sbjct:   321 NSCCVECPVCERFVCVDCGVPWHASMSCEEFQILPVDERYPDDITLHRLARYKRWRRCQQ 380

Query:   187 CGHCVERKDGCSVVMCRCNTRFCYECGRKISSG---CSC 222
             C   +E   GC+ + CRC   FCY CG +   G   C+C
Sbjct:   381 CRIMIELAQGCNHMTCRCGHEFCYSCGAEYREGQQTCTC 419

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2101074 AT3G43750 [Arabidopsis thaliana (taxid:3702)]

 Score = 304 (112.1 bits), Expect = 4.5e-27, P = 4.5e-27
 Identities = 59/194 (30%), Positives = 100/194 (51%)

Query:    23 TCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF 82
             TC IC   +  ++K  +  +C H FC +C+  YI+VK+ +    +  C    C+  L   
Sbjct:   154 TCSICFNNVLEAEKMFSVAICGHQFCVECVKHYIEVKLLEGGVPR--CLDYQCESKLTLT 211

Query:    83 ACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVK-----KTQC 137
             +C  ++   L + W   + E+ +L  ER YCPN  C  L+ ++ E S   +     +T C
Sbjct:   212 SCGNLLTPKLKAIWKQRIEEELILVAERVYCPNPRCSGLM-SKTELSTSTEEDVSTRTCC 270

Query:   138 PNCKQWFCFQCKLKWHAGYRCEESRNLRD---QNDIVFGQLVERMKWARCPACGHCVERK 194
               C + FC  CK+ WH+   C++ + L     +NDI    L  + KW++C  C H + R 
Sbjct:   271 VKCGEPFCINCKVPWHSNLSCDDYKRLGPNPTKNDIKLKVLANQQKWSQCAKCQHMIARI 330

Query:   195 DGCSVVMCRCNTRF 208
             +GC+V++CR + R+
Sbjct:   331 EGCNVIICRYHHRY 344

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2151689 AT5G37560 [Arabidopsis thaliana (taxid:3702)]

 Score = 299 (110.3 bits), Expect = 1.7e-26, P = 1.7e-26
 Identities = 60/209 (28%), Positives = 99/209 (47%)

Query:    23 TCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF 82
             TC IC +   A     N + C H  C  C+ + ++VK++        C    CK  L   
Sbjct:   180 TCSICSDKTDAEHMLLN-DKCLHRHCFSCVKQQVKVKLRSGIVPP--CLEDGCKSELTLE 236

Query:    83 ACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQ---CPN 139
             +C  V+   L   W   + ED +   E+ YCP  +C ++++++ E S + +++    C  
Sbjct:   237 SCSMVLTPKLIEMWKRKMEEDLIPDAEKIYCPYRSC-SMLMSKTELSREAEQSNVRACIK 295

Query:   140 CKQWFCFQCKLKWHAGYRCEESRNLRDQ---NDIVFGQLVERMKWARCPACGHCVERKDG 196
             C + FC  CK+ WH+   C + + +  +   ND++   L     W +C  C H +E  +G
Sbjct:   296 CSELFCIDCKVPWHSDLSCADYKRIHSERLVNDMMLKVLANDQMWRQCSECKHMIELTEG 355

Query:   197 CSVVMCRCNTRFCYECGRKISS--GCSCQ 223
             C+ + CRC   FCY CG K +     SCQ
Sbjct:   356 CNHITCRCGYEFCYRCGHKWTKYHHYSCQ 384

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2057401 AT2G26130 [Arabidopsis thaliana (taxid:3702)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 62/198 (31%), Positives = 96/198 (48%)

Query:    23 TCEICI-EPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP 81
             TC IC+ + + A + F + +   H  C +C+ R+I+V++ + +   I CP   C   L  
Sbjct:   158 TCNICLNDDINADQMF-SVDKSGHMCCSECVKRHIEVRLLEGSL--ITCPHYRCNSLLTS 214

Query:    82 FACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGK---VKKTQCP 138
               C  ++   L   W     ++ +   +R YCPN  C  L+ +E E SG    V++  C 
Sbjct:   215 VRCGNLLTPKLNKMWEQKTKDELIPVMDRVYCPNPRCSTLM-SETELSGLNIGVRRC-CV 272

Query:   139 NCKQWFCFQCKLKWHAGYRCEESRNLRD---QNDIVFGQLVERMKWARCPACGHCVERKD 195
              C + FC +CK+ WH    C+E + L     +ND     L     W +C  C H +E   
Sbjct:   273 KCGEPFCVKCKVSWHNNLSCDEYKTLHPNPTENDGRLRDLANEKSWRQCSKCKHMIELSS 332

Query:   196 GCSVVMCRCNTRFCYECG 213
             GC  V+CRC   FCY+CG
Sbjct:   333 GCISVVCRCGHTFCYQCG 350

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2085672 AT3G45580 [Arabidopsis thaliana (taxid:3702)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 61/203 (30%), Positives = 98/203 (48%)

Query:    23 TCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF 82
             TC IC +     +   +  LC H FC +C+ R+I+V++      +  C    C+  L   
Sbjct:   172 TCSICSDDNFEPELMFSVALCGHEFCVECVKRHIEVRLLAGGVPR--CLHYQCESKLTLA 229

Query:    83 ACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALV-VNECERSGK--VKKTQCPN 139
              C  ++ + L + W   + E+ +   ER YCPN  C +L+ V +   S +  V    C  
Sbjct:   230 NCANLLTSKLKAMWELRIEEESIPVEERVYCPNPRCSSLMSVTKLSNSTREDVTMRSCVK 289

Query:   140 CKQWFCFQCKLKWHAGYRCEESRNLRDQ---NDIVFGQLVERMKWARCPACGHCVERKDG 196
             C + FC  CKL WH+   C + ++L      +DI    L  +  W +C  C + +E  +G
Sbjct:   290 CGEPFCINCKLPWHSNLSCNDYKSLGPNPTADDIKLKALANQKMWRQCENCKNVIELSEG 349

Query:   197 CSVVMCRCNTRFCYECGRKISSG 219
             C  + CRC  +FCY+CG K  +G
Sbjct:   350 CMHITCRCGHQFCYKCGAKWITG 372

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	265
smart00647	64	smart00647, IBR, In Between Ring fingers	1e-04
pfam01485	63	pfam01485, IBR, IBR domain	2e-04

>gnl|CDD|214763 smart00647, IBR, In Between Ring fingers

 Score = 39.3 bits (92), Expect = 1e-04
 Identities = 20/65 (30%), Positives = 30/65 (46%), Gaps = 3/65 (4%)

Query: 95  KWCDVLCEDYVL-GFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWH 153
           K+  +L E YV    +  +CP  +C A +           +  CP C   FCF+CK+ WH
Sbjct: 2   KYERLLLESYVESNPDLKWCPAPDCSAAI--IVTEEEGCNRVTCPKCGFSFCFRCKVPWH 59

Query: 154 AGYRC 158
           +   C
Sbjct: 60  SPVSC 64

the domains occurs between pairs og RING fingers. Length = 64

>gnl|CDD|216524 pfam01485, IBR, IBR domain

 Score = 38.3 bits (89), Expect = 2e-04
 Identities = 16/50 (32%), Positives = 20/50 (40%), Gaps = 3/50 (6%)

Query: 109 ERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRC 158
              +CP  +C  ++      S  V    C  C   FCF CK  WH G  C
Sbjct: 17  NLKWCPTPDCGNIIEKTDGGSQNVT---CSKCGTEFCFSCKEPWHEGLTC 63

The IBR (In Between Ring fingers) domain is often found to occur between pairs of ring fingers (pfam00097). This domain has also been called the C6HC domain and DRIL (for double RING finger linked) domain. Proteins that contain two Ring fingers and an IBR domain (these proteins are also termed RBR family proteins) are thought to exist in all eukaryotic organisms. RBR family members play roles in protein quality control and can indirectly regulate transcription. Evidence suggests that RBR proteins are often parts of cullin-containing ubiquitin ligase complexes. The ubiquitin ligase Parkin is an RBR family protein whose mutations are involved in forms of familial Parkinson's disease. Length = 63

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	265
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	100.0
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	100.0
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	99.97
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	99.94
smart00647	64	IBR In Between Ring fingers. the domains occurs be	99.3
PF01485	64	IBR: IBR domain; InterPro: IPR002867 Zinc finger (	99.24
smart00647	64	IBR In Between Ring fingers. the domains occurs be	98.71
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.66
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.61
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.55
PF01485	64	IBR: IBR domain; InterPro: IPR002867 Zinc finger (	98.54
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.51
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.46
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.46
PF14634	44	zf-RING_5: zinc-RING finger domain	98.35
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.31
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.2
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.14
PHA02926	242	zinc finger-like protein; Provisional	98.1
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.02
PHA02929	238	N1R/p28-like protein; Provisional	97.95
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	97.95
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	97.9
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.88
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	97.82
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	97.79
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	97.73
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	97.68
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	97.65
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.5
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.44
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.41
KOG1002	791	consensus Nucleotide excision repair protein RAD16	97.39
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	97.01
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.97
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	96.97
KOG4367	699	consensus Predicted Zn-finger protein [Function un	96.95
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	96.84
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	96.79
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	96.42
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.4
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	95.73
KOG2660	331	consensus Locus-specific chromosome binding protei	95.68
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	95.66
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.58
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	95.58
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	95.44
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	95.39
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	94.7
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	94.7
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	94.67
COG5175	480	MOT2 Transcriptional repressor [Transcription]	94.62
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	94.54
COG5152	259	Uncharacterized conserved protein, contains RING a	94.26
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	94.23
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	93.74
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	93.56
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	93.55
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	93.48
PF13240	23	zinc_ribbon_2: zinc-ribbon domain	93.3
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	93.28
KOG3039	303	consensus Uncharacterized conserved protein [Funct	93.05
PF13248	26	zf-ribbon_3: zinc-ribbon domain	92.99
smart00661	52	RPOL9 RNA polymerase subunit 9.	92.69
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	92.5
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	92.44
KOG4739	233	consensus Uncharacterized protein involved in syna	92.33
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	92.32
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	92.3
PF04641	260	Rtf2: Rtf2 RING-finger	92.3
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	92.04
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	91.72
PHA00626	59	hypothetical protein	91.64
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	91.31
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	91.16
PF13719	37	zinc_ribbon_5: zinc-ribbon domain	91.15
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	91.02
KOG0297	391	consensus TNF receptor-associated factor [Signal t	90.98
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	90.89
KOG3053	293	consensus Uncharacterized conserved protein [Funct	90.39
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	90.22
PRK00432	50	30S ribosomal protein S27ae; Validated	90.15
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	89.99
PHA03096	284	p28-like protein; Provisional	89.76
KOG1940	276	consensus Zn-finger protein [General function pred	89.73
KOG4445	368	consensus Uncharacterized conserved protein, conta	89.29
PF13717	36	zinc_ribbon_4: zinc-ribbon domain	89.07
PRK00398	46	rpoP DNA-directed RNA polymerase subunit P; Provis	88.99
PF14803	34	Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.	88.58
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	88.48
PF12773	50	DZR: Double zinc ribbon	88.46
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	88.09
PRK14890	59	putative Zn-ribbon RNA-binding protein; Provisiona	88.0
PLN03086	567	PRLI-interacting factor K; Provisional	87.96
PRK14559	645	putative protein serine/threonine phosphatase; Pro	87.83
COG5236	493	Uncharacterized conserved protein, contains RING Z	87.07
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	86.35
COG2888	61	Predicted Zn-ribbon RNA-binding protein with a fun	86.25
COG1998	51	RPS31 Ribosomal protein S27AE [Translation, riboso	85.67
PF09297	32	zf-NADH-PPase: NADH pyrophosphatase zinc ribbon do	85.58
PF14952	44	zf-tcix: Putative treble-clef, zinc-finger, Zn-bin	85.21
PF02150	35	RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; I	85.14
PF10083	158	DUF2321: Uncharacterized protein conserved in bact	84.86
COG5219	1525	Uncharacterized conserved protein, contains RING Z	84.51
TIGR02098	38	MJ0042_CXXC MJ0042 family finger-like domain. This	84.48
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	84.15
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	83.37
KOG1941	518	consensus Acetylcholine receptor-associated protei	82.86
smart00661	52	RPOL9 RNA polymerase subunit 9.	82.77
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	82.54
PRK05654	292	acetyl-CoA carboxylase subunit beta; Validated	82.31
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	82.08
PF09538	108	FYDLN_acid: Protein of unknown function (FYDLN_aci	81.14

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

Probab=100.00  E-value=1.1e-38  Score=281.46  Aligned_cols=197  Identities=31%  Similarity=0.744  Sum_probs=168.3

Q ss_pred             Cccccccccccccccc-ccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCChhHHHHHH
Q 024566           19 GSSFTCEICIEPMAAS-KKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWC   97 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~-~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~~   97 (265)
                      ....+|.||+.+.+.. .+|. ...|+|.||.+|+++|++++..  ....++||..+|...++.+....+|++.+.++|.
T Consensus       144 ~~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~iev~~~--~~~~~~C~~~~C~~~l~~~~c~~llt~kl~e~~e  220 (384)
T KOG1812|consen  144 LPKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIEVKLL--SGTVIRCPHDGCESRLTLESCRKLLTPKLREMWE  220 (384)
T ss_pred             cccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhhhhhc--cCCCccCCCCCCCccCCHHHHhhhcCHHHHHHHH
Confidence            4578999999655555 4444 7889999999999999999943  4678999999999999999999999999999999


Q ss_pred             HHHHHHhhcCCCccccCCcCcccceecccccc-CCcCeeeCCCcccccccccccccCCCCCChhHHhchhh--chHHHHH
Q 024566           98 DVLCEDYVLGFERSYCPNTNCMALVVNECERS-GKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQ--NDIVFGQ  174 (265)
Q Consensus        98 ~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~-~~~~~~~C~~C~~~~C~~C~~~~H~~~~C~~~~~~~~~--~d~~~~~  174 (265)
                      +++.+.++...+..|||+|+|...+......+ .+.....|+.|+..||.+|+.+||.+.+|++|+++...  .|....+
T Consensus       221 ~~~~e~~i~~~~~~ycp~~~C~~l~~~~el~~~~~~~~~~C~~C~~~fCv~C~~~wh~~~sC~eykk~~~~~~~d~~~~~  300 (384)
T KOG1812|consen  221 QRLKEEVIPSLDRVYCPYPRCSSLMSKTELSSEVKSKRRPCVKCHELFCVKCKVPWHANLSCEEYKKLNPEEYVDDITLK  300 (384)
T ss_pred             HHHHHHhhhhhhcccCCCCCchHhhhhhhhccchhhcccccccCCCceeecCCCcCCCCCCHHHHHHhCCcccccHHHHH
Confidence            99999999766666999999999988665322 33567789999999999999999999999999998754  3333444


Q ss_pred             HHhcCCcccCCCCCceeeecCCCceeEeecCCceeeccCccccCC
Q 024566          175 LVERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSG  219 (265)
Q Consensus       175 ~~~~~~~k~CP~C~~~iek~~GCnhm~C~C~~~FC~~C~~~~~~g  219 (265)
                      .+. ..|++||+|+..|++++|||||+|+||++|||.|+++|..+
T Consensus       301 ~la-~~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~  344 (384)
T KOG1812|consen  301 YLA-KRWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTH  344 (384)
T ss_pred             HHH-HhcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhC
Confidence            444 78999999999999999999999999999999999998654

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

Probab=100.00  E-value=1.6e-38  Score=270.48  Aligned_cols=214  Identities=25%  Similarity=0.569  Sum_probs=173.3

Q ss_pred             CCCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCChhHHHH
Q 024566           16 GGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSK   95 (265)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~   95 (265)
                      ......+.|.|||++......| ..++|+|.||+.|++.|++..|++|....++||+++|+...++..++.+|+.++++|
T Consensus       179 ~F~~slf~C~ICf~e~~G~~c~-~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~ar  257 (445)
T KOG1814|consen  179 KFVNSLFDCCICFEEQMGQHCF-KFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFAR  257 (445)
T ss_pred             HHHhhcccceeeehhhcCccee-eecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHH
Confidence            3457789999999998654544 589999999999999999999999889999999999999999999999999999999


Q ss_pred             HHHHHHHHhh-cCCCccccCCcCcccceeccccccCCcCeeeCCCcccccccccccccCCCCCChhHH--------hchh
Q 024566           96 WCDVLCEDYV-LGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESR--------NLRD  166 (265)
Q Consensus        96 ~~~~~~~~~~-~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~~~C~~~~--------~~~~  166 (265)
                      |++.+.++.+ ...+++|||++.|..+...+++    ...+.|.+|++.||+.|+..||++..|.--.        +|.+
T Consensus       258 Ye~l~lqk~l~~msdv~yCPr~~Cq~p~~~d~~----~~l~~CskCnFaFCtlCk~t~HG~s~Ck~~~~~~~~l~~~~~~  333 (445)
T KOG1814|consen  258 YEKLMLQKTLELMSDVVYCPRACCQLPVKQDPG----RALAICSKCNFAFCTLCKLTWHGVSPCKVKAEKLIELYLEYLE  333 (445)
T ss_pred             HHHHHHHHHHHhhcccccCChhhccCccccCch----hhhhhhccCccHHHHHHHHhhcCCCcccCchHHHHHHHHHHhh
Confidence            9999998888 4688999999999999865555    5789999999999999999999999896421        1111


Q ss_pred             h---------------------chHHHHHHHhcCCcccCCCCCceeeecCCCceeEe-ecCCceeeccCccccCCCC--C
Q 024566          167 Q---------------------NDIVFGQLVERMKWARCPACGHCVERKDGCSVVMC-RCNTRFCYECGRKISSGCS--C  222 (265)
Q Consensus       167 ~---------------------~d~~~~~~~~~~~~k~CP~C~~~iek~~GCnhm~C-~C~~~FC~~C~~~~~~g~~--~  222 (265)
                      .                     ++.+..+++ ..+.|+||+|+++|+|++|||+|+| .|++.|||+|+.....+.|  |
T Consensus       334 ~d~a~k~ele~Ryg~rvve~~vn~~lsekwl-~~N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l~~~nPYkH  412 (445)
T KOG1814|consen  334 ADEARKRELEKRYGKRVVEELVNDFLSEKWL-ESNSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELLYPENPYKH  412 (445)
T ss_pred             cCHHHHHHHHHHhhHHHHHHHHHHHHHHHHH-HhcCCCCCcccceeecCCCccceeeccccccceeehhhhcCCCChhhh
Confidence            0                     111111222 2467999999999999999999999 7999999999999775533  4


Q ss_pred             CCc-ccchhhhHHH
Q 024566          223 QTI-GFCQLTILTI  235 (265)
Q Consensus       223 ~~~-~~C~~~~~~~  235 (265)
                      ++. +++....+..
T Consensus       413 F~e~~s~c~~~~~~  426 (445)
T KOG1814|consen  413 FSEPGSECYGQFFG  426 (445)
T ss_pred             hcCCcCccccchhh
Confidence            443 3444444333

>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=7.3e-30  Score=231.13  Aligned_cols=193  Identities=24%  Similarity=0.534  Sum_probs=162.6

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCCh-hHHHHH
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPA-SLFSKW   96 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~-~~~~~~   96 (265)
                      .....+|.||++..+.   ....+.|+|.||..||..|+..+|.++....|+||.++|...+..+.|..++++ +..++|
T Consensus        67 ~~~~~~c~ic~~~~~~---~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~~~~s~~~~~~ky  143 (444)
T KOG1815|consen   67 KKGDVQCGICVESYDG---EIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVEKLVSDKEDKEKY  143 (444)
T ss_pred             CCccccCCcccCCCcc---hhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceeeeecCCHHHHHHH
Confidence            3456899999999864   234689999999999999999999986555599999999999999999999998 499999


Q ss_pred             HHHHHHHhhcC-CCccccCCcCcccceeccccccCCcCeeeCCCcccccccccccccCCCCCChhHHhchhhchHHHHHH
Q 024566           97 CDVLCEDYVLG-FERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQL  175 (265)
Q Consensus        97 ~~~~~~~~~~~-~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~~~C~~~~~~~~~~d~~~~~~  175 (265)
                      .+++..+++.. ....|||+|+|+..+....   .....+.|. |+..||+.|+.+||.+.+|.....|..+.......+
T Consensus       144 ~~~i~~syve~~~~lkwCP~~~C~~av~~~~---~~~~~v~C~-~g~~FC~~C~~~~H~p~~C~~~~~wl~k~~~~se~~  219 (444)
T KOG1815|consen  144 QRYILRSYVEDNVPLKWCPAPGCGLAVKFGS---LESVEVDCG-CGHEFCFACGEESHSPVSCPGAKKWLKKCRDDSETI  219 (444)
T ss_pred             HHHHHHHHHhcCCccccCCCCCCCceeeccC---CCccceeCC-CCchhHhhccccccCCCcccchHHHHHhhhhhhhhh
Confidence            99999999964 4479999999999988641   226889995 677999999999999999999999887633222221


Q ss_pred             H-hcCCcccCCCCCceeeecCCCceeEe-e--cCCceeeccCcccc
Q 024566          176 V-ERMKWARCPACGHCVERKDGCSVVMC-R--CNTRFCYECGRKIS  217 (265)
Q Consensus       176 ~-~~~~~k~CP~C~~~iek~~GCnhm~C-~--C~~~FC~~C~~~~~  217 (265)
                      . ...++++||+|.++|+|++|||||+| .  |+++|||.|++.|.
T Consensus       220 ~wi~~ntk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~  265 (444)
T KOG1815|consen  220 NWILANTKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLS  265 (444)
T ss_pred             hhhhccCccCCCcccchhccCCccccccccCCcCCeeceeeecccc
Confidence            1 24578999999999999999999999 4  99999999999986

>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]

Probab=99.94  E-value=9e-28  Score=198.32  Aligned_cols=195  Identities=24%  Similarity=0.575  Sum_probs=153.2

Q ss_pred             CCCCcccccccccccccccccccccCCCC--ChhHHHHHHHHHHHHhhCCC-------CCcccCCCCCCCCCC-CccCcc
Q 024566           16 GGGGSSFTCEICIEPMAASKKFKNRNLCT--HPFCQDCIARYIQVKVQDDN-------TAKIDCPGLDCKHNL-DPFACE   85 (265)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~--H~fC~~Cl~~~~~~~i~~~~-------~~~i~CP~~~C~~~l-~~~~i~   85 (265)
                      +.+....+|..|.+... +. +  .++|.  |..|.+|++.|..+.+++.+       .+.+.||. +|...+ ..-.-.
T Consensus       216 ~~N~~ni~C~~Ctdv~~-~v-l--vf~Cns~HvtC~dCFr~yc~~Rl~~rqf~~~p~~gyslpc~a-gc~~s~i~e~HHF  290 (446)
T KOG0006|consen  216 ATNSRNITCITCTDVRS-PV-L--VFQCNSRHVTCLDCFRLYCVTRLNDRQFVHDPQLGYSLPCVA-GCPNSLIKELHHF  290 (446)
T ss_pred             hcccccceeEEecCCcc-ce-E--EEecCCceeehHHhhhhHhhhcccccccccCccccccccccC-CCchHHHHhhhhh
Confidence            45788899999988663 22 2  47887  99999999999999998653       34588886 777554 333456


Q ss_pred             CCCChhHHHHHHHHHHHHhhcCCCccccCCcCcccceeccccccCCcCeeeCCC-cccccccccccccCCCCCChhHHhc
Q 024566           86 PVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPN-CKQWFCFQCKLKWHAGYRCEESRNL  164 (265)
Q Consensus        86 ~~l~~~~~~~~~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~-C~~~~C~~C~~~~H~~~~C~~~~~~  164 (265)
                      ++|..+.+++|+++..+.++...+-+.||+|+|+..+.++++    ..++.|+. |++.||..|...+|.|. |.+.-..
T Consensus       291 ~ilg~e~Y~rYQr~atEe~vlq~gGVlCP~pgCG~gll~EPD----~rkvtC~~gCgf~FCR~C~e~yh~ge-C~~~~~a  365 (446)
T KOG0006|consen  291 RILGEEQYNRYQRYATEECVLQMGGVLCPRPGCGAGLLPEPD----QRKVTCEGGCGFAFCRECKEAYHEGE-CSAVFEA  365 (446)
T ss_pred             eecchhHHHHHHHhhhhhheeecCCEecCCCCCCcccccCCC----CCcccCCCCchhHhHHHHHhhhcccc-ceeeecc
Confidence            789999999999999999997778899999999999999886    68999987 99999999999999875 3311110


Q ss_pred             --------hhh----c----hHHHHHHHhcCCcccCCCCCceeeecCCCceeEe-e--cCCceeeccCccccCCCC
Q 024566          165 --------RDQ----N----DIVFGQLVERMKWARCPACGHCVERKDGCSVVMC-R--CNTRFCYECGRKISSGCS  221 (265)
Q Consensus       165 --------~~~----~----d~~~~~~~~~~~~k~CP~C~~~iek~~GCnhm~C-~--C~~~FC~~C~~~~~~g~~  221 (265)
                              .-+    +    |....+.+ +..+|+||+|+++.||+|||.||.| +  ||.+|||.|+..|+..|.
T Consensus       366 s~t~tc~y~vde~~a~~arwd~as~~TI-k~tTkpCPkChvptErnGGCmHm~Ct~~~Cg~eWCw~C~tEW~r~Cm  440 (446)
T KOG0006|consen  366 SGTTTCAYRVDERAAEQARWDAASKETI-KKTTKPCPKCHVPTERNGGCMHMKCTQPQCGLEWCWNCGTEWNRVCM  440 (446)
T ss_pred             ccccceeeecChhhhhhhhhhhhhhhhh-hhccCCCCCccCccccCCceEEeecCCCCCCceeEeccCChhhhhhc
Confidence                    000    1    11222222 3567999999999999999999999 6  999999999999987654

>smart00647 IBR In Between Ring fingers

Probab=99.30  E-value=4.1e-12  Score=84.30  Aligned_cols=63  Identities=33%  Similarity=0.836  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHhhcC-CCccccCCcCcccceeccccccCCcCeeeCCCcccccccccccccCCCCCC
Q 024566           94 SKWCDVLCEDYVLG-FERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRC  158 (265)
Q Consensus        94 ~~~~~~~~~~~~~~-~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~~~C  158 (265)
                      ++|++++.+.+++. ++.+|||+|+|+.++...+.  .....+.|+.|+..||+.|+.+||.+.+|
T Consensus         1 ~~y~~~~~~~~i~~~~~~~~CP~~~C~~~~~~~~~--~~~~~v~C~~C~~~fC~~C~~~~H~~~~C   64 (64)
T smart00647        1 EKYERLLLESYVESNPDLKWCPAPDCSAAIIVTEE--EGCNRVTCPKCGFSFCFRCKVPWHSPVSC   64 (64)
T ss_pred             ChHHHHHHHHHHhcCCCccCCCCCCCcceEEecCC--CCCCeeECCCCCCeECCCCCCcCCCCCCC
Confidence            47888888888864 68899999999999988641  13579999999999999999999999987

the domains occurs between pairs og RING fingers

>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=99.24  E-value=1.4e-12  Score=86.60  Aligned_cols=63  Identities=29%  Similarity=0.755  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHhhc-CCCccccCCcCcccceeccccccCCcCeeeCCCcccccccccccccCCCCCC
Q 024566           94 SKWCDVLCEDYVL-GFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRC  158 (265)
Q Consensus        94 ~~~~~~~~~~~~~-~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~~~C  158 (265)
                      ++|++++.+.++. +++++|||+|+|+.++.......  ...+.|+.|+..||+.|+.+||.|.+|
T Consensus         1 eky~~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~--~~~~~C~~C~~~fC~~C~~~~H~~~~C   64 (64)
T PF01485_consen    1 EKYQKFLLKRYLESDPNIRWCPNPDCEYIIEKDDGCN--SPIVTCPSCGTEFCFKCGEPWHEGVTC   64 (64)
T ss_dssp             HCHHHCCCHS---S---CC--TTSST---ECS-SSTT--S--CCTTSCCSEECSSSTSESCTTS-H
T ss_pred             ChHHHHHHHHHHHCCCCccCCCCCCCcccEEecCCCC--CCeeECCCCCCcCccccCcccCCCCCC
Confidence            4677777777774 45678999999999999887632  224999999999999999999999886

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.

>smart00647 IBR In Between Ring fingers

Probab=98.71  E-value=2.8e-08  Score=65.64  Aligned_cols=49  Identities=29%  Similarity=0.742  Sum_probs=41.0

Q ss_pred             HHHHHhc-CCcccCC--CCCceeeecC--CCceeEe-ecCCceeeccCccccCCC
Q 024566          172 FGQLVER-MKWARCP--ACGHCVERKD--GCSVVMC-RCNTRFCYECGRKISSGC  220 (265)
Q Consensus       172 ~~~~~~~-~~~k~CP--~C~~~iek~~--GCnhm~C-~C~~~FC~~C~~~~~~g~  220 (265)
                      +..++.. ..++.||  +|...|+..+  |.++|+| .|++.|||.|+.+||.+.
T Consensus         8 ~~~~i~~~~~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~H~~~   62 (64)
T smart00647        8 LESYVESNPDLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWHSPV   62 (64)
T ss_pred             HHHHHhcCCCccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcCCCCC
Confidence            3344443 5789999  9999999975  9999999 899999999999998764

the domains occurs between pairs og RING fingers

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

Probab=98.66  E-value=5.8e-09  Score=62.68  Aligned_cols=41  Identities=27%  Similarity=0.775  Sum_probs=29.0

Q ss_pred             cccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCC
Q 024566           24 CEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (265)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (265)
                      |+||++.+.++..    ++|||.||.+|+.+++...-    ...+.||.
T Consensus         1 CpiC~~~~~~Pv~----l~CGH~FC~~Cl~~~~~~~~----~~~~~CP~   41 (42)
T PF15227_consen    1 CPICLDLFKDPVS----LPCGHSFCRSCLERLWKEPS----GSGFSCPE   41 (42)
T ss_dssp             ETTTTSB-SSEEE-----SSSSEEEHHHHHHHHCCSS----SST---SS
T ss_pred             CCccchhhCCccc----cCCcCHHHHHHHHHHHHccC----CcCCCCcC
Confidence            8999999987764    99999999999999986432    22378987

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.61  E-value=5.3e-08  Score=77.28  Aligned_cols=71  Identities=24%  Similarity=0.596  Sum_probs=51.9

Q ss_pred             cccCCCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhC--------CCCCcccCCCCCCCCCCCccCc
Q 024566           13 LEKGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQD--------DNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        13 ~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~--------~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      ...-...+.++|+||++.+.++.    .+.|||.||..|+..|+...-..        ......+||.  |+..++...+
T Consensus        10 ~~~~~~~~~~~CpICld~~~dPV----vT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPv--CR~~Is~~~L   83 (193)
T PLN03208         10 TTLVDSGGDFDCNICLDQVRDPV----VTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPV--CKSDVSEATL   83 (193)
T ss_pred             ceeccCCCccCCccCCCcCCCcE----EcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCC--CCCcCChhcE
Confidence            33444556799999999886553    48899999999999997643110        0234579999  9999988777


Q ss_pred             cCCCC
Q 024566           85 EPVIP   89 (265)
Q Consensus        85 ~~~l~   89 (265)
                      ..+..
T Consensus        84 vPiyg   88 (193)
T PLN03208         84 VPIYG   88 (193)
T ss_pred             EEeec
Confidence            66654

>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=98.55  E-value=4.6e-08  Score=58.59  Aligned_cols=40  Identities=33%  Similarity=0.962  Sum_probs=33.4

Q ss_pred             cccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCC
Q 024566           24 CEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (265)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (265)
                      |+||++.+..+..   .++|+|.||.+|+.++++.      ...++||.
T Consensus         1 C~iC~~~~~~~~~---~~~C~H~fC~~C~~~~~~~------~~~~~CP~   40 (41)
T PF00097_consen    1 CPICLEPFEDPVI---LLPCGHSFCRDCLRKWLEN------SGSVKCPL   40 (41)
T ss_dssp             ETTTSSBCSSEEE---ETTTSEEEEHHHHHHHHHH------TSSSBTTT
T ss_pred             CCcCCccccCCCE---EecCCCcchHHHHHHHHHh------cCCccCCc
Confidence            8999999876652   5999999999999999997      24567987

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 ....

>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.54  E-value=2.3e-08  Score=66.04  Aligned_cols=42  Identities=38%  Similarity=1.022  Sum_probs=30.9

Q ss_pred             CCcccCCC--CCceeeecCCCce--eEee-cCCceeeccCccccCCC
Q 024566          179 MKWARCPA--CGHCVERKDGCSV--VMCR-CNTRFCYECGRKISSGC  220 (265)
Q Consensus       179 ~~~k~CP~--C~~~iek~~GCnh--m~C~-C~~~FC~~C~~~~~~g~  220 (265)
                      ...+.||+  |...|.+.+|.++  |+|. |++.|||.|+.+||.+-
T Consensus        16 ~~~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~H~~~   62 (64)
T PF01485_consen   16 PNIRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPWHEGV   62 (64)
T ss_dssp             --CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSESCTTS
T ss_pred             CCccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCcccCCCC
Confidence            45689988  9999999999999  9995 99999999999998653

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.

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

Probab=98.51  E-value=5.3e-08  Score=58.53  Aligned_cols=43  Identities=28%  Similarity=0.726  Sum_probs=24.3

Q ss_pred             cccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCC
Q 024566           24 CEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCP   71 (265)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP   71 (265)
                      |+||.+ +...++...+++|||.||++|+.+......    ...++||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~----~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSD----RNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-----S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCC----CCeeeCc
Confidence            899999 766555555689999999999999998543    3568887

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

Probab=98.46  E-value=3.7e-08  Score=60.01  Aligned_cols=41  Identities=29%  Similarity=0.754  Sum_probs=32.4

Q ss_pred             ccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCC
Q 024566           23 TCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (265)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (265)
                      +|+||++++.+.+..+ .++|+|.||.+|+..|++..        .+||.
T Consensus         2 ~C~IC~~~~~~~~~~~-~l~C~H~fh~~Ci~~~~~~~--------~~CP~   42 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVV-KLPCGHVFHRSCIKEWLKRN--------NSCPV   42 (44)
T ss_dssp             CETTTTCBHHTTSCEE-EETTSEEEEHHHHHHHHHHS--------SB-TT
T ss_pred             CCcCCChhhcCCCeEE-EccCCCeeCHHHHHHHHHhC--------CcCCc
Confidence            6999999997655443 57799999999999999752        28987

...

