Citrus Sinensis ID: 024715

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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
MGNTLQKKPNEYLEKGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKISHLERMTPPDQS
Secondary Structure (PSIPRED)
cccccccccHHHHHcccccccEEccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccccccccccccHHHHcccccHHHHHHHHHHHHHHHHcccccEEccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccHHHHHHHHHcccccccccccEEEcccccccEEEcccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHEEEcccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccEEEcccccccccccccccccHHHHHHHHHHHEEEEcccccEEEEcccccccccccHHHHHHHccHHHHHHHHHHHHHHHccccccccccccccccEEEEEcccccccEcEEEEccccEEEEcccccccccccHHHHHHHccccccHHHHHHHHHcccccccccccEEcccccccEEEEcccEEEEEEcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccHHHHHcccccccc
Coil and Loop (DISEMBL)
mgntlqkkpneylekggggssftceiciepmaaskkfknrnlcthpfcqDCIARYIQVKvqddntakidcpgldckhnldpfacepvipaslfskwCDVLCEdyvlgfersycpntncmALVVNECersgkvkktqcpnckqwfcfqcklkwhagyrceesrnlrdqnDIVFGQLVERmkwarcpacghcverkdgcsvvmcrcntrfcyecgrkissgcscqtigfCQLTILTIAMMVIFHVIVLAGmkishlermtppdqs
Flexible Loop (DISEMBL)
mgntlqkkpneylekggggsSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRceesrnlrdqnDIVFGQLVERMKWARCPACghcverkdgcsvVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKIshlermtppdqs
Low Complexity Region (SEG)
MGNTLQKKPNEYLEKGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKISHLERMTPPDQS
Disordered region (IsUnstruct)
********************SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKISH**********
Disordered Region (DISOPRED)
************************EICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLR****IVFGQLVERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKISH**********
Disordered Region (DISEMBL)
MGNTLQKKPNEYLEKGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKISHLERMTPPDQS
Disordered Region (DISPRO)
********************SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKISHLER*******
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGNTLQKKPNEYLEKGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSCQTIGFCQLTILTIAMMVIFHVIVLAGMKISHLERMTPPDQS
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	263	2.2.26 [Sep-21-2011]
Q4KLT0	282	Probable E3 ubiquitin-pro	N/A	no	0.676	0.631	0.312	1e-13
A4IIY1	292	Probable E3 ubiquitin-pro	no	no	0.631	0.568	0.277	4e-12
Q7Z419	303	E3 ubiquitin-protein liga	yes	no	0.741	0.643	0.266	6e-12
A5PK27	304	E3 ubiquitin-protein liga	yes	no	0.741	0.641	0.261	2e-11
P50876	292	Probable E3 ubiquitin-pro	no	no	0.627	0.565	0.275	3e-11
Q8BKD6	301	E3 ubiquitin-protein liga	yes	no	0.741	0.647	0.243	2e-10
Q925F3	292	Probable E3 ubiquitin-pro	no	no	0.714	0.643	0.262	2e-10
D3YYI7	515	Probable E3 ubiquitin-pro	no	no	0.718	0.366	0.283	5e-10
Q9LVW9	529	Putative E3 ubiquitin-pro	no	no	0.756	0.376	0.255	8e-10
Q9Z1K6	492	E3 ubiquitin-protein liga	no	no	0.627	0.335	0.289	1e-09

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

 Score = 77.0 bits (188), Expect = 1e-13,   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|A4IIY1|R144A_XENTR Probable E3 ubiquitin-protein ligase RNF144A OS=Xenopus tropicalis GN=rnf144a PE=2 SV=1

 Score = 72.0 bits (175), Expect = 4e-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|Q7Z419|R144B_HUMAN E3 ubiquitin-protein ligase RNF144B OS=Homo sapiens GN=RNF144B PE=1 SV=1

 Score = 71.2 bits (173), Expect = 6e-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|A5PK27|R144B_BOVIN E3 ubiquitin-protein ligase RNF144B OS=Bos taurus GN=RNF144B PE=2 SV=1

 Score = 69.7 bits (169), 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 = 3e-11,   Method: Compositional matrix adjust.
 Identities = 48/174 (27%), Positives = 81/174 (46%), Gaps = 9/174 (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-CNTRFCYEC 212
               L  +    F    +     RCP C   +ER +GC+ +MC+ C   FC+ C
Sbjct: 161 PITFLPGETSAAFKMEEDDAPIKRCPKCKVYIERDEGCAQMMCKNCKHAFCWYC 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.

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 SCHLKFCSCCKDAWHEESSCRDSQSAMPEHGALFGTDADA-PIKQCPVCRIYIERNEGCA 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 = 66.6 bits (161), 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 = 65.1 bits (157), Expect = 5e-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: -

>sp|Q9Z1K6|ARI2_MOUSE E3 ubiquitin-protein ligase ARIH2 OS=Mus musculus GN=Arih2 PE=2 SV=1

 Score = 63.5 bits (153), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 51/176 (28%), Positives = 77/176 (43%), Gaps = 11/176 (6%)

Query: 43  CTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIP-ASLFSKWCDVLC 101
           C H FC+ C  ++  V V+D     I C   DC          P++P   L  K+   L 
Sbjct: 155 CQHQFCRSCWEQHCSVLVKDGVGVGISCMAQDCPLRTPEDFVFPLLPNEELRDKYRRYLF 214

Query: 102 EDYVLG-FERSYCPNTNC-MALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCE 159
            DYV   F+   CP  +C M + V E     + ++ QC  C + FCF+C+  +HA   C 
Sbjct: 215 RDYVESHFQLQLCPGADCPMVIRVQE----PRARRVQCNRCSEVFCFKCRQMYHAPTDCA 270

Query: 160 ESRNLRDQ--NDIVFGQLVERMKWARCPACGHCVERKDGCSVVMC-RCNTRFCYEC 212
             R    +  +D      +       CP C  C+E+  GC+ + C +C   FC+ C
Sbjct: 271 TIRKWLTKCADDSETANYISAHT-KDCPKCNICIEKNGGCNHMQCSKCKHDFCWMC 325

E3 ubiquitin-protein ligase mediating 'Lys-48'-and 'Lys-63'-linked polyubiquitination and subsequent proteasomal degradation of modified proteins. May play a role in myelopoiesis.

Mus musculus (taxid: 10090)

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	263
255578926	255	zinc finger protein, putative [Ricinus c	0.901	0.929	0.497	4e-62
224135813	228	predicted protein [Populus trichocarpa]	0.821	0.947	0.531	3e-61
255578922	213	zinc finger protein, putative [Ricinus c	0.783	0.967	0.559	6e-60
224146525	241	predicted protein [Populus trichocarpa]	0.821	0.896	0.513	1e-59
359478253	212	PREDICTED: LOW QUALITY PROTEIN: probable	0.692	0.858	0.562	4e-57
224068789	237	predicted protein [Populus trichocarpa]	0.832	0.924	0.454	2e-50
356522438	303	PREDICTED: probable E3 ubiquitin-protein	0.768	0.666	0.404	1e-40
356522436	292	PREDICTED: probable E3 ubiquitin-protein	0.787	0.708	0.404	2e-40
297738503	329	unnamed protein product [Vitis vinifera]	0.760	0.607	0.375	5e-38
225444595	358	PREDICTED: probable E3 ubiquitin-protein	0.737	0.541	0.381	6e-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 =  243 bits (621), Expect = 4e-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 (614), Expect = 3e-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 =  236 bits (603), Expect = 6e-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 =  235 bits (599), Expect = 1e-59,   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 =  227 bits (579), Expect = 4e-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 =  172 bits (435), Expect = 1e-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|297738503|emb|CBI27748.3| unnamed protein product [Vitis vinifera]

 Score =  164 bits (414), Expect = 5e-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|225444595|ref|XP_002277363.1| PREDICTED: probable E3 ubiquitin-protein ligase RNF144A-B-like [Vitis vinifera]

 Score =  163 bits (413), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 77/202 (38%), Positives = 119/202 (58%), Gaps = 8/202 (3%)

Query: 21  SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD 80
           +F CEICI+P   +  F  +  C H +C DC+ +Y+  K+QD N ++I CP  +C   L+
Sbjct: 122 TFVCEICIDPKPLNHSFSIKG-CPHSYCSDCMTKYVASKLQD-NVSRISCPAPNCTGVLE 179

Query: 81  PFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNC 140
           P  C P++P+ +F +W + LCE  +LG ++ YCP  +C AL++   +    +K+++CPNC
Sbjct: 180 PQQCRPILPSHVFDRWGNALCEALILGSQKFYCPYKDCSALLIR--DEGEVIKESECPNC 237

Query: 141 KQWFCFQCKLKWHAGYRCEESRNL----RDQNDIVFGQLVERMKWARCPACGHCVERKDG 196
           ++ FC QC++ WH+G  C E + L    R + DI+   L +   W RCP C   VE+  G
Sbjct: 238 RRLFCAQCEVPWHSGIDCGEFQKLNKDERGREDILMMNLAKTNNWKRCPKCKFYVEKSFG 297