>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=98.46  E-value=9.3e-08  Score=56.60  Aligned_cols=38  Identities=32%  Similarity=0.959  Sum_probs=29.3

Q ss_pred             cccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCC
Q 024566           24 CEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (265)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (265)
                      |+||++...++..   .++|||.||.+|+.+|++.        ..+||.
T Consensus         1 C~iC~~~~~~~~~---~~~CGH~fC~~C~~~~~~~--------~~~CP~   38 (39)
T PF13923_consen    1 CPICLDELRDPVV---VTPCGHSFCKECIEKYLEK--------NPKCPV   38 (39)
T ss_dssp             ETTTTSB-SSEEE---ECTTSEEEEHHHHHHHHHC--------TSB-TT
T ss_pred             CCCCCCcccCcCE---ECCCCCchhHHHHHHHHHC--------cCCCcC
Confidence            8999998876432   5999999999999999873        257886

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.35  E-value=4.2e-07  Score=55.28  Aligned_cols=43  Identities=28%  Similarity=0.883  Sum_probs=33.7

Q ss_pred             ccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCC
Q 024566           23 TCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCK   76 (265)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   76 (265)
                      .|+||++.+.+... +.+++|||.||.+|+....        ...+.||.  |+
T Consensus         1 ~C~~C~~~~~~~~~-~~l~~CgH~~C~~C~~~~~--------~~~~~CP~--C~   43 (44)
T PF14634_consen    1 HCNICFEKYSEERR-PRLTSCGHIFCEKCLKKLK--------GKSVKCPI--CR   43 (44)
T ss_pred             CCcCcCccccCCCC-eEEcccCCHHHHHHHHhhc--------CCCCCCcC--CC
Confidence            48999999943333 3479999999999999877        24578998  76

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

Probab=98.31  E-value=4.8e-07  Score=70.10  Aligned_cols=57  Identities=21%  Similarity=0.651  Sum_probs=43.5

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (265)
                      ......|+||++.+.....  ....|||.||+.|++..+..        ..+||.  |...|+..++-.
T Consensus       128 ~~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~--------~~~CP~--C~kkIt~k~~~r  184 (187)
T KOG0320|consen  128 KEGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKN--------TNKCPT--CRKKITHKQFHR  184 (187)
T ss_pred             cccccCCCceecchhhccc--cccccchhHHHHHHHHHHHh--------CCCCCC--cccccchhhhee
Confidence            4556899999999864433  35899999999999987762        358999  887777665543

>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=98.20  E-value=1.6e-06  Score=52.42  Aligned_cols=44  Identities=32%  Similarity=0.843  Sum_probs=33.4

Q ss_pred             ccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCC
Q 024566           23 TCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHN   78 (265)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~   78 (265)
                      +|+||++.+....   ...+|+|.||.+|+..|++.       ...+||.  |+..
T Consensus         1 ~C~iC~~~~~~~~---~~~~C~H~~c~~C~~~~~~~-------~~~~Cp~--C~~~   44 (45)
T cd00162           1 ECPICLEEFREPV---VLLPCGHVFCRSCIDKWLKS-------GKNTCPL--CRTP   44 (45)
T ss_pred             CCCcCchhhhCce---EecCCCChhcHHHHHHHHHh-------CcCCCCC--CCCc
Confidence            5899999883322   24669999999999999874       2357998  8764

>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=98.14  E-value=1.3e-06  Score=54.63  Aligned_cols=46  Identities=30%  Similarity=0.761  Sum_probs=35.6

Q ss_pred             ccccccccccccccccccccCCCCCh-hHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           21 SFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      ...|.||++...+.    .+.+|||. ||.+|+.+++.        ...+||.  |+..+.
T Consensus         2 ~~~C~iC~~~~~~~----~~~pCgH~~~C~~C~~~~~~--------~~~~CP~--Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRDV----VLLPCGHLCFCEECAERLLK--------RKKKCPI--CRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSSE----EEETTCEEEEEHHHHHHHHH--------TTSBBTT--TTBB-S
T ss_pred             cCCCccCCccCCce----EEeCCCChHHHHHHhHHhcc--------cCCCCCc--CChhhc
Confidence            56899999986432    25899999 99999999998        2458999  998764

...

>PHA02926 zinc finger-like protein; Provisional

Probab=98.10  E-value=3.3e-06  Score=67.95  Aligned_cols=58  Identities=26%  Similarity=0.606  Sum_probs=42.5

Q ss_pred             CCcccccccccccccc-----cccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCC
Q 024566           18 GGSSFTCEICIEPMAA-----SKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~-----~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (265)
                      .++..+|+||+|....     ...|-.+.+|+|.||..|++.|....-.  ....-.||.  |+..+
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~--~~~~rsCPi--CR~~f  229 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRE--TGASDNCPI--CRTRF  229 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccc--cCcCCcCCC--Cccee
Confidence            4566899999997532     2234446789999999999999986532  233457999  99765

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

Probab=98.02  E-value=4e-06  Score=72.62  Aligned_cols=112  Identities=22%  Similarity=0.484  Sum_probs=71.4

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCChhHHHHH
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKW   96 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~   96 (265)
                      ...+...|+||++.+..+    .+++|+|.||..|+...+.        ..+.||.  |.. ...    .+...-.+...
T Consensus         9 ~~~~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~--------~~~~Cp~--cr~-~~~----~~~~n~~l~~~   69 (386)
T KOG2177|consen    9 VLQEELTCPICLEYFREP----VLLPCGHNFCRACLTRSWE--------GPLSCPV--CRP-PSR----NLRPNVLLANL   69 (386)
T ss_pred             hccccccChhhHHHhhcC----ccccccchHhHHHHHHhcC--------CCcCCcc--cCC-chh----ccCccHHHHHH
Confidence            346789999999999776    2699999999999999998        3489999  884 222    22222233333


Q ss_pred             HHHHHHHhhcC-C--CccccCCcCcccceeccccccCCcCeeeCCCcccccccccc-cccCCCCCChh
Q 024566           97 CDVLCEDYVLG-F--ERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCK-LKWHAGYRCEE  160 (265)
Q Consensus        97 ~~~~~~~~~~~-~--~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~-~~~H~~~~C~~  160 (265)
                      ........... .  ....|+.             ......+.|..|....|..|. ...|.++.-..
T Consensus        70 ~~~~~~~~~~~~~~~~~~~c~~-------------~~~~~~~~c~~~~~~~c~~c~~~~~h~~h~~~~  124 (386)
T KOG2177|consen   70 VERLRQLRLSRPLGSKEELCEK-------------HGEELKLFCEEDEKLLCVLCRESGEHRGHPVLP  124 (386)
T ss_pred             HHHHHhcCCcccccccchhhhh-------------cCCcceEEecccccccCCCCCCcccccCCcccc
Confidence            33222211110 0  0112331             111267899999999999998 67788775443

>PHA02929 N1R/p28-like protein; Provisional

Probab=97.95  E-value=6.3e-06  Score=68.29  Aligned_cols=52  Identities=29%  Similarity=0.670  Sum_probs=38.7

Q ss_pred             Ccccccccccccccccc----cccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           19 GSSFTCEICIEPMAASK----KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~----~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      .+..+|+||++.+.+..    .+..+.+|+|.||.+|+..|...        ...||.  |+..+.
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~--------~~tCPl--CR~~~~  227 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE--------KNTCPV--CRTPFI  227 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc--------CCCCCC--CCCEee
Confidence            45689999999865432    12235789999999999998752        237999  997654

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

Probab=97.95  E-value=7.5e-06  Score=66.37  Aligned_cols=61  Identities=28%  Similarity=0.704  Sum_probs=49.9

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIP   89 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~   89 (265)
                      +...++|-||+|...++.    +..|||.||=-||-+|+..+.+.     -.||.  |+..++.+.|-.|..
T Consensus        44 ~~~~FdCNICLd~akdPV----vTlCGHLFCWpClyqWl~~~~~~-----~~cPV--CK~~Vs~~~vvPlYG  104 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPV----VTLCGHLFCWPCLYQWLQTRPNS-----KECPV--CKAEVSIDTVVPLYG  104 (230)
T ss_pred             CCCceeeeeeccccCCCE----EeecccceehHHHHHHHhhcCCC-----eeCCc--cccccccceEEeeec
Confidence            577899999999887665    58999999999999999976543     36899  999998877655543

>smart00184 RING Ring finger

Probab=97.90  E-value=1.3e-05  Score=46.51  Aligned_cols=38  Identities=32%  Similarity=0.891  Sum_probs=28.4

Q ss_pred             cccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCC
Q 024566           24 CEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (265)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (265)
                      |+||++.....    ..++|+|.||.+|+..|+.   .    ...+||.
T Consensus         1 C~iC~~~~~~~----~~~~C~H~~c~~C~~~~~~---~----~~~~CP~   38 (39)
T smart00184        1 CPICLEELKDP----VVLPCGHTFCRSCIRKWLK---S----GNNTCPI   38 (39)
T ss_pred             CCcCccCCCCc----EEecCCChHHHHHHHHHHH---h----CcCCCCC
Confidence            78999884322    2588999999999999987   1    2346876

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)

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

Probab=97.88  E-value=6.5e-06  Score=73.84  Aligned_cols=61  Identities=30%  Similarity=0.673  Sum_probs=48.9

Q ss_pred             ccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCCh
Q 024566           21 SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPA   90 (265)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~   90 (265)
                      ...|+||+++..-+.    .+.|||.||-.|+-+||.....   ..+..||.  |...|.+.++..+.-.
T Consensus       186 ~~~CPICL~~~~~p~----~t~CGHiFC~~CiLqy~~~s~~---~~~~~CPi--C~s~I~~kdl~pv~~e  246 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPV----RTNCGHIFCGPCILQYWNYSAI---KGPCSCPI--CRSTITLKDLLPVFIE  246 (513)
T ss_pred             CCcCCcccCCCCccc----ccccCceeeHHHHHHHHhhhcc---cCCccCCc--hhhhccccceeeeeec
Confidence            789999999875433    4679999999999999998732   34678999  9999988777666543

>smart00504 Ubox Modified RING finger domain

Probab=97.82  E-value=2.4e-05  Score=51.31  Aligned_cols=50  Identities=16%  Similarity=0.172  Sum_probs=40.0

Q ss_pred             cccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCcc
Q 024566           22 FTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE   85 (265)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~   85 (265)
                      +.|+||.+.+.++.    .++|||.||++|+.+|+..        ...||.  |+..++.+++.
T Consensus         2 ~~Cpi~~~~~~~Pv----~~~~G~v~~~~~i~~~~~~--------~~~cP~--~~~~~~~~~l~   51 (63)
T smart00504        2 FLCPISLEVMKDPV----ILPSGQTYERRAIEKWLLS--------HGTDPV--TGQPLTHEDLI   51 (63)
T ss_pred             cCCcCCCCcCCCCE----ECCCCCEEeHHHHHHHHHH--------CCCCCC--CcCCCChhhce
Confidence            57999999987653    4799999999999999975        237998  88887665543

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

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

Probab=97.79  E-value=2.2e-05  Score=65.60  Aligned_cols=52  Identities=27%  Similarity=0.749  Sum_probs=42.2

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      .....|.+|++...++.    .++|||.||-+|+..|...+-        .||.  |+..+.+..+
T Consensus       237 ~a~~kC~LCLe~~~~pS----aTpCGHiFCWsCI~~w~~ek~--------eCPl--CR~~~~pskv  288 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNPS----ATPCGHIFCWSCILEWCSEKA--------ECPL--CREKFQPSKV  288 (293)
T ss_pred             CCCCceEEEecCCCCCC----cCcCcchHHHHHHHHHHcccc--------CCCc--ccccCCCcce
Confidence            34578999999886554    599999999999999997432        3999  9998887654

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

Probab=97.73  E-value=2e-05  Score=66.17  Aligned_cols=55  Identities=20%  Similarity=0.639  Sum_probs=45.2

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      +.....+|.||++++...+.+ ..++|.|.|...|+.+|+.       .+..+||.  |+..+++
T Consensus       319 ea~~GveCaICms~fiK~d~~-~vlPC~H~FH~~Cv~kW~~-------~y~~~CPv--Crt~iPP  373 (374)
T COG5540         319 EADKGVECAICMSNFIKNDRL-RVLPCDHRFHVGCVDKWLL-------GYSNKCPV--CRTAIPP  373 (374)
T ss_pred             hcCCCceEEEEhhhhcccceE-EEeccCceechhHHHHHHh-------hhcccCCc--cCCCCCC
Confidence            345558999999999766654 4799999999999999996       35678999  9988875

>TIGR00599 rad18 DNA repair protein rad18

Probab=97.68  E-value=4.7e-05  Score=67.71  Aligned_cols=67  Identities=21%  Similarity=0.503  Sum_probs=48.5

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCcc-CCCChhHHHHH
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE-PVIPASLFSKW   96 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~-~~l~~~~~~~~   96 (265)
                      -...+.|+||.+.+..+.    .++|+|.||..|+..|+..        ...||.  |+..+....+. ..+-.++++.|
T Consensus        23 Le~~l~C~IC~d~~~~Pv----itpCgH~FCs~CI~~~l~~--------~~~CP~--Cr~~~~~~~Lr~N~~L~~iVe~~   88 (397)
T TIGR00599        23 LDTSLRCHICKDFFDVPV----LTSCSHTFCSLCIRRCLSN--------QPKCPL--CRAEDQESKLRSNWLVSEIVESF   88 (397)
T ss_pred             cccccCCCcCchhhhCcc----CCCCCCchhHHHHHHHHhC--------CCCCCC--CCCccccccCccchHHHHHHHHH
Confidence            355789999999886553    4899999999999998863        137998  99887665432 22233566666


Q ss_pred             HH
Q 024566           97 CD   98 (265)
Q Consensus        97 ~~   98 (265)
                      ..
T Consensus        89 ~~   90 (397)
T TIGR00599        89 KN   90 (397)
T ss_pred             HH
Confidence            54

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

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

Probab=97.65  E-value=3.5e-05  Score=66.93  Aligned_cols=49  Identities=31%  Similarity=0.743  Sum_probs=41.3

Q ss_pred             cccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           22 FTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      .+|.||+|++...+.++ .++|+|.|...|+..|+...       .-.||.  |+..+.
T Consensus       230 ~~CaIClEdY~~GdklR-iLPC~H~FH~~CIDpWL~~~-------r~~CPv--CK~di~  278 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLR-ILPCSHKFHVNCIDPWLTQT-------RTFCPV--CKRDIR  278 (348)
T ss_pred             ceEEEeecccccCCeee-EecCCCchhhccchhhHhhc-------CccCCC--CCCcCC
Confidence            79999999999887765 69999999999999999854       235999  987543

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.50  E-value=0.00023  Score=60.90  Aligned_cols=55  Identities=20%  Similarity=0.495  Sum_probs=38.8

Q ss_pred             ccccccccccccccc--ccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccC
Q 024566           22 FTCEICIEPMAASKK--FKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (265)
Q Consensus        22 ~~C~IC~~~~~~~~~--~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (265)
                      ..|++|..+......  +. +..|||.||.+|+...+.       ..+..||.  |+..+....++.
T Consensus         4 ~~CP~Ck~~~y~np~~kl~-i~~CGH~~C~sCv~~l~~-------~~~~~CP~--C~~~lrk~~fr~   60 (309)
T TIGR00570         4 QGCPRCKTTKYRNPSLKLM-VNVCGHTLCESCVDLLFV-------RGSGSCPE--CDTPLRKNNFRV   60 (309)
T ss_pred             CCCCcCCCCCccCcccccc-cCCCCCcccHHHHHHHhc-------CCCCCCCC--CCCccchhhccc
Confidence            579999996432222  22 237999999999999874       12358998  998887765544

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).

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

Probab=97.44  E-value=7.5e-05  Score=63.66  Aligned_cols=66  Identities=23%  Similarity=0.502  Sum_probs=50.4

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccC-CCChhHHHHH
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP-VIPASLFSKW   96 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~-~l~~~~~~~~   96 (265)
                      -...+.|.||++.+..+.    +.+|+|.||.-|++.|+.        +...||.  |...+....++. .+-.++++.|
T Consensus        20 lD~lLRC~IC~eyf~ip~----itpCsHtfCSlCIR~~L~--------~~p~CP~--C~~~~~Es~Lr~n~il~Eiv~S~   85 (442)
T KOG0287|consen   20 LDDLLRCGICFEYFNIPM----ITPCSHTFCSLCIRKFLS--------YKPQCPT--CCVTVTESDLRNNRILDEIVKSL   85 (442)
T ss_pred             hHHHHHHhHHHHHhcCce----eccccchHHHHHHHHHhc--------cCCCCCc--eecccchhhhhhhhHHHHHHHHH
Confidence            456789999999996443    488999999999999996        4568999  998888877654 2233566655


Q ss_pred             H
Q 024566           97 C   97 (265)
Q Consensus        97 ~   97 (265)
                      .
T Consensus        86 ~   86 (442)
T KOG0287|consen   86 N   86 (442)
T ss_pred             H
Confidence            4

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

Probab=97.41  E-value=0.00011  Score=46.99  Aligned_cols=52  Identities=31%  Similarity=0.707  Sum_probs=34.6

Q ss_pred             CCCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCC
Q 024566           16 GGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCK   76 (265)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   76 (265)
                      .+....+.|+|-...+.++..   ...|+|.|-++-+..|+      ++...++||..||.
T Consensus         6 ~~~~~~~~CPiT~~~~~~PV~---s~~C~H~fek~aI~~~i------~~~~~~~CPv~GC~   57 (57)
T PF11789_consen    6 EGGTISLKCPITLQPFEDPVK---SKKCGHTFEKEAILQYI------QRNGSKRCPVAGCN   57 (57)
T ss_dssp             -SSB--SB-TTTSSB-SSEEE---ESSS--EEEHHHHHHHC------TTTS-EE-SCCC-S
T ss_pred             eccEeccCCCCcCChhhCCcC---cCCCCCeecHHHHHHHH------HhcCCCCCCCCCCC
Confidence            345667899999999987764   47899999999999999      13567899999985

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

Probab=97.39  E-value=0.00016  Score=65.08  Aligned_cols=72  Identities=22%  Similarity=0.588  Sum_probs=53.0

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCChhHHHHH
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKW   96 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~   96 (265)
                      ++....+|.+|-++-.+..    ...|.|.||+-|++.|+.....+   ..+.||.  |...|+.+.-+..+..-.++.|
T Consensus       532 enk~~~~C~lc~d~aed~i----~s~ChH~FCrlCi~eyv~~f~~~---~nvtCP~--C~i~LsiDlse~alek~~l~~F  602 (791)
T KOG1002|consen  532 ENKGEVECGLCHDPAEDYI----ESSCHHKFCRLCIKEYVESFMEN---NNVTCPV--CHIGLSIDLSEPALEKTDLKGF  602 (791)
T ss_pred             cccCceeecccCChhhhhH----hhhhhHHHHHHHHHHHHHhhhcc---cCCCCcc--ccccccccccchhhhhcchhhh
Confidence            4577889999988764332    48899999999999999987764   3389999  9988877755544443334444


Q ss_pred             H
Q 024566           97 C   97 (265)
Q Consensus        97 ~   97 (265)
                      .
T Consensus       603 k  603 (791)
T KOG1002|consen  603 K  603 (791)
T ss_pred             h
Confidence            3

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

Probab=97.01  E-value=0.00078  Score=55.83  Aligned_cols=52  Identities=25%  Similarity=0.576  Sum_probs=39.2

Q ss_pred             ccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566           21 SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      ...|.||++....+.    .++|||.||-.|+-..++.+      ..-.||.  |++...+..+
T Consensus       215 d~kC~lC~e~~~~ps----~t~CgHlFC~~Cl~~~~t~~------k~~~Cpl--CRak~~pk~v  266 (271)
T COG5574         215 DYKCFLCLEEPEVPS----CTPCGHLFCLSCLLISWTKK------KYEFCPL--CRAKVYPKKV  266 (271)
T ss_pred             ccceeeeecccCCcc----cccccchhhHHHHHHHHHhh------ccccCch--hhhhccchhh
Confidence            566999999875443    59999999999999864432      2236999  9988777654

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

Probab=96.97  E-value=0.00047  Score=65.02  Aligned_cols=56  Identities=18%  Similarity=0.585  Sum_probs=44.1

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCC
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPV   87 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~   87 (265)
                      .....|++|.+-..+  .  ++..|+|.||.+|++..+.+.-.       +||.  |+..+...+|..+
T Consensus       641 K~~LkCs~Cn~R~Kd--~--vI~kC~H~FC~~Cvq~r~etRqR-------KCP~--Cn~aFganDv~~I  696 (698)
T KOG0978|consen  641 KELLKCSVCNTRWKD--A--VITKCGHVFCEECVQTRYETRQR-------KCPK--CNAAFGANDVHRI  696 (698)
T ss_pred             HhceeCCCccCchhh--H--HHHhcchHHHHHHHHHHHHHhcC-------CCCC--CCCCCCccccccc
Confidence            457899999954432  2  25889999999999999986533       7999  9999998887654

>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=96.97  E-value=0.00041  Score=46.90  Aligned_cols=46  Identities=28%  Similarity=0.632  Sum_probs=31.4

Q ss_pred             ccccccccccccccc---------cccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCC
Q 024566           21 SFTCEICIEPMAASK---------KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCK   76 (265)
Q Consensus        21 ~~~C~IC~~~~~~~~---------~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   76 (265)
                      ...|.||++++.++.         ..+....|+|.|...||.+|++.+        -.||.  |+
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~--------~~CP~--CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQN--------NTCPL--CR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTS--------SB-TT--SS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcC--------CcCCC--CC
Confidence            445999999983221         122345799999999999999521        28998  64

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 ....

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

Probab=96.95  E-value=0.00052  Score=60.55  Aligned_cols=82  Identities=17%  Similarity=0.425  Sum_probs=48.0

Q ss_pred             cCeeeCCCcccccccccccccCCCCCChhHHhchhhchHHHHHHHhcCCcccCCCCCceeeecCCCce-eEe-ecCCcee
Q 024566          132 VKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSV-VMC-RCNTRFC  209 (265)
Q Consensus       132 ~~~~~C~~C~~~~C~~C~~~~H~~~~C~~~~~~~~~~d~~~~~~~~~~~~k~CP~C~~~iek~~GCnh-m~C-~C~~~FC  209 (265)
                      ...+.|..|...+|.-|+..-|++..=-.--++...++-.+.........-+|.       -.+|=|| |+| .|+.-.|
T Consensus       174 ~a~v~ceqcdv~yc~pc~~~~hp~rgplakh~l~~~~~grvs~~~s~r~~~~ct-------~h~~e~~smyc~~ck~pvc  246 (699)
T KOG4367|consen  174 EATVMCEQCDVFYCDPCRLRCHPPRGPLAKHRLVPPAQGRVSRRLSPRKVSTCT-------DHELENHSMYCVQCKMPVC  246 (699)
T ss_pred             hhhhhHhhCceEEechHHhccCCCCCchhhcccCCcccCceeeccchhhhhhcc-------CCCCCCceEEEEecCChHH
Confidence            467899999999999999999986421000001111111100000111112222       2355566 999 7999999


Q ss_pred             eccCccccCCC
Q 024566          210 YECGRKISSGC  220 (265)
Q Consensus       210 ~~C~~~~~~g~  220 (265)
                      |.|+....|..
T Consensus       247 ~~clee~khs~  257 (699)
T KOG4367|consen  247 YQCLEEGKHSS  257 (699)
T ss_pred             HHHHHhhcccc
Confidence            99999976653

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

Probab=96.84  E-value=0.00041  Score=46.49  Aligned_cols=59  Identities=15%  Similarity=0.359  Sum_probs=28.0

Q ss_pred             ccccccccccccccccc--ccc--CCCCChhHHHHHHHHHHHHhhCCCC-Cc--ccCCCCCCCCCCCc
Q 024566           21 SFTCEICIEPMAASKKF--KNR--NLCTHPFCQDCIARYIQVKVQDDNT-AK--IDCPGLDCKHNLDP   81 (265)
Q Consensus        21 ~~~C~IC~~~~~~~~~~--~~~--~~C~H~fC~~Cl~~~~~~~i~~~~~-~~--i~CP~~~C~~~l~~   81 (265)
                      ..+|.||+....+....  ...  ..|+..|...||..|+...-+.... .+  -.||.  |+.+|+.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~--C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPY--CSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TT--T-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcC--CCCeeeE
Confidence            56899999876422111  112  3689999999999999887664322 22  26999  9987754

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

Probab=96.79  E-value=0.0003  Score=45.43  Aligned_cols=51  Identities=25%  Similarity=0.574  Sum_probs=24.3

Q ss_pred             cccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCcc
Q 024566           20 SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE   85 (265)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~   85 (265)
                      +...|++|.+.+..+..   +..|.|.||..|++..+.          -.||.  |..+--..+++
T Consensus         6 ~lLrCs~C~~~l~~pv~---l~~CeH~fCs~Ci~~~~~----------~~CPv--C~~Paw~qD~~   56 (65)
T PF14835_consen    6 ELLRCSICFDILKEPVC---LGGCEHIFCSSCIRDCIG----------SECPV--CHTPAWIQDIQ   56 (65)
T ss_dssp             HTTS-SSS-S--SS-B------SSS--B-TTTGGGGTT----------TB-SS--S--B-S-SS--
T ss_pred             HhcCCcHHHHHhcCCce---eccCccHHHHHHhHHhcC----------CCCCC--cCChHHHHHHH
Confidence            45789999999876654   478999999999976332          24999  98765444443

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

Probab=96.42  E-value=0.0018  Score=54.31  Aligned_cols=68  Identities=22%  Similarity=0.415  Sum_probs=47.5

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccC-CCChhHHHH
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP-VIPASLFSK   95 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~-~l~~~~~~~   95 (265)
                      +-.....|.||-+.+..+.    ..+|||.||.-|++.|+.        ....||.  |........++. .+..++.+.
T Consensus        21 ~LDs~lrC~IC~~~i~ip~----~TtCgHtFCslCIR~hL~--------~qp~CP~--Cr~~~~esrlr~~s~~~ei~es   86 (391)
T COG5432          21 GLDSMLRCRICDCRISIPC----ETTCGHTFCSLCIRRHLG--------TQPFCPV--CREDPCESRLRGSSGSREINES   86 (391)
T ss_pred             cchhHHHhhhhhheeecce----ecccccchhHHHHHHHhc--------CCCCCcc--ccccHHhhhcccchhHHHHHHh
Confidence            3466789999999885443    489999999999999985        3457998  886654443332 334455555


Q ss_pred             HHH
Q 024566           96 WCD   98 (265)
Q Consensus        96 ~~~   98 (265)
                      |..
T Consensus        87 ~~~   89 (391)
T COG5432          87 HAR   89 (391)
T ss_pred             hhh
Confidence            543

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

Probab=96.40  E-value=0.005  Score=54.24  Aligned_cols=47  Identities=26%  Similarity=0.638  Sum_probs=41.2

Q ss_pred             CCcccCCC--CCceeeecCCCceeEe-ecCCceeeccCccccCCCCCCCc
Q 024566          179 MKWARCPA--CGHCVERKDGCSVVMC-RCNTRFCYECGRKISSGCSCQTI  225 (265)
Q Consensus       179 ~~~k~CP~--C~~~iek~~GCnhm~C-~C~~~FC~~C~~~~~~g~~~~~~  225 (265)
                      .++.-||+  |..++..+.|..-..| +|.+.||..|...||.+.++...
T Consensus       271 sdv~yCPr~~Cq~p~~~d~~~~l~~CskCnFaFCtlCk~t~HG~s~Ck~~  320 (445)
T KOG1814|consen  271 SDVVYCPRACCQLPVKQDPGRALAICSKCNFAFCTLCKLTWHGVSPCKVK  320 (445)
T ss_pred             cccccCChhhccCccccCchhhhhhhccCccHHHHHHHHhhcCCCcccCc
Confidence            35699998  9999988899999999 79999999999999987666554

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

Probab=95.73  E-value=0.0085  Score=52.09  Aligned_cols=54  Identities=24%  Similarity=0.540  Sum_probs=39.4

Q ss_pred             CCcccccccccccccccc---------cccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           18 GGSSFTCEICIEPMAASK---------KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~---------~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      ......|.||+|+.-.+.         .-+..++|||.+...|++.|.+.+        =.||.  |+.++-.
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERq--------QTCPI--Cr~p~if  346 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQ--------QTCPI--CRRPVIF  346 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhc--------cCCCc--ccCcccc
Confidence            455678999999832222         112358999999999999999842        27999  9987533

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

Probab=95.68  E-value=0.0092  Score=51.19  Aligned_cols=53  Identities=25%  Similarity=0.640  Sum_probs=42.5

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (265)
                      -...++|.+|--.+.+..+   +..|-|.||+.||-.|++.        ...||.  |+..+....
T Consensus        12 ~n~~itC~LC~GYliDATT---I~eCLHTFCkSCivk~l~~--------~~~CP~--C~i~ih~t~   64 (331)
T KOG2660|consen   12 LNPHITCRLCGGYLIDATT---ITECLHTFCKSCIVKYLEE--------SKYCPT--CDIVIHKTH   64 (331)
T ss_pred             cccceehhhccceeecchh---HHHHHHHHHHHHHHHHHHH--------hccCCc--cceeccCcc
Confidence            3567899999998876654   5889999999999999996        237999  987766553

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

Probab=95.66  E-value=0.0057  Score=41.31  Aligned_cols=52  Identities=19%  Similarity=0.214  Sum_probs=37.5

Q ss_pred             cccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566           20 SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      +.+.|+|+.+-+.++..    +++||+|.++++.+|+..       ....||.  ++..++..++
T Consensus         3 ~~f~CpIt~~lM~dPVi----~~~G~tyer~~I~~~l~~-------~~~~~P~--t~~~l~~~~l   54 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVI----LPSGHTYERSAIERWLEQ-------NGGTDPF--TRQPLSESDL   54 (73)
T ss_dssp             GGGB-TTTSSB-SSEEE----ETTSEEEEHHHHHHHHCT-------TSSB-TT--T-SB-SGGGS
T ss_pred             cccCCcCcCcHhhCcee----CCcCCEEcHHHHHHHHHc-------CCCCCCC--CCCcCCcccc
Confidence            46889999999987763    789999999999999974       3457898  7877776543

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 ....

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

Probab=95.58  E-value=0.012  Score=35.97  Aligned_cols=47  Identities=23%  Similarity=0.613  Sum_probs=21.7

Q ss_pred             cccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCC
Q 024566           24 CEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (265)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (265)
                      |++|.++.+....-+.--+|++.+|+.|+.+..+    +   ..=+||.  |+.+.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~----~---~~g~CPg--Cr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILE----N---EGGRCPG--CREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTT----S---S-SB-TT--T--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHh----c---cCCCCCC--CCCCC
Confidence            7899998854433222356899999999887665    1   1237998  98754

>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]

Probab=95.58  E-value=0.02  Score=48.79  Aligned_cols=93  Identities=19%  Similarity=0.516  Sum_probs=56.4

Q ss_pred             CCCChhHHHHHHHHHHHHhhCC--CCCcccCCCCCCCCCCCccCccCCCChhHHHHHHHHHHHHhhcCCCccccCCcCcc
Q 024566           42 LCTHPFCQDCIARYIQVKVQDD--NTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCM  119 (265)
Q Consensus        42 ~C~H~fC~~Cl~~~~~~~i~~~--~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~Cp~~~C~  119 (265)
                      .|+-.||++|++.|-+-.-..+  ....-     .|.-.+++.       ....++|+....+ .| ....+.||  +|.
T Consensus       341 gCgf~FCR~C~e~yh~geC~~~~~as~t~-----tc~y~vde~-------~a~~arwd~as~~-TI-k~tTkpCP--kCh  404 (446)
T KOG0006|consen  341 GCGFAFCRECKEAYHEGECSAVFEASGTT-----TCAYRVDER-------AAEQARWDAASKE-TI-KKTTKPCP--KCH  404 (446)
T ss_pred             CchhHhHHHHHhhhccccceeeecccccc-----ceeeecChh-------hhhhhhhhhhhhh-hh-hhccCCCC--Ccc
Confidence            4899999999998865221110  00001     122222111       1345677765432 22 24557788  587


Q ss_pred             cceeccccccCCcCeeeCCC--cccccccccccccCC
Q 024566          120 ALVVNECERSGKVKKTQCPN--CKQWFCFQCKLKWHA  154 (265)
Q Consensus       120 ~~~~~~~~~~~~~~~~~C~~--C~~~~C~~C~~~~H~  154 (265)
                      .....+..    ...+.|+.  |+..+|+.|+-+|..
T Consensus       405 vptErnGG----CmHm~Ct~~~Cg~eWCw~C~tEW~r  437 (446)
T KOG0006|consen  405 VPTERNGG----CMHMKCTQPQCGLEWCWNCGTEWNR  437 (446)
T ss_pred             CccccCCc----eEEeecCCCCCCceeEeccCChhhh
Confidence            76655444    78999976  999999999998854

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

Probab=95.44  E-value=0.012  Score=49.77  Aligned_cols=54  Identities=24%  Similarity=0.461  Sum_probs=41.0

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      .....+|+||+.+-.-+.    .+.|+|.||.-|++.-+..       ....|+.  |..+|+...+
T Consensus         4 ~~~~~eC~IC~nt~n~Pv----~l~C~HkFCyiCiKGsy~n-------dk~~Cav--CR~pids~i~   57 (324)
T KOG0824|consen    4 RTKKKECLICYNTGNCPV----NLYCFHKFCYICIKGSYKN-------DKKTCAV--CRFPIDSTID   57 (324)
T ss_pred             cccCCcceeeeccCCcCc----cccccchhhhhhhcchhhc-------CCCCCce--ecCCCCcchh
Confidence            345679999999875443    5999999999999986652       2345999  9988876543

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

Probab=95.39  E-value=0.016  Score=50.85  Aligned_cols=95  Identities=20%  Similarity=0.419  Sum_probs=55.9

Q ss_pred             CCcccccccccccccccc----cccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc---cCc---cCC
Q 024566           18 GGSSFTCEICIEPMAASK----KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP---FAC---EPV   87 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~----~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~---~~i---~~~   87 (265)
                      ..+..+|.||++......    .|-.+.+|.|.||..|++.|-...-. +....-.||.  |+.....   ..+   ..-
T Consensus       158 ~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~-~~~~sksCP~--CRv~s~~v~pS~~Wv~t~~  234 (344)
T KOG1039|consen  158 KSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQF-ESKTSKSCPF--CRVPSSFVNPSSFWVETKE  234 (344)
T ss_pred             ccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhcc-ccccccCCCc--ccCccccccccceeeeecc
Confidence            466889999999875432    13334679999999999998754332 2344568999  8854322   111   111


Q ss_pred             CChhHHHHHHHHHHHHhh--cCCCccccCC
Q 024566           88 IPASLFSKWCDVLCEDYV--LGFERSYCPN  115 (265)
Q Consensus        88 l~~~~~~~~~~~~~~~~~--~~~~~~~Cp~  115 (265)
                      -+..+.+.|.+......-  -....-.||.
T Consensus       235 ~k~~li~e~~~~~s~~~c~yf~~~~g~cPf  264 (344)
T KOG1039|consen  235 EKQKLIEEYEAEMSAKDCKYFSQGLGSCPF  264 (344)
T ss_pred             cccccHHHHHHHhhccchhhhcCCCCCCCC
Confidence            222355666554332211  1244567886

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

Probab=94.70  E-value=0.034  Score=46.53  Aligned_cols=52  Identities=33%  Similarity=0.662  Sum_probs=39.0

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      .....+|++|-+.-..+-.   ...|+|.||--|+..-...      ...+.||.  |++...
T Consensus       236 ~t~~~~C~~Cg~~PtiP~~---~~~C~HiyCY~Ci~ts~~~------~asf~Cp~--Cg~~~~  287 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPTIPHV---IGKCGHIYCYYCIATSRLW------DASFTCPL--CGENVE  287 (298)
T ss_pred             ccCCceeeccCCCCCCCee---eccccceeehhhhhhhhcc------hhhcccCc--cCCCCc
Confidence            4567899999986544432   4679999999999887653      24579999  997654

>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines

Probab=94.70  E-value=0.013  Score=30.95  Aligned_cols=23  Identities=35%  Similarity=0.941  Sum_probs=15.0

Q ss_pred             ccCCCCCceeeecCCCceeEe-ecCCce
Q 024566          182 ARCPACGHCVERKDGCSVVMC-RCNTRF  208 (265)
Q Consensus       182 k~CP~C~~~iek~~GCnhm~C-~C~~~F  208 (265)
                      |.||.|+..|-.+    -..| .||+.|
T Consensus         1 K~CP~C~~~V~~~----~~~Cp~CG~~F   24 (26)
T PF10571_consen    1 KTCPECGAEVPES----AKFCPHCGYDF   24 (26)
T ss_pred             CcCCCCcCCchhh----cCcCCCCCCCC
Confidence            5788888888432    2456 477665

Several members are annotated as putative helicases.