Query: 197 CSVVMCRCNTRFCYECGRKISS 218
           C  + CRC   FCY CG   S+
Sbjct: 298 CMYIRCRCGFAFCYNCGAPSST 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	263
TAIR|locus:2091030	303	AT3G14250 [Arabidopsis thalian	0.806	0.699	0.352	1e-43
TAIR|locus:2084116	320	AT3G53690 [Arabidopsis thalian	0.768	0.631	0.375	3.2e-42
TAIR|locus:2085612	348	AT3G45540 [Arabidopsis thalian	0.737	0.557	0.321	1e-29
TAIR|locus:1006230127	384	AT2G26135 [Arabidopsis thalian	0.733	0.502	0.321	2.7e-29
TAIR|locus:2085622	222	AT3G45470 [Arabidopsis thalian	0.756	0.896	0.304	6.4e-28
TAIR|locus:2133935	532	AT4G19670 [Arabidopsis thalian	0.733	0.362	0.310	1.6e-27
TAIR|locus:2101074	346	AT3G43750 [Arabidopsis thalian	0.695	0.528	0.304	4.5e-27
TAIR|locus:2151689	444	AT5G37560 [Arabidopsis thalian	0.749	0.443	0.287	1.7e-26
TAIR|locus:2057401	398	AT2G26130 [Arabidopsis thalian	0.707	0.467	0.313	2.5e-26
TAIR|locus:2085672	408	AT3G45580 [Arabidopsis thalian	0.741	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	263
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 = 38.9 bits (91), 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 = 38.0 bits (88), 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	263
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	99.95
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	99.94
smart00647	64	IBR In Between Ring fingers. the domains occurs be	99.2
PF01485	64	IBR: IBR domain; InterPro: IPR002867 Zinc finger (	99.17
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.64
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.62
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.55
smart00647	64	IBR In Between Ring fingers. the domains occurs be	98.54
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.49
PF01485	64	IBR: IBR domain; InterPro: IPR002867 Zinc finger (	98.44
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.43
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.38
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.33
PF14634	44	zf-RING_5: zinc-RING finger domain	98.28
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.14
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.12
PHA02926	242	zinc finger-like protein; Provisional	98.05
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	97.97
PHA02929	238	N1R/p28-like protein; Provisional	97.93
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.88
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.87
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	97.8
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	97.8
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	97.79
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	97.64
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	97.58
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.52
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.46
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	97.44
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.35
KOG1002	791	consensus Nucleotide excision repair protein RAD16	97.17
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	96.95
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.94
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	96.94
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	96.92
KOG4367	699	consensus Predicted Zn-finger protein [Function un	96.65
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	96.26
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	96.11
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	96.09
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.09
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	95.97
KOG2660	331	consensus Locus-specific chromosome binding protei	95.81
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	95.44
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.33
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	95.06
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	94.23
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	94.22
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	93.99
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	93.71
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	93.66
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	93.64
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	93.58
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	93.56
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	93.5
PF04641	260	Rtf2: Rtf2 RING-finger	93.13
KOG1940	276	consensus Zn-finger protein [General function pred	93.11
KOG3039	303	consensus Uncharacterized conserved protein [Funct	92.97
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	92.57
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	92.48
COG5152	259	Uncharacterized conserved protein, contains RING a	92.44
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	92.35
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	92.07
COG5175	480	MOT2 Transcriptional repressor [Transcription]	92.07
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	91.92
KOG3053	293	consensus Uncharacterized conserved protein [Funct	91.84
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	91.79
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	91.74
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	91.4
KOG4739	233	consensus Uncharacterized protein involved in syna	91.06
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	90.99
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	90.98
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	90.97
smart00661	52	RPOL9 RNA polymerase subunit 9.	90.94
PF13719	37	zinc_ribbon_5: zinc-ribbon domain	90.88
PF13248	26	zf-ribbon_3: zinc-ribbon domain	90.52
PF13240	23	zinc_ribbon_2: zinc-ribbon domain	90.44
KOG0297	391	consensus TNF receptor-associated factor [Signal t	90.3
PHA03096	284	p28-like protein; Provisional	90.19
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	90.14
PHA00626	59	hypothetical protein	90.0
PF13717	36	zinc_ribbon_4: zinc-ribbon domain	89.64
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	88.61
KOG4445	368	consensus Uncharacterized conserved protein, conta	88.27
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	87.91
PRK00398	46	rpoP DNA-directed RNA polymerase subunit P; Provis	87.58
PRK00432	50	30S ribosomal protein S27ae; Validated	87.35
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	86.96
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	86.78
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	86.66
PLN03086	567	PRLI-interacting factor K; Provisional	86.59
KOG3002	299	consensus Zn finger protein [General function pred	86.53
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	86.49
COG5236	493	Uncharacterized conserved protein, contains RING Z	85.98
KOG0825	1134	consensus PHD Zn-finger protein [General function	85.15
COG1998	51	RPS31 Ribosomal protein S27AE [Translation, riboso	85.03
PF14803	34	Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.	84.77
PF14952	44	zf-tcix: Putative treble-clef, zinc-finger, Zn-bin	84.47
KOG2906	105	consensus RNA polymerase III subunit C11 [Transcri	84.38
TIGR02098	38	MJ0042_CXXC MJ0042 family finger-like domain. This	83.23
COG5219	1525	Uncharacterized conserved protein, contains RING Z	82.47
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	82.22
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	82.21
KOG1941	518	consensus Acetylcholine receptor-associated protei	81.98
PF09297	32	zf-NADH-PPase: NADH pyrophosphatase zinc ribbon do	81.12
smart00661	52	RPOL9 RNA polymerase subunit 9.	80.9
PF01599	47	Ribosomal_S27: Ribosomal protein S27a; InterPro: I	80.77
PF09538	108	FYDLN_acid: Protein of unknown function (FYDLN_aci	80.73

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

Probab=100.00  E-value=6.3e-36  Score=263.88  Aligned_cols=198  Identities=30%  Similarity=0.727  Sum_probs=168.8

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCCChhhHHHHHH
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCD   98 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~~~   98 (263)
                      ....+|.||+.+....+.++....|+|.||.+|+++|++.+.  .....++||..+|...++.+....+|++.+.++|..
T Consensus       144 ~~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~--~~~~~~~C~~~~C~~~l~~~~c~~llt~kl~e~~e~  221 (384)
T KOG1812|consen  144 LPKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKL--LSGTVIRCPHDGCESRLTLESCRKLLTPKLREMWEQ  221 (384)
T ss_pred             cccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhh--ccCCCccCCCCCCCccCCHHHHhhhcCHHHHHHHHH
Confidence            357899999966555544444788999999999999999994  357889999999999999999999999999999999


Q ss_pred             HHHHHhhcCCCcccCCccccccceecccccc-CCCCceeCCccccccccccccCCCCCCCchhHHhcccc--chHHHHHH
Q 024715           99 VLCEDYVLGFERSYCPNTNCMALVVNECERS-GKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQ--NDIVFGQL  175 (263)
Q Consensus        99 ~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~-~~~~~~~C~~C~~~~C~~C~~~~H~~~~C~~~~~~~~~--~~~~~~~~  175 (263)
                      .+.+.++...+.+|||+++|...+......+ .+.....|..|+..||.+|+.+||++.+|++++++...  .+....+.
T Consensus       222 ~~~e~~i~~~~~~ycp~~~C~~l~~~~el~~~~~~~~~~C~~C~~~fCv~C~~~wh~~~sC~eykk~~~~~~~d~~~~~~  301 (384)
T KOG1812|consen  222 RLKEEVIPSLDRVYCPYPRCSSLMSKTELSSEVKSKRRPCVKCHELFCVKCKVPWHANLSCEEYKKLNPEEYVDDITLKY  301 (384)
T ss_pred             HHHHHhhhhhhcccCCCCCchHhhhhhhhccchhhcccccccCCCceeecCCCcCCCCCCHHHHHHhCCcccccHHHHHH
Confidence            9999999766666999999998887665321 23567789999999999999999999999999998754  33344444


Q ss_pred             HhcCCcccCCCCCceeecCCCCceeEeecCCceecccCcccCCC
Q 024715          176 VERMKWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSG  219 (263)
Q Consensus       176 ~~~~~~k~CP~C~~~i~k~~GCnhm~C~C~~~FC~~C~~~~~~~  219 (263)
                      +. ..||+||+|+..|++.+|||||+|+||++|||.|+..|..+
T Consensus       302 la-~~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~  344 (384)
T KOG1812|consen  302 LA-KRWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTH  344 (384)
T ss_pred             HH-HhcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhC
Confidence            44 78999999999999999999999999999999999998654

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

Probab=100.00  E-value=2.8e-36  Score=257.00  Aligned_cols=198  Identities=26%  Similarity=0.637  Sum_probs=165.8

Q ss_pred             CCCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCCChhhHHHH
Q 024715           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKW   96 (263)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~   96 (263)
                      .....+.|.||+++......| ..++|+|.||+.|++.|++..++++....++||.++|+...+...++.+|+.+++++|
T Consensus       180 F~~slf~C~ICf~e~~G~~c~-~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~arY  258 (445)
T KOG1814|consen  180 FVNSLFDCCICFEEQMGQHCF-KFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFARY  258 (445)
T ss_pred             HHhhcccceeeehhhcCccee-eecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHHH
Confidence            356789999999999654554 5799999999999999999999998899999999999999999999999999999999


Q ss_pred             HHHHHHHhh-cCCCcccCCccccccceeccccccCCCCceeCCccccccccccccCCCCCCCchhHH--------hcccc
Q 024715           97 CDVLCEDYV-LGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESR--------NLRDQ  167 (263)
Q Consensus        97 ~~~~~~~~~-~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~~~C~~~~--------~~~~~  167 (263)
                      ++++.+..+ .+.+.+|||++.|..+...+++    ...+.|..|++.||+.|+..||++..|.--.        +|.+.
T Consensus       259 e~l~lqk~l~~msdv~yCPr~~Cq~p~~~d~~----~~l~~CskCnFaFCtlCk~t~HG~s~Ck~~~~~~~~l~~~~~~~  334 (445)
T KOG1814|consen  259 EKLMLQKTLELMSDVVYCPRACCQLPVKQDPG----RALAICSKCNFAFCTLCKLTWHGVSPCKVKAEKLIELYLEYLEA  334 (445)
T ss_pred             HHHHHHHHHHhhcccccCChhhccCccccCch----hhhhhhccCccHHHHHHHHhhcCCCcccCchHHHHHHHHHHhhc
Confidence            999999888 6788999999999999855555    6799999999999999999999998887421        11111


Q ss_pred             chH------------HHHHH--------HhcCCcccCCCCCceeecCCCCceeEe-ecCCceecccCcccCCC
Q 024715          168 NDI------------VFGQL--------VERMKWARCPACGHCVERKDGCSVVMC-RCNTRFCYECGRKISSG  219 (263)
Q Consensus       168 ~~~------------~~~~~--------~~~~~~k~CP~C~~~i~k~~GCnhm~C-~C~~~FC~~C~~~~~~~  219 (263)
                      +.+            .+.++        ....+.|+||+|++.|+|++|||+|+| .|++.|||+|+.....+
T Consensus       335 d~a~k~ele~Ryg~rvve~~vn~~lsekwl~~N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l~~~  407 (445)
T KOG1814|consen  335 DEARKRELEKRYGKRVVEELVNDFLSEKWLESNSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELLYPE  407 (445)
T ss_pred             CHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcCCCCCcccceeecCCCccceeeccccccceeehhhhcCCC
Confidence            000            00111        112355999999999999999999999 69999999999987755

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

Probab=99.95  E-value=9.1e-28  Score=217.51  Aligned_cols=193  Identities=24%  Similarity=0.539  Sum_probs=162.2

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCCCh-hhHHHHH
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPA-SLFSKWC   97 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~-~~~~~~~   97 (263)
                      ....+|.||++....   ....+.|+|.||..||..|+...|.++....|+||.++|.+.+....+..++++ +..++|.
T Consensus        68 ~~~~~c~ic~~~~~~---~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~~~~s~~~~~~ky~  144 (444)
T KOG1815|consen   68 KGDVQCGICVESYDG---EIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVEKLVSDKEDKEKYQ  144 (444)
T ss_pred             CccccCCcccCCCcc---hhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceeeeecCCHHHHHHHH
Confidence            456899999999954   224689999999999999999999976555599999999999999999999998 4899999