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

Probab=94.67  E-value=0.05  Score=47.10  Aligned_cols=50  Identities=28%  Similarity=0.687  Sum_probs=38.6

Q ss_pred             cccccccccccccc--ccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCC
Q 024566           21 SFTCEICIEPMAAS--KKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (265)
Q Consensus        21 ~~~C~IC~~~~~~~--~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (265)
                      ...|.||-+++...  ...+..+.|||.+|..|+...+.       ...+.||.  |+...
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~-------~~~i~cpf--cR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLG-------NSRILCPF--CRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhc-------CceeeccC--CCCcc
Confidence            56899999999754  33445688999999999998875       34567788  98774

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=94.62  E-value=0.07  Score=46.00  Aligned_cols=65  Identities=25%  Similarity=0.498  Sum_probs=45.1

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCC-CChhH
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPV-IPASL   92 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~-l~~~~   92 (265)
                      ++...|++|+|+.+-.+.-+.-.+||-.+|+-||... ...++.      +||.  |+...+++.++-. |+++.
T Consensus        12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~i-rq~lng------rcpa--crr~y~denv~~~~~s~ee   77 (480)
T COG5175          12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNI-RQNLNG------RCPA--CRRKYDDENVRYVTLSPEE   77 (480)
T ss_pred             cccccCcccccccccccCCcccCCcccHHHHHHHHHH-HhhccC------CChH--hhhhccccceeEEecCHHH
Confidence            3444599999988654432235778999999999764 434543      7999  9999888876543 44443

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

Probab=94.54  E-value=0.052  Score=33.51  Aligned_cols=42  Identities=21%  Similarity=0.498  Sum_probs=29.6

Q ss_pred             ccccccccccccccccccCCCC-----ChhHHHHHHHHHHHHhhCCCCCcccCCC
Q 024566           23 TCEICIEPMAASKKFKNRNLCT-----HPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (265)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~-----H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (265)
                      .|-||++...+.+.+  ..+|.     |.+..+||.+|+...-+      .+||.
T Consensus         1 ~CrIC~~~~~~~~~l--~~PC~C~G~~~~vH~~Cl~~W~~~~~~------~~C~i   47 (49)
T smart00744        1 ICRICHDEGDEGDPL--VSPCRCKGSLKYVHQECLERWINESGN------KTCEI   47 (49)
T ss_pred             CccCCCCCCCCCCee--EeccccCCchhHHHHHHHHHHHHHcCC------CcCCC
Confidence            488999833333333  46774     88999999999986532      37887

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

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

Probab=94.26  E-value=0.028  Score=44.67  Aligned_cols=36  Identities=31%  Similarity=0.669  Sum_probs=28.8

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHH
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYI   56 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~   56 (265)
                      .+.-.+.|.||-.++..+.    ...|||.||..|...-+
T Consensus       192 ~e~IPF~C~iCKkdy~spv----vt~CGH~FC~~Cai~~y  227 (259)
T COG5152         192 GEKIPFLCGICKKDYESPV----VTECGHSFCSLCAIRKY  227 (259)
T ss_pred             CCCCceeehhchhhccchh----hhhcchhHHHHHHHHHh
Confidence            3455689999999997654    48999999999976544

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

Probab=94.23  E-value=0.032  Score=52.51  Aligned_cols=49  Identities=27%  Similarity=0.655  Sum_probs=37.5

Q ss_pred             Cccccccccccccccccc-ccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCC
Q 024566           19 GSSFTCEICIEPMAASKK-FKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKH   77 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~-~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~   77 (265)
                      .....|.||.|....... -...++|+|.|+..|++.|++.+        -.||.  |+.
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~--------qtCP~--CR~  338 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQ--------QTCPT--CRT  338 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHh--------CcCCc--chh
Confidence            446899999999865311 02358999999999999999962        26988  876

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

Probab=93.74  E-value=0.007  Score=54.27  Aligned_cols=42  Identities=21%  Similarity=0.641  Sum_probs=34.2

Q ss_pred             CCccccCCcCcccceeccccccCCcCeeeCCCcccccccccccccCCCC
Q 024566          108 FERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGY  156 (265)
Q Consensus       108 ~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~~  156 (265)
                      ...+.||  .|...+....+    -+.+.|. |++.||+.|..+|..+.
T Consensus       304 ~~wr~Cp--kC~~~ie~~~G----Cnhm~Cr-C~~~fcy~C~~~~~~~~  345 (384)
T KOG1812|consen  304 KRWRQCP--KCKFMIELSEG----CNHMTCR-CGHQFCYMCGGDWKTHN  345 (384)
T ss_pred             HhcCcCc--ccceeeeecCC----cceEEee-ccccchhhcCcchhhCC
Confidence            5668899  59988855444    7999998 99999999999986544

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

Probab=93.56  E-value=0.059  Score=54.73  Aligned_cols=71  Identities=18%  Similarity=0.390  Sum_probs=54.3

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCC--CCcccCCCCCCCCCCCccCccCCCCh
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDN--TAKIDCPGLDCKHNLDPFACEPVIPA   90 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~--~~~i~CP~~~C~~~l~~~~i~~~l~~   90 (265)
                      .++....|.|||.+.-..... ..+.|+|.|...|.+..++..-....  +.-|.||.  |+.+|....++.+|++
T Consensus      3482 kQD~DDmCmICFTE~L~AAP~-IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPi--C~n~InH~~LkDLldP 3554 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPA-IQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPI--CKNKINHIVLKDLLDP 3554 (3738)
T ss_pred             hcccCceEEEEehhhhCCCcc-eecCCccchhHHHHHHHHHhcccCCeeEEeeeeccc--ccchhhhHHHHHHHHH
Confidence            445667899999876433222 25899999999999999987766432  23488999  9999999888888884

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

Probab=93.55  E-value=0.088  Score=36.33  Aligned_cols=54  Identities=24%  Similarity=0.578  Sum_probs=36.9

Q ss_pred             cccccccccccccc--------ccc-cccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           21 SFTCEICIEPMAAS--------KKF-KNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        21 ~~~C~IC~~~~~~~--------~~~-~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      ...|+||...++..        +.- +..-.|+|.|...|+.+|++++-.     .-.||.  |++.+..
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~-----~~~CPm--CR~~w~~   83 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSS-----KGQCPM--CRQPWKF   83 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccC-----CCCCCC--cCCeeee
Confidence            56788888777521        110 012469999999999999997521     238999  9987643

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

Probab=93.48  E-value=0.061  Score=48.63  Aligned_cols=54  Identities=26%  Similarity=0.651  Sum_probs=40.0

Q ss_pred             Cccccccccccccccccc-------------ccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           19 GSSFTCEICIEPMAASKK-------------FKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~-------------~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      .....|.||+.+.+-...             -+.+.+|.|.|.+.|+.+|...       ..+.||.  |+.+|++
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~-------ykl~CPv--CR~pLPp  635 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT-------YKLICPV--CRCPLPP  635 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhh-------hcccCCc--cCCCCCC
Confidence            456799999988752111             0125699999999999999972       4578999  9888764

>PF13240 zinc_ribbon_2: zinc-ribbon domain

Probab=93.30  E-value=0.039  Score=28.24  Aligned_cols=11  Identities=45%  Similarity=1.141  Sum_probs=8.0

Q ss_pred             cCCCCCceeee
Q 024566          183 RCPACGHCVER  193 (265)
Q Consensus       183 ~CP~C~~~iek  193 (265)
                      .||+|+..|+.
T Consensus         1 ~Cp~CG~~~~~   11 (23)
T PF13240_consen    1 YCPNCGAEIED   11 (23)
T ss_pred             CCcccCCCCCC
Confidence            47888887764

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

Probab=93.28  E-value=0.073  Score=47.74  Aligned_cols=50  Identities=28%  Similarity=0.749  Sum_probs=38.6

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      ....++|.||+..+.++.    .++|||.||..|+.+-..        ....||.  |+..+..
T Consensus        81 ~~sef~c~vc~~~l~~pv----~tpcghs~c~~Cl~r~ld--------~~~~cp~--Cr~~l~e  130 (398)
T KOG4159|consen   81 IRSEFECCVCSRALYPPV----VTPCGHSFCLECLDRSLD--------QETECPL--CRDELVE  130 (398)
T ss_pred             ccchhhhhhhHhhcCCCc----cccccccccHHHHHHHhc--------cCCCCcc--ccccccc
Confidence            367899999999987665    379999999999777222        3357888  9877654

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.05  E-value=0.068  Score=44.06  Aligned_cols=57  Identities=11%  Similarity=0.248  Sum_probs=45.3

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCcc
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE   85 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~   85 (265)
                      ...+.|+||-+.+.+......+.+|||.||.+|+++++.        ....||.  |+.++.+.+|-
T Consensus       219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir--------~D~v~pv--~d~plkdrdiI  275 (303)
T KOG3039|consen  219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIR--------KDMVDPV--TDKPLKDRDII  275 (303)
T ss_pred             ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhcc--------ccccccC--CCCcCcccceE
Confidence            478899999999977666666788999999999999886        2345788  88888776653

>PF13248 zf-ribbon_3: zinc-ribbon domain

Probab=92.99  E-value=0.047  Score=28.82  Aligned_cols=23  Identities=39%  Similarity=1.109  Sum_probs=14.7

Q ss_pred             ccCCCCCceeeecCCCceeEeecCCceeeccCcc
Q 024566          182 ARCPACGHCVERKDGCSVVMCRCNTRFCYECGRK  215 (265)
Q Consensus       182 k~CP~C~~~iek~~GCnhm~C~C~~~FC~~C~~~  215 (265)
                      +.||+|+..|..           +..||-.||.+
T Consensus         3 ~~Cp~Cg~~~~~-----------~~~fC~~CG~~   25 (26)
T PF13248_consen    3 MFCPNCGAEIDP-----------DAKFCPNCGAK   25 (26)
T ss_pred             CCCcccCCcCCc-----------ccccChhhCCC
Confidence            578888886654           25566666554

>smart00661 RPOL9 RNA polymerase subunit 9

Probab=92.69  E-value=0.099  Score=32.47  Aligned_cols=27  Identities=30%  Similarity=0.760  Sum_probs=20.6

Q ss_pred             ccCCCCCceeeecCC--CceeEe-ecCCce
Q 024566          182 ARCPACGHCVERKDG--CSVVMC-RCNTRF  208 (265)
Q Consensus       182 k~CP~C~~~iek~~G--Cnhm~C-~C~~~F  208 (265)
                      +.||.|+.++...++  -++..| .||+++
T Consensus         1 ~FCp~Cg~~l~~~~~~~~~~~vC~~Cg~~~   30 (52)
T smart00661        1 KFCPKCGNMLIPKEGKEKRRFVCRKCGYEE   30 (52)
T ss_pred             CCCCCCCCccccccCCCCCEEECCcCCCeE
Confidence            469999998876543  468999 699764

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

Probab=92.50  E-value=0.022  Score=49.34  Aligned_cols=49  Identities=31%  Similarity=0.807  Sum_probs=35.2

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCC
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (265)
                      ...+.|+||++-+...-   +...|.|.||.+|+..-+..    ++   =.||.  |+..+
T Consensus        41 ~~~v~c~icl~llk~tm---ttkeClhrfc~~ci~~a~r~----gn---~ecpt--cRk~l   89 (381)
T KOG0311|consen   41 DIQVICPICLSLLKKTM---TTKECLHRFCFDCIWKALRS----GN---NECPT--CRKKL   89 (381)
T ss_pred             hhhhccHHHHHHHHhhc---ccHHHHHHHHHHHHHHHHHh----cC---CCCch--HHhhc
Confidence            55789999999885432   24679999999998766542    22   26888  88554

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

Probab=92.44  E-value=0.062  Score=33.45  Aligned_cols=46  Identities=30%  Similarity=0.573  Sum_probs=34.1

Q ss_pred             ccccccccccccccccccccCCCCCh-hHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCC
Q 024566           21 SFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (265)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (265)
                      ..+|.||+|.-.++.    +..|||. .|.+|-.+.+.. .      .=.||.  |+.++
T Consensus         7 ~dECTICye~pvdsV----lYtCGHMCmCy~Cg~rl~~~-~------~g~CPi--CRapi   53 (62)
T KOG4172|consen    7 SDECTICYEHPVDSV----LYTCGHMCMCYACGLRLKKA-L------HGCCPI--CRAPI   53 (62)
T ss_pred             ccceeeeccCcchHH----HHHcchHHhHHHHHHHHHHc-c------CCcCcc--hhhHH
Confidence            379999999654433    4689995 999998887763 2      237998  88765

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

Probab=92.33  E-value=0.049  Score=44.89  Aligned_cols=57  Identities=23%  Similarity=0.550  Sum_probs=39.4

Q ss_pred             ccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCChh
Q 024566           21 SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPAS   91 (265)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~   91 (265)
                      ...|..|+.--. ...|+ ++.|.|+||..|.+.-.          +-.||.  |+..+....+..-|+.+
T Consensus         3 ~VhCn~C~~~~~-~~~f~-LTaC~HvfC~~C~k~~~----------~~~C~l--Ckk~ir~i~l~~slp~~   59 (233)
T KOG4739|consen    3 FVHCNKCFRFPS-QDPFF-LTACRHVFCEPCLKASS----------PDVCPL--CKKSIRIIQLNRSLPTD   59 (233)
T ss_pred             eEEeccccccCC-CCcee-eeechhhhhhhhcccCC----------cccccc--ccceeeeeecccccchh
Confidence            457888887654 55554 78999999999965421          228999  99877665555545543

>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=92.32  E-value=0.038  Score=45.31  Aligned_cols=54  Identities=20%  Similarity=0.481  Sum_probs=38.6

Q ss_pred             Ccccccccccccccc-ccc-ccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCC
Q 024566           19 GSSFTCEICIEPMAA-SKK-FKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~-~~~-~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (265)
                      ....-|+||..+... +.. +.....|-|.+|.+|+.+.+.       ..|-.||.++|+..|
T Consensus         8 ~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs-------~GpAqCP~~gC~kIL   63 (314)
T COG5220           8 MEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFS-------RGPAQCPYKGCGKIL   63 (314)
T ss_pred             hhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhc-------CCCCCCCCccHHHHH
Confidence            344579999976542 222 222234999999999999885       457799999999654

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

Probab=92.30  E-value=0.025  Score=47.19  Aligned_cols=56  Identities=29%  Similarity=0.506  Sum_probs=42.3

Q ss_pred             Ccccccccccccccccc-------cccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccC
Q 024566           19 GSSFTCEICIEPMAASK-------KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~-------~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (265)
                      .+...|.||-..+..++       +. ..++|+|.|...|++.|...-      ..-.||-  |++.++...
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvient-y~LsCnHvFHEfCIrGWcivG------KkqtCPY--CKekVdl~r  284 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENT-YKLSCNHVFHEFCIRGWCIVG------KKQTCPY--CKEKVDLKR  284 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhh-eeeecccchHHHhhhhheeec------CCCCCch--HHHHhhHhh
Confidence            44678999998776544       22 358999999999999998642      3348999  998887643

>PF04641 Rtf2: Rtf2 RING-finger

Probab=92.30  E-value=0.26  Score=41.91  Aligned_cols=72  Identities=17%  Similarity=0.357  Sum_probs=54.1

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCCh-hHHHHH
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPA-SLFSKW   96 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~-~~~~~~   96 (265)
                      ....+.|||-..++.....|+.+.+|||+|....++..-    .+     -.||.  |+.++...+|-.|-+. +.++.+
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k----~~-----~~Cp~--c~~~f~~~DiI~Lnp~~ee~~~l  178 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK----KS-----KKCPV--CGKPFTEEDIIPLNPPEEELEKL  178 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc----cc-----ccccc--cCCccccCCEEEecCCccHHHHH
Confidence            567899999999997666777788999999999999872    12     24999  9999998887766554 344444


Q ss_pred             HHHH
Q 024566           97 CDVL  100 (265)
Q Consensus        97 ~~~~  100 (265)
                      ...+
T Consensus       179 ~~~~  182 (260)
T PF04641_consen  179 RERM  182 (260)
T ss_pred             HHHH
Confidence            4443

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

Probab=92.04  E-value=0.14  Score=45.11  Aligned_cols=54  Identities=22%  Similarity=0.586  Sum_probs=37.5

Q ss_pred             ccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           21 SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      .-.|.||-+-++....+-..-.|||.|...|+.+|++..-.+     -.||.  |+-.+..
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~-----R~cpi--c~ik~~~   57 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSN-----RGCPI--CQIKLQE   57 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCcc-----CCCCc--eeecccc
Confidence            357999966665555544344599999999999999854332     36888  7744433

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

Probab=91.72  E-value=0.1  Score=50.22  Aligned_cols=57  Identities=21%  Similarity=0.558  Sum_probs=46.5

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCC
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCK   76 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   76 (265)
                      -+....+|.||++.+......+....|-|+|...|++.|..+.-++ +...-+||.  |.
T Consensus       187 l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~-~~~~WrCP~--Cq  243 (950)
T KOG1952|consen  187 LSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKT-GQDGWRCPA--CQ  243 (950)
T ss_pred             HhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhc-cCccccCCc--cc
Confidence            4567899999999998777777777899999999999999984444 345678998  77

>PHA00626 hypothetical protein

Probab=91.64  E-value=0.14  Score=32.00  Aligned_cols=26  Identities=23%  Similarity=0.694  Sum_probs=19.7

Q ss_pred             cCCCCCc-eeeecCCCce----eEe-ecCCce
Q 024566          183 RCPACGH-CVERKDGCSV----VMC-RCNTRF  208 (265)
Q Consensus       183 ~CP~C~~-~iek~~GCnh----m~C-~C~~~F  208 (265)
                      .||+|+. -|.|.+-|+.    ..| .||+.|
T Consensus         2 ~CP~CGS~~Ivrcg~cr~~snrYkCkdCGY~f   33 (59)
T PHA00626          2 SCPKCGSGNIAKEKTMRGWSDDYVCCDCGYND   33 (59)
T ss_pred             CCCCCCCceeeeeceecccCcceEcCCCCCee
Confidence            5999999 4878776554    778 588876

>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=91.31  E-value=0.14  Score=47.08  Aligned_cols=43  Identities=35%  Similarity=0.817  Sum_probs=36.1

Q ss_pred             CcccCC--CCCceeee-cCCCceeEeecCCceeeccCccccCCCCC
Q 024566          180 KWARCP--ACGHCVER-KDGCSVVMCRCNTRFCYECGRKISSGCSC  222 (265)
Q Consensus       180 ~~k~CP--~C~~~iek-~~GCnhm~C~C~~~FC~~C~~~~~~g~~~  222 (265)
                      ..+-||  .|+..+.- .+...-+.|.|++.|||.|+.+||.+..+
T Consensus       157 ~lkwCP~~~C~~av~~~~~~~~~v~C~~g~~FC~~C~~~~H~p~~C  202 (444)
T KOG1815|consen  157 PLKWCPAPGCGLAVKFGSLESVEVDCGCGHEFCFACGEESHSPVSC  202 (444)
T ss_pred             ccccCCCCCCCceeeccCCCccceeCCCCchhHhhccccccCCCcc
Confidence            356676  59999987 78899999999999999999999877533

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

Probab=91.16  E-value=0.19  Score=43.89  Aligned_cols=49  Identities=24%  Similarity=0.604  Sum_probs=36.8

Q ss_pred             CCcccccccccccccccccccccCCCCCh-hHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      +....+|.||+.+..+..    +++|.|. .|.+|.+..-   +..     =+||.  |++.+.
T Consensus       287 ~~~gkeCVIClse~rdt~----vLPCRHLCLCs~Ca~~Lr---~q~-----n~CPI--CRqpi~  336 (349)
T KOG4265|consen  287 SESGKECVICLSESRDTV----VLPCRHLCLCSGCAKSLR---YQT-----NNCPI--CRQPIE  336 (349)
T ss_pred             ccCCCeeEEEecCCcceE----EecchhhehhHhHHHHHH---Hhh-----cCCCc--cccchH
Confidence            355789999999875432    6999996 9999988765   221     16999  998763

>PF13719 zinc_ribbon_5: zinc-ribbon domain

Probab=91.15  E-value=0.2  Score=28.89  Aligned_cols=32  Identities=28%  Similarity=0.682  Sum_probs=23.6

Q ss_pred             cccCCcCcccceeccccc-cCCcCeeeCCCccccc
Q 024566          111 SYCPNTNCMALVVNECER-SGKVKKTQCPNCKQWF  144 (265)
Q Consensus       111 ~~Cp~~~C~~~~~~~~~~-~~~~~~~~C~~C~~~~  144 (265)
                      +.||  .|+..+...+.. ......+.|+.|+..|
T Consensus         3 i~CP--~C~~~f~v~~~~l~~~~~~vrC~~C~~~f   35 (37)
T PF13719_consen    3 ITCP--NCQTRFRVPDDKLPAGGRKVRCPKCGHVF   35 (37)
T ss_pred             EECC--CCCceEEcCHHHcccCCcEEECCCCCcEe
Confidence            5688  499988876652 1236799999998765

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

Probab=91.02  E-value=0.089  Score=47.09  Aligned_cols=53  Identities=28%  Similarity=0.575  Sum_probs=40.9

Q ss_pred             CCCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           16 GGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      ..-.+..+|+||+|-.++....+....|.|.|.-.|+..|..          ..||.  |+-...
T Consensus       170 ~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~----------~scpv--cR~~q~  222 (493)
T KOG0804|consen  170 TGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD----------SSCPV--CRYCQS  222 (493)
T ss_pred             CCcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc----------CcChh--hhhhcC
Confidence            345678899999999977665554577999999999988764          47888  875443

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

Probab=90.98  E-value=0.32  Score=43.91  Aligned_cols=51  Identities=24%  Similarity=0.702  Sum_probs=38.8

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      -++...|++|.....++..   ...|||.||..|+..+...        ...||.  |...+..
T Consensus        18 ~~~~l~C~~C~~vl~~p~~---~~~cgh~fC~~C~~~~~~~--------~~~cp~--~~~~~~~   68 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQ---TTTCGHRFCAGCLLESLSN--------HQKCPV--CRQELTQ   68 (391)
T ss_pred             CcccccCccccccccCCCC---CCCCCCcccccccchhhcc--------CcCCcc--cccccch
Confidence            4677999999998876643   2589999999999998864        457887  7554433

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

Probab=90.89  E-value=0.099  Score=46.26  Aligned_cols=50  Identities=26%  Similarity=0.672  Sum_probs=38.1

Q ss_pred             cccccccccccccccc-ccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCC
Q 024566           21 SFTCEICIEPMAASKK-FKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHN   78 (265)
Q Consensus        21 ~~~C~IC~~~~~~~~~-~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~   78 (265)
                      ..+|+||++.+.-+.+ ....+.|+|.|=.+|+++|+-      ......||.  |+..
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~------k~~~~~cp~--c~~k   54 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG------KKTKMQCPL--CSGK   54 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHh------hhhhhhCcc--cCCh
Confidence            4689999998764433 234678999999999999993      235578999  8854

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.39  E-value=0.72  Score=38.43  Aligned_cols=62  Identities=19%  Similarity=0.433  Sum_probs=44.9

Q ss_pred             CCCCcccccccccccccccccccccCCCC-----ChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCC
Q 024566           16 GGGGSSFTCEICIEPMAASKKFKNRNLCT-----HPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (265)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~-----H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (265)
                      .+......|=|||...++...---+-||.     |-...+|+..|+..+-..+...++.||+  |....
T Consensus        15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~Q--CqTEY   81 (293)
T KOG3053|consen   15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQ--CQTEY   81 (293)
T ss_pred             CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechh--hcchh
Confidence            34556679999998765543211135664     5699999999999887755678899999  99754

>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=90.22  E-value=0.14  Score=38.41  Aligned_cols=39  Identities=21%  Similarity=0.496  Sum_probs=28.2

Q ss_pred             CCcccccccccccccccccccccCCCC------ChhHHHHHHHHHH
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCT------HPFCQDCIARYIQ   57 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~------H~fC~~Cl~~~~~   57 (265)
                      .....+|.||++........+ ...|+      |.||.+|+++|-.
T Consensus        23 ~~~~~EC~IC~~~I~~~~GvV-~vt~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   23 PRCTVECQICFDRIDNNDGVV-YVTDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             cccCeeehhhhhhhhcCCCEE-EEecCCeehHHHHHHHHHHHHHHh
Confidence            345889999999997622222 35554      7899999999943

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.

>PRK00432 30S ribosomal protein S27ae; Validated

Probab=90.15  E-value=0.22  Score=30.84  Aligned_cols=27  Identities=26%  Similarity=0.555  Sum_probs=19.9

Q ss_pred             CcccCCCCCc-eeeecCCCceeEe-ecCCce
Q 024566          180 KWARCPACGH-CVERKDGCSVVMC-RCNTRF  208 (265)
Q Consensus       180 ~~k~CP~C~~-~iek~~GCnhm~C-~C~~~F  208 (265)
                      .-+.||+|+. .+....  +.++| +||+.+
T Consensus        19 ~~~fCP~Cg~~~m~~~~--~r~~C~~Cgyt~   47 (50)
T PRK00432         19 KNKFCPRCGSGFMAEHL--DRWHCGKCGYTE   47 (50)
T ss_pred             ccCcCcCCCcchheccC--CcEECCCcCCEE
Confidence            3468999998 444444  78999 799875

>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=89.99  E-value=0.65  Score=39.41  Aligned_cols=53  Identities=23%  Similarity=0.476  Sum_probs=36.8

Q ss_pred             cccccccccc-ccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566           23 TCEICIEPMA-ASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        23 ~C~IC~~~~~-~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      .|++|-.+.. ++..+..+-+|+|..|.+|+...+.       ..+-.||.  |..++-..-+
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~-------~g~~~Cpe--C~~iLRk~nf   55 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFS-------LGPAQCPE--CMVILRKNNF   55 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHh-------cCCCCCCc--ccchhhhccc
Confidence            4888876543 3333333458999999999998885       34557995  9987755433

>PHA03096 p28-like protein; Provisional

Probab=89.76  E-value=0.23  Score=42.59  Aligned_cols=40  Identities=25%  Similarity=0.430  Sum_probs=30.5

Q ss_pred             ccccccccccccc---c-cccccCCCCChhHHHHHHHHHHHHhh
Q 024566           22 FTCEICIEPMAAS---K-KFKNRNLCTHPFCQDCIARYIQVKVQ   61 (265)
Q Consensus        22 ~~C~IC~~~~~~~---~-~~~~~~~C~H~fC~~Cl~~~~~~~i~   61 (265)
                      ..|.||++.....   + .|-.+..|.|.||..|++.|..+...
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~  222 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLY  222 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhh
Confidence            7899999876531   2 23334569999999999999998764

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

Probab=89.73  E-value=0.62  Score=39.64  Aligned_cols=50  Identities=28%  Similarity=0.497  Sum_probs=39.3

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKH   77 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~   77 (265)
                      ......|+||.+...........++|+|..-..|++.++-.       . .+||.  |..
T Consensus       155 ~~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~-------~-y~CP~--C~~  204 (276)
T KOG1940|consen  155 RSSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE-------G-YTCPI--CSK  204 (276)
T ss_pred             hcccCCCchhHHHhccccccCCccCcccchHHHHHHHHhcc-------C-CCCCc--ccc
Confidence            44555699999988776666667899999999999988751       2 68999  876

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

Probab=89.29  E-value=0.3  Score=41.54  Aligned_cols=64  Identities=23%  Similarity=0.499  Sum_probs=47.0

Q ss_pred             CCCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhC-------C--------CCCcccCCCCCCCCCCC
Q 024566           16 GGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQD-------D--------NTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~-------~--------~~~~i~CP~~~C~~~l~   80 (265)
                      .++.+...|.||+--|.+...|. ...|.|.|...||.+|++....+       .        ....-.||.  |...|.
T Consensus       110 ~nn~p~gqCvICLygfa~~~~ft-~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpV--cre~i~  186 (368)
T KOG4445|consen  110 ENNHPNGQCVICLYGFASSPAFT-VTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPV--CRERIK  186 (368)
T ss_pred             cCCCCCCceEEEEEeecCCCcee-eehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhH--hhhhcc
Confidence            45677889999998887766654 79999999999999999875431       0        112234999  987665


Q ss_pred             cc
Q 024566           81 PF   82 (265)
Q Consensus        81 ~~   82 (265)
                      ++
T Consensus       187 ~e  188 (368)
T KOG4445|consen  187 IE  188 (368)
T ss_pred             cc
Confidence            44

>PF13717 zinc_ribbon_4: zinc-ribbon domain

Probab=89.07  E-value=0.43  Score=27.28  Aligned_cols=32  Identities=34%  Similarity=0.675  Sum_probs=23.0

Q ss_pred             cccCCcCcccceeccccc-cCCcCeeeCCCccccc
Q 024566          111 SYCPNTNCMALVVNECER-SGKVKKTQCPNCKQWF  144 (265)
Q Consensus       111 ~~Cp~~~C~~~~~~~~~~-~~~~~~~~C~~C~~~~  144 (265)
                      +.||  .|+..+..++.. ..+...++|+.|+..|
T Consensus         3 i~Cp--~C~~~y~i~d~~ip~~g~~v~C~~C~~~f   35 (36)
T PF13717_consen    3 ITCP--NCQAKYEIDDEKIPPKGRKVRCSKCGHVF   35 (36)
T ss_pred             EECC--CCCCEEeCCHHHCCCCCcEEECCCCCCEe
Confidence            5688  499888766542 2346789999998765

>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional

Probab=88.99  E-value=0.44  Score=28.84  Aligned_cols=29  Identities=31%  Similarity=0.670  Sum_probs=18.9

Q ss_pred             ccCCCCCceeeecCCCceeEe-ecCCceee
Q 024566          182 ARCPACGHCVERKDGCSVVMC-RCNTRFCY  210 (265)
Q Consensus       182 k~CP~C~~~iek~~GCnhm~C-~C~~~FC~  210 (265)
                      -+||+|+..++-+.+=..++| .||..+=+
T Consensus         4 y~C~~CG~~~~~~~~~~~~~Cp~CG~~~~~   33 (46)
T PRK00398          4 YKCARCGREVELDEYGTGVRCPYCGYRILF   33 (46)
T ss_pred             EECCCCCCEEEECCCCCceECCCCCCeEEE
Confidence            368888887766654446777 47766543

>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C

Probab=88.58  E-value=0.36  Score=27.24  Aligned_cols=31  Identities=19%  Similarity=0.597  Sum_probs=16.1

Q ss_pred             cccCCcCcccceeccccccCCcCeeeCCCcccc
Q 024566          111 SYCPNTNCMALVVNECERSGKVKKTQCPNCKQW  143 (265)
Q Consensus       111 ~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~  143 (265)
                      .+||  .|+..+.......+...+..|+.|+..
T Consensus         1 kfC~--~CG~~l~~~ip~gd~r~R~vC~~Cg~I   31 (34)
T PF14803_consen    1 KFCP--QCGGPLERRIPEGDDRERLVCPACGFI   31 (34)
T ss_dssp             -B-T--TT--B-EEE--TT-SS-EEEETTTTEE
T ss_pred             Cccc--cccChhhhhcCCCCCccceECCCCCCE
Confidence            4788  599887654433344789999999864

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

Probab=88.48  E-value=0.18  Score=44.48  Aligned_cols=48  Identities=29%  Similarity=0.653  Sum_probs=34.7

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKH   77 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~   77 (265)
                      .+....|-||-|...+..    +.+|||..|..|+..|-.+.-      .-.||.  |+-
T Consensus       366 gsTFeLCKICaendKdvk----IEPCGHLlCt~CLa~WQ~sd~------gq~CPF--CRc  413 (563)
T KOG1785|consen  366 GSTFELCKICAENDKDVK----IEPCGHLLCTSCLAAWQDSDE------GQTCPF--CRC  413 (563)
T ss_pred             cchHHHHHHhhccCCCcc----cccccchHHHHHHHhhcccCC------CCCCCc--eee
Confidence            355678999998765433    589999999999998864321      236888  653

>PF12773 DZR: Double zinc ribbon

Probab=88.46  E-value=0.39  Score=29.50  Aligned_cols=15  Identities=27%  Similarity=0.496  Sum_probs=10.4

Q ss_pred             CCcccCCCCCceeee
Q 024566          179 MKWARCPACGHCVER  193 (265)
Q Consensus       179 ~~~k~CP~C~~~iek  193 (265)
                      ...+.||+|+..+..
T Consensus        27 ~~~~~C~~Cg~~~~~   41 (50)
T PF12773_consen   27 QSKKICPNCGAENPP   41 (50)
T ss_pred             CCCCCCcCCcCCCcC
Confidence            345778888887654

>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair

Probab=88.09  E-value=0.22  Score=30.92  Aligned_cols=38  Identities=26%  Similarity=0.717  Sum_probs=18.8

Q ss_pred             cccceeccccccCCcCeeeCCCcccccccccccccCCC
Q 024566          118 CMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAG  155 (265)
Q Consensus       118 C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~  155 (265)
                      |...+..............|++|+..||..|..-.|+.
T Consensus         5 C~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~   42 (51)
T PF07975_consen    5 CQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHET   42 (51)
T ss_dssp             TTEE-TTS-------EEE--TTTT--B-HHHHHTTTTT
T ss_pred             CCCCCCCcccccccCCeEECCCCCCccccCcChhhhcc
Confidence            55555443322222478999999999999998877764

It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.