Q ss_pred             HHHHHHhhcC-CCcccCCccccccceeccccccCCCCceeCCccccccccccccCCCCCCCchhHHhccccchHHHHHH-
Q 024715           98 DVLCEDYVLG-FERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQL-  175 (263)
Q Consensus        98 ~~~~~~~~~~-~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~-  175 (263)
                      +.+...++.. ....|||+|+|+..+.....   ....+.|. |+..||+.|..+||.+.+|.....|..........+ 
T Consensus       145 ~~i~~syve~~~~lkwCP~~~C~~av~~~~~---~~~~v~C~-~g~~FC~~C~~~~H~p~~C~~~~~wl~k~~~~se~~~  220 (444)
T KOG1815|consen  145 RYILRSYVEDNVPLKWCPAPGCGLAVKFGSL---ESVEVDCG-CGHEFCFACGEESHSPVSCPGAKKWLKKCRDDSETIN  220 (444)
T ss_pred             HHHHHHHHhcCCccccCCCCCCCceeeccCC---CccceeCC-CCchhHhhccccccCCCcccchHHHHHhhhhhhhhhh
Confidence            9999999965 44799999999998886421   26789995 777999999999999999999998876532222221 


Q ss_pred             HhcCCcccCCCCCceeecCCCCceeEe-e--cCCceecccCcccCC
Q 024715          176 VERMKWARCPACGHCVERKDGCSVVMC-R--CNTRFCYECGRKISS  218 (263)
Q Consensus       176 ~~~~~~k~CP~C~~~i~k~~GCnhm~C-~--C~~~FC~~C~~~~~~  218 (263)
                      ....++++||+|.++|+|++|||||+| .  |+++|||+|++.|..
T Consensus       221 wi~~ntk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~  266 (444)
T KOG1815|consen  221 WILANTKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSD  266 (444)
T ss_pred             hhhccCccCCCcccchhccCCccccccccCCcCCeeceeeeccccc
Confidence            235678999999999999999999999 4  999999999888764

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

Probab=99.94  E-value=5.9e-27  Score=193.61  Aligned_cols=196  Identities=22%  Similarity=0.553  Sum_probs=153.5

Q ss_pred             cCCCCCccccccccccccccccccccCCCC--CccHHHHHHHHHHHHhhCCC-------CcccccCCCCCCC-ccCcccc
Q 024715           15 KGGGGSSFTCEICIEPMAASKKFKNRNLCT--HPFCQDCIARYIQVKVQDDN-------TAKIDCPGLDCKH-NLDPFAC   84 (263)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~--H~fC~~Cl~~~~~~~i~~~~-------~~~i~CP~~~C~~-~l~~~~i   84 (263)
                      ...+..+.+|..|.+.-+..  +  .++|.  |..|.+|++.|..+.+.++.       .+.+.||. +|.. .|..-..
T Consensus       215 i~~N~~ni~C~~Ctdv~~~v--l--vf~Cns~HvtC~dCFr~yc~~Rl~~rqf~~~p~~gyslpc~a-gc~~s~i~e~HH  289 (446)
T KOG0006|consen  215 IATNSRNITCITCTDVRSPV--L--VFQCNSRHVTCLDCFRLYCVTRLNDRQFVHDPQLGYSLPCVA-GCPNSLIKELHH  289 (446)
T ss_pred             hhcccccceeEEecCCccce--E--EEecCCceeehHHhhhhHhhhcccccccccCccccccccccC-CCchHHHHhhhh
Confidence            34567889999999887432  2  36776  99999999999999997542       45688886 6664 4444456


Q ss_pred             ccCCChhhHHHHHHHHHHHhhcCCCcccCCccccccceeccccccCCCCceeCCc-cccccccccccCCCCCCCchhHHh
Q 024715           85 EPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPN-CKQWFCFQCKLKWHAGYRCEESRN  163 (263)
Q Consensus        85 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~-C~~~~C~~C~~~~H~~~~C~~~~~  163 (263)
                      .++|..+.|++|+++..+.++...+.+.||+|+|+..+..++.    ..+++|+. |++.||..|...||.+. |.+.-.
T Consensus       290 F~ilg~e~Y~rYQr~atEe~vlq~gGVlCP~pgCG~gll~EPD----~rkvtC~~gCgf~FCR~C~e~yh~ge-C~~~~~  364 (446)
T KOG0006|consen  290 FRILGEEQYNRYQRYATEECVLQMGGVLCPRPGCGAGLLPEPD----QRKVTCEGGCGFAFCRECKEAYHEGE-CSAVFE  364 (446)
T ss_pred             heecchhHHHHHHHhhhhhheeecCCEecCCCCCCcccccCCC----CCcccCCCCchhHhHHHHHhhhcccc-ceeeec
Confidence            7799999999999999999998888999999999999998886    68999996 99999999999999875 442111


Q ss_pred             cc----------c--cchHHH---HHHHhcCCcccCCCCCceeecCCCCceeEe-e--cCCceecccCcccCCCC
Q 024715          164 LR----------D--QNDIVF---GQLVERMKWARCPACGHCVERKDGCSVVMC-R--CNTRFCYECGRKISSGC  220 (263)
Q Consensus       164 ~~----------~--~~~~~~---~~~~~~~~~k~CP~C~~~i~k~~GCnhm~C-~--C~~~FC~~C~~~~~~~~  220 (263)
                      ..          +  .+++..   .....+..+|+||+|.++.||+|||.||.| +  ||.+|||.|+-.|+.-|
T Consensus       365 as~t~tc~y~vde~~a~~arwd~as~~TIk~tTkpCPkChvptErnGGCmHm~Ct~~~Cg~eWCw~C~tEW~r~C  439 (446)
T KOG0006|consen  365 ASGTTTCAYRVDERAAEQARWDAASKETIKKTTKPCPKCHVPTERNGGCMHMKCTQPQCGLEWCWNCGTEWNRVC  439 (446)
T ss_pred             cccccceeeecChhhhhhhhhhhhhhhhhhhccCCCCCccCccccCCceEEeecCCCCCCceeEeccCChhhhhh
Confidence            00          0  011111   112223467999999999999999999999 6  99999999999999755