>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional

Probab=88.00  E-value=0.51  Score=30.04  Aligned_cols=33  Identities=27%  Similarity=0.713  Sum_probs=21.7

Q ss_pred             cccCCcCcccceeccccccCCcCeeeCCCccccc---ccccc
Q 024566          111 SYCPNTNCMALVVNECERSGKVKKTQCPNCKQWF---CFQCK  149 (265)
Q Consensus       111 ~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~---C~~C~  149 (265)
                      ..|-+  |+..+.....    ...|.||.||...   |.+|+
T Consensus         8 ~~CtS--Cg~~i~~~~~----~~~F~CPnCG~~~I~RC~~CR   43 (59)
T PRK14890          8 PKCTS--CGIEIAPREK----AVKFLCPNCGEVIIYRCEKCR   43 (59)
T ss_pred             ccccC--CCCcccCCCc----cCEeeCCCCCCeeEeechhHH
Confidence            34553  7777755443    5799999999874   44443

>PLN03086 PRLI-interacting factor K; Provisional

Probab=87.96  E-value=0.68  Score=43.50  Aligned_cols=59  Identities=20%  Similarity=0.449  Sum_probs=37.2

Q ss_pred             CCcccCCCCCCCCCCCccCccCCCChhHHHHHHHHHHHHhhcCCCccccCCcCcccceeccccccCCcCeeeCCCccccc
Q 024566           65 TAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWF  144 (265)
Q Consensus        65 ~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~  144 (265)
                      ...+.||.  |...++...+.         .-..      .=....+.||..+|+..+.....    ...+.|+.|+..|
T Consensus       405 ~~~V~C~N--C~~~i~l~~l~---------lHe~------~C~r~~V~Cp~~~Cg~v~~r~el----~~H~~C~~Cgk~f  463 (567)
T PLN03086        405 VDTVECRN--CKHYIPSRSIA---------LHEA------YCSRHNVVCPHDGCGIVLRVEEA----KNHVHCEKCGQAF  463 (567)
T ss_pred             CCeEECCC--CCCccchhHHH---------HHHh------hCCCcceeCCcccccceeecccc----ccCccCCCCCCcc
Confidence            34578988  88776543221         1110      11134577998789999866555    4567899998776

>PRK14559 putative protein serine/threonine phosphatase; Provisional

Probab=87.83  E-value=0.29  Score=46.92  Aligned_cols=10  Identities=30%  Similarity=0.906  Sum_probs=8.3

Q ss_pred             CceeeccCcc
Q 024566          206 TRFCYECGRK  215 (265)
Q Consensus       206 ~~FC~~C~~~  215 (265)
                      ..||-.||.+
T Consensus        41 ~~fC~~CG~~   50 (645)
T PRK14559         41 EAHCPNCGAE   50 (645)
T ss_pred             cccccccCCc
Confidence            4599999988

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

Probab=87.07  E-value=0.91  Score=39.49  Aligned_cols=69  Identities=20%  Similarity=0.532  Sum_probs=44.8

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCChhHHHHHH
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWC   97 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~~   97 (265)
                      +.+...|.||.+...    +...++|+|..|.-|-.+.-.--      ..-.||.  |+.....-.+..-.+.++-++|.
T Consensus        58 DEen~~C~ICA~~~T----Ys~~~PC~H~~CH~Ca~RlRALY------~~K~C~~--CrTE~e~V~fT~~~~~DI~D~~~  125 (493)
T COG5236          58 DEENMNCQICAGSTT----YSARYPCGHQICHACAVRLRALY------MQKGCPL--CRTETEAVVFTASSPADITDRRQ  125 (493)
T ss_pred             ccccceeEEecCCce----EEEeccCCchHHHHHHHHHHHHH------hccCCCc--cccccceEEEecCCCCcchhHhh
Confidence            455688999998774    33469999999999976643322      2346888  98765544444444445545444


Q ss_pred             H
Q 024566           98 D   98 (265)
Q Consensus        98 ~   98 (265)
                      .
T Consensus       126 ~  126 (493)
T COG5236         126 W  126 (493)
T ss_pred             h
Confidence            3

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

Probab=86.35  E-value=0.19  Score=33.63  Aligned_cols=52  Identities=25%  Similarity=0.645  Sum_probs=35.0

Q ss_pred             ccccccccccccc--------cccccc-CCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           22 FTCEICIEPMAAS--------KKFKNR-NLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        22 ~~C~IC~~~~~~~--------~~~~~~-~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      .+|.||..+|+..        +..+.+ -.|.|.|..-|+.+++...-++     -.||.  |++.+.
T Consensus        21 e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq-----~~CPm--cRq~~~   81 (84)
T KOG1493|consen   21 ETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQ-----GQCPM--CRQTWQ   81 (84)
T ss_pred             CccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCcccc-----ccCCc--chheeE
Confidence            3899999887521        111111 1378999999999999865544     37998  887653

>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]

Probab=86.25  E-value=0.65  Score=29.54  Aligned_cols=32  Identities=25%  Similarity=0.620  Sum_probs=21.4

Q ss_pred             cccCCcCcccceeccccccCCcCeeeCCCccccccccc
Q 024566          111 SYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQC  148 (265)
Q Consensus       111 ~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C  148 (265)
                      ..|-+  |+..+.+...    ...+.||.||...=.+|
T Consensus        10 ~~CtS--Cg~~i~p~e~----~v~F~CPnCGe~~I~Rc   41 (61)
T COG2888          10 PVCTS--CGREIAPGET----AVKFPCPNCGEVEIYRC   41 (61)
T ss_pred             ceecc--CCCEeccCCc----eeEeeCCCCCceeeehh
Confidence            45653  7877755544    57899999996554444

>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]

Probab=85.67  E-value=0.58  Score=28.56  Aligned_cols=27  Identities=33%  Similarity=0.576  Sum_probs=19.6

Q ss_pred             CcccCCCCCceeeecCCCceeEe-ecCC
Q 024566          180 KWARCPACGHCVERKDGCSVVMC-RCNT  206 (265)
Q Consensus       180 ~~k~CP~C~~~iek~~GCnhm~C-~C~~  206 (265)
                      .-+.||+|+--+.-..-=+...| +||+
T Consensus        18 k~~~CPrCG~gvfmA~H~dR~~CGkCgy   45 (51)
T COG1998          18 KNRFCPRCGPGVFMADHKDRWACGKCGY   45 (51)
T ss_pred             ccccCCCCCCcchhhhcCceeEeccccc
Confidence            34789999976665554557888 7886

>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains

Probab=85.58  E-value=1.1  Score=24.69  Aligned_cols=27  Identities=22%  Similarity=0.484  Sum_probs=16.1

Q ss_pred             cccCCCCCceeeecCCCceeEe-ecCCc
Q 024566          181 WARCPACGHCVERKDGCSVVMC-RCNTR  207 (265)
Q Consensus       181 ~k~CP~C~~~iek~~GCnhm~C-~C~~~  207 (265)
                      .+-||.|+.+.+...+=-.|.| .|+.+
T Consensus         3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~~   30 (32)
T PF09297_consen    3 HRFCGRCGAPTKPAPGGWARRCPSCGHE   30 (32)
T ss_dssp             TSB-TTT--BEEE-SSSS-EEESSSS-E
T ss_pred             CcccCcCCccccCCCCcCEeECCCCcCE
Confidence            4678888888888877667888 58765

; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.

>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding

Probab=85.21  E-value=0.46  Score=28.20  Aligned_cols=26  Identities=31%  Similarity=0.822  Sum_probs=19.8

Q ss_pred             CCcccCCCCCceeeecCCCceeEee---cCCce
Q 024566          179 MKWARCPACGHCVERKDGCSVVMCR---CNTRF  208 (265)
Q Consensus       179 ~~~k~CP~C~~~iek~~GCnhm~C~---C~~~F  208 (265)
                      ..+|+||+|+..-    |+.-+.|+   |++.|
T Consensus         9 RGirkCp~CGt~N----G~R~~~CKN~~C~~~~   37 (44)
T PF14952_consen    9 RGIRKCPKCGTYN----GTRGLSCKNKSCPQVF   37 (44)
T ss_pred             hccccCCcCcCcc----CcccccccCCccchhh
Confidence            4689999999876    77777773   76654

>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2

Probab=85.14  E-value=0.61  Score=26.50  Aligned_cols=28  Identities=25%  Similarity=0.731  Sum_probs=18.7

Q ss_pred             cccCCcCcccceeccccccCCcCeeeCCCcccc
Q 024566          111 SYCPNTNCMALVVNECERSGKVKKTQCPNCKQW  143 (265)
Q Consensus       111 ~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~  143 (265)
                      ++||  +|++.+.+.....   ..+.|..|++.
T Consensus         2 ~FCp--~C~nlL~p~~~~~---~~~~C~~C~Y~   29 (35)
T PF02150_consen    2 RFCP--ECGNLLYPKEDKE---KRVACRTCGYE   29 (35)
T ss_dssp             -BET--TTTSBEEEEEETT---TTEEESSSS-E
T ss_pred             eeCC--CCCccceEcCCCc---cCcCCCCCCCc
Confidence            5788  6999998877643   22278888764

7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....

>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454

Probab=84.86  E-value=1.4  Score=33.95  Aligned_cols=63  Identities=17%  Similarity=0.378  Sum_probs=41.0

Q ss_pred             CcccCCCCCceeeec---CCC----ceeEeecCCceeeccCccccCCCCCCCcccchhhhHHHHHHHHHHHHHHhhhhhh
Q 024566          180 KWARCPACGHCVERK---DGC----SVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKIS  252 (265)
Q Consensus       180 ~~k~CP~C~~~iek~---~GC----nhm~C~C~~~FC~~C~~~~~~g~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~  252 (265)
                      .+..||+|+.+|.-.   +|=    -|..   --.||+.||++               |.|+...+-..+.++..-+.++
T Consensus        38 tI~~Cp~C~~~IrG~y~v~gv~~~g~~~~---~PsYC~~CGkp---------------yPWt~~~L~aa~el~ee~eeLs   99 (158)
T PF10083_consen   38 TITSCPNCSTPIRGDYHVEGVFGLGGHYE---APSYCHNCGKP---------------YPWTENALEAANELIEEDEELS   99 (158)
T ss_pred             HHHHCcCCCCCCCCceecCCeeeeCCCCC---CChhHHhCCCC---------------CchHHHHHHHHHHHHHHhhcCC
Confidence            457899999999733   110    0000   23466677666               4567777777777777777777


Q ss_pred             hhhhhhhh
Q 024566          253 KYEKNVLA  260 (265)
Q Consensus       253 ~~~~~~~~  260 (265)
                      -.|++.|+
T Consensus       100 ~deke~~~  107 (158)
T PF10083_consen  100 PDEKEQFK  107 (158)
T ss_pred             HHHHHHHH
Confidence            77777664

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.

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

Probab=84.51  E-value=0.61  Score=45.85  Aligned_cols=53  Identities=17%  Similarity=0.594  Sum_probs=37.3

Q ss_pred             ccccccccccccccc-cccc--ccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           20 SSFTCEICIEPMAAS-KKFK--NRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        20 ~~~~C~IC~~~~~~~-~~~~--~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      ...+|+|||.-.... ..++  ....|.|.|...|+-+|+.+.-      .-+||.  |+..++
T Consensus      1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~------~s~CPl--CRseit 1523 (1525)
T COG5219        1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSA------RSNCPL--CRSEIT 1523 (1525)
T ss_pred             CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcC------CCCCCc--cccccc
Confidence            456899999765411 1111  1355899999999999998643      348999  987664

>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain

Probab=84.48  E-value=0.95  Score=25.98  Aligned_cols=32  Identities=22%  Similarity=0.452  Sum_probs=21.7

Q ss_pred             cccCCcCcccceecccccc-CCcCeeeCCCccccc
Q 024566          111 SYCPNTNCMALVVNECERS-GKVKKTQCPNCKQWF  144 (265)
Q Consensus       111 ~~Cp~~~C~~~~~~~~~~~-~~~~~~~C~~C~~~~  144 (265)
                      +.||  .|+..+...+... .....+.|+.|+..|
T Consensus         3 ~~CP--~C~~~~~v~~~~~~~~~~~v~C~~C~~~~   35 (38)
T TIGR02098         3 IQCP--NCKTSFRVVDSQLGANGGKVRCGKCGHVW   35 (38)
T ss_pred             EECC--CCCCEEEeCHHHcCCCCCEEECCCCCCEE
Confidence            4688  5998877665322 224589999998764

This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.

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

Probab=84.15  E-value=0.34  Score=41.16  Aligned_cols=47  Identities=26%  Similarity=0.490  Sum_probs=35.4

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCC
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (265)
                      .-.+-|.||-.++..+.    ...|+|.||..|....++        ..-+|+.  |.+.+
T Consensus       239 ~~Pf~c~icr~~f~~pV----vt~c~h~fc~~ca~~~~q--------k~~~c~v--C~~~t  285 (313)
T KOG1813|consen  239 LLPFKCFICRKYFYRPV----VTKCGHYFCEVCALKPYQ--------KGEKCYV--CSQQT  285 (313)
T ss_pred             cCCccccccccccccch----hhcCCceeehhhhccccc--------cCCccee--ccccc
Confidence            33567999999997664    489999999999776654        2247887  88654

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

Probab=83.37  E-value=2.1  Score=32.08  Aligned_cols=55  Identities=25%  Similarity=0.577  Sum_probs=40.7

Q ss_pred             Ccccccccccccccccccccc-cCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           19 GSSFTCEICIEPMAASKKFKN-RNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~-~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      ....+|.||.|...+. .|.. -.-||=.+|..|....|+..-     ....||.  |+..+..
T Consensus        78 ~~lYeCnIC~etS~ee-~FLKPneCCgY~iCn~Cya~LWK~~~-----~ypvCPv--CkTSFKs  133 (140)
T PF05290_consen   78 PKLYECNICKETSAEE-RFLKPNECCGYSICNACYANLWKFCN-----LYPVCPV--CKTSFKS  133 (140)
T ss_pred             CCceeccCcccccchh-hcCCcccccchHHHHHHHHHHHHHcc-----cCCCCCc--ccccccc
Confidence            4778999999987543 3422 122899999999999998653     4568999  9976643

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

Probab=82.86  E-value=0.58  Score=41.37  Aligned_cols=51  Identities=22%  Similarity=0.619  Sum_probs=38.8

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCC
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKH   77 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~   77 (265)
                      .....|..|-+.+.....-...++|.|.|...|+..+++      +..+-.||.  |+.
T Consensus       363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~------~n~~rsCP~--Crk  413 (518)
T KOG1941|consen  363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILE------NNGTRSCPN--CRK  413 (518)
T ss_pred             HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHH------hCCCCCCcc--HHH
Confidence            446789999998754333334699999999999999995      235568998  884

>smart00661 RPOL9 RNA polymerase subunit 9

Probab=82.77  E-value=1.2  Score=27.42  Aligned_cols=28  Identities=18%  Similarity=0.674  Sum_probs=19.5

Q ss_pred             ccCCcCcccceeccccccCCcCeeeCCCcccc
Q 024566          112 YCPNTNCMALVVNECERSGKVKKTQCPNCKQW  143 (265)
Q Consensus       112 ~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~  143 (265)
                      +||  .|+..+......  ....+.|+.|++.
T Consensus         2 FCp--~Cg~~l~~~~~~--~~~~~vC~~Cg~~   29 (52)
T smart00661        2 FCP--KCGNMLIPKEGK--EKRRFVCRKCGYE   29 (52)
T ss_pred             CCC--CCCCccccccCC--CCCEEECCcCCCe
Confidence            688  599988766442  1247889988853

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

Probab=82.54  E-value=1.1  Score=39.17  Aligned_cols=49  Identities=22%  Similarity=0.417  Sum_probs=34.9

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      +.+...|+||+-.-. ...   +.+|+|.-|..|+.+|+-.        .-.|-.  |+..+.
T Consensus       419 ~sEd~lCpICyA~pi-~Av---f~PC~H~SC~~CI~qHlmN--------~k~CFf--CktTv~  467 (489)
T KOG4692|consen  419 DSEDNLCPICYAGPI-NAV---FAPCSHRSCYGCITQHLMN--------CKRCFF--CKTTVI  467 (489)
T ss_pred             CcccccCcceecccc-hhh---ccCCCCchHHHHHHHHHhc--------CCeeeE--ecceee
Confidence            366789999997542 222   4899999999999988752        225666  776554

>PRK05654 acetyl-CoA carboxylase subunit beta; Validated

Probab=82.31  E-value=0.27  Score=42.44  Aligned_cols=30  Identities=30%  Similarity=0.935  Sum_probs=24.4

Q ss_pred             CCcccCCCCCceeeec-CCCceeEe-ecCCce
Q 024566          179 MKWARCPACGHCVERK-DGCSVVMC-RCNTRF  208 (265)
Q Consensus       179 ~~~k~CP~C~~~iek~-~GCnhm~C-~C~~~F  208 (265)
                      ..|.+||+|+..|.+. -.=|.+.| +|++||
T Consensus        25 ~~~~~c~~c~~~~~~~~l~~~~~vc~~c~~h~   56 (292)
T PRK05654         25 GLWTKCPSCGQVLYRKELEANLNVCPKCGHHM   56 (292)
T ss_pred             CCeeECCCccchhhHHHHHhcCCCCCCCCCCe
Confidence            3599999999988754 45577899 699988

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

Probab=82.08  E-value=1.3  Score=39.29  Aligned_cols=60  Identities=18%  Similarity=0.366  Sum_probs=41.5

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccC
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (265)
                      -+.+.|||=-+...+ ++-+..+.|||.++++=+.+...     ++...++||-  |......+..++
T Consensus       332 HSvF~CPVlKeqtsd-eNPPm~L~CGHVISkdAlnrLS~-----ng~~sfKCPY--CP~e~~~~~~kq  391 (394)
T KOG2817|consen  332 HSVFICPVLKEQTSD-ENPPMMLICGHVISKDALNRLSK-----NGSQSFKCPY--CPVEQLASDTKQ  391 (394)
T ss_pred             cceeecccchhhccC-CCCCeeeeccceecHHHHHHHhh-----CCCeeeeCCC--CCcccCHHhccc
Confidence            456889986655432 22233689999999998877665     3445799999  987766655544

>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues

Probab=81.14  E-value=0.84  Score=33.22  Aligned_cols=26  Identities=31%  Similarity=0.889  Sum_probs=18.3

Q ss_pred             ccCCCCCceeeecCCCceeEe-ecCCce
Q 024566          182 ARCPACGHCVERKDGCSVVMC-RCNTRF  208 (265)
Q Consensus       182 k~CP~C~~~iek~~GCnhm~C-~C~~~F  208 (265)
                      +.||+|+...---.- +.++| .||+.|
T Consensus        10 R~Cp~CG~kFYDLnk-~PivCP~CG~~~   36 (108)
T PF09538_consen   10 RTCPSCGAKFYDLNK-DPIVCPKCGTEF   36 (108)
T ss_pred             ccCCCCcchhccCCC-CCccCCCCCCcc
Confidence            668888887653333 77888 687765

The function of members of this family is unknown.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	265
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	4e-10
2ct7_A	86	Ring finger protein 31; IBR, structural genomics,	6e-06

>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 = 54.5 bits (131), Expect = 4e-10
 Identities = 17/91 (18%), Positives = 35/91 (38%), Gaps = 3/91 (3%)

Query: 17  GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCK 76
           G   S  C++C+      +       C   FC  C+ +Y+++ +++     I CP   C 
Sbjct: 1   GSSGSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACP 59

Query: 77  HN--LDPFACEPVIPASLFSKWCDVLCEDYV 105
               L     E ++ A +  ++  +  E   
Sbjct: 60  KQGHLQENEIECMVAAEIMQRYKKLQFERSG 90

>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.4 Length = 86

 Score = 42.7 bits (100), Expect = 6e-06
 Identities = 19/76 (25%), Positives = 30/76 (39%), Gaps = 7/76 (9%)

Query: 97  CDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKW---H 153
                 + VL  +  +     C    + E     +  +  CP C Q FC +CK +W   H
Sbjct: 10  FHKKLTEGVLMRDPKFLWCAQCSFGFIYE----REQLEATCPQCHQTFCVRCKRQWEEQH 65

Query: 154 AGYRCEESRNLRDQND 169
            G  CE+ +N +  N 
Sbjct: 66  RGRSCEDFQNWKRMNS 81

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	265
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	99.71
1wd2_A	60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	99.69
2ct7_A	86	Ring finger protein 31; IBR, structural genomics,	99.42
2jmo_A	80	Parkin; IBR, E3 ligase, zinc binding domain, RBR;	99.35
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.06
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.05
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	98.9
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	98.83
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.82
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	98.81
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	98.79
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	98.78
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.78
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.76
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.76
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.72
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	98.71
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.7
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.68
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.68
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	98.67
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.65
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	98.64
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.63
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.63
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.62
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.6
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.59
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.59
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.58
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	98.57
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	98.57
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.54
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.5
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.49
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.47
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.44
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.43
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.42
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.42
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.42
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.39
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.32
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.31
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.29
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	98.27
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.27
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.26
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.25
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.23
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.19
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.18
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.18
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.15
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.02
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.0
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	97.93
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	97.86
2ct7_A	86	Ring finger protein 31; IBR, structural genomics,	97.83
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	97.79
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	97.76
2jmo_A	80	Parkin; IBR, E3 ligase, zinc binding domain, RBR;	97.75
2ea5_A	68	Cell growth regulator with ring finger domain prot	97.74
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.72
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	97.69
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	97.68
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	97.65
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	97.63
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	97.49
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	97.36
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	97.31
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	96.84
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	96.6
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	96.38
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	96.29
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	96.04
1wd2_A	60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	95.78
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	94.81
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	94.76
3nw0_A	238	Non-structural maintenance of chromosomes element	93.24
2jrp_A	81	Putative cytoplasmic protein; two-zinc binding pro	89.88
2k4x_A	55	30S ribosomal protein S27AE; metal-binding, ribonu	88.62
3j20_Y	50	30S ribosomal protein S27AE; archaea, archaeal, KI	88.22
1pft_A	50	TFIIB, PFTFIIBN; N-terminal domain, transcription	87.21
1wfh_A	64	Zinc finger (AN1-like) family protein; ZF-AN1 doma	86.76
2jrp_A	81	Putative cytoplasmic protein; two-zinc binding pro	86.5
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	86.3
1vq8_Z	83	50S ribosomal protein L37AE; ribosome 50S, protein	86.11
3qt1_I	133	DNA-directed RNA polymerases I, II, and III subun;	85.45
1wg2_A	64	Zinc finger (AN1-like) family protein; riken struc	84.07
1wfl_A	74	Zinc finger protein 216; ZF-AN1 domain, zinc bindi	83.92
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	83.57
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	83.14
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	82.1
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	82.1
2jr6_A	68	UPF0434 protein NMA0874; solution, structural geno	80.53
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	80.4

>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=99.71  E-value=2.7e-18  Score=122.24  Aligned_cols=88  Identities=18%  Similarity=0.479  Sum_probs=76.1

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCC--CCccCccCCCChhHHHH
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHN--LDPFACEPVIPASLFSK   95 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~--l~~~~i~~~l~~~~~~~   95 (265)
                      +.+.++|+||++++..+.. +.+.+|+|.||.+||++|++.+|.+|...+++||.++|+..  ++++.++.+|+++++++
T Consensus         2 ~~~~~~C~IC~~~~~~~~~-~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~~~i~~ll~~~~~~k   80 (94)
T 1wim_A            2 SSGSSGCKLCLGEYPVEQM-TTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQENEIECMVAAEIMQR   80 (94)
T ss_dssp             CCSBCCCSSSCCCCBGGGE-EEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHHHHHHHSCHHHHHH
T ss_pred             CCCCcCCcccCcccccccc-eEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCHHHHHHHCCHHHHHH
Confidence            3467899999999876554 33458999999999999999999876667899999999999  99999999999999999


Q ss_pred             HHHHHHHHhhc
Q 024566           96 WCDVLCEDYVL  106 (265)
Q Consensus        96 ~~~~~~~~~~~  106 (265)
                      |.+++.+.+++
T Consensus        81 y~~~~~~~~v~   91 (94)
T 1wim_A           81 YKKLQFERSGP   91 (94)
T ss_dssp             HHHHHHHSSCS
T ss_pred             HHHHHHHhhhc
Confidence            99988887764

>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.69  E-value=4.5e-18  Score=109.46  Aligned_cols=39  Identities=31%  Similarity=0.916  Sum_probs=37.1

Q ss_pred             CCcccCCCCCceeeecCCCceeEee---cCCceeeccCcccc
Q 024566          179 MKWARCPACGHCVERKDGCSVVMCR---CNTRFCYECGRKIS  217 (265)
Q Consensus       179 ~~~k~CP~C~~~iek~~GCnhm~C~---C~~~FC~~C~~~~~  217 (265)
                      .++|+||+|+++|||++|||||+|+   |+++|||+|+++|.
T Consensus         4 ~~~k~CP~C~~~Iek~~GCnhmtC~~~~C~~~FCw~C~~~~~   45 (60)
T 1wd2_A            4 ANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWE   45 (60)
T ss_dssp             CCCCCCTTTCCCCSSCCSCCSSSCCSSGGGSCCSSSSCSCSG
T ss_pred             ccceECcCCCCeeEeCCCCCcEEECCCCcCCEEeeCcCCCcc
Confidence            5789999999999999999999995   99999999999986

>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.4

Probab=99.42  E-value=4.8e-15  Score=103.16  Aligned_cols=75  Identities=29%  Similarity=0.616  Sum_probs=63.5

Q ss_pred             ChhHHHHHHHHHHHHhhc-CCCccccCCcCcccceeccccccCCcCeeeCCCccccccccccccc---CCCCCChhHHhc
Q 024566           89 PASLFSKWCDVLCEDYVL-GFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKW---HAGYRCEESRNL  164 (265)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~-~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~---H~~~~C~~~~~~  164 (265)
                      +++++++|++++.+.++. +++++|||  +|+++++.+..    ...+.|+.|+..||+.|+.+|   |.|.+|+++++|
T Consensus         3 s~~~~e~y~~~l~e~~v~~~~~~~wCP--~C~~~~~~~~~----~~~v~C~~C~~~FC~~C~~~w~~~H~~~sC~~~~~w   76 (86)
T 2ct7_A            3 SGSSGALFHKKLTEGVLMRDPKFLWCA--QCSFGFIYERE----QLEATCPQCHQTFCVRCKRQWEEQHRGRSCEDFQNW   76 (86)
T ss_dssp             CCCCCCSSSSCCCCSCCCSCCCEECCS--SSCCCEECCCS----CSCEECTTTCCEECSSSCSBCCTTTTTSCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCEeECc--CCCchheecCC----CCceEeCCCCCccccccCCchhhcCCCCChHHHHHH
Confidence            346777888888888884 56778999  89999977653    567999999999999999999   999999999999


Q ss_pred             hhhch
Q 024566          165 RDQND  169 (265)
Q Consensus       165 ~~~~d  169 (265)
                      .++++
T Consensus        77 ~~~n~   81 (86)
T 2ct7_A           77 KRMNS   81 (86)
T ss_dssp             HHHHT
T ss_pred             HHhCc
Confidence            87654

>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo sapiens}

Probab=99.35  E-value=2.2e-14  Score=98.22  Aligned_cols=69  Identities=25%  Similarity=0.548  Sum_probs=60.8

Q ss_pred             CCChhHHHHHHHHHHHHhhcCCCccccCCcCcccceeccccccCCcCeeeCC-----CcccccccccccccCCCCCChh
Q 024566           87 VIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCP-----NCKQWFCFQCKLKWHAGYRCEE  160 (265)
Q Consensus        87 ~l~~~~~~~~~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~-----~C~~~~C~~C~~~~H~~~~C~~  160 (265)
                      +|+++++++|++++.+.++.....+|||.|+|+.++..+..    ...+.|+     .|++.||+.|+.+||. .+|..
T Consensus         2 ~l~~~~~~rY~~~~~e~~v~~~~~~~CP~p~C~~~v~~~~~----~~~v~C~~~~~~~C~~~FC~~C~~~wH~-~~C~~   75 (80)
T 2jmo_A            2 HMGEEQYNRYQQYGAEECVLQMGGVLCPRPGCGAGLLPEPD----QRKVTCEGGNGLGCGFAFCRECKEAYHE-GECSA   75 (80)
T ss_dssp             CCCCCCCCSCCCSSSCCSSCCCSSCCCCSSSCCCCCCCCSC----TTSBCTTSSSTTCCSCCEETTTTEECCS-SCSSS
T ss_pred             CCCHHHHHHHHHHHHHHHhhhCCcEECCCCCCCcccEECCC----CCcCCCCCCCCCCCCCeeccccCccccC-Ccccc
Confidence            57888999999999888886666999999999999987653    5679998     9999999999999999 99975

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

Probab=99.06  E-value=2.3e-11  Score=91.52  Aligned_cols=119  Identities=22%  Similarity=0.563  Sum_probs=80.3

Q ss_pred             Cccccccccccccccc---ccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCChhHHHH
Q 024566           19 GSSFTCEICIEPMAAS---KKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSK   95 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~---~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~   95 (265)
                      .+.++|+||++.+.++   ......++|||.||.+|+.+|+..        ...||.  |+..+....+..+.-      
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~--------~~~CP~--Cr~~~~~~~l~~l~i------   68 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN--------ANTCPT--CRKKINHKRYHPIYI------   68 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTT--------CSBCTT--TCCBCTTTCEEECBC------
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHh--------CCCCCC--CCCcCcccccccccc------
Confidence            4578999999998655   111235899999999999999862        238999  999988766554311      


Q ss_pred             HHHHHHHHhhcCCCccccCCcCcccceeccccccCCcCeeeCCCcccccccccccccCCCCCChhHHhchhhchHHHHHH
Q 024566           96 WCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQL  175 (265)
Q Consensus        96 ~~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~~~C~~~~~~~~~~d~~~~~~  175 (265)
                                 ..+...||-  |...+......   ........|++.||..|...|.                      
T Consensus        69 -----------~~~~~~C~i--C~~~~~~~~~~---~~~~~~~~CgH~fc~~Ci~~~~----------------------  110 (133)
T 4ap4_A           69 -----------GSGTVSCPI--CMDGYSEIVQN---GRLIVSTECGHVFCSQCLRDSL----------------------  110 (133)
T ss_dssp             -----------SSSSCBCTT--TCCBHHHHHHT---TCCEEEETTSBEEEHHHHHHHH----------------------
T ss_pred             -----------CCCCCCCCC--CCCcccccccc---CcceEeCCCCChhhHHHHHHHH----------------------
Confidence                       234566773  76655432111   1222344799999999965442                      


Q ss_pred             HhcCCcccCCCCCceeeec
Q 024566          176 VERMKWARCPACGHCVERK  194 (265)
Q Consensus       176 ~~~~~~k~CP~C~~~iek~  194 (265)
                       +  ..+.||.|+..+.++
T Consensus       111 -~--~~~~CP~Cr~~~~~~  126 (133)
T 4ap4_A          111 -K--NANTCPTCRKKINHK  126 (133)
T ss_dssp             -H--HCSBCTTTCCBCCGG
T ss_pred             -H--cCCCCCCCCCcCChh
Confidence             1  136999999998865

>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=99.05  E-value=1.6e-10  Score=90.84  Aligned_cols=133  Identities=21%  Similarity=0.440  Sum_probs=84.2

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCChhHHHHH
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKW   96 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~   96 (265)
                      .-.+.+.|+||++.+.++.    .++|||.||.+|+..++....       .+||.  |+..+....+.   ....+++ 
T Consensus        14 ~~~~~~~C~IC~~~~~~pv----~~~CgH~fC~~Ci~~~~~~~~-------~~CP~--Cr~~~~~~~~~---~~~~~~~-   76 (170)
T 3hcs_A           14 PLESKYECPICLMALREAV----QTPCGHRFCKACIIKSIRDAG-------HKCPV--DNEILLENQLF---PDNFAKR-   76 (170)
T ss_dssp             CCCGGGBCTTTCSBCSSEE----ECTTSCEEEHHHHHHHHHHHC-------SBCTT--TCCBCCGGGCE---ECHHHHH-
T ss_pred             CCCCCCCCCCCChhhcCcE----ECCCCCHHHHHHHHHHHHhCC-------CCCCC--CccCcchhhhh---hhHHHHH-
Confidence            3456789999999997664    379999999999999997531       28999  99888775432   2222221 