>smart00647 IBR In Between Ring fingers

Probab=99.20  E-value=2.5e-11  Score=80.46  Aligned_cols=63  Identities=33%  Similarity=0.836  Sum_probs=53.9

Q ss_pred             HHHHHHHHHHhhcC-CCcccCCccccccceeccccccCCCCceeCCccccccccccccCCCCCCCc
Q 024715           94 SKWCDVLCEDYVLG-FERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRC  158 (263)
Q Consensus        94 ~~~~~~~~~~~~~~-~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~~~C  158 (263)
                      ++|++++.+.+++. ++.+|||+++|..++...+.  .....+.|+.|+..||+.|+.+||.+.+|
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            47888999998854 68899999999999988641  12679999999999999999999999887

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=99.17  E-value=5.1e-12  Score=83.81  Aligned_cols=63  Identities=29%  Similarity=0.755  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHhhc-CCCcccCCccccccceeccccccCCCCceeCCccccccccccccCCCCCCCc
Q 024715           94 SKWCDVLCEDYVL-GFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRC  158 (263)
Q Consensus        94 ~~~~~~~~~~~~~-~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~~~C  158 (263)
                      ++|++++.+.+++ ..+.++||+++|+.++...+...  ...+.|+.|+..||+.|+.+||.+.+|
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            4677877787774 45678999999999999887732  124999999999999999999999876

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.

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.64  E-value=4.4e-08  Score=77.74  Aligned_cols=70  Identities=26%  Similarity=0.626  Sum_probs=51.7

Q ss_pred             cCCCCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhh--------CCCCcccccCCCCCCCccCcccccc
Q 024715           15 KGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQ--------DDNTAKIDCPGLDCKHNLDPFACEP   86 (263)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~--------~~~~~~i~CP~~~C~~~l~~~~i~~   86 (263)
                      ..+..+.++|+||++.+.++    ..++|||.||..|+..|+...-.        ........||.  |+..++...+..
T Consensus        12 ~~~~~~~~~CpICld~~~dP----VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPv--CR~~Is~~~LvP   85 (193)
T PLN03208         12 LVDSGGDFDCNICLDQVRDP----VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPV--CKSDVSEATLVP   85 (193)
T ss_pred             eccCCCccCCccCCCcCCCc----EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCC--CCCcCChhcEEE
Confidence            33345679999999998655    24789999999999999764321        01234679999  999998877776


Q ss_pred             CCCh
Q 024715           87 VIPA   90 (263)
Q Consensus        87 ~l~~   90 (263)
                      +...
T Consensus        86 iygr   89 (193)
T PLN03208         86 IYGR   89 (193)
T ss_pred             eecc
Confidence            6553

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

Probab=98.62  E-value=1.1e-08  Score=61.56  Aligned_cols=41  Identities=27%  Similarity=0.772  Sum_probs=28.7

Q ss_pred             cccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCC
Q 024715           24 CEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (263)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (263)
                      |+||++.+.++.    .++|||+||..|+.+++...-    ...+.||.
T Consensus         1 CpiC~~~~~~Pv----~l~CGH~FC~~Cl~~~~~~~~----~~~~~CP~   41 (42)
T PF15227_consen    1 CPICLDLFKDPV----SLPCGHSFCRSCLERLWKEPS----GSGFSCPE   41 (42)
T ss_dssp             ETTTTSB-SSEE----E-SSSSEEEHHHHHHHHCCSS----SST---SS
T ss_pred             CCccchhhCCcc----ccCCcCHHHHHHHHHHHHccC----CcCCCCcC
Confidence            899999998774    489999999999999986432    22388987

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

Probab=98.55  E-value=4.1e-08  Score=59.04  Aligned_cols=43  Identities=28%  Similarity=0.726  Sum_probs=24.8

Q ss_pred             cccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccC
Q 024715           24 CEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCP   71 (263)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP   71 (263)
                      |+||.+ +...++....++|||+||++|+.+++....    ...++||
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 766556556789999999999999998543    3467887

>smart00647 IBR In Between Ring fingers

Probab=98.54  E-value=1.6e-07  Score=61.93  Aligned_cols=42  Identities=29%  Similarity=0.801  Sum_probs=38.0

Q ss_pred             CCcccCC--CCCceeecCC--CCceeEe-ecCCceecccCcccCCCC
Q 024715          179 MKWARCP--ACGHCVERKD--GCSVVMC-RCNTRFCYECGRKISSGC  220 (263)
Q Consensus       179 ~~~k~CP--~C~~~i~k~~--GCnhm~C-~C~~~FC~~C~~~~~~~~  220 (263)
                      ..++.||  +|...|+..+  +..+|+| .|++.|||.|+..||.+.
T Consensus        16 ~~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~H~~~   62 (64)
T smart00647       16 PDLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWHSPV   62 (64)
T ss_pred             CCccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcCCCCC
Confidence            5788999  9999999975  9999999 799999999999998764

the domains occurs between pairs og RING fingers

>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=98.49  E-value=1.1e-07  Score=57.01  Aligned_cols=40  Identities=33%  Similarity=0.957  Sum_probs=33.3