Q ss_pred             HHHHHHHhhcCCCccccCCcCcccceecccccc----CCcCeeeCCCcccccccccccccCCCCCChhHHhchhhchHHH
Q 024566           97 CDVLCEDYVLGFERSYCPNTNCMALVVNECERS----GKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVF  172 (265)
Q Consensus        97 ~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~----~~~~~~~C~~C~~~~C~~C~~~~H~~~~C~~~~~~~~~~d~~~  172 (265)
                             .+. .-.++||+.+|+..+.......    -.-..+.|+.|+..+ .+....+|....|.             
T Consensus        77 -------~i~-~l~v~C~n~GC~~~~~~~~l~~H~~~C~~~~v~C~~C~~~~-~r~~l~~H~~~~C~-------------  134 (170)
T 3hcs_A           77 -------EIL-SLMVKCPNEGCLHKMELRHLEDHQAHCEFALMDCPQCQRPF-QKFHINIHILKDCP-------------  134 (170)
T ss_dssp             -------HHH-TSEEECCSTTCCCEEEGGGHHHHHTTCTTSEEECTTTCCEE-EGGGHHHHHHHTCT-------------
T ss_pred             -------HHh-hcccCCCCCCCCceecHhHHHHHHhcCCceeeECCCCChHH-HHHHHHHHhhhhCC-------------
Confidence                   111 3458899999999887655321    013456676666554 22333333332332             


Q ss_pred             HHHHhcCCcccCCCCCceeeec
Q 024566          173 GQLVERMKWARCPACGHCVERK  194 (265)
Q Consensus       173 ~~~~~~~~~k~CP~C~~~iek~  194 (265)
                            .....||.|+..+...
T Consensus       135 ------~r~~~C~~C~~~~~~~  150 (170)
T 3hcs_A          135 ------RRQVSCDNCAASMAFE  150 (170)
T ss_dssp             ------TCEEECTTTCCEEEGG
T ss_pred             ------CCCeECCCCCCccCHH
Confidence                  2446688887777643

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

Probab=98.90  E-value=1.3e-09  Score=75.85  Aligned_cols=67  Identities=16%  Similarity=0.435  Sum_probs=50.3

Q ss_pred             cCCCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCC
Q 024566           15 KGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVI   88 (265)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l   88 (265)
                      .....+..+|+||++.+.+.......++|||.||.+|+..|+...     .....||.  |+..+....+..+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~-----~~~~~CP~--Cr~~~~~~~i~~l~   75 (88)
T 2ct2_A            9 LDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASS-----INGVRCPF--CSKITRITSLTQLT   75 (88)
T ss_dssp             CCCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHC-----SSCBCCTT--TCCCBCCSSTTTSE
T ss_pred             hhhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcC-----CCCcCCCC--CCCcccchhHHHHH
Confidence            334466789999999987633222357999999999999999853     23579999  99988877665543

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

Probab=98.83  E-value=6.6e-09  Score=69.48  Aligned_cols=60  Identities=22%  Similarity=0.423  Sum_probs=47.2

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCC
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIP   89 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~   89 (265)
                      ...+...|+||++.+.++..   +.+|+|.||..|+..|+..        ...||.  |+..+...++...+.
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~---~~~CgH~fC~~Ci~~~~~~--------~~~CP~--Cr~~~~~~~~~~~~~   70 (72)
T 2djb_A           11 ELTPYILCSICKGYLIDATT---ITECLHTFCKSCIVRHFYY--------SNRCPK--CNIVVHQTQPLSGPS   70 (72)
T ss_dssp             CCCGGGSCTTTSSCCSSCEE---CSSSCCEECHHHHHHHHHH--------CSSCTT--TCCCCCSSCSCCCCS
T ss_pred             hcCCCCCCCCCChHHHCcCE---ECCCCCHHHHHHHHHHHHc--------CCcCCC--cCcccCcccccccCC
Confidence            34567899999999876543   3599999999999999974        248999  999988876655443

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

Probab=98.82  E-value=8.4e-09  Score=71.05  Aligned_cols=61  Identities=26%  Similarity=0.602  Sum_probs=48.4

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCcc
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE   85 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~   85 (265)
                      .-.+...|+||++.+.++.    .++|+|.||.+|+..|+......+  ....||.  |+..+..+.+.
T Consensus        15 ~~~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~~~~~--~~~~CP~--Cr~~~~~~~~~   75 (85)
T 2ecv_A           15 NVKEEVTCPICLELLTQPL----SLDCGHSFCQACLTANHKKSMLDK--GESSCPV--CRISYQPENIR   75 (85)
T ss_dssp             CCCCCCCCTTTCSCCSSCB----CCSSSCCBCTTHHHHHHHHHHHTT--SCCCCTT--TCCSSCSSSCC
T ss_pred             HccCCCCCCCCCcccCCce----eCCCCCHHHHHHHHHHHHHhhcCC--CCCcCCC--CCCccCHHhcC
Confidence            3456789999999986543    479999999999999999876542  3679999  99988876544

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

Probab=98.81  E-value=5e-09  Score=70.17  Aligned_cols=57  Identities=25%  Similarity=0.538  Sum_probs=45.0

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      ...+...|+||++.+.++.    .++|+|.||.+|+..|+..     ......||.  |+..+..+.+
T Consensus        16 ~~~~~~~C~IC~~~~~~~~----~~~CgH~fC~~Ci~~~~~~-----~~~~~~CP~--Cr~~~~~~~~   72 (73)
T 2ysl_A           16 KLQEEVICPICLDILQKPV----TIDCGHNFCLKCITQIGET-----SCGFFKCPL--CKTSVRKNAI   72 (73)
T ss_dssp             CCCCCCBCTTTCSBCSSEE----ECTTCCEEEHHHHHHHCSS-----SCSCCCCSS--SCCCCCCCCC
T ss_pred             hCccCCEeccCCcccCCeE----EcCCCChhhHHHHHHHHHc-----CCCCCCCCC--CCCcCCcccC
Confidence            3456789999999987544    3699999999999999861     234679999  9998877655

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

Probab=98.79  E-value=9.7e-09  Score=70.74  Aligned_cols=60  Identities=25%  Similarity=0.517  Sum_probs=47.3

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCcc
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE   85 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~   85 (265)
                      -.+.+.|+||++.+..+.    .++|+|.||..|+..|+......  .....||.  |+..+..+.+.
T Consensus        16 ~~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~~~~--~~~~~CP~--Cr~~~~~~~~~   75 (85)
T 2ecw_A           16 IKEEVTCPICLELLKEPV----SADCNHSFCRACITLNYESNRNT--DGKGNCPV--CRVPYPFGNLK   75 (85)
T ss_dssp             CCTTTSCTTTCSCCSSCE----ECTTSCCBCHHHHHHHHHHSBCT--TSCBCCTT--TCCCCCTTCCE
T ss_pred             CccCCCCcCCChhhCcce----eCCCCCHHHHHHHHHHHHhccCC--CCCCCCCC--CCCcCCHHhCC
Confidence            456789999999986654    47899999999999999876532  34679999  99988776543

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

Probab=98.78  E-value=7e-09  Score=68.08  Aligned_cols=54  Identities=22%  Similarity=0.636  Sum_probs=43.2

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      ..+.+.|+||++.+.++.    .++|||.||.+|+..|+.       .....||.  |+..+..+++
T Consensus        12 ~~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~-------~~~~~CP~--Cr~~~~~~~i   65 (66)
T 2ecy_A           12 VEDKYKCEKCHLVLCSPK----QTECGHRFCESCMAALLS-------SSSPKCTA--CQESIVKDKV   65 (66)
T ss_dssp             CCCCEECTTTCCEESSCC----CCSSSCCCCHHHHHHHHT-------TSSCCCTT--TCCCCCTTTC
T ss_pred             CCcCCCCCCCChHhcCee----ECCCCCHHHHHHHHHHHH-------hCcCCCCC--CCcCCChhhc
Confidence            356789999999986554    379999999999999985       13458999  9998877553

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

Probab=98.78  E-value=2.9e-09  Score=69.74  Aligned_cols=59  Identities=19%  Similarity=0.417  Sum_probs=44.4

Q ss_pred             ccccccccc-cccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCC
Q 024566           21 SFTCEICIE-PMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVI   88 (265)
Q Consensus        21 ~~~C~IC~~-~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l   88 (265)
                      ...|+||++ .+.++......++|||.||.+|+.+++..       ....||.  |+..+....+...+
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~-------~~~~CP~--Cr~~~~~~~~~~~~   62 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR-------GAGNCPE--CGTPLRKSNFRVQL   62 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHT-------TSSSCTT--TCCCCSSCCCEEEC
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHc-------CCCcCCC--CCCccccccceeec
Confidence            578999999 66555432224799999999999999762       2468999  99999887765543

>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=98.76  E-value=1.2e-08  Score=74.32  Aligned_cols=72  Identities=22%  Similarity=0.610  Sum_probs=53.0

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCC-hhHHHHHH
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIP-ASLFSKWC   97 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~-~~~~~~~~   97 (265)
                      .+...|+||++.+.++.    .++|||.||..|+..|+...     .....||.  |+..+....+..... .++++.+.
T Consensus        19 ~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~-----~~~~~CP~--Cr~~~~~~~~~~~~~l~~~~~~~~   87 (112)
T 1jm7_A           19 QKILECPICLELIKEPV----STKCDHIFCKFCMLKLLNQK-----KGPSQCPL--CKNDITKRSLQESTRFSQLVEELL   87 (112)
T ss_dssp             HHHTSCSSSCCCCSSCC----BCTTSCCCCSHHHHHHHHSS-----SSSCCCTT--TSCCCCTTTCBCCCSSSHHHHHHH
T ss_pred             cCCCCCcccChhhcCeE----ECCCCCHHHHHHHHHHHHhC-----CCCCCCcC--CCCcCCHhhcCccHHHHHHHHHHH
Confidence            34679999999886554    37999999999999998732     23478999  999988876654332 35666666


Q ss_pred             HHHH
Q 024566           98 DVLC  101 (265)
Q Consensus        98 ~~~~  101 (265)
                      +.+.
T Consensus        88 ~~~~   91 (112)
T 1jm7_A           88 KIIC   91 (112)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5543

>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=98.76  E-value=6.2e-09  Score=76.36  Aligned_cols=84  Identities=30%  Similarity=0.558  Sum_probs=60.0

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCChhHHHHHHH
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCD   98 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~~~   98 (265)
                      .+.+.|+||++.+.++.    .++|||.||..|+..|+...       ...||.  |+..+....+...+ ..    +.+
T Consensus        21 ~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~-------~~~CP~--Cr~~~~~~~~~~~~-~~----l~~   82 (116)
T 1rmd_A           21 VKSISCQICEHILADPV----ETSCKHLFCRICILRCLKVM-------GSYCPS--CRYPCFPTDLESPV-KS----FLN   82 (116)
T ss_dssp             HHHTBCTTTCSBCSSEE----ECTTSCEEEHHHHHHHHHHT-------CSBCTT--TCCBCCGGGCBCCC-HH----HHH
T ss_pred             cCCCCCCCCCcHhcCcE----EcCCCCcccHHHHHHHHhHC-------cCcCCC--CCCCCCHhhccccH-HH----HHH
Confidence            34679999999987654    37999999999999999752       347999  99998887665431 11    111


Q ss_pred             HHHHHhhcCCCccccCCcCcccceeccc
Q 024566           99 VLCEDYVLGFERSYCPNTNCMALVVNEC  126 (265)
Q Consensus        99 ~~~~~~~~~~~~~~Cp~~~C~~~~~~~~  126 (265)
                      .+.      .-.++||+.+|+..+....
T Consensus        83 ~i~------~l~v~C~~~gC~~~~~~~~  104 (116)
T 1rmd_A           83 ILN------SLMVKCPAQDCNEEVSLEK  104 (116)
T ss_dssp             HHH------HCEEECCSTTCCCEEEHHH
T ss_pred             HHH------HhcCCCCCCCCcchhhHhH
Confidence            111      2347899989988876544

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A

Probab=98.72  E-value=6.4e-09  Score=65.58  Aligned_cols=52  Identities=23%  Similarity=0.516  Sum_probs=40.9

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      .....|+||++.+.+.......++|+|.||.+|+..|+...        ..||.  |+..++
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~--------~~CP~--Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG--------YRCPL--CSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHT--------CCCTT--SCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcC--------CcCCC--CCCcCC
Confidence            45688999999986533333468999999999999999853        57999  987764

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

Probab=98.71  E-value=9.1e-09  Score=68.45  Aligned_cols=60  Identities=20%  Similarity=0.647  Sum_probs=46.4

Q ss_pred             CCcccccccccccccccc---cccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCC
Q 024566           18 GGSSFTCEICIEPMAASK---KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPV   87 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~---~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~   87 (265)
                      ..+...|+||++.+.++.   .....++|+|.||.+|+..|+...        ..||.  |+..+....+..+
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~--------~~CP~--Cr~~~~~~~~~~~   69 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA--------NTCPT--CRKKINHKRYHPI   69 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHC--------SBCTT--TCCBCCCCSCCCC
T ss_pred             CCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcC--------CCCCC--CCCccChhheeec
Confidence            355789999999986541   122358999999999999998732        38999  9999988777654

>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=98.70  E-value=3.1e-08  Score=72.81  Aligned_cols=86  Identities=23%  Similarity=0.433  Sum_probs=61.1

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCChhHHHHH
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKW   96 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~   96 (265)
                      .-.+.+.|+||++.+.++.    .++|||.||..|+..|+...-       ..||.  |+..+....+.   ....+++ 
T Consensus        14 ~~~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~~-------~~CP~--Cr~~~~~~~~~---~~~~l~~-   76 (118)
T 3hct_A           14 PLESKYECPICLMALREAV----QTPCGHRFCKACIIKSIRDAG-------HKCPV--DNEILLENQLF---PDNFAKR-   76 (118)
T ss_dssp             CCCGGGBCTTTCSBCSSEE----ECTTSCEEEHHHHHHHHHHHC-------SBCTT--TCCBCCGGGCE---ECHHHHH-
T ss_pred             CCCCCCCCCcCChhhcCeE----ECCcCChhhHHHHHHHHhhCC-------CCCCC--CCCCcCHHhcc---cCHHHHH-
Confidence            3456789999999987654    378999999999999997531       28999  99888765432   2222221 


Q ss_pred             HHHHHHHhhcCCCccccCCcCcccceecccc
Q 024566           97 CDVLCEDYVLGFERSYCPNTNCMALVVNECE  127 (265)
Q Consensus        97 ~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~  127 (265)
                             .+. .-.++||+.+|...+.....
T Consensus        77 -------~i~-~l~v~C~n~gC~~~~~~~~l   99 (118)
T 3hct_A           77 -------EIL-SLMVKCPNEGCLHKMELRHL   99 (118)
T ss_dssp             -------HHH-TSEEECSSTTCCCEEEGGGS
T ss_pred             -------HHc-cceeECCCCCCCCEEeeHHH
Confidence                   111 34589999999988876554

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

Probab=98.68  E-value=2.8e-09  Score=72.57  Aligned_cols=61  Identities=25%  Similarity=0.460  Sum_probs=46.2

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCcc
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE   85 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~   85 (265)
                      -.+...|+||++.+.++.    .++|||.||.+|+..|+...... ......||.  |+..+....+.
T Consensus         9 ~~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~~~~~~~~~-~~~~~~CP~--Cr~~~~~~~l~   69 (79)
T 2egp_A            9 VQEEVTCPICLELLTEPL----SLDCGHSLCRACITVSNKEAVTS-MGGKSSCPV--CGISYSFEHLQ   69 (79)
T ss_dssp             CCCCCEETTTTEECSSCC----CCSSSCCCCHHHHSCCCCCCSSS-CCCCCCCSS--SCCCCCSSGGG
T ss_pred             cccCCCCcCCCcccCCee----ECCCCCHHHHHHHHHHHHhcccC-CCCCCcCCC--CCCcCCHhhCC
Confidence            355789999999986554    37999999999999998754332 234679999  99888765443

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

Probab=98.68  E-value=3.1e-08  Score=64.30  Aligned_cols=47  Identities=23%  Similarity=0.545  Sum_probs=37.0

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCC
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (265)
                      ...+...|+||++.+.++.    .++|||.||.+|+.+|+...     .....||.
T Consensus        16 ~~~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~-----~~~~~CP~   62 (63)
T 2ysj_A           16 KLQEEVICPICLDILQKPV----TIDCGHNFCLKCITQIGETS-----CGFFKCPL   62 (63)
T ss_dssp             CCCCCCBCTTTCSBCSSCE----ECTTSSEECHHHHHHHHHHC-----SSCCCCSC
T ss_pred             hCccCCCCCcCCchhCCeE----EeCCCCcchHHHHHHHHHcC-----CCCCcCcC
Confidence            3456789999999987654    36999999999999999841     23568987

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

Probab=98.67  E-value=1.6e-08  Score=67.96  Aligned_cols=55  Identities=24%  Similarity=0.536  Sum_probs=42.7

Q ss_pred             ccCCCCcccccccccccccccccccccCC-CCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           14 EKGGGGSSFTCEICIEPMAASKKFKNRNL-CTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        14 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      +.....+.+.|+||++.+.++..    ++ |+|.||..|+..|+...      ....||.  |+..+.
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~----~~~CgH~fC~~Ci~~~~~~~------~~~~CP~--Cr~~~~   63 (74)
T 2yur_A            8 EDDPIPDELLCLICKDIMTDAVV----IPCCGNSYCDECIRTALLES------DEHTCPT--CHQNDV   63 (74)
T ss_dssp             CCCCSCGGGSCSSSCCCCTTCEE----CSSSCCEECTTHHHHHHHHS------SSSCCSS--SCCSSC
T ss_pred             ccccCCCCCCCcCCChHHhCCeE----cCCCCCHHHHHHHHHHHHhc------CCCcCCC--CCCcCC
Confidence            34445667999999999976543    67 99999999999999852      2468999  998643

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

Probab=98.65  E-value=1.5e-08  Score=71.03  Aligned_cols=50  Identities=24%  Similarity=0.589  Sum_probs=40.5

Q ss_pred             CCcccccccccccccccccccccCC-CCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNL-CTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (265)
                      -.+.+.|+||++.+.++.    .++ |||.||..|+..|+...      ....||.  |+..+
T Consensus        10 ~~~~~~C~IC~~~~~~p~----~~~~CgH~fC~~Ci~~~~~~~------~~~~CP~--Cr~~~   60 (92)
T 3ztg_A           10 IPDELLCLICKDIMTDAV----VIPCCGNSYCDECIRTALLES------DEHTCPT--CHQND   60 (92)
T ss_dssp             CCTTTEETTTTEECSSCE----ECTTTCCEECHHHHHHHHHHC------TTCCCTT--TCCSS
T ss_pred             CCcCCCCCCCChhhcCce----ECCCCCCHHHHHHHHHHHHhc------CCCcCcC--CCCcC
Confidence            356789999999987664    367 99999999999998732      2368999  99886

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

Probab=98.64  E-value=2.9e-08  Score=67.35  Aligned_cols=66  Identities=20%  Similarity=0.416  Sum_probs=48.2

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCcc-CCCChhHHHHHH
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE-PVIPASLFSKWC   97 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~-~~l~~~~~~~~~   97 (265)
                      .+.+.|+||++.+.++..    ++|||.||..|+..|+..       ....||.  |+..+....+. ...-.++++.|.
T Consensus         6 ~~~~~C~IC~~~~~~Pv~----~~CgH~fc~~Ci~~~~~~-------~~~~CP~--C~~~~~~~~l~~n~~l~~~i~~~~   72 (78)
T 1t1h_A            6 PEYFRCPISLELMKDPVI----VSTGQTYERSSIQKWLDA-------GHKTCPK--SQETLLHAGLTPNYVLKSLIALWC   72 (78)
T ss_dssp             SSSSSCTTTSCCCSSEEE----ETTTEEEEHHHHHHHHTT-------TCCBCTT--TCCBCSSCCCEECTTTHHHHHHHH
T ss_pred             cccCCCCCccccccCCEE----cCCCCeecHHHHHHHHHH-------CcCCCCC--CcCCCChhhCccCHHHHHHHHHHH
Confidence            457899999999976643    689999999999999962       2468999  99988765443 222234455554

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

Probab=98.63  E-value=2.5e-08  Score=65.84  Aligned_cols=56  Identities=20%  Similarity=0.622  Sum_probs=42.3

Q ss_pred             CCCCcccccccccccccccc---cccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           16 GGGGSSFTCEICIEPMAASK---KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~---~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      ........|+||++.+.++.   ..+..++|+|.||.+|+..|+..        ...||.  |+..+..
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~--------~~~CP~--Cr~~~~~   68 (69)
T 2ea6_A           10 LRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN--------ANTCPT--CRKKINH   68 (69)
T ss_dssp             CCTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHH--------CSSCTT--TCCCCCC
T ss_pred             cCCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHc--------CCCCCC--CCCccCc
Confidence            34466789999999986542   11235899999999999999974        237999  9987753

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

Probab=98.63  E-value=3.1e-08  Score=67.20  Aligned_cols=58  Identities=19%  Similarity=0.411  Sum_probs=41.4

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      ..+..+|+||++.+......+..++|||.||..|+.+++..       ....||.  |+..+....+
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~-------~~~~CP~--CR~~~~~~~~   65 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTD-------ENGLCPA--CRKPYPEDPA   65 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTS-------SCSBCTT--TCCBCSSCSS
T ss_pred             cccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhc-------CCCCCCC--CCCccCCCch
Confidence            35578999999988432221112359999999999988641       2468999  9998876543

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

Probab=98.62  E-value=1.9e-08  Score=68.28  Aligned_cols=60  Identities=25%  Similarity=0.577  Sum_probs=45.7

Q ss_pred             CCCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccC
Q 024566           16 GGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (265)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (265)
                      ........|+||++.+...... ..++|+|.||..|+..|+..        ...||.  |+..+....+..
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~-~~~~C~H~fc~~Ci~~~~~~--------~~~CP~--Cr~~~~~~~~~~   69 (78)
T 2ect_A           10 EHVGSGLECPVCKEDYALGESV-RQLPCNHLFHDSCIVPWLEQ--------HDSCPV--CRKSLTGQNTAT   69 (78)
T ss_dssp             TTSSSSCCCTTTTSCCCTTSCE-EECTTSCEEETTTTHHHHTT--------TCSCTT--TCCCCCCSCSCC
T ss_pred             ccCCCCCCCeeCCccccCCCCE-EEeCCCCeecHHHHHHHHHc--------CCcCcC--cCCccCCcccCC
Confidence            3445678999999998655432 25789999999999999852        148999  999887766543

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

Probab=98.60  E-value=1.7e-08  Score=65.61  Aligned_cols=58  Identities=21%  Similarity=0.664  Sum_probs=44.6

Q ss_pred             cccccccccccccccc---cccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCC
Q 024566           20 SSFTCEICIEPMAASK---KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPV   87 (265)
Q Consensus        20 ~~~~C~IC~~~~~~~~---~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~   87 (265)
                      +..+|+||++.+.++.   .....++|||.||.+|+..|+..        ...||.  |+..+...++..+
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~--------~~~CP~--Cr~~~~~~~~~~~   62 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN--------ANTCPT--CRKKINHKRYHPI   62 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHH--------CSBCTT--TCCBCTTTCEEEC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHc--------CCCCCC--CCccCCccceeee
Confidence            4578999999986541   11235899999999999999974        238999  9999888766544

>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=98.59  E-value=5.1e-08  Score=69.48  Aligned_cols=57  Identities=25%  Similarity=0.631  Sum_probs=45.6

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCC
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPV   87 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~   87 (265)
                      .+.+.|+||++.+.++..   .++|||.||..|+..|+...       ...||.  |+..+....+...
T Consensus        20 ~~~~~C~IC~~~~~~p~~---~~~CgH~FC~~Ci~~~~~~~-------~~~CP~--Cr~~~~~~~l~~~   76 (100)
T 3lrq_A           20 AEVFRCFICMEKLRDARL---CPHCSKLCCFSCIRRWLTEQ-------RAQCPH--CRAPLQLRELVNC   76 (100)
T ss_dssp             HHHTBCTTTCSBCSSEEE---CTTTCCEEEHHHHHHHHHHT-------CSBCTT--TCCBCCGGGCEEC
T ss_pred             CCCCCCccCCccccCccc---cCCCCChhhHHHHHHHHHHC-------cCCCCC--CCCcCCHHHhHhh
Confidence            457899999999976542   38999999999999999853       158999  9999987665443

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens}

Probab=98.59  E-value=5.9e-08  Score=64.13  Aligned_cols=55  Identities=22%  Similarity=0.620  Sum_probs=41.9

Q ss_pred             CCCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           16 GGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      ........|+||++.+...... ..++|+|.||..|+..|+...        ..||.  |+..+..
T Consensus         9 ~~~~~~~~C~IC~~~~~~~~~~-~~~~C~H~fc~~Ci~~~~~~~--------~~CP~--Cr~~~~~   63 (69)
T 2kiz_A            9 TEEDTEEKCTICLSILEEGEDV-RRLPCMHLFHQVCVDQWLITN--------KKCPI--CRVDIEA   63 (69)
T ss_dssp             CSTTCCCSBTTTTBCCCSSSCE-EECTTSCEEEHHHHHHHHHHC--------SBCTT--TCSBSCS
T ss_pred             CcCCCCCCCeeCCccccCCCcE-EEeCCCCHHHHHHHHHHHHcC--------CCCcC--cCccccC
Confidence            3456678999999988544332 358999999999999999741        25999  9987755

>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=98.58  E-value=4.9e-09  Score=79.59  Aligned_cols=92  Identities=17%  Similarity=0.339  Sum_probs=59.7

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCCCChh-HH-H
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPAS-LF-S   94 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~-~~-~   94 (265)
                      .-.+.+.|+||++.+.++.    .++|||.||..|+..|+..       ....||.  |+..+..+....+++.+ ++ +
T Consensus        27 ~l~~~~~C~IC~~~~~~pv----~~~CgH~FC~~Ci~~~~~~-------~~~~CP~--Cr~~~~~~~~~~~l~~~~~~~d   93 (141)
T 3knv_A           27 KLEAKYLCSACRNVLRRPF----QAQCGHRYCSFCLASILSS-------GPQNCAA--CVHEGIYEEGISILESSSAFPD   93 (141)
T ss_dssp             GCCGGGBCTTTCSBCSSEE----ECTTSCEEEHHHHHHHGGG-------SCEECHH--HHHTTCCCTTTTEECGGGCEEC
T ss_pred             cCCcCcCCCCCChhhcCcE----ECCCCCccCHHHHHHHHhc-------CCCCCCC--CCCcccccccccccchhhhccc
Confidence            3456789999999987664    3799999999999999851       2358998  98766544332222211 11 0


Q ss_pred             HHHHHHHHHhhcCCCccccCCcCcccceeccc
Q 024566           95 KWCDVLCEDYVLGFERSYCPNTNCMALVVNEC  126 (265)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~  126 (265)
                      ...    +..+. .-.++||+.+|...+....
T Consensus        94 ~~~----~~~i~-~L~v~Cpn~GC~~~~~l~~  120 (141)
T 3knv_A           94 NAA----RREVE-SLPAVCPSDGCTWKGTLKE  120 (141)
T ss_dssp             HHH----HHHHH-TSEEECCSTTCCCEEEHHH
T ss_pred             HHH----HHHHc-ccccccCCCCCCCEeEHHH
Confidence            111    11121 3458999989988877654

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

Probab=98.57  E-value=1.5e-08  Score=67.49  Aligned_cols=57  Identities=18%  Similarity=0.400  Sum_probs=44.1

Q ss_pred             CCCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccC
Q 024566           16 GGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (265)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (265)
                      ....+...|+||++.+.++.    .++|+|.||.+|+..|+..        ...||.  |+..+....+..
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~----~~~CgH~fC~~Ci~~~~~~--------~~~CP~--Cr~~~~~~~~~~   66 (71)
T 2d8t_A           10 APSLTVPECAICLQTCVHPV----SLPCKHVFCYLCVKGASWL--------GKRCAL--CRQEIPEDFLDS   66 (71)
T ss_dssp             CSSSSCCBCSSSSSBCSSEE----EETTTEEEEHHHHHHCTTC--------SSBCSS--SCCBCCHHHHSC
T ss_pred             ccCCCCCCCccCCcccCCCE----EccCCCHHHHHHHHHHHHC--------CCcCcC--cCchhCHhhccC
Confidence            34566789999999986553    3689999999999998752        258999  999887765543

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

Probab=98.57  E-value=6.9e-08  Score=65.98  Aligned_cols=50  Identities=22%  Similarity=0.529  Sum_probs=41.1

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      .....+.|+||++.+.++.    .++|+|.||..|+..|+..        ...||.  |+..+.
T Consensus        11 ~~~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~--------~~~CP~--Cr~~~~   60 (81)
T 2csy_A           11 EEEIPFRCFICRQAFQNPV----VTKCRHYFCESCALEHFRA--------TPRCYI--CDQPTG   60 (81)
T ss_dssp             CCCCCSBCSSSCSBCCSEE----ECTTSCEEEHHHHHHHHHH--------CSBCSS--SCCBCC
T ss_pred             cCCCCCCCcCCCchhcCee----EccCCCHhHHHHHHHHHHC--------CCcCCC--cCcccc
Confidence            3456789999999986653    4899999999999999973        347999  998886

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

Probab=98.54  E-value=6.8e-08  Score=61.42  Aligned_cols=47  Identities=26%  Similarity=0.611  Sum_probs=36.0

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCC
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (265)
                      ...+...|+||++.+.++.    .++|+|.||.+|+..|+..     ......||.
T Consensus        11 ~~~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~-----~~~~~~CP~   57 (58)
T 2ecj_A           11 NLQVEASCSVCLEYLKEPV----IIECGHNFCKACITRWWED-----LERDFPCPV   57 (58)
T ss_dssp             CSCCCCBCSSSCCBCSSCC----CCSSCCCCCHHHHHHHTTS-----SCCSCCCSC
T ss_pred             ccccCCCCccCCcccCccE----eCCCCCccCHHHHHHHHHh-----cCCCCCCCC
Confidence            3456789999999987653    4799999999999999752     123468886

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

Probab=98.50  E-value=6.7e-08  Score=64.79  Aligned_cols=54  Identities=20%  Similarity=0.570  Sum_probs=41.7

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      +......|+||++.+..+... ..++|+|.||.+|+..|+...        ..||.  |+..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~-~~~~C~H~f~~~Ci~~~~~~~--------~~CP~--Cr~~~~~   64 (74)
T 2ep4_A           11 ELNLHELCAVCLEDFKPRDEL-GICPCKHAFHRKCLIKWLEVR--------KVCPL--CNMPVLQ   64 (74)
T ss_dssp             CCCCSCBCSSSCCBCCSSSCE-EEETTTEEEEHHHHHHHHHHC--------SBCTT--TCCBCSS
T ss_pred             cCCCCCCCcCCCcccCCCCcE-EEcCCCCEecHHHHHHHHHcC--------CcCCC--cCccccc
Confidence            345577999999998765543 246899999999999999742        27999  9987644

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

Probab=98.49  E-value=3.5e-08  Score=70.19  Aligned_cols=53  Identities=25%  Similarity=0.636  Sum_probs=42.3

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      .+.+.|+||++.+.++..   ..+|||.||..|+..|+..        ...||.  |+..+....+
T Consensus        20 ~~~~~C~IC~~~~~~p~~---~~~CgH~fC~~Ci~~~~~~--------~~~CP~--Cr~~~~~~~l   72 (99)
T 2y43_A           20 DDLLRCGICFEYFNIAMI---IPQCSHNYCSLCIRKFLSY--------KTQCPT--CCVTVTEPDL   72 (99)
T ss_dssp             HHHTBCTTTCSBCSSEEE---CTTTCCEEEHHHHHHHHTT--------CCBCTT--TCCBCCGGGC
T ss_pred             CCCCCcccCChhhCCcCE---ECCCCCHhhHHHHHHHHHC--------CCCCCC--CCCcCChhhC
Confidence            456899999999976543   3589999999999999862        258999  9998876543

>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=98.47  E-value=1.6e-07  Score=66.03  Aligned_cols=61  Identities=34%  Similarity=0.673  Sum_probs=47.6

Q ss_pred             CCcccccccccccccccccccccC-CCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCC-CCccCc
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRN-LCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHN-LDPFAC   84 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~-~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~-l~~~~i   84 (265)
                      ....+.|+||++.+.++..    + .|||.||+.|+..|+...-.  ......||..+|... +....+
T Consensus         4 ~~~~~~CPI~~~~~~dPV~----~~~cGh~f~r~cI~~~l~~~~~--~~~~~~CP~tgc~~~~l~~~~L   66 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKKPVK----NKVCGHTYEEDAIVRMIESRQK--RKKKAYCPQIGCSHTDIRKSDL   66 (94)
T ss_dssp             CSSCCBCTTTCSBCSSEEE----ESSSCCEEEHHHHHHHHHHHHT--TTCCBCCCSTTCCCCCBCGGGE
T ss_pred             CCcEeECcCcCchhcCCEE----cCCCCCeecHHHHHHHHHHccC--cCCCCCCCcCcCcccccCHhhC
Confidence            4567899999999987764    5 59999999999999986532  124578999999977 766443

>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=98.44  E-value=1.3e-07  Score=77.94  Aligned_cols=67  Identities=28%  Similarity=0.492  Sum_probs=53.8

Q ss_pred             CCcccccCCCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566            9 PNEYLEKGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus         9 ~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      .++.+........+.|+||++.+.++..   ...|||.||+.|+..|+..      .....||..||+..+....+
T Consensus       169 dDDDI~v~~~~~el~CPIcl~~f~DPVt---s~~CGHsFcR~cI~~~~~~------~~~~~CPvtGCr~~l~~~dL  235 (267)
T 3htk_C          169 DEDDLQIEGGKIELTCPITCKPYEAPLI---SRKCNHVFDRDGIQNYLQG------YTTRDCPQAACSQVVSMRDF  235 (267)
T ss_dssp             CSSCCCCCSSBCCSBCTTTSSBCSSEEE---ESSSCCEEEHHHHHHHSTT------CSCEECSGGGCSCEECGGGE
T ss_pred             CCccceecCCceeeECcCccCcccCCee---eCCCCCcccHHHHHHHHHh------CCCCCCCcccccCcCchhhC
Confidence            4455666677889999999999988764   3689999999999999862      23478999999998877554