Q ss_pred             cccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCC
Q 024715           24 CEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (263)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (263)
                      |+||++.+..+.   ..++|+|.||.+|+.+|++.      ...++||.
T Consensus         1 C~iC~~~~~~~~---~~~~C~H~fC~~C~~~~~~~------~~~~~CP~   40 (41)
T PF00097_consen    1 CPICLEPFEDPV---ILLPCGHSFCRDCLRKWLEN------SGSVKCPL   40 (41)
T ss_dssp             ETTTSSBCSSEE---EETTTSEEEEHHHHHHHHHH------TSSSBTTT
T ss_pred             CCcCCccccCCC---EEecCCCcchHHHHHHHHHh------cCCccCCc
Confidence            799999996654   25999999999999999997      34567887

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=98.44  E-value=7.6e-08  Score=63.54  Aligned_cols=42  Identities=38%  Similarity=1.022  Sum_probs=31.1

Q ss_pred             CCcccCCC--CCceeecCCCCce--eEee-cCCceecccCcccCCCC
Q 024715          179 MKWARCPA--CGHCVERKDGCSV--VMCR-CNTRFCYECGRKISSGC  220 (263)
Q Consensus       179 ~~~k~CP~--C~~~i~k~~GCnh--m~C~-C~~~FC~~C~~~~~~~~  220 (263)
                      ...+.||+  |...+.+..+.++  |+|. |++.|||.|+.+||.+.
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            35589988  9999999999999  9995 99999999999998763

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.

>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=98.43  E-value=1.5e-07  Score=55.69  Aligned_cols=38  Identities=32%  Similarity=0.954  Sum_probs=29.3

Q ss_pred             cccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCC
Q 024715           24 CEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (263)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (263)
                      |+||++.+.++.   ..++|||.||.+|+.+|++.        ..+||.
T Consensus         1 C~iC~~~~~~~~---~~~~CGH~fC~~C~~~~~~~--------~~~CP~   38 (39)
T PF13923_consen    1 CPICLDELRDPV---VVTPCGHSFCKECIEKYLEK--------NPKCPV   38 (39)
T ss_dssp             ETTTTSB-SSEE---EECTTSEEEEHHHHHHHHHC--------TSB-TT
T ss_pred             CCCCCCcccCcC---EECCCCCchhHHHHHHHHHC--------cCCCcC
Confidence            899999986642   25999999999999999883        267886

>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=98.38  E-value=1e-07  Score=58.09  Aligned_cols=41  Identities=29%  Similarity=0.754  Sum_probs=32.5

Q ss_pred             ccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCC
Q 024715           23 TCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (263)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (263)
                      +|+||++++.+.+.+. .++|+|.||.+|+..|++..        .+||.
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            6999999997655543 57799999999999999752        28987

...

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

Probab=98.33  E-value=3.9e-07  Score=70.67  Aligned_cols=57  Identities=21%  Similarity=0.662  Sum_probs=44.9

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccccc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (263)
                      ..+.+.|+||++.+.....  ....|||.||..|++..+.        ...+||.  |+..|+..++..
T Consensus       128 ~~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk--------~~~~CP~--C~kkIt~k~~~r  184 (187)
T KOG0320|consen  128 KEGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALK--------NTNKCPT--CRKKITHKQFHR  184 (187)
T ss_pred             cccccCCCceecchhhccc--cccccchhHHHHHHHHHHH--------hCCCCCC--cccccchhhhee
Confidence            3566999999999965433  4689999999999998886        3457999  888888766544

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.28  E-value=6.5e-07  Score=54.45  Aligned_cols=44  Identities=27%  Similarity=0.868  Sum_probs=34.6

Q ss_pred             ccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCC
Q 024715           23 TCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKH   77 (263)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~   77 (263)
                      .|+||++.+.+... +.+++|||.||.+|+....        ...+.||.  |+.
T Consensus         1 ~C~~C~~~~~~~~~-~~l~~CgH~~C~~C~~~~~--------~~~~~CP~--C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERR-PRLTSCGHIFCEKCLKKLK--------GKSVKCPI--CRK   44 (44)
T ss_pred             CCcCcCccccCCCC-eEEcccCCHHHHHHHHhhc--------CCCCCCcC--CCC
Confidence            48999999943333 3579999999999999888        34678998  763

>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=1.6e-06  Score=54.29  Aligned_cols=46  Identities=30%  Similarity=0.761  Sum_probs=36.2

Q ss_pred             ccccccccccccccccccccCCCCCc-cHHHHHHHHHHHHhhCCCCcccccCCCCCCCccC
Q 024715           21 SFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (263)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (263)
                      ...|.||++...+.    .+.+|+|. ||.+|+.+++.        ...+||.  |++.++
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            46899999987432    35899999 99999999998        3468999  998875

...

>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=98.12  E-value=2.9e-06  Score=51.30  Aligned_cols=44  Identities=32%  Similarity=0.856  Sum_probs=33.6

Q ss_pred             ccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCc
Q 024715           23 TCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHN   78 (263)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~   78 (263)
                      +|+||++.+...  + ...+|+|.||.+|+..|++.       ....||.  |+..
T Consensus         1 ~C~iC~~~~~~~--~-~~~~C~H~~c~~C~~~~~~~-------~~~~Cp~--C~~~   44 (45)
T cd00162           1 ECPICLEEFREP--V-VLLPCGHVFCRSCIDKWLKS-------GKNTCPL--CRTP   44 (45)
T ss_pred             CCCcCchhhhCc--e-EecCCCChhcHHHHHHHHHh-------CcCCCCC--CCCc
Confidence            589999998322  1 24669999999999999874       3457998  8764