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

Probab=98.43  E-value=5.6e-08  Score=61.14  Aligned_cols=51  Identities=18%  Similarity=0.604  Sum_probs=38.3

Q ss_pred             CcccccccccccccccccccccC-CCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           19 GSSFTCEICIEPMAASKKFKNRN-LCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~-~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      .+..+|+||++++....... .+ .|+|.||.+|+..|+..        ...||.  |+..+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~-~~~~C~H~f~~~Ci~~w~~~--------~~~CP~--Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEAR-FLPRCGHGFHAECVDMWLGS--------HSTCPL--CRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCE-ECSSSCCEECTTHHHHTTTT--------CCSCSS--SCCCSC
T ss_pred             CCCCcCccCCccccCCCceE-ECCCCCCcccHHHHHHHHHc--------CCcCcC--CCCEeE
Confidence            34678999999987644333 35 49999999999999742        247999  987764

>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=98.42  E-value=1.1e-07  Score=70.58  Aligned_cols=50  Identities=28%  Similarity=0.773  Sum_probs=40.9

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      ...+.|+||++.+.++.    .++|||.||..|+..|+..       ....||.  |+..+..
T Consensus        50 ~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~-------~~~~CP~--Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELVFRPI----TTVCQHNVCKDCLDRSFRA-------QVFSCPA--CRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBCSSEE----ECTTSCEEEHHHHHHHHHT-------TCCBCTT--TCCBCCT
T ss_pred             ccCCCCCcCChHHcCcE----EeeCCCcccHHHHHHHHhH-------CcCCCCC--CCccCCC
Confidence            34578999999997654    3799999999999999971       2358999  9998866

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

Probab=98.42  E-value=4.1e-08  Score=62.16  Aligned_cols=48  Identities=21%  Similarity=0.510  Sum_probs=38.2

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCcc
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (265)
                      +.+.+.|+||++.+.++.    .++|+|.||..|+..           ....||.  |+..+...
T Consensus         3 e~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~-----------~~~~CP~--Cr~~~~~~   50 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCPK----LLPCLHTLCSGCLEA-----------SGMQCPI--CQAPWPLG   50 (56)
T ss_dssp             SCCCSSCSSSCSSCBCCS----CSTTSCCSBTTTCSS-----------SSSSCSS--CCSSSSCC
T ss_pred             cccCCCceEeCCccCCeE----EcCCCCcccHHHHcc-----------CCCCCCc--CCcEeecC
Confidence            456789999999987653    488999999999766           2468999  99877653

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

Probab=98.42  E-value=8.2e-08  Score=64.57  Aligned_cols=53  Identities=19%  Similarity=0.625  Sum_probs=41.7

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      ..+...|+||++++...... ..++|+|.||.+|+..|+...        ..||.  |+..+..
T Consensus        20 ~~~~~~C~IC~~~~~~~~~~-~~l~C~H~fh~~Ci~~w~~~~--------~~CP~--Cr~~~~~   72 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFESRQLL-RVLPCNHEFHAKCVDKWLKAN--------RTCPI--CRADSGP   72 (75)
T ss_dssp             SSSCCEETTTTEECCBTCEE-EEETTTEEEETTHHHHHHHHC--------SSCTT--TCCCCCC
T ss_pred             cCCCCCCeECCcccCCCCeE-EEECCCCHhHHHHHHHHHHcC--------CcCcC--cCCcCCC
Confidence            45668999999998765433 357899999999999998642        37999  9987765

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

Probab=98.39  E-value=2.1e-07  Score=67.78  Aligned_cols=58  Identities=22%  Similarity=0.500  Sum_probs=42.1

Q ss_pred             Ccccccccccccccccc--------------cccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           19 GSSFTCEICIEPMAASK--------------KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~--------------~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      .....|+||++++..+.              .....++|+|.||.+||..|+...-.   .....||.  |+..+..
T Consensus        23 ~~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~---~~~~~CP~--CR~~~~~   94 (114)
T 1v87_A           23 APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNK---DGSLQCPS--CKTIYGE   94 (114)
T ss_dssp             CCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCC---SSCCBCTT--TCCBSSS
T ss_pred             CCCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccC---CCCCcCCC--CCCccCC
Confidence            34569999999985432              12225889999999999999964321   23568999  9987754

>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=98.32  E-value=6.7e-07  Score=68.45  Aligned_cols=50  Identities=32%  Similarity=0.784  Sum_probs=41.6

Q ss_pred             cccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCcc
Q 024566           20 SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (265)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (265)
                      +.+.|+||++.+.++.    .++|+|.||..|+..|+..       ....||.  |+..+...
T Consensus        77 ~~~~C~IC~~~~~~pv----~~~CgH~fC~~Ci~~~~~~-------~~~~CP~--Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQPV----TTECFHNVCKDCLQRSFKA-------QVFSCPA--CRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSSEE----ECTTSCEEEHHHHHHHHHT-------TCCBCTT--TCCBCCTT
T ss_pred             cCCEeecCChhhcCCE----EcCCCCchhHHHHHHHHHh-------CCCcCCC--CCccCCCC
Confidence            4578999999987664    3899999999999999972       2458999  99988775

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

Probab=98.31  E-value=2.6e-07  Score=64.56  Aligned_cols=53  Identities=25%  Similarity=0.596  Sum_probs=40.6

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      ......|+||++.+...... ..++|+|.||..|+..|+..        ...||.  |+..+..
T Consensus        37 ~~~~~~C~IC~~~~~~~~~~-~~l~C~H~Fh~~Ci~~wl~~--------~~~CP~--Cr~~~~~   89 (91)
T 2l0b_A           37 VGQEMCCPICCSEYVKGDVA-TELPCHHYFHKPCVSIWLQK--------SGTCPV--CRCMFPP   89 (91)
T ss_dssp             SSSCSEETTTTEECCTTCEE-EEETTTEEEEHHHHHHHHTT--------TCBCTT--TCCBSSC
T ss_pred             cCCCCCCcccChhhcCCCcE-EecCCCChHHHHHHHHHHHc--------CCcCcC--cCccCCC
Confidence            34567899999998654432 34789999999999999852        238999  9988764

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

Probab=98.29  E-value=5.7e-08  Score=64.40  Aligned_cols=52  Identities=27%  Similarity=0.595  Sum_probs=40.8

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      ..+...|+||++.+.+     ..++|+|.||.+|+..|+.        ....||.  |+..+.....
T Consensus        12 ~~~~~~C~IC~~~~~~-----~~~~CgH~fc~~Ci~~~~~--------~~~~CP~--Cr~~~~~~~~   63 (70)
T 2ecn_A           12 LTDEEECCICMDGRAD-----LILPCAHSFCQKCIDKWSD--------RHRNCPI--CRLQMTGANE   63 (70)
T ss_dssp             CCCCCCCSSSCCSCCS-----EEETTTEEECHHHHHHSSC--------CCSSCHH--HHHCTTCCCC
T ss_pred             CCCCCCCeeCCcCccC-----cccCCCCcccHHHHHHHHH--------CcCcCCC--cCCcccCCCc
Confidence            4557899999999865     2589999999999999875        2458998  9887765543

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

Probab=98.27  E-value=2.6e-07  Score=69.83  Aligned_cols=48  Identities=31%  Similarity=0.814  Sum_probs=38.6

Q ss_pred             ccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCcc
Q 024566           21 SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (265)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (265)
                      .+.|+||++.+.++.    .++|||.||.+|+..|+..        ...||.  |+..+...
T Consensus        53 ~~~C~iC~~~~~~~~----~~~CgH~fc~~Ci~~~~~~--------~~~CP~--Cr~~~~~~  100 (138)
T 4ayc_A           53 ELQCIICSEYFIEAV----TLNCAHSFCSYCINEWMKR--------KIECPI--CRKDIKSK  100 (138)
T ss_dssp             HSBCTTTCSBCSSEE----EETTSCEEEHHHHHHHTTT--------CSBCTT--TCCBCCCE
T ss_pred             cCCCcccCcccCCce----ECCCCCCccHHHHHHHHHc--------CCcCCC--CCCcCCCC
Confidence            468999999987654    4799999999999998751        347999  99887643

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

Probab=98.27  E-value=2.9e-07  Score=60.52  Aligned_cols=50  Identities=32%  Similarity=0.702  Sum_probs=39.2

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      .....|+||++.+.++..   .++|+|.||.+|+..|+...        ..||.  |+..+..
T Consensus         3 ~~~~~C~IC~~~~~~~~~---~~~C~H~fc~~Ci~~~~~~~--------~~CP~--Cr~~~~~   52 (68)
T 1chc_A            3 TVAERCPICLEDPSNYSM---ALPCLHAFCYVCITRWIRQN--------PTCPL--CKVPVES   52 (68)
T ss_dssp             CCCCCCSSCCSCCCSCEE---ETTTTEEESTTHHHHHHHHS--------CSTTT--TCCCCCC
T ss_pred             CCCCCCeeCCccccCCcE---ecCCCCeeHHHHHHHHHhCc--------CcCcC--CChhhHh
Confidence            345789999999865432   58999999999999998631        37999  9987753

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=98.26  E-value=1.1e-06  Score=60.51  Aligned_cols=52  Identities=12%  Similarity=-0.022  Sum_probs=43.2

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (265)
                      -.+.+.|+||++.+.++..    ++|||.||+.|+..|+..        ...||.  |+..+....
T Consensus        11 ~p~~~~CpI~~~~m~dPV~----~~cGhtf~r~~I~~~l~~--------~~~cP~--~~~~l~~~~   62 (85)
T 2kr4_A           11 APDEFRDPLMDTLMTDPVR----LPSGTVMDRSIILRHLLN--------SPTDPF--NRQMLTESM   62 (85)
T ss_dssp             CCTTTBCTTTCSBCSSEEE----CTTSCEEEHHHHHHHHHH--------CSBCTT--TCCBCCGGG
T ss_pred             CchheECcccCchhcCCeE----CCCCCEECHHHHHHHHhc--------CCCCCC--CcCCCChHh
Confidence            3567999999999987764    789999999999999973        247999  998887654

>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=98.25  E-value=5.6e-07  Score=64.91  Aligned_cols=52  Identities=25%  Similarity=0.616  Sum_probs=41.8

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCcc
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (265)
                      -.+.+.|+||++.+.++..   ..+|||.||..|+..|+..        ...||.  |+..+...
T Consensus        12 ~~~~~~C~IC~~~~~~p~~---~~~CgH~fC~~Ci~~~~~~--------~~~CP~--Cr~~~~~~   63 (108)
T 2ckl_A           12 LNPHLMCVLCGGYFIDATT---IIECLHSFCKTCIVRYLET--------SKYCPI--CDVQVHKT   63 (108)
T ss_dssp             HGGGTBCTTTSSBCSSEEE---ETTTCCEEEHHHHHHHHTS--------CSBCTT--TCCBSCSS
T ss_pred             cCCcCCCccCChHHhCcCE---eCCCCChhhHHHHHHHHHh--------CCcCcC--CCcccccc
Confidence            3567899999999976543   3599999999999999862        268999  99887654

>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=98.23  E-value=2.4e-07  Score=67.66  Aligned_cols=52  Identities=25%  Similarity=0.650  Sum_probs=41.1

Q ss_pred             CCCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      ...+.+.|+||++.+..+.    .++|||.||..|+..|+..       ....||.  |+..+..
T Consensus        11 ~~~~~~~C~iC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~-------~~~~CP~--Cr~~~~~   62 (115)
T 3l11_A           11 PSLSECQCGICMEILVEPV----TLPCNHTLCKPCFQSTVEK-------ASLCCPF--CRRRVSS   62 (115)
T ss_dssp             CCHHHHBCTTTCSBCSSCE----ECTTSCEECHHHHCCCCCT-------TTSBCTT--TCCBCHH
T ss_pred             CCCCCCCCccCCcccCcee----EcCCCCHHhHHHHHHHHhH-------CcCCCCC--CCcccCc
Confidence            3455789999999987654    3799999999999988741       2468999  9998764

>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=98.19  E-value=1.3e-06  Score=62.10  Aligned_cols=52  Identities=12%  Similarity=-0.010  Sum_probs=42.7

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (265)
                      -.+.+.|+||++.+.++..    ++|||.||+.|+..|+..        ...||.  |+..+....
T Consensus        26 ~p~~~~CpI~~~~m~dPV~----~~cGhtf~r~~I~~~l~~--------~~~cP~--~~~~l~~~~   77 (100)
T 2kre_A           26 APDEFRDPLMDTLMTDPVR----LPSGTIMDRSIILRHLLN--------SPTDPF--NRQTLTESM   77 (100)
T ss_dssp             CSTTTBCTTTCSBCSSEEE----ETTTEEEEHHHHHHHTTS--------CSBCSS--SCCBCCTTS
T ss_pred             CcHhhCCcCccCcccCCeE----CCCCCEEchHHHHHHHHc--------CCCCCC--CCCCCChhh
Confidence            3557999999999987764    779999999999999862        247999  998887643

>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=98.18  E-value=5.7e-07  Score=65.89  Aligned_cols=50  Identities=22%  Similarity=0.480  Sum_probs=40.6

Q ss_pred             CcccccccccccccccccccccC-CCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566           19 GSSFTCEICIEPMAASKKFKNRN-LCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~-~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      .+.+.|+||++.+.++..    + +|||.||..|+..|+.          ..||.  |+..+....+
T Consensus        20 ~~~~~C~IC~~~~~~pv~----~~~CgH~fC~~Ci~~~~~----------~~CP~--Cr~~~~~~~~   70 (117)
T 1jm7_B           20 EKLLRCSRCTNILREPVC----LGGCEHIFCSNCVSDCIG----------TGCPV--CYTPAWIQDL   70 (117)
T ss_dssp             HHTTSCSSSCSCCSSCBC----CCSSSCCBCTTTGGGGTT----------TBCSS--SCCBCSCSSC
T ss_pred             hhCCCCCCCChHhhCccE----eCCCCCHHHHHHHHHHhc----------CCCcC--CCCcCccccc
Confidence            457899999999976543    5 9999999999998874          57999  9998865443

>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=98.18  E-value=3e-06  Score=59.90  Aligned_cols=51  Identities=16%  Similarity=-0.014  Sum_probs=42.4

Q ss_pred             CcccccccccccccccccccccCCCC-ChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccC
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCT-HPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~-H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (265)
                      .+.+.|+||++.+.++..    ++|| |.||+.|+..|+..        ...||.  |+..+....
T Consensus        20 p~~~~CpI~~~~m~dPV~----~~cG~htf~r~cI~~~l~~--------~~~cP~--~~~~l~~~~   71 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDPVV----LPSSRVTVDRSTIARHLLS--------DQTDPF--NRSPLTMDQ   71 (98)
T ss_dssp             CTTTBCTTTCSBCSSEEE----CTTTCCEEEHHHHHHHTTT--------SCBCTT--TCSBCCTTT
T ss_pred             cHhcCCcCccccccCCeE----CCCCCeEECHHHHHHHHHh--------CCCCCC--CCCCCChhh
Confidence            457999999999987764    8899 99999999999973        237999  998887643

>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=98.15  E-value=1.3e-06  Score=67.89  Aligned_cols=51  Identities=29%  Similarity=0.804  Sum_probs=40.6

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      ...+.|+||++.+.++..   .++|||.||..|+..|+..       ....||.  |+..+..
T Consensus        52 ~~~~~C~IC~~~~~~p~~---~~~CgH~fC~~Ci~~~~~~-------~~~~CP~--Cr~~~~~  102 (165)
T 2ckl_B           52 HSELMCPICLDMLKNTMT---TKECLHRFCADCIITALRS-------GNKECPT--CRKKLVS  102 (165)
T ss_dssp             HHHHBCTTTSSBCSSEEE---ETTTCCEEEHHHHHHHHHT-------TCCBCTT--TCCBCCS
T ss_pred             CCCCCCcccChHhhCcCE---eCCCCChhHHHHHHHHHHh-------CcCCCCC--CCCcCCC
Confidence            345799999999976543   3599999999999999872       1457999  9988754

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

Probab=98.02  E-value=1.2e-06  Score=58.87  Aligned_cols=45  Identities=24%  Similarity=0.504  Sum_probs=35.3

Q ss_pred             CcccccccccccccccccccccCCCCCh-hHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      .+...|+||++.+.++.    .++|||. ||.+|+..            ...||.  |+..+..
T Consensus        23 ~~~~~C~IC~~~~~~~~----~~pCgH~~~C~~C~~~------------~~~CP~--Cr~~i~~   68 (75)
T 2ecg_A           23 QEEKLCKICMDRNIAIV----FVPCGHLVTCKQCAEA------------VDKCPM--CYTVITF   68 (75)
T ss_dssp             HHHHSCSSSCSSCCCBC----CSSSCCCCBCHHHHHH------------CSBCTT--TCCBCCC
T ss_pred             CCCCCCCcCCCCCCCEE----EecCCCHHHHHHHhhC------------CCCCcc--CCceecC
Confidence            45678999999885443    4899999 99999852            147999  9988755

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

Probab=98.00  E-value=1.1e-06  Score=59.91  Aligned_cols=56  Identities=20%  Similarity=0.424  Sum_probs=40.3

Q ss_pred             CCccccccccccccccc-----------ccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccC
Q 024566           18 GGSSFTCEICIEPMAAS-----------KKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~-----------~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (265)
                      +.+..+|+||++++.+.           +....+..|+|.|+.+|+.+|+...        -.||.  |+..+....
T Consensus        12 ~~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~--------~~CP~--CR~~~~~~~   78 (81)
T 2ecl_A           12 DVECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQN--------NRCPL--CQQDWVVQR   78 (81)
T ss_dssp             SCCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTC--------CBCTT--TCCBCCEEE
T ss_pred             cCCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhC--------CCCCC--cCCCcchhh
Confidence            34567799999988541           1122345699999999999998621        28999  998876654

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=97.93  E-value=7.1e-07  Score=59.79  Aligned_cols=45  Identities=24%  Similarity=0.508  Sum_probs=36.1

Q ss_pred             CcccccccccccccccccccccCCCCCh-hHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      .+...|.||++.+.++.    .++|||. ||.+|+..+            ..||.  |+..+..
T Consensus        22 ~~~~~C~iC~~~~~~~~----~~pCgH~~~C~~C~~~~------------~~CP~--Cr~~i~~   67 (74)
T 4ic3_A           22 QEEKLCKICMDRNIAIV----FVPCGHLVTCKQCAEAV------------DKCPM--CYTVITF   67 (74)
T ss_dssp             HHHTBCTTTSSSBCCEE----EETTCCBCCCHHHHTTC------------SBCTT--TCCBCSE
T ss_pred             ccCCCCCCCCCCCCCEE----EcCCCChhHHHHhhhcC------------ccCCC--cCcCccC
Confidence            45679999999886543    4799999 999998765            58999  9988754

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

Probab=97.86  E-value=5.3e-06  Score=61.71  Aligned_cols=59  Identities=22%  Similarity=0.687  Sum_probs=45.0

Q ss_pred             CCcccccccccccccccc---cccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccC
Q 024566           18 GGSSFTCEICIEPMAASK---KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~---~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (265)
                      +.....|+||++.+..+.   .....++|+|.||..|+..|+...        ..||.  |+..+..+.+..
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~--------~~CP~--Cr~~~~~~~~~~  130 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA--------NTCPT--CRKKINHKRYHP  130 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHC--------SBCTT--TCCBCCGGGEEE
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcC--------CCCCC--CCCcCChhccee
Confidence            456788999999886531   111357899999999999999741        38999  999998876543

>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.4

Probab=97.83  E-value=9.8e-06  Score=55.79  Aligned_cols=41  Identities=24%  Similarity=0.621  Sum_probs=35.8

Q ss_pred             CcccCCCCCceeeecCCCceeEe-ecCCceeeccCccc---cCCC
Q 024566          180 KWARCPACGHCVERKDGCSVVMC-RCNTRFCYECGRKI---SSGC  220 (265)
Q Consensus       180 ~~k~CP~C~~~iek~~GCnhm~C-~C~~~FC~~C~~~~---~~g~  220 (265)
                      +.+-||+|...+...++-..++| .|++.||+.|+.+|   |.+-
T Consensus        24 ~~~wCP~C~~~~~~~~~~~~v~C~~C~~~FC~~C~~~w~~~H~~~   68 (86)
T 2ct7_A           24 KFLWCAQCSFGFIYEREQLEATCPQCHQTFCVRCKRQWEEQHRGR   68 (86)
T ss_dssp             CEECCSSSCCCEECCCSCSCEECTTTCCEECSSSCSBCCTTTTTS
T ss_pred             CEeECcCCCchheecCCCCceEeCCCCCccccccCCchhhcCCCC
Confidence            45669999999988888888999 69999999999999   7663

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

Probab=97.79  E-value=2.6e-05  Score=52.80  Aligned_cols=56  Identities=21%  Similarity=0.339  Sum_probs=43.2

Q ss_pred             CCcccccccccccccccccccccCCCC-----ChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCT-----HPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~-----H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (265)
                      ..+...|.||++++.+...+  +++|.     |.|+.+||.+|+...      ....||.  |+..+..+.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l--~~pC~C~Gs~h~fH~~Cl~~Wl~~~------~~~~Cpl--Cr~~~~~~~   72 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPL--ITPCHCTGSLHFVHQACLQQWIKSS------DTRCCEL--CKYEFIMET   72 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCE--ECSSSCCSSSCCEETTHHHHHHHHH------CCSBCSS--SCCBCCCCC
T ss_pred             CCCCCCCeEcCccccCCCee--EeccccCCcCCeeCHHHHHHHHhhC------CCCCCCC--CCCeeecCc
Confidence            34567899999988655444  47886     999999999999864      2358999  998876543

>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=97.76  E-value=1.3e-05  Score=57.43  Aligned_cols=54  Identities=20%  Similarity=0.390  Sum_probs=39.8

Q ss_pred             Ccccccccccccccccc--------------cccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCcc
Q 024566           19 GSSFTCEICIEPMAASK--------------KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~--------------~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (265)
                      .+...|+||++.+...-              .....++|+|.|+..|+..|+..        ...||.  |+..+...
T Consensus        35 ~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~--------~~~CP~--Cr~~~~~~  102 (106)
T 3dpl_R           35 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT--------RQVCPL--DNREWEFQ  102 (106)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT--------CSBCSS--SCSBCCEE
T ss_pred             CCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHc--------CCcCcC--CCCcceee
Confidence            35578999999986431              01234789999999999999862        247999  99876543

>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo sapiens}

Probab=97.75  E-value=1.3e-05  Score=54.37  Aligned_cols=44  Identities=30%  Similarity=0.664  Sum_probs=38.5

Q ss_pred             CCcccCCC--CCceeeecCCCceeEe------ecCCceeeccCccccCCCCCC
Q 024566          179 MKWARCPA--CGHCVERKDGCSVVMC------RCNTRFCYECGRKISSGCSCQ  223 (265)
Q Consensus       179 ~~~k~CP~--C~~~iek~~GCnhm~C------~C~~~FC~~C~~~~~~g~~~~  223 (265)
                      ...+-||.  |+..|...++.+.++|      .|++.||+.|+..||. .++.
T Consensus        23 ~~~~~CP~p~C~~~v~~~~~~~~v~C~~~~~~~C~~~FC~~C~~~wH~-~~C~   74 (80)
T 2jmo_A           23 MGGVLCPRPGCGAGLLPEPDQRKVTCEGGNGLGCGFAFCRECKEAYHE-GECS   74 (80)
T ss_dssp             CSSCCCCSSSCCCCCCCCSCTTSBCTTSSSTTCCSCCEETTTTEECCS-SCSS
T ss_pred             CCcEECCCCCCCcccEECCCCCcCCCCCCCCCCCCCeeccccCccccC-Cccc
Confidence            45788998  9999999889999999      7999999999999987 5443

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

Probab=97.74  E-value=1.5e-05  Score=52.27  Aligned_cols=47  Identities=21%  Similarity=0.543  Sum_probs=36.2

Q ss_pred             CCCcccccccccccccccccccccCCCCCh-hHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      .+.+...|.||++...+.    .+++|+|. ||.+|+..            .-.||.  |+..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~----v~~pCgH~~~C~~C~~~------------~~~CP~--CR~~i~~   58 (68)
T 2ea5_A           11 SEENSKDCVVCQNGTVNW----VLLPCRHTCLCDGCVKY------------FQQCPM--CRQFVQE   58 (68)
T ss_dssp             SCCCSSCCSSSSSSCCCC----EETTTTBCCSCTTHHHH------------CSSCTT--TCCCCCC
T ss_pred             cCCCCCCCCCcCcCCCCE----EEECCCChhhhHHHHhc------------CCCCCC--CCcchhc
Confidence            445578999999987532    25899999 99999883            137999  9987754

>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=97.72  E-value=1.7e-05  Score=66.64  Aligned_cols=53  Identities=13%  Similarity=-0.034  Sum_probs=42.7

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (265)
                      ....+.|+||++.+.++..    ++|||+||+.|+..|+...       ...||.  |+.+++...
T Consensus       205 ~~~~~~c~i~~~~~~dPv~----~~~gh~f~~~~i~~~~~~~-------~~~cP~--~~~~~~~~~  257 (281)
T 2c2l_A          205 IPDYLCGKISFELMREPCI----TPSGITYDRKDIEEHLQRV-------GHFNPV--TRSPLTQEQ  257 (281)
T ss_dssp             CCSTTBCTTTCSBCSSEEE----CSSCCEEETTHHHHHHHHT-------CSSCTT--TCCCCCGGG
T ss_pred             CCcccCCcCcCCHhcCCeE----CCCCCEECHHHHHHHHHHC-------CCCCcC--CCCCCchhc
Confidence            3467899999999987764    7899999999999999741       123999  999887654

>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=97.69  E-value=1.9e-05  Score=50.93  Aligned_cols=50  Identities=20%  Similarity=0.434  Sum_probs=37.5

Q ss_pred             CcccccccccccccccccccccCCCCCh-hHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      .....|.||++...+...  ...+|||. ||.+|...+...        .-+||.  |+..+.
T Consensus         5 ~~~~~C~IC~~~~~~~~~--~~~pCgH~~~C~~C~~~~~~~--------~~~CPi--CR~~i~   55 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDGNI--IHGRTGHLVTCFHCARRLKKA--------GASCPI--CKKEIQ   55 (63)
T ss_dssp             GGGSBCTTTSSSBSCEEE--EETTEEEEEECHHHHHHHHHT--------TCBCTT--TCCBCC
T ss_pred             CcCCCCcccCCcCCCeEE--EecCCCCHhHHHHHHHHHHHh--------CCcCCC--cCchhh
Confidence            446789999998754432  13599998 999999987752        147999  998874

>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=97.68  E-value=1.6e-05  Score=51.48  Aligned_cols=50  Identities=18%  Similarity=0.385  Sum_probs=37.2

Q ss_pred             CcccccccccccccccccccccCCCCCh-hHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      .+..+|.||++...+...  ..++|||. ||.+|+..+...        .-.||.  |+..+.
T Consensus         6 ~~~~~C~IC~~~~~~~~~--~~~pCgH~~~C~~C~~~~~~~--------~~~CPi--CR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRPKNGCI--VHGKTGHLMACFTCAKKLKKR--------NKPCPV--CRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSCSCEEE--EETTEEEEEECHHHHHHHHHT--------TCCCTT--TCCCCC
T ss_pred             CCcCCCCcCCCCCCCEEE--ECCCCCChhhHHHHHHHHHHc--------CCcCCC--cCcchh
Confidence            356689999998754431  12499999 899999988751        137999  998874

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=97.65  E-value=3e-05  Score=60.71  Aligned_cols=53  Identities=13%  Similarity=-0.022  Sum_probs=43.0

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (265)
                      -...+.|+||++.+.+|..    ++|||+||+.|+..|+...   +   . .||.  |+.+++...
T Consensus       103 ip~~f~CPI~~elm~DPV~----~~~Ghtfer~~I~~~l~~~---~---~-tcP~--t~~~l~~~~  155 (179)
T 2f42_A          103 IPDYLCGKISFELMREPCI----TPSGITYDRKDIEEHLQRV---G---H-FDPV--TRSPLTQDQ  155 (179)
T ss_dssp             CCGGGBCTTTCSBCSSEEE----CTTSCEEEHHHHHHHHHHT---C---S-BCTT--TCCBCCGGG
T ss_pred             CcHhhcccCccccCCCCeE----CCCCCEECHHHHHHHHHhC---C---C-CCCC--CcCCCChhh
Confidence            3567999999999987764    7999999999999999742   1   1 6999  998887653

>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=97.63  E-value=3.3e-05  Score=67.53  Aligned_cols=51  Identities=24%  Similarity=0.554  Sum_probs=40.6

Q ss_pred             ccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566           21 SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      ...|+||++...++.    .++|||.||..|+..|...       ....||.  |+..+....+
T Consensus       332 ~~~C~ICle~~~~pv----~lpCGH~FC~~Ci~~wl~~-------~~~~CP~--CR~~i~~~~~  382 (389)
T 2y1n_A          332 FQLCKICAENDKDVK----IEPCGHLMCTSCLTSWQES-------EGQGCPF--CRCEIKGTEP  382 (389)
T ss_dssp             SSBCTTTSSSBCCEE----EETTCCEECHHHHHHHHHH-------TCSBCTT--TCCBCCEEEE
T ss_pred             CCCCCccCcCCCCeE----EeCCCChhhHHHHHHHHhc-------CCCCCCC--CCCccCCcee
Confidence            479999999886543    4899999999999998873       1348999  9998876543

>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=97.49  E-value=5.8e-06  Score=56.02  Aligned_cols=46  Identities=26%  Similarity=0.686  Sum_probs=35.7

Q ss_pred             CcccccccccccccccccccccCCCCCh-hHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCcc
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (265)
                      .+...|.||++...+..    +++|||. ||.+|+..+            ..||.  |+..+...
T Consensus        16 ~~~~~C~IC~~~~~~~v----~~pCgH~~~C~~C~~~~------------~~CP~--Cr~~i~~~   62 (79)
T 2yho_A           16 KEAMLCMVCCEEEINST----FCPCGHTVCCESCAAQL------------QSCPV--CRSRVEHV   62 (79)
T ss_dssp             HHHTBCTTTSSSBCCEE----EETTCBCCBCHHHHTTC------------SBCTT--TCCBCCEE
T ss_pred             CCCCEeEEeCcccCcEE----EECCCCHHHHHHHHHhc------------CcCCC--CCchhhCe
Confidence            34578999999875432    4899999 999998743            28999  99887653

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

Probab=97.36  E-value=0.00016  Score=48.02  Aligned_cols=52  Identities=23%  Similarity=0.543  Sum_probs=40.6

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      ....+|.||++.+.+...   ...|+|.|...|+.+|+..+      ..-.||.  |+..+..
T Consensus        13 ~~i~~C~IC~~~i~~g~~---C~~C~h~fH~~Ci~kWl~~~------~~~~CP~--Cr~~w~~   64 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQSN------AEPRCPH--CNDYWPH   64 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEE---CSSSCCEECHHHHHHHSTTC------SSCCCTT--TCSCCCS
T ss_pred             CCCCcCcchhhHcccCCc---cCCCCchhhHHHHHHHHHhc------CCCCCCC--CcCcCCC
Confidence            456799999999975543   35899999999999999632      2258999  9987754

>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=97.31  E-value=4e-05  Score=55.74  Aligned_cols=53  Identities=21%  Similarity=0.413  Sum_probs=1.3

Q ss_pred             Ccccccccccccccccc--------------cccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           19 GSSFTCEICIEPMAASK--------------KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~--------------~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      .....|.||++++....              ..+..++|+|.|+..|+..|+..        ...||.  |+..+..
T Consensus        46 ~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~--------~~~CP~--Cr~~~~~  112 (117)
T 4a0k_B           46 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT--------RQVCPL--DNREWEF  112 (117)
T ss_dssp             CCC--------------------------------------------------------------------------
T ss_pred             CCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHc--------CCcCCC--CCCeeee
Confidence            34478999999986421              11123589999999999999874        237998  9887643

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

Probab=96.84  E-value=0.00079  Score=57.50  Aligned_cols=64  Identities=16%  Similarity=0.396  Sum_probs=45.1

Q ss_pred             CCCccccccccccccccccccc----ccCCCCChhHHHHHHHHHHHHhhCCCCCc---ccCCCCCCCCCCCcc
Q 024566           17 GGGSSFTCEICIEPMAASKKFK----NRNLCTHPFCQDCIARYIQVKVQDDNTAK---IDCPGLDCKHNLDPF   82 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~----~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~---i~CP~~~C~~~l~~~   82 (265)
                      .+....+|+|||+.+.+....+    ....|+|.|...|+..|+.+.-.....+.   =.||.  |+.+++-.
T Consensus       304 ~ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPy--Cr~pIs~s  374 (381)
T 3k1l_B          304 EDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPF--CKAKLSTS  374 (381)
T ss_dssp             CCCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTT--TCCEEEGG
T ss_pred             cccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCC--CCCcCCcc
Confidence            3456789999999886523221    12479999999999999998654322222   36998  99987643

>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=96.60  E-value=0.00027  Score=61.14  Aligned_cols=45  Identities=24%  Similarity=0.631  Sum_probs=36.0

Q ss_pred             CcccccccccccccccccccccCCCCCh-hHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      .+...|+||++.+.++.    .++|||. ||..|+..+            ..||.  |+..+..
T Consensus       293 ~~~~~C~IC~~~~~~~v----~lpCgH~~fC~~C~~~~------------~~CP~--CR~~i~~  338 (345)
T 3t6p_A          293 QEERTCKVCMDKEVSVV----FIPCGHLVVCQECAPSL------------RKCPI--CRGIIKG  338 (345)
T ss_dssp             HTTCBCTTTSSSBCCEE----EETTCCEEECTTTGGGC------------SBCTT--TCCBCCE
T ss_pred             cCCCCCCccCCcCCceE----EcCCCChhHhHHHHhcC------------CcCCC--CCCCccC
Confidence            34578999999886543    4799999 999998754            47999  9988754

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

Probab=96.38  E-value=0.0055  Score=38.73  Aligned_cols=52  Identities=15%  Similarity=0.401  Sum_probs=37.8

Q ss_pred             CCcccccccccccccccccccccCCCC--C---hhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCT--H---PFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~--H---~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      +.+...|-||+++..+  .+  ..+|.  +   .|..+||.+|+...-      ...||.  |+..+..
T Consensus         3 ~~~~~~CrIC~~~~~~--~l--~~PC~C~gs~~~~H~~Cl~~W~~~~~------~~~C~~--C~~~~~~   59 (60)
T 1vyx_A            3 DEDVPVCWICNEELGN--ER--FRACGCTGELENVHRSCLSTWLTISR------NTACQI--CGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTEECSC--CC--CCSCCCSSGGGSCCHHHHHHHHHHHT------CSBCTT--TCCBCCC
T ss_pred             CCCCCEeEEeecCCCC--ce--ecCcCCCCchhhhHHHHHHHHHHhCC------CCccCC--CCCeeec
Confidence            3556789999997532  23  36654  4   899999999997542      358999  9987643

>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=96.29  E-value=0.0028  Score=40.27  Aligned_cols=53  Identities=11%  Similarity=0.080  Sum_probs=40.4

Q ss_pred             ccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccC
Q 024566           21 SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (265)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (265)
                      .+.|+|+++.+.++..   ...+||.|+++++.+|+...   +     +||.  .+..|..+++..
T Consensus         3 ~~~CpIs~~~m~dPV~---~~~sG~~yer~~I~~~l~~~---~-----~cP~--t~~~L~~~~Lip   55 (61)
T 2bay_A            3 HMLCAISGKVPRRPVL---SPKSRTIFEKSLLEQYVKDT---G-----NDPI--TNEPLSIEEIVE   55 (61)
T ss_dssp             -CCCTTTCSCCSSEEE---ETTTTEEEEHHHHHHHHHHH---S-----BCTT--TCCBCCGGGCEE
T ss_pred             eEEecCCCCCCCCCEE---eCCCCcEEcHHHHHHHHHhC---C-----CCcC--CcCCCChhhcEE
Confidence            4789999999987653   23899999999999999842   1     4998  777777765543

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=96.04  E-value=0.0043  Score=43.56  Aligned_cols=26  Identities=27%  Similarity=0.437  Sum_probs=22.7

Q ss_pred             cCeeeCCCccccccccccc-ccCCCCC
Q 024566          132 VKKTQCPNCKQWFCFQCKL-KWHAGYR  157 (265)
Q Consensus       132 ~~~~~C~~C~~~~C~~C~~-~~H~~~~  157 (265)
                      ...++|..|+..+|..|.. ..|.++.
T Consensus        69 ~l~~fC~~~~~~iC~~C~~~~~H~~H~   95 (101)
T 2jun_A           69 KVNMYCVTDDQLICALCKLVGRHRDHQ   95 (101)
T ss_dssp             CCCEEETTTTEEECHHHHHHTTTSSSC
T ss_pred             cceEECCCCCCccchhcCCCCCcCCCC
Confidence            5789999999999999986 6888875

>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=95.78  E-value=0.0052  Score=38.85  Aligned_cols=39  Identities=28%  Similarity=0.767  Sum_probs=32.9

Q ss_pred             CCccccCCcCcccceeccccccCCcCeeeCCC--ccccccccccccc
Q 024566          108 FERSYCPNTNCMALVVNECERSGKVKKTQCPN--CKQWFCFQCKLKW  152 (265)
Q Consensus       108 ~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~--C~~~~C~~C~~~~  152 (265)
                      .+.+.||  +|+..+.....    -+.+.|..  |+..||+.|..+|
T Consensus         4 ~~~k~CP--~C~~~Iek~~G----CnhmtC~~~~C~~~FCw~C~~~~   44 (60)
T 1wd2_A            4 ANTKECP--KCHVTIEKDGG----CNHMVCRNQNCKAEFCWVCLGPW   44 (60)
T ss_dssp             CCCCCCT--TTCCCCSSCCS----CCSSSCCSSGGGSCCSSSSCSCS
T ss_pred             ccceECc--CCCCeeEeCCC----CCcEEECCCCcCCEEeeCcCCCc
Confidence            4567898  59999877655    78999988  9999999999987

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=94.81  E-value=0.013  Score=40.67  Aligned_cols=48  Identities=27%  Similarity=0.630  Sum_probs=33.0

Q ss_pred             cccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           22 FTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      ..|.+|--++..   +..+.+|.|.||.+|...+....-       =.||.  |+..+..
T Consensus         2 hfC~~C~~Pi~i---ygRmIPCkHvFCydCa~~~~~~~~-------k~Cp~--C~~~V~r   49 (101)
T 3vk6_A            2 HFCDKCGLPIKV---YGRMIPCKHVFCYDCAILHEKKGD-------KMCPG--CSDPVQR   49 (101)
T ss_dssp             CBCTTTCSBCSE---EEEEETTCCEEEHHHHHHHHHTTC-------CBCTT--TCCBCSE
T ss_pred             eecCccCCCeEE---EeeeccccccHHHHHHHHHHhccC-------CCCcC--cCCeeee
Confidence            357788666532   223689999999999988876321       25887  8876543

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=94.76  E-value=0.036  Score=36.51  Aligned_cols=49  Identities=27%  Similarity=0.715  Sum_probs=37.8

Q ss_pred             CCCcccccccccccccccccccccCCC----CChhHHHHHHHHHHHHhhCCCCCcccCCC
Q 024566           17 GGGSSFTCEICIEPMAASKKFKNRNLC----THPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C----~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (265)
                      .....+.|.+|.+.+.+.. |   ..|    .|.||..|-+.+|+.+-..   ..+.||.
T Consensus        11 ~~~a~l~CtlC~erLEdtH-F---VQCPsv~~HkFCFpCsr~sIk~q~~~---~EvyCPS   63 (93)
T 2cs3_A           11 ANSGPLCCTICHERLEDTH-F---VQCPSVPSHKFCFPCSRESIKAQGAT---GEVYCPS   63 (93)
T ss_dssp             CSCCSCCCSSSCSCCSSTT-S---EECSSCSSCEECHHHHHHHHHHHHSS---SCCCCTT
T ss_pred             CCCCeeEeecchhhhccCc-e---eeCCCccCCeeeccccHHHHHhcCCC---CcEECCC
Confidence            3577899999999886432 3   444    6999999999999987543   5677885

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

Probab=93.24  E-value=0.086  Score=42.98  Aligned_cols=53  Identities=23%  Similarity=0.507  Sum_probs=41.4

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCcc
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (265)
                      .....|.||.+-......   ...|+|.|...|+..|+..      .....||.  |+..++.+
T Consensus       178 ~~i~~C~iC~~iv~~g~~---C~~C~~~~H~~C~~~~~~~------~~~~~CP~--C~~~W~~~  230 (238)
T 3nw0_A          178 DAVKICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQS------NAEPRCPH--CNDYWPHE  230 (238)
T ss_dssp             TTCCBCTTTCSBCSSCEE---CSSSCCEECHHHHHHHTTT------CSSCBCTT--TCCBCCSC
T ss_pred             CCCCcCcchhhHHhCCcc---cCccChHHHHHHHHHHHHh------CCCCCCCC--CCCCCCCC
Confidence            357899999998865543   3459999999999999863      34568998  99887665

>2jrp_A Putative cytoplasmic protein; two-zinc binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium LT2}

Probab=89.88  E-value=0.25  Score=32.86  Aligned_cols=27  Identities=30%  Similarity=0.643  Sum_probs=20.9

Q ss_pred             cCCCCCceeeecCCCceeEe-ecC--CceeeccCcccc
Q 024566          183 RCPACGHCVERKDGCSVVMC-RCN--TRFCYECGRKIS  217 (265)
Q Consensus       183 ~CP~C~~~iek~~GCnhm~C-~C~--~~FC~~C~~~~~  217 (265)
                      .||.|+.++++        | .||  ..||=.|++-++
T Consensus        33 fCPeCgq~Le~--------lkACGA~~yFC~~C~~LiS   62 (81)
T 2jrp_A           33 LCPDCRQPLQV--------LKACGAVDYFCQNGHGLIS   62 (81)
T ss_dssp             ECSSSCSCCCE--------EEETTEEEECCTTTTCCCC
T ss_pred             cCcchhhHHHH--------HHhcCCcCeeeccCCCEee
Confidence            89999999987        7 477  458888877654

>2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein, zinc, zinc-finger, structural genomics, PSI-2; NMR {Thermoplasma acidophilum} SCOP: g.41.8.8

Probab=88.62  E-value=0.18  Score=31.04  Aligned_cols=29  Identities=31%  Similarity=0.563  Sum_probs=21.4

Q ss_pred             CcccCCCCCceeeecCCCceeEe-ecCCce
Q 024566          180 KWARCPACGHCVERKDGCSVVMC-RCNTRF  208 (265)
Q Consensus       180 ~~k~CP~C~~~iek~~GCnhm~C-~C~~~F  208 (265)
                      ..+.||+|+..+.-...-+.++| +|++.+
T Consensus        17 ~~~fCPkCG~~~~ma~~~dr~~C~kCgyt~   46 (55)
T 2k4x_A           17 KHRFCPRCGPGVFLAEHADRYSCGRCGYTE   46 (55)
T ss_dssp             SSCCCTTTTTTCCCEECSSEEECTTTCCCE
T ss_pred             ccccCcCCCCceeEeccCCEEECCCCCCEE
Confidence            35889999986553334478999 799875

>3j20_Y 30S ribosomal protein S27AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=88.22  E-value=0.23  Score=29.91  Aligned_cols=29  Identities=31%  Similarity=0.501  Sum_probs=19.9

Q ss_pred             CcccCCCCCceeeecCCCceeEe-ecCCce
Q 024566          180 KWARCPACGHCVERKDGCSVVMC-RCNTRF  208 (265)
Q Consensus       180 ~~k~CP~C~~~iek~~GCnhm~C-~C~~~F  208 (265)
                      ..+.||+|+..+.-...=+.+.| +||+.+
T Consensus        18 ~~k~CP~CG~~~fm~~~~~R~~C~kCG~t~   47 (50)
T 3j20_Y           18 KNKFCPRCGPGVFMADHGDRWACGKCGYTE   47 (50)
T ss_dssp             SSEECSSSCSSCEEEECSSEEECSSSCCEE
T ss_pred             ecccCCCCCCceEEecCCCeEECCCCCCEE
Confidence            46889999984443322378899 798754

>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1

Probab=87.21  E-value=0.58  Score=27.91  Aligned_cols=29  Identities=24%  Similarity=0.548  Sum_probs=22.4

Q ss_pred             CcccCCCCCc-eeeecCCCceeEe-ecCCce
Q 024566          180 KWARCPACGH-CVERKDGCSVVMC-RCNTRF  208 (265)
Q Consensus       180 ~~k~CP~C~~-~iek~~GCnhm~C-~C~~~F  208 (265)
                      ....||.|+. .+.-+..=..+.| .||..|
T Consensus         4 ~~~~CP~C~~~~l~~d~~~gelvC~~CG~v~   34 (50)
T 1pft_A            4 KQKVCPACESAELIYDPERGEIVCAKCGYVI   34 (50)
T ss_dssp             SCCSCTTTSCCCEEEETTTTEEEESSSCCBC
T ss_pred             ccEeCcCCCCcceEEcCCCCeEECcccCCcc
Confidence            3568999998 7777777778999 588754

>1wfh_A Zinc finger (AN1-like) family protein; ZF-AN1 domain, zinc binding, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: g.80.1.1

Probab=86.76  E-value=0.68  Score=29.21  Aligned_cols=40  Identities=33%  Similarity=0.671  Sum_probs=32.4

Q ss_pred             CcccCCCCCceeeecCCCceeEeecCCceeeccCccccCCCCCC
Q 024566          180 KWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQ  223 (265)
Q Consensus       180 ~~k~CP~C~~~iek~~GCnhm~C~C~~~FC~~C~~~~~~g~~~~  223 (265)
                      ...+|..|+..+...    -+.|+||..||-.-.-+-.|.|++.
T Consensus        14 ~~~rC~~C~kkvgl~----~f~CrCg~~FC~~HRy~e~H~C~fD   53 (64)
T 1wfh_A           14 RPNRCTVCRKRVGLT----GFMCRCGTTFCGSHRYPEVHGCTFD   53 (64)
T ss_dssp             SCCCCTTTCCCCCTT----CEECSSSCEECTTTCSTTTTTCCCC
T ss_pred             cCCcChhhCCccCcc----CEEeecCCEeccccCCcccCCCCch
Confidence            457899999988765    3899999999998887777777654

>2jrp_A Putative cytoplasmic protein; two-zinc binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium LT2}

Probab=86.50  E-value=0.49  Score=31.42  Aligned_cols=34  Identities=29%  Similarity=0.926  Sum_probs=27.2

Q ss_pred             ccCCCCCceeeecCCCceeEe-ecCCc-----eeeccCcccc
Q 024566          182 ARCPACGHCVERKDGCSVVMC-RCNTR-----FCYECGRKIS  217 (265)
Q Consensus       182 k~CP~C~~~iek~~GCnhm~C-~C~~~-----FC~~C~~~~~  217 (265)
                      ..||.|+..++.+++  +..| .|+..     ||-.|+++..
T Consensus         3 ~~CP~C~~~l~~~~~--~~~C~~C~~~~~~~afCPeCgq~Le   42 (81)
T 2jrp_A            3 ITCPVCHHALERNGD--TAHCETCAKDFSLQALCPDCRQPLQ   42 (81)
T ss_dssp             CCCSSSCSCCEECSS--EEECTTTCCEEEEEEECSSSCSCCC
T ss_pred             CCCCCCCCccccCCC--ceECccccccCCCcccCcchhhHHH
Confidence            579999999999888  6668 68744     7888888863

>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=86.30  E-value=0.16  Score=35.30  Aligned_cols=32  Identities=25%  Similarity=0.675  Sum_probs=26.6

Q ss_pred             cccCCCCCceeeecCCCceeEe-ecCCceeeccCcccc
Q 024566          181 WARCPACGHCVERKDGCSVVMC-RCNTRFCYECGRKIS  217 (265)
Q Consensus       181 ~k~CP~C~~~iek~~GCnhm~C-~C~~~FC~~C~~~~~  217 (265)
                      .-.||-|...+.     +-+++ .|||.||+.|...|-
T Consensus        22 ~~~C~IC~~~~~-----~p~~~~~CgH~FC~~Ci~~~~   54 (100)
T 3lrq_A           22 VFRCFICMEKLR-----DARLCPHCSKLCCFSCIRRWL   54 (100)
T ss_dssp             HTBCTTTCSBCS-----SEEECTTTCCEEEHHHHHHHH
T ss_pred             CCCCccCCcccc-----CccccCCCCChhhHHHHHHHH
Confidence            457999998886     46787 799999999999873

>1vq8_Z 50S ribosomal protein L37AE; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 1vq4_Z* 1vq6_Z* 1vq5_Z* 1vq7_Z* 1vq9_Z* 1vqk_Z* 1vql_Z* 1vqm_Z* 1vqn_Z* 1vqo_Z* 1vqp_Z* 1yhq_Z* 1yi2_Z* 1yij_Z* 1yit_Z* 1yj9_Z* 1yjn_Z* 1yjw_Z* 2qa4_Z* 1s72_Z* ...

Probab=86.11  E-value=0.44  Score=31.94  Aligned_cols=31  Identities=26%  Similarity=0.673  Sum_probs=25.8

Q ss_pred             CCcccCCCCCceeeecCCCceeEe-ecCCcee
Q 024566          179 MKWARCPACGHCVERKDGCSVVMC-RCNTRFC  209 (265)
Q Consensus       179 ~~~k~CP~C~~~iek~~GCnhm~C-~C~~~FC  209 (265)
                      ...-.||+|+....+..+=..+.| .|++.|-
T Consensus        25 ~~~y~Cp~CG~~~v~r~atGiW~C~~Cg~~~a   56 (83)
T 1vq8_Z           25 NEDHACPNCGEDRVDRQGTGIWQCSYCDYKFT   56 (83)
T ss_dssp             HSCEECSSSCCEEEEEEETTEEEETTTCCEEE
T ss_pred             cccCcCCCCCCcceeccCCCeEECCCCCCEec
Confidence            345789999999999888889999 6988764

>3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae}

Probab=85.45  E-value=0.53  Score=34.58  Aligned_cols=36  Identities=11%  Similarity=0.301  Sum_probs=26.9

Q ss_pred             CCCccccCCcCcccceeccccccCCcCeeeCCCccccc
Q 024566          107 GFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWF  144 (265)
Q Consensus       107 ~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~  144 (265)
                      .....+||  .|++.+.+....+.....+.|+.|++..
T Consensus        21 ~~~~~FCP--eCgNmL~pked~~~~~l~~~CrtCgY~~   56 (133)
T 3qt1_I           21 MTTFRFCR--DCNNMLYPREDKENNRLLFECRTCSYVE   56 (133)
T ss_dssp             -CCCCBCT--TTCCBCBCCBCTTTCCBCCBCSSSCCBC
T ss_pred             ccCCeeCC--CCCCEeeECccCCCceeEEECCCCCCcE
Confidence            45679999  6999998876544446788999888754

>1wg2_A Zinc finger (AN1-like) family protein; riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.80.1.1

Probab=84.07  E-value=1  Score=28.40  Aligned_cols=41  Identities=24%  Similarity=0.478  Sum_probs=32.3

Q ss_pred             CcccCCCCCceeeecCCCceeEeecCCceeeccCccccCCCCCCC
Q 024566          180 KWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQT  224 (265)
Q Consensus       180 ~~k~CP~C~~~iek~~GCnhm~C~C~~~FC~~C~~~~~~g~~~~~  224 (265)
                      ...+|..|+..+...    -+.|+||..||-.-.-+-.|.|++..
T Consensus        14 ~~~rC~~C~kkvgl~----~f~CrCg~~FC~~HR~~e~H~C~fDy   54 (64)
T 1wg2_A           14 PNNRCFSCNKKVGVM----GFKCKCGSTFCGSHRYPEKHECSFDF   54 (64)
T ss_dssp             CSCSCTTTCCCCTTS----CEECTTSCEECSSSCSSTTTTCCCCC
T ss_pred             cCCcChhhCCccccc----CeEeecCCEecccCCCccccCCCcch
Confidence            457899999887655    38999999999988877777776543

>1wfl_A Zinc finger protein 216; ZF-AN1 domain, zinc binding, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.80.1.1

Probab=83.92  E-value=1  Score=29.22  Aligned_cols=40  Identities=28%  Similarity=0.501  Sum_probs=31.9

Q ss_pred             CcccCCCCCceeeecCCCceeEeecCCceeeccCccccCCCCCC
Q 024566          180 KWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQ  223 (265)
Q Consensus       180 ~~k~CP~C~~~iek~~GCnhm~C~C~~~FC~~C~~~~~~g~~~~  223 (265)
                      ...+|..|+..+...+    +.|+||..||-.=.-+-.|.|++.
T Consensus        24 ~~nRC~~CrKkvgL~g----f~CrCg~~FCs~HRy~e~H~C~fD   63 (74)
T 1wfl_A           24 KKNRCFMCRKKVGLTG----FDCRCGNLFCGLHRYSDKHNCPYD   63 (74)
T ss_dssp             CTTBCSSSCCBCGGGC----EECTTSCEECSSSCSTTTTTCCCC
T ss_pred             cCCcChhhCCcccccC----eecCCCCEechhcCCCccCCCcch
Confidence            3468999999988764    899999999988777766776653

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

Probab=83.57  E-value=0.21  Score=31.17  Aligned_cols=33  Identities=27%  Similarity=0.701  Sum_probs=25.9

Q ss_pred             CcccCCCCCceeeecCCCceeEeecCCceeeccCcccc
Q 024566          180 KWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKIS  217 (265)
Q Consensus       180 ~~k~CP~C~~~iek~~GCnhm~C~C~~~FC~~C~~~~~  217 (265)
                      ....||-|...+..     .++-.||+.||+.|...|.
T Consensus        19 ~~~~C~IC~~~~~~-----p~~~~CgH~fC~~Ci~~~~   51 (63)
T 2ysj_A           19 EEVICPICLDILQK-----PVTIDCGHNFCLKCITQIG   51 (63)
T ss_dssp             CCCBCTTTCSBCSS-----CEECTTSSEECHHHHHHHH
T ss_pred             cCCCCCcCCchhCC-----eEEeCCCCcchHHHHHHHH
Confidence            34689999887763     3444899999999999975

>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1

Probab=83.14  E-value=2.8  Score=28.17  Aligned_cols=53  Identities=26%  Similarity=0.602  Sum_probs=38.4

Q ss_pred             Cccccccccccccc---ccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           19 GSSFTCEICIEPMA---ASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        19 ~~~~~C~IC~~~~~---~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      .....|.||-+++-   +.+.|++...|+-..|+.|+..-.    ++|   .-.||.  |+..+.
T Consensus        14 ~~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYEr----keG---~q~Cpq--CktrYk   69 (93)
T 1weo_A           14 LDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYER----REG---TQNCPQ--CKTRYK   69 (93)
T ss_dssp             CSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHH----HTS---CSSCTT--TCCCCC
T ss_pred             cCCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHH----hcc---Cccccc--cCCccc
Confidence            34579999999854   334576677799999999976544    343   347998  997764

>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1

Probab=82.10  E-value=1.1  Score=30.09  Aligned_cols=59  Identities=24%  Similarity=0.432  Sum_probs=39.7

Q ss_pred             cccCCcCcccceeccccccCCcCeeeCCCcccccccccccccCCCCCChhHHhchhhchHHHHHHHhcCCcccCCCCCce
Q 024566          111 SYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHC  190 (265)
Q Consensus       111 ~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~~~C~~~~~~~~~~d~~~~~~~~~~~~k~CP~C~~~  190 (265)
                      ..|-.  |+--+-....   ....+-|..|++..|..|          .+|.              .....+.||.|+.+
T Consensus        17 qiCqi--CGD~VG~~~~---Ge~FVAC~eC~FPvCrpC----------yEYE--------------rkeG~q~CpqCktr   67 (93)
T 1weo_A           17 QFCEI--CGDQIGLTVE---GDLFVACNECGFPACRPC----------YEYE--------------RREGTQNCPQCKTR   67 (93)
T ss_dssp             CBCSS--SCCBCCBCSS---SSBCCSCSSSCCCCCHHH----------HHHH--------------HHTSCSSCTTTCCC
T ss_pred             Ccccc--ccCccccCCC---CCEEEeeeccCChhhHHH----------HHHH--------------HhccCccccccCCc
Confidence            44543  6555544332   257899999999998865          3433              24578999999999


Q ss_pred             eeecCCCc
Q 024566          191 VERKDGCS  198 (265)
Q Consensus       191 iek~~GCn  198 (265)
                      ..+..|..
T Consensus        68 Ykr~kgsp   75 (93)
T 1weo_A           68 YKRLRGSP   75 (93)
T ss_dssp             CCCCTTCC
T ss_pred             cccccCCC
Confidence            98765543

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

Probab=82.10  E-value=0.41  Score=30.70  Aligned_cols=34  Identities=26%  Similarity=0.657  Sum_probs=26.4

Q ss_pred             CcccCCCCCceeeecCCCceeEeecCCceeeccCccccC
Q 024566          180 KWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISS  218 (265)
Q Consensus       180 ~~k~CP~C~~~iek~~GCnhm~C~C~~~FC~~C~~~~~~  218 (265)
                      ....||-|...+.     +.++-.|||.||+.|...|..
T Consensus        19 ~~~~C~IC~~~~~-----~~~~~~CgH~fC~~Ci~~~~~   52 (73)
T 2ysl_A           19 EEVICPICLDILQ-----KPVTIDCGHNFCLKCITQIGE   52 (73)
T ss_dssp             CCCBCTTTCSBCS-----SEEECTTCCEEEHHHHHHHCS
T ss_pred             cCCEeccCCcccC-----CeEEcCCCChhhHHHHHHHHH
Confidence            3468999998775     344448999999999999764

>2jr6_A UPF0434 protein NMA0874; solution, structural genomics, PSI, structure initiative, northeast structural genomics consort NESG; NMR {Neisseria meningitidis}

Probab=80.53  E-value=1.2  Score=28.49  Aligned_cols=29  Identities=10%  Similarity=0.198  Sum_probs=23.7

Q ss_pred             CcccCCCCCceeeecCCCceeEe-ecCCce
Q 024566          180 KWARCPACGHCVERKDGCSVVMC-RCNTRF  208 (265)
Q Consensus       180 ~~k~CP~C~~~iek~~GCnhm~C-~C~~~F  208 (265)
                      .+-.||.|+..++-..+.+.++| .||..|
T Consensus         7 ~iL~CP~ck~~L~~~~~~~~LiC~~cg~~Y   36 (68)
T 2jr6_A            7 DILVCPVTKGRLEYHQDKQELWSRQAKLAY   36 (68)
T ss_dssp             CCCBCSSSCCBCEEETTTTEEEETTTTEEE
T ss_pred             hheECCCCCCcCeEeCCCCEEEcCCCCcEe
Confidence            45789999999998888888888 577655

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

Probab=80.40  E-value=1.1  Score=28.94  Aligned_cols=33  Identities=21%  Similarity=0.491  Sum_probs=22.2

Q ss_pred             CCcccccccccccccCCCCCChhHHhchhhchHHHHHHHhcCCcccCCCCCceeee
Q 024566          138 PNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVER  193 (265)
Q Consensus       138 ~~C~~~~C~~C~~~~H~~~~C~~~~~~~~~~d~~~~~~~~~~~~k~CP~C~~~iek  193 (265)
                      +.|++.||..|-..|                       +.......||.|+..+.+
T Consensus        32 ~~CgH~fC~~Ci~~~-----------------------~~~~~~~~CP~Cr~~~~~   64 (74)
T 2yur_A           32 PCCGNSYCDECIRTA-----------------------LLESDEHTCPTCHQNDVS   64 (74)
T ss_dssp             SSSCCEECTTHHHHH-----------------------HHHSSSSCCSSSCCSSCC
T ss_pred             CCCCCHHHHHHHHHH-----------------------HHhcCCCcCCCCCCcCCC
Confidence            348999999885432                       222335789999987543

---

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	265
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	2e-06
d2ct7a1	73	g.44.1.4 (A:8-80) Ring finger protein 31 {Human (H	8e-04
d2ct7a1	73	g.44.1.4 (A:8-80) Ring finger protein 31 {Human (H	0.003
d1wd2a_	60	g.44.1.1 (A:) Ariadne-1 protein homolog {Human (Ho	0.001

>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 = 43.1 bits (101), Expect = 2e-06
 Identities = 17/91 (18%), Positives = 35/91 (38%), Gaps = 3/91 (3%)

Query: 17  GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCK 76
           G   S  C++C+      +       C   FC  C+ +Y+++ +++     I CP   C 
Sbjct: 1   GSSGSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACP 59

Query: 77  HN--LDPFACEPVIPASLFSKWCDVLCEDYV 105
               L     E ++ A +  ++  +  E   
Sbjct: 60  KQGHLQENEIECMVAAEIMQRYKKLQFERSG 90

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]} Length = 73

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: IBR domain
domain: Ring finger protein 31
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.0 bits (80), Expect = 8e-04
 Identities = 13/53 (24%), Positives = 20/53 (37%), Gaps = 4/53 (7%)

Query: 175 LVERMKWARCPACGHCVERKDGCSVVMC-RCNTRFCYECGRKIS---SGCSCQ 223
           L+   K+  C  C      +       C +C+  FC  C R+      G SC+
Sbjct: 12  LMRDPKFLWCAQCSFGFIYEREQLEATCPQCHQTFCVRCKRQWEEQHRGRSCE 64

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]} Length = 73

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: IBR domain
domain: Ring finger protein 31
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.5 bits (76), Expect = 0.003
 Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 3/46 (6%)

Query: 126 CERSGKVKKTQCPNCKQWFCFQCKLKW---HAGYRCEESRNLRDQN 168
                +  +  CP C Q FC +CK +W   H G  CE+ +N +  N
Sbjct: 28  FIYEREQLEATCPQCHQTFCVRCKRQWEEQHRGRSCEDFQNWKRMN 73

>d1wd2a_ g.44.1.1 (A:) Ariadne-1 protein homolog {Human (Homo sapiens) [TaxId: 9606]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Ariadne-1 protein homolog
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.1 bits (78), Expect = 0.001
 Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 3/39 (7%)

Query: 183 RCPACGHCVERKDGCSVVMCR---CNTRFCYECGRKISS 218
            CP C   +E+  GC+ ++CR   C   FC+ C      
Sbjct: 8   ECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEP 46

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	265
d1wd2a_	60	Ariadne-1 protein homolog {Human (Homo sapiens) [T	99.7
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	99.67
d2ct7a1	73	Ring finger protein 31 {Human (Homo sapiens) [TaxI	99.27
d2ct7a1	73	Ring finger protein 31 {Human (Homo sapiens) [TaxI	99.2
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.96
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.81
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	98.7
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.65
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.63
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.57
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.54
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.49
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.47
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.45
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.39
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.39
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.35
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.14
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	97.76
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	97.55
d1wd2a_	60	Ariadne-1 protein homolog {Human (Homo sapiens) [T	96.32
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	94.76
d1wfha_	64	Zinc finger A20 and AN1 domains containing protein	93.38
d1wfla_	74	Zinc finger A20 domain containing protein 2 {Mouse	92.07
d1wffa_	85	ANUBL1 (AN1, ubiquitin-like, homolog) {Mouse (Mus	91.96
d1wfpa_	74	Zinc finger A20 and AN1 domains containing protein	91.57
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	90.11
d2k4xa1	55	Ribosomal protein S27ae {Thermoplasma acidophilum	89.62
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	89.39
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	86.01
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	83.72
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	82.84
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	82.38
d2akla2	38	Hypothetical protein PA0128, N-terminal domain {Ps	81.69
d2jnea1	71	Hypothetical protein YfgJ {Escherichia coli [TaxId	81.08

>d1wd2a_ g.44.1.1 (A:) Ariadne-1 protein homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Ariadne-1 protein homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=1.3e-18  Score=110.28  Aligned_cols=40  Identities=30%  Similarity=0.896  Sum_probs=37.4

Q ss_pred             CCcccCCCCCceeeecCCCceeEee---cCCceeeccCccccC
Q 024566          179 MKWARCPACGHCVERKDGCSVVMCR---CNTRFCYECGRKISS  218 (265)
Q Consensus       179 ~~~k~CP~C~~~iek~~GCnhm~C~---C~~~FC~~C~~~~~~  218 (265)
                      .++|+||+|+++|+|++|||||+|+   |+++|||+|+++|..
T Consensus         4 ~ntK~CP~C~~~ieK~~GCnhM~C~~~~C~~~fCw~C~~~~~~   46 (60)
T d1wd2a_           4 ANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEP   46 (60)
T ss_dssp             CCCCCCTTTCCCCSSCCSCCSSSCCSSGGGSCCSSSSCSCSGG
T ss_pred             hcCcCCCCCCCeEEECCCCCCeEeCCCCCCCeEECCCCCcccc
Confidence            5789999999999999999999995   999999999999863

>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=99.67  E-value=7.9e-18  Score=118.09  Aligned_cols=87  Identities=18%  Similarity=0.506  Sum_probs=73.8

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCC--CCCccCccCCCChhHHHH
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKH--NLDPFACEPVIPASLFSK   95 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~--~l~~~~i~~~l~~~~~~~   95 (265)
                      +....+|+||+++++..+ ++.+++|+|.||.+||+.|++++|.++...+|+||..+|..  .+++.+|+.+|+++++++
T Consensus         2 ~~~~~~C~IC~~~~~~~~-~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~~~~~~~~i~~ll~~~~~~k   80 (94)
T d1wima_           2 SSGSSGCKLCLGEYPVEQ-MTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQENEIECMVAAEIMQR   80 (94)
T ss_dssp             CCSBCCCSSSCCCCBGGG-EEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHHHHHHHSCHHHHHH
T ss_pred             CCCCCcCccCCCcccCCc-eEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCCCCCcccCHHHHHHhCCHHHHHH
Confidence            456789999999996444 44567899999999999999999998777889999988864  577888999999999999


Q ss_pred             HHHHHHHHhh
Q 024566           96 WCDVLCEDYV  105 (265)
Q Consensus        96 ~~~~~~~~~~  105 (265)
                      |.++..++..
T Consensus        81 y~~~~l~~~~   90 (94)
T d1wima_          81 YKKLQFERSG   90 (94)
T ss_dssp             HHHHHHHSSC
T ss_pred             HHHHHHHhcc
Confidence            9999877554

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: IBR domain
domain: Ring finger protein 31
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=8.9e-14  Score=91.93  Aligned_cols=65  Identities=31%  Similarity=0.695  Sum_probs=53.3

Q ss_pred             HHHHHHHHhh-cCCCccccCCcCcccceeccccccCCcCeeeCCCccccccccccccc---CCCCCChhHHhchh
Q 024566           96 WCDVLCEDYV-LGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKW---HAGYRCEESRNLRD  166 (265)
Q Consensus        96 ~~~~~~~~~~-~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~---H~~~~C~~~~~~~~  166 (265)
                      |++++.+.++ .+++++|||  +|+.++..+.+    .+.+.|+.|+..||+.|+.+|   |.|.+|+++++|.+
T Consensus         3 Y~~~l~~~~l~~~~~~k~CP--~C~~~~~~~~~----~~~~~C~~C~~~fC~~C~~~w~~~H~~~tC~~~~~wk~   71 (73)
T d2ct7a1           3 FHKKLTEGVLMRDPKFLWCA--QCSFGFIYERE----QLEATCPQCHQTFCVRCKRQWEEQHRGRSCEDFQNWKR   71 (73)
T ss_dssp             SSSCCCCSCCCSCCCEECCS--SSCCCEECCCS----CSCEECTTTCCEECSSSCSBCCTTTTTSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCCCCC--CCCCEeEECCC----CCEEEcCCCCCeECcccCcchhcCCCCCCHHHHHHHHH
Confidence            3344444455 457889998  69999988765    688999999999999999999   99999999998854

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: IBR domain
domain: Ring finger protein 31
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.20  E-value=1.8e-12  Score=85.56  Aligned_cols=41  Identities=22%  Similarity=0.571  Sum_probs=38.1

Q ss_pred             hcCCcccCCCCCceeeecCCCceeEe-ecCCceeeccCcccc
Q 024566          177 ERMKWARCPACGHCVERKDGCSVVMC-RCNTRFCYECGRKIS  217 (265)
Q Consensus       177 ~~~~~k~CP~C~~~iek~~GCnhm~C-~C~~~FC~~C~~~~~  217 (265)
                      ...+++.||+|+..|++++||++|+| +||+.|||.|+.+|.
T Consensus        14 ~~~~~k~CP~C~~~~~~~~~~~~~~C~~C~~~fC~~C~~~w~   55 (73)
T d2ct7a1          14 RDPKFLWCAQCSFGFIYEREQLEATCPQCHQTFCVRCKRQWE   55 (73)
T ss_dssp             SCCCEECCSSSCCCEECCCSCSCEECTTTCCEECSSSCSBCC
T ss_pred             HCCCCCCCCCCCCEeEECCCCCEEEcCCCCCeECcccCcchh
Confidence            34578999999999999999999999 899999999999994

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.96  E-value=1.5e-10  Score=70.76  Aligned_cols=51  Identities=22%  Similarity=0.498  Sum_probs=39.7

Q ss_pred             cccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           22 FTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      ++|+||++++......+..++|+|.||.+|+.+|++.       ...+||.  |+.+++.
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~-------~~~~CP~--CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTD-------ENGLCPA--CRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTT-------SCCBCTT--TCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhh-------cCCCCCc--cCCcCCC
Confidence            4799999998655443345789999999999998752       2347999  9988765

>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=98.81  E-value=3e-09  Score=74.64  Aligned_cols=71  Identities=21%  Similarity=0.542  Sum_probs=51.5

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCC-CChhHHHHHH
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPV-IPASLFSKWC   97 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~-l~~~~~~~~~   97 (265)
                      .+.+.|+||++.+.++.    .++|||.||..|+..|+...     .....||.  |+..+....++.. .-.++++++.
T Consensus        19 ~~~l~CpIC~~~~~~pv----~~~CgH~fC~~Ci~~~~~~~-----~~~~~CP~--Cr~~~~~~~l~~n~~l~~~ve~l~   87 (103)
T d1jm7a_          19 QKILECPICLELIKEPV----STKCDHIFCKFCMLKLLNQK-----KGPSQCPL--CKNDITKRSLQESTRFSQLVEELL   87 (103)
T ss_dssp             HHHTSCSSSCCCCSSCC----BCTTSCCCCSHHHHHHHHSS-----SSSCCCTT--TSCCCCTTTCBCCCSSSHHHHHHH
T ss_pred             ccCcCCCccCchhCCeE----EcCCCCchhhHHHHHHHHHC-----CCCCcCcC--CCCcCChhhCCcCHHHHHHHHHHH
Confidence            34578999999987654    37899999999999998632     23468999  9999887765432 2235666665


Q ss_pred             HHH
Q 024566           98 DVL  100 (265)
Q Consensus        98 ~~~  100 (265)
                      +..
T Consensus        88 ~~~   90 (103)
T d1jm7a_          88 KII   90 (103)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=98.70  E-value=3.5e-09  Score=71.34  Aligned_cols=54  Identities=33%  Similarity=0.703  Sum_probs=43.7

Q ss_pred             cccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccC
Q 024566           20 SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (265)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (265)
                      +.+.|+||++.+.++.    .++|||.||..|+.+|++..       .-+||.  |+.++...++..
T Consensus        22 ~~l~C~IC~~~~~~pv----~~~CgH~FC~~Ci~~~~~~~-------~~~CP~--Cr~p~~~~~l~~   75 (86)
T d1rmda2          22 KSISCQICEHILADPV----ETSCKHLFCRICILRCLKVM-------GSYCPS--CRYPCFPTDLES   75 (86)
T ss_dssp             HHTBCTTTCSBCSSEE----ECTTSCEEEHHHHHHHHHHT-------CSBCTT--TCCBCCGGGCBC
T ss_pred             cCcCCccCCcchhcce----ecCCCChhhHHHHHHHHhhC-------CCcCcc--cCCCCChhhccC
Confidence            5579999999987654    48999999999999999642       126999  999988777654

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.65  E-value=5.9e-09  Score=66.64  Aligned_cols=57  Identities=19%  Similarity=0.417  Sum_probs=40.9

Q ss_pred             ccccccccccccccc-ccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCcc
Q 024566           20 SSFTCEICIEPMAAS-KKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE   85 (265)
Q Consensus        20 ~~~~C~IC~~~~~~~-~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~   85 (265)
                      +...|+||++++..+ .......+|+|.||.+|+..|++..       .-+||.  |+..+....++
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~-------~~~CP~--CR~~i~~~~~~   59 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG-------AGNCPE--CGTPLRKSNFR   59 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTT-------SSSCTT--TCCCCSSCCCE
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcC-------cCCCCC--CCcCccccccc
Confidence            357899999875322 2222357899999999999999621       126999  99988776554

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=98.63  E-value=3.5e-09  Score=65.24  Aligned_cols=49  Identities=18%  Similarity=0.645  Sum_probs=38.6

Q ss_pred             ccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCC
Q 024566           21 SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (265)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (265)
                      ..+|+||++++.+++....+..|+|.||.+|+..|++.        .-.||.  |+..|
T Consensus         5 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~--------~~~CP~--CR~~i   53 (55)
T d1iyma_           5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS--------HSTCPL--CRLTV   53 (55)
T ss_dssp             SCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT--------CCSCSS--SCCCS
T ss_pred             CCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHh--------CCcCCC--CCCEe
Confidence            45799999999776554445579999999999999852        126999  99765

>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=98.57  E-value=3.1e-08  Score=65.70  Aligned_cols=53  Identities=25%  Similarity=0.613  Sum_probs=40.3

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (265)
                      ......|+||++.+.++.    .++|||.||.+|+..|+...       .-+||.  |+..|....
T Consensus        20 ~~~~~~C~IC~~~~~~~~----~~~CgH~fC~~Ci~~wl~~~-------~~~CP~--Cr~~i~~~~   72 (79)
T d1fbva4          20 GSTFQLCKICAENDKDVK----IEPCGHLMCTSCLTSWQESE-------GQGCPF--CRCEIKGTE   72 (79)
T ss_dssp             SCCTTBCTTTSSSBCCEE----CSSSCCEECHHHHHHHHHTT-------CCSCTT--TCCCCCCCC
T ss_pred             CCCCCCCccCCCcCCCeE----EeCCCCeeeHHHHHHHHHHC-------cCcCCC--CCcCccCCc
Confidence            344567999999886543    58999999999999998631       236999  998886543

>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=98.54  E-value=1.6e-08  Score=62.40  Aligned_cols=49  Identities=22%  Similarity=0.516  Sum_probs=38.3

Q ss_pred             CCcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (265)
                      +.+.++|+||++.+.++.    .++|||.||..|+.+           ...+||.  |+..++...
T Consensus         3 e~~~l~C~IC~~~~~~p~----~lpCgH~fC~~Ci~~-----------~~~~CP~--Cr~~~~~~~   51 (56)
T d1bora_           3 EFQFLRCQQCQAEAKCPK----LLPCLHTLCSGCLEA-----------SGMQCPI--CQAPWPLGA   51 (56)
T ss_dssp             SCCCSSCSSSCSSCBCCS----CSTTSCCSBTTTCSS-----------SSSSCSS--CCSSSSCCS
T ss_pred             ccCCCCCcccCcccCCCE----EecCCCHHhHHHHHc-----------CCCcCcC--CCCcccCCC
Confidence            456689999999986553    489999999999742           2457999  998887654

>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=98.49  E-value=7.5e-08  Score=63.70  Aligned_cols=65  Identities=20%  Similarity=0.407  Sum_probs=47.6

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccC-CCChhHHHHH
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP-VIPASLFSKW   96 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~-~l~~~~~~~~   96 (265)
                      -+.+.|+||++.+.++..    ++|||.||+.|+.+|+..       ..-.||.  |+..++..++.. +.-.++++.|
T Consensus         6 P~~l~CpIc~~~m~dPV~----~~cgh~fc~~ci~~~~~~-------~~~~cP~--~~~~l~~~~l~pN~~L~~~I~~~   71 (78)
T d1t1ha_           6 PEYFRCPISLELMKDPVI----VSTGQTYERSSIQKWLDA-------GHKTCPK--SQETLLHAGLTPNYVLKSLIALW   71 (78)
T ss_dssp             SSSSSCTTTSCCCSSEEE----ETTTEEEEHHHHHHHHTT-------TCCBCTT--TCCBCSSCCCEECTTTHHHHHHH
T ss_pred             CccCCCcCcCchhhCceE----ccCCCcchHHHHHHHHHH-------CCCCCCc--ccccCCcccccchHHHHHHHHHH
Confidence            356899999999987753    789999999999999862       1236898  888887765442 2233455555

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.47  E-value=6.1e-08  Score=69.04  Aligned_cols=61  Identities=21%  Similarity=0.434  Sum_probs=43.9

Q ss_pred             CCCcccccccccccccccc--------------cccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCcc
Q 024566           17 GGGSSFTCEICIEPMAASK--------------KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (265)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~--------------~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (265)
                      .......|+||++++....              ..+.+++|+|.||.+||..|+...-.   ...++||.  |+..+...
T Consensus        21 ~~~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~---~~~~~CP~--CR~~~~~~   95 (114)
T d1v87a_          21 KVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNK---DGSLQCPS--CKTIYGEK   95 (114)
T ss_dssp             SSCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCC---SSCCBCTT--TCCBSSSC
T ss_pred             cccccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCc---CCCCcccc--ccchhccC
Confidence            3445568999999875321              12235789999999999999986432   23578999  99877554

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=98.45  E-value=2.7e-08  Score=64.03  Aligned_cols=48  Identities=33%  Similarity=0.736  Sum_probs=38.1

Q ss_pred             cccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCC
Q 024566           20 SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (265)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (265)
                      ....|+||++.+..+..   .++|+|.||.+|+.+|++..        -.||.  |+..+.
T Consensus         4 ~~d~C~IC~~~~~~~~~---~~~C~H~Fc~~Ci~~w~~~~--------~~CP~--CR~~i~   51 (68)
T d1chca_           4 VAERCPICLEDPSNYSM---ALPCLHAFCYVCITRWIRQN--------PTCPL--CKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCCSCEE---ETTTTEEESTTHHHHHHHHS--------CSTTT--TCCCCC
T ss_pred             CCCCCccCCcCccCCcE---EeCCCCcCcHHHHHHHHHhC--------CcCCC--CCcchH
Confidence            45679999999854432   58999999999999998741        26999  998764

>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=98.39  E-value=2.5e-08  Score=68.98  Aligned_cols=51  Identities=22%  Similarity=0.479  Sum_probs=40.0

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      .+.+.|+||++.+.++..   +.+|||.||.+|+.+|+.          -+||.  |+..+....+
T Consensus        20 ~~~l~C~IC~~~~~~pv~---~~~CgH~fC~~Ci~~~~~----------~~CP~--Cr~~~~~~~l   70 (97)
T d1jm7b_          20 EKLLRCSRCTNILREPVC---LGGCEHIFCSNCVSDCIG----------TGCPV--CYTPAWIQDL   70 (97)
T ss_dssp             HHTTSCSSSCSCCSSCBC---CCSSSCCBCTTTGGGGTT----------TBCSS--SCCBCSCSSC
T ss_pred             hhcCCCccCCchhhcCce---eCCCCCchhHHHHHHHHh----------ccccc--cCCcCchhhC
Confidence            456799999999976643   368999999999988862          15999  9988776544

>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=98.39  E-value=6.9e-08  Score=59.54  Aligned_cols=53  Identities=11%  Similarity=0.071  Sum_probs=42.5

Q ss_pred             cccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCccCC
Q 024566           22 FTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPV   87 (265)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~   87 (265)
                      +.|+||++.+.++..   ...|||.||++|+.+|+...        -+||.  |+..++.+++-.+
T Consensus         1 l~C~Ic~~~~~~Pv~---~~~cGh~fc~~cI~~~l~~~--------~~CP~--c~~~l~~~dLipi   53 (56)
T d2baya1           1 MLCAISGKVPRRPVL---SPKSRTIFEKSLLEQYVKDT--------GNDPI--TNEPLSIEEIVEI   53 (56)
T ss_dssp             CCCTTTCSCCSSEEE---ETTTTEEEEHHHHHHHHHHH--------SBCTT--TCCBCCGGGCEEC
T ss_pred             CCCccCCchHHhcCc---cCCCCCcccHHHHHHHHhhc--------cCCCc--cCCcCCHHhceeC
Confidence            369999999976653   35799999999999999853        16999  9999988776443

>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=98.35  E-value=1e-07  Score=63.32  Aligned_cols=53  Identities=13%  Similarity=-0.018  Sum_probs=42.6

Q ss_pred             CcccccccccccccccccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      -+.+.|+||++.+.++.    .++|||.||++|+.+|+...       .-.||.  |+..++.+++
T Consensus         5 P~~l~CpIc~~l~~dPv----~~~cGhtfc~~ci~~~l~~~-------~~~cP~--c~~~l~~~~l   57 (80)
T d2c2la2           5 PDYLCGKISFELMREPC----ITPSGITYDRKDIEEHLQRV-------GHFNPV--TRSPLTQEQL   57 (80)
T ss_dssp             CSTTBCTTTCSBCSSEE----ECSSCCEEETTHHHHHHHHT-------CSSCTT--TCCCCCGGGC
T ss_pred             CccccCcCcCchhhhhc----ccCCcCeecHHHHHHHHhcC-------CccCCC--cccccccccc
Confidence            46789999999998775    38999999999999998641       236998  8888876544

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.14  E-value=1e-06  Score=54.92  Aligned_cols=56  Identities=13%  Similarity=0.274  Sum_probs=39.2

Q ss_pred             CCccccccccccccccccccc-ccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           18 GGSSFTCEICIEPMAASKKFK-NRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~-~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      +.+...|.||++++.+....+ ....|+|.|+.+||.+|+..+-      ..+||.  |+..+..
T Consensus         3 ded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~------~~~CP~--Cr~~~~~   59 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISR------NTACQI--CGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHT------CSBCTT--TCCBCCC
T ss_pred             CCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCC------CCCCcc--cCCeeec
Confidence            355678999999875443211 1223569999999999997652      247999  9987653

>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=97.76  E-value=6.1e-06  Score=55.42  Aligned_cols=53  Identities=21%  Similarity=0.417  Sum_probs=38.3

Q ss_pred             Cccccccccccccccccc--------------ccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCc
Q 024566           19 GSSFTCEICIEPMAASKK--------------FKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (265)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~--------------~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (265)
                      .....|+||++++.+...              ....++|+|.|+.+||..|++.        .-.||.  |++.+..
T Consensus        19 ~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~--------~~~CP~--CR~~~~~   85 (88)
T d3dplr1          19 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT--------RQVCPL--DNREWEF   85 (88)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT--------CSBCSS--SCSBCCE
T ss_pred             CCCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHH--------CCcCCC--CCCcccc
Confidence            445679999887754321              1234689999999999999863        126999  9987754

>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=97.55  E-value=9.5e-05  Score=50.38  Aligned_cols=53  Identities=15%  Similarity=-0.017  Sum_probs=40.0

Q ss_pred             CCcccccccccccccccccccccCCC-CChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCCCccCc
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLC-THPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C-~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (265)
                      .-+.+.|+||.+-+.++..    ++| +|.||++|+.+|+..     +   -.||.  |+..|..+.+
T Consensus        19 ~P~~f~CPI~~~lm~dPV~----~~~~~~ty~r~~I~~~l~~-----~---~~~P~--~~~~l~~~~L   72 (98)
T d1wgma_          19 ACDEFLDPIMSTLMCDPVV----LPSSRVTVDRSTIARHLLS-----D---QTDPF--NRSPLTMDQI   72 (98)
T ss_dssp             CCTTTBCTTTCSBCSSEEE----CTTTCCEEEHHHHHHHTTT-----S---CBCTT--TCSBCCTTTS
T ss_pred             CcHHhCCcCchhHHHHHHh----cccccchhhHHHHHHHHHh-----c---CCccc--ccccccchhh
Confidence            3457999999999988764    555 568999999999842     1   26898  8888876544

>d1wd2a_ g.44.1.1 (A:) Ariadne-1 protein homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Ariadne-1 protein homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.32  E-value=0.00077  Score=41.15  Aligned_cols=39  Identities=28%  Similarity=0.767  Sum_probs=32.3

Q ss_pred             CCccccCCcCcccceeccccccCCcCeeeCC--Cccccccccccccc
Q 024566          108 FERSYCPNTNCMALVVNECERSGKVKKTQCP--NCKQWFCFQCKLKW  152 (265)
Q Consensus       108 ~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~--~C~~~~C~~C~~~~  152 (265)
                      .+.+.||  +|+..+....+    -+.+.|.  .|+..||+.|+.+|
T Consensus         4 ~ntK~CP--~C~~~ieK~~G----CnhM~C~~~~C~~~fCw~C~~~~   44 (60)
T d1wd2a_           4 ANTKECP--KCHVTIEKDGG----CNHMVCRNQNCKAEFCWVCLGPW   44 (60)
T ss_dssp             CCCCCCT--TTCCCCSSCCS----CCSSSCCSSGGGSCCSSSSCSCS
T ss_pred             hcCcCCC--CCCCeEEECCC----CCCeEeCCCCCCCeEECCCCCcc
Confidence            4567898  59999987655    7899995  69999999999876

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.76  E-value=0.012  Score=36.14  Aligned_cols=48  Identities=27%  Similarity=0.726  Sum_probs=36.9

Q ss_pred             CCcccccccccccccccccccccCCC----CChhHHHHHHHHHHHHhhCCCCCcccCCC
Q 024566           18 GGSSFTCEICIEPMAASKKFKNRNLC----THPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C----~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (265)
                      +...+.|.+|-+.+.+.. |   ..|    .|.||..|-+.+++.+-.+   ..+.||.
T Consensus         5 ~~~~l~CtlC~erLEdtH-F---VQCPsv~~HkFCFpCsr~sik~q~~~---~evyCPS   56 (80)
T d2cs3a1           5 NSGPLCCTICHERLEDTH-F---VQCPSVPSHKFCFPCSRESIKAQGAT---GEVYCPS   56 (80)
T ss_dssp             SCCSCCCSSSCSCCSSTT-S---EECSSCSSCEECHHHHHHHHHHHHSS---SCCCCTT
T ss_pred             CCCceeeeeehhhhcCCc-e---EeCCCCcCCceeccccHHHHHhcCCC---CcEECCC
Confidence            345689999999886432 3   445    7999999999999988764   4678886

>d1wfha_ g.80.1.1 (A:) Zinc finger A20 and AN1 domains containing protein At2g36320 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: Zinc finger A20 and AN1 domains containing protein At2g36320
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=93.38  E-value=0.032  Score=33.74  Aligned_cols=41  Identities=32%  Similarity=0.664  Sum_probs=33.9

Q ss_pred             CcccCCCCCceeeecCCCceeEeecCCceeeccCccccCCCCCCC
Q 024566          180 KWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQT  224 (265)
Q Consensus       180 ~~k~CP~C~~~iek~~GCnhm~C~C~~~FC~~C~~~~~~g~~~~~  224 (265)
                      .-.+|..|+..|...+    ++|+|+..||-.-.-+-.|.|.+..
T Consensus        14 k~~RC~~C~KKl~l~~----~~CrCg~~FC~~HR~pe~H~CtfDy   54 (64)
T d1wfha_          14 RPNRCTVCRKRVGLTG----FMCRCGTTFCGSHRYPEVHGCTFDF   54 (64)
T ss_dssp             SCCCCTTTCCCCCTTC----EECSSSCEECTTTCSTTTTTCCCCC
T ss_pred             CCCcChhhCCCcccee----eeccCCCEehhhcCCCcCcCCCCcc
Confidence            4468999998887653    8999999999999998888887654

>d1wfla_ g.80.1.1 (A:) Zinc finger A20 domain containing protein 2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: Zinc finger A20 domain containing protein 2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.07  E-value=0.056  Score=33.67  Aligned_cols=40  Identities=25%  Similarity=0.430  Sum_probs=33.2

Q ss_pred             cccCCCCCceeeecCCCceeEeecCCceeeccCccccCCCCCCC
Q 024566          181 WARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQT  224 (265)
Q Consensus       181 ~k~CP~C~~~iek~~GCnhm~C~C~~~FC~~C~~~~~~g~~~~~  224 (265)
                      -.+|..|+..|...    .++|+||..||-...-+-.|.|.+..
T Consensus        25 ~~RC~~C~KKl~l~----~~~CrCg~~FC~~HR~pe~H~CtfDy   64 (74)
T d1wfla_          25 KNRCFMCRKKVGLT----GFDCRCGNLFCGLHRYSDKHNCPYDY   64 (74)
T ss_dssp             TTBCSSSCCBCGGG----CEECTTSCEECSSSCSTTTTTCCCCG
T ss_pred             CCcChhhCCcccce----eeEccCCCEehhhcCCCcCcCCCCcc
Confidence            46899999888764    38999999999999998888887644

>d1wffa_ g.80.1.1 (A:) ANUBL1 (AN1, ubiquitin-like, homolog) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: ANUBL1 (AN1, ubiquitin-like, homolog)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.96  E-value=0.052  Score=34.87  Aligned_cols=42  Identities=24%  Similarity=0.566  Sum_probs=34.1

Q ss_pred             CcccCCCCCceeeecCCCceeEeecCCceeeccCccccCCCCCCC
Q 024566          180 KWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQT  224 (265)
Q Consensus       180 ~~k~CP~C~~~iek~~GCnhm~C~C~~~FC~~C~~~~~~g~~~~~  224 (265)
                      ...+|..|+..|....+   ++|+||..||-...-+-.|.|.+..
T Consensus        24 ~~~RC~~C~KKl~l~~~---~~CrCg~~FC~~HR~pe~H~CtfDy   65 (85)
T d1wffa_          24 IMKHCFLCGKKTGLATS---FECRCGNNFCASHRYAEAHGCNYDY   65 (85)
T ss_dssp             CCCBCSSSCCBCSSSSC---EECTTCCEECTTTCSTGGGTCCSCC
T ss_pred             cCCcChhcCCeecCCcC---eecCCCCEehhhcCCCcCcCCCcch
Confidence            34689999998865433   7999999999999999888887644

>d1wfpa_ g.80.1.1 (A:) Zinc finger A20 and AN1 domains containing protein At1g12440 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: Zinc finger A20 and AN1 domains containing protein At1g12440
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=91.57  E-value=0.074  Score=33.12  Aligned_cols=41  Identities=27%  Similarity=0.530  Sum_probs=33.6

Q ss_pred             CcccCCCCCceeeecCCCceeEeecCCceeeccCccccCCCCCCC
Q 024566          180 KWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQT  224 (265)
Q Consensus       180 ~~k~CP~C~~~iek~~GCnhm~C~C~~~FC~~C~~~~~~g~~~~~  224 (265)
                      .-.+|..|+..|...    .++|+|+..||-...-+-.|.|++..
T Consensus        24 kk~RC~~C~KKl~l~----~~~CrCg~~FC~~HR~pe~H~C~fDy   64 (74)
T d1wfpa_          24 TATRCLSCNKKVGVT----GFKCRCGSTFCGTHRYPESHECQFDF   64 (74)
T ss_dssp             CCCBCSSSCCBCTTT----CEECTTSCEECTTTCSTTTSCCCSCT
T ss_pred             CCCcChhcCCccCCC----ceecCCCChhhhccCCccCcCCCCcc
Confidence            457899999877543    38999999999999999888887654

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=90.11  E-value=0.23  Score=31.46  Aligned_cols=61  Identities=25%  Similarity=0.425  Sum_probs=43.0

Q ss_pred             cccCCcCcccceeccccccCCcCeeeCCCcccccccccccccCCCCCChhHHhchhhchHHHHHHHhcCCcccCCCCCce
Q 024566          111 SYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHC  190 (265)
Q Consensus       111 ~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~~~C~~~~~~~~~~d~~~~~~~~~~~~k~CP~C~~~  190 (265)
                      ..|-.  |+.-+-....   ....|.|..|++-+|..|          .+|.+              ....+.||.|+.+
T Consensus        17 q~Cqi--CGd~VG~~~~---Ge~FVAC~eC~FPvCrpC----------yEYEr--------------keG~q~CpqCkt~   67 (93)
T d1weoa_          17 QFCEI--CGDQIGLTVE---GDLFVACNECGFPACRPC----------YEYER--------------REGTQNCPQCKTR   67 (93)
T ss_dssp             CBCSS--SCCBCCBCSS---SSBCCSCSSSCCCCCHHH----------HHHHH--------------HTSCSSCTTTCCC
T ss_pred             chhhh--cccccccCCC---CCEEEEecccCCccchHH----------HHHHH--------------hccCccCcccCCh
Confidence            45553  6665544433   258899999999998865          44432              4578999999999


Q ss_pred             eeecCCCcee
Q 024566          191 VERKDGCSVV  200 (265)
Q Consensus       191 iek~~GCnhm  200 (265)
                      ..+..|+..|
T Consensus        68 Ykr~kgsprv   77 (93)
T d1weoa_          68 YKRLRGSPRV   77 (93)
T ss_dssp             CCCCTTCCCC
T ss_pred             hhhhcCCCCC
Confidence            9988776544

>d2k4xa1 g.41.8.8 (A:1-55) Ribosomal protein S27ae {Thermoplasma acidophilum [TaxId: 2303]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein S27a
domain: Ribosomal protein S27ae
species: Thermoplasma acidophilum [TaxId: 2303]

Probab=89.62  E-value=0.06  Score=31.25  Aligned_cols=28  Identities=29%  Similarity=0.545  Sum_probs=22.6

Q ss_pred             cccCCCCCceeeecCCCceeEe-ecCCce
Q 024566          181 WARCPACGHCVERKDGCSVVMC-RCNTRF  208 (265)
Q Consensus       181 ~k~CP~C~~~iek~~GCnhm~C-~C~~~F  208 (265)
                      -+.||+|+.-|.-..-=|.++| +||+-.
T Consensus        18 ~k~CP~CG~GvFmA~H~dR~~CGKCgyTe   46 (55)
T d2k4xa1          18 HRFCPRCGPGVFLAEHADRYSCGRCGYTE   46 (55)
T ss_dssp             SCCCTTTTTTCCCEECSSEEECTTTCCCE
T ss_pred             cCcCcCCCCcEEeeecCCCccccCCcccE
Confidence            4789999888777766789999 898753

>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=89.39  E-value=0.067  Score=31.58  Aligned_cols=37  Identities=19%  Similarity=0.506  Sum_probs=28.3

Q ss_pred             cccCCCCCceeeecCCCceeEeecCCceeeccCccccCCCCC
Q 024566          181 WARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSC  222 (265)
Q Consensus       181 ~k~CP~C~~~iek~~GCnhm~C~C~~~FC~~C~~~~~~g~~~  222 (265)
                      .-.||-|...+.     +.++-.||+.||..|...|...||.
T Consensus         6 ~l~C~IC~~~~~-----~p~~lpCgH~fC~~Ci~~~~~~CP~   42 (56)
T d1bora_           6 FLRCQQCQAEAK-----CPKLLPCLHTLCSGCLEASGMQCPI   42 (56)
T ss_dssp             CSSCSSSCSSCB-----CCSCSTTSCCSBTTTCSSSSSSCSS
T ss_pred             CCCCcccCcccC-----CCEEecCCCHHhHHHHHcCCCcCcC
Confidence            357999987764     3455679999999999988766664

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=86.01  E-value=0.74  Score=29.03  Aligned_cols=53  Identities=26%  Similarity=0.599  Sum_probs=38.2

Q ss_pred             CCcccccccccccccc---cccccccCCCCChhHHHHHHHHHHHHhhCCCCCcccCCCCCCCCCC
Q 024566           18 GGSSFTCEICIEPMAA---SKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (265)
Q Consensus        18 ~~~~~~C~IC~~~~~~---~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (265)
                      +.....|.||-+++..   .+.|++.-.|+-.+|+.|+.--    +++|+   -.||.  |+..+
T Consensus        13 ~~~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYE----rkeG~---q~Cpq--Ckt~Y   68 (93)
T d1weoa_          13 NLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYE----RREGT---QNCPQ--CKTRY   68 (93)
T ss_dssp             CCSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHH----HHTSC---SSCTT--TCCCC
T ss_pred             hcccchhhhcccccccCCCCCEEEEecccCCccchHHHHHH----HhccC---ccCcc--cCChh
Confidence            4556789999998753   3457667779999999997643    34443   36998  98765

>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=83.72  E-value=0.085  Score=32.08  Aligned_cols=36  Identities=19%  Similarity=0.517  Sum_probs=27.3

Q ss_pred             ccCCCCCceeeecCCCceeEeecCCceeeccCcccc
Q 024566          182 ARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKIS  217 (265)
Q Consensus       182 k~CP~C~~~iek~~GCnhm~C~C~~~FC~~C~~~~~  217 (265)
                      ..||-|...+.....-.-+.-.|||.||..|...|-
T Consensus         4 ~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~   39 (65)
T d1g25a_           4 QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLF   39 (65)
T ss_dssp             TCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHH
T ss_pred             CCCCcCCceeecCCceEEEeCccChHhhHHHHHHHh
Confidence            578999877655555555555799999999999973

>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=82.84  E-value=0.16  Score=31.07  Aligned_cols=33  Identities=30%  Similarity=0.616  Sum_probs=25.8

Q ss_pred             CcccCCCCCceeeecCCCceeEe-ecCCceeeccCcccc
Q 024566          180 KWARCPACGHCVERKDGCSVVMC-RCNTRFCYECGRKIS  217 (265)
Q Consensus       180 ~~k~CP~C~~~iek~~GCnhm~C-~C~~~FC~~C~~~~~  217 (265)
                      ....||=|...+.     +.... .||+.||+.|...|-
T Consensus         4 ~~d~C~IC~~~~~-----~~~~~~~C~H~Fc~~Ci~~w~   37 (68)
T d1chca_           4 VAERCPICLEDPS-----NYSMALPCLHAFCYVCITRWI   37 (68)
T ss_dssp             CCCCCSSCCSCCC-----SCEEETTTTEEESTTHHHHHH
T ss_pred             CCCCCccCCcCcc-----CCcEEeCCCCcCcHHHHHHHH
Confidence            3467999987764     23567 699999999999984

>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=82.38  E-value=0.25  Score=32.36  Aligned_cols=36  Identities=28%  Similarity=0.719  Sum_probs=27.9

Q ss_pred             ccCCCCCceeeecCCCceeEe-ecCCceeeccCccccC-CCCC
Q 024566          182 ARCPACGHCVERKDGCSVVMC-RCNTRFCYECGRKISS-GCSC  222 (265)
Q Consensus       182 k~CP~C~~~iek~~GCnhm~C-~C~~~FC~~C~~~~~~-g~~~  222 (265)
                      -.||-|...+.     +-++. .|||.||..|...|-. .||.
T Consensus        23 l~C~IC~~~~~-----~pv~~~~CgH~fC~~Ci~~~~~~~CP~   60 (97)
T d1jm7b_          23 LRCSRCTNILR-----EPVCLGGCEHIFCSNCVSDCIGTGCPV   60 (97)
T ss_dssp             TSCSSSCSCCS-----SCBCCCSSSCCBCTTTGGGGTTTBCSS
T ss_pred             CCCccCCchhh-----cCceeCCCCCchhHHHHHHHHhccccc
Confidence            47999999885     34666 6999999999988764 3554

>d2akla2 g.41.3.5 (A:3-40) Hypothetical protein PA0128, N-terminal domain {Pseudomonas aeruginosa [TaxId: 287]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: PhnA zinc-binding domain
domain: Hypothetical protein PA0128, N-terminal domain
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=81.69  E-value=0.28  Score=26.07  Aligned_cols=26  Identities=27%  Similarity=0.612  Sum_probs=18.6

Q ss_pred             ccCCcCcccceeccccccCCcCeeeCCCccccc
Q 024566          112 YCPNTNCMALVVNECERSGKVKKTQCPNCKQWF  144 (265)
Q Consensus       112 ~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~  144 (265)
                      .||  +|+.-...++.     ..++||.|++.+
T Consensus         5 ~CP--~C~seytYedg-----~l~vCPeC~hEW   30 (38)
T d2akla2           5 PCP--QCNSEYTYEDG-----ALLVCPECAHEW   30 (38)
T ss_dssp             CCT--TTCCCCCEECS-----SSEEETTTTEEE
T ss_pred             cCC--CCCCcceEcCC-----CEEECCcccCcC
Confidence            466  58888777665     578888887643

>d2jnea1 g.41.18.1 (A:1-71) Hypothetical protein YfgJ {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: Rubredoxin-like
superfamily: YfgJ-like
family: YfgJ-like
domain: Hypothetical protein YfgJ
species: Escherichia coli [TaxId: 562]

Probab=81.08  E-value=0.52  Score=28.68  Aligned_cols=33  Identities=27%  Similarity=0.942  Sum_probs=27.9

Q ss_pred             ccCCCCCceeeecCCCceeEe-ecCCc-----eeeccCccc
Q 024566          182 ARCPACGHCVERKDGCSVVMC-RCNTR-----FCYECGRKI  216 (265)
Q Consensus       182 k~CP~C~~~iek~~GCnhm~C-~C~~~-----FC~~C~~~~  216 (265)
                      ..||.|+..++..+|  +..| .|...     ||-.|.++.
T Consensus         3 ~~CP~C~~eL~~~~~--~~~C~~C~~~~~~~a~CPdC~~~L   41 (71)
T d2jnea1           3 LHCPQCQHVLDQDNG--HARCRSCGEFIEMKALCPDCHQPL   41 (71)
T ss_dssp             CBCSSSCSBEEEETT--EEEETTTCCEEEEEEECTTTCSBC
T ss_pred             CcCCCccCcccccCC--CEehhhhhhhheeEEeCCccccHH
Confidence            479999999999887  9999 69865     688888885