>PHA02926 zinc finger-like protein; Provisional

Probab=98.05  E-value=4.6e-06  Score=67.19  Aligned_cols=59  Identities=25%  Similarity=0.592  Sum_probs=43.3

Q ss_pred             CCCcccccccccccccc-----ccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccC
Q 024715           18 GGSSFTCEICIEPMAAS-----KKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~-----~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (263)
                      .++..+|+||+|..-..     ..|-.+.+|+|.||..|+..|......  ....-.||.  |+..+.
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~--~~~~rsCPi--CR~~f~  230 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRE--TGASDNCPI--CRTRFR  230 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccc--cCcCCcCCC--Ccceee
Confidence            45678999999986321     234445789999999999999986532  234567999  997654

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

Probab=97.97  E-value=7.3e-06  Score=66.46  Aligned_cols=60  Identities=28%  Similarity=0.725  Sum_probs=49.3

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCC
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVI   88 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l   88 (263)
                      +...++|.||+|.-.++.    +..|||.||=.||.+|+..+...     -.||.  |+..++.+.+-.+.
T Consensus        44 ~~~~FdCNICLd~akdPV----vTlCGHLFCWpClyqWl~~~~~~-----~~cPV--CK~~Vs~~~vvPlY  103 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPV----VTLCGHLFCWPCLYQWLQTRPNS-----KECPV--CKAEVSIDTVVPLY  103 (230)
T ss_pred             CCCceeeeeeccccCCCE----EeecccceehHHHHHHHhhcCCC-----eeCCc--cccccccceEEeee
Confidence            577899999999987663    48899999999999999977643     45799  99998887765554

>PHA02929 N1R/p28-like protein; Provisional

Probab=97.93  E-value=9.2e-06  Score=67.35  Aligned_cols=52  Identities=29%  Similarity=0.670  Sum_probs=39.3

Q ss_pred             CCccccccccccccccc----cccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccC
Q 024715           19 GSSFTCEICIEPMAASK----KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~----~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (263)
                      .+..+|+||++++.+..    .+..+.+|+|.||.+|+..|+..        ...||.  |+..+.
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            45689999999875432    12245789999999999999752        247999  998765

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

Probab=97.88  E-value=8e-06  Score=70.64  Aligned_cols=109  Identities=22%  Similarity=0.481  Sum_probs=69.9

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCCChhhHHHHH
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWC   97 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~~   97 (263)
                      ..+...|+||++.+..+    .+++|+|.||..|+...+.        ..+.||.  |.. ...    .+...-.+....
T Consensus        10 ~~~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~--------~~~~Cp~--cr~-~~~----~~~~n~~l~~~~   70 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREP----VLLPCGHNFCRACLTRSWE--------GPLSCPV--CRP-PSR----NLRPNVLLANLV   70 (386)
T ss_pred             ccccccChhhHHHhhcC----ccccccchHhHHHHHHhcC--------CCcCCcc--cCC-chh----ccCccHHHHHHH
Confidence            45789999999999777    3699999999999999998        4589999  884 222    222222333333


Q ss_pred             HHHHHHhhcCC---CcccCCccccccceeccccccCCCCceeCCccccccccccc-cCCCCCCCc
Q 024715           98 DVLCEDYVLGF---ERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCK-LKWHAGYRC  158 (263)
Q Consensus        98 ~~~~~~~~~~~---~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~-~~~H~~~~C  158 (263)
                      ...........   ....|+...             ....+.|..|....|..|. ...|.++.-
T Consensus        71 ~~~~~~~~~~~~~~~~~~c~~~~-------------~~~~~~c~~~~~~~c~~c~~~~~h~~h~~  122 (386)
T KOG2177|consen   71 ERLRQLRLSRPLGSKEELCEKHG-------------EELKLFCEEDEKLLCVLCRESGEHRGHPV  122 (386)
T ss_pred             HHHHhcCCcccccccchhhhhcC-------------CcceEEecccccccCCCCCCcccccCCcc
Confidence            33222211100   011233111             0257889999999999998 667777653

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

Probab=97.87  E-value=8.3e-06  Score=73.20  Aligned_cols=60  Identities=30%  Similarity=0.676  Sum_probs=48.6

Q ss_pred             ccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCCC
Q 024715           21 SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIP   89 (263)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~   89 (263)
                      ...|+||+++..-+    ..+.|||.||-.||.+||....   ...+..||.  |...|...++..+.-
T Consensus       186 ~~~CPICL~~~~~p----~~t~CGHiFC~~CiLqy~~~s~---~~~~~~CPi--C~s~I~~kdl~pv~~  245 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP----VRTNCGHIFCGPCILQYWNYSA---IKGPCSCPI--CRSTITLKDLLPVFI  245 (513)
T ss_pred             CCcCCcccCCCCcc----cccccCceeeHHHHHHHHhhhc---ccCCccCCc--hhhhccccceeeeee
Confidence            78999999998544    3467999999999999999883   245678999  999998877766543

>smart00504 Ubox Modified RING finger domain

Probab=97.80  E-value=2.9e-05  Score=50.85  Aligned_cols=51  Identities=18%  Similarity=0.215  Sum_probs=40.9

Q ss_pred             cccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccccc
Q 024715           22 FTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (263)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (263)
                      +.|+||.+.+.++    ..++|||.||+.|+.+|+..        ...||.  |+..++.+++..
T Consensus         2 ~~Cpi~~~~~~~P----v~~~~G~v~~~~~i~~~~~~--------~~~cP~--~~~~~~~~~l~~   52 (63)
T smart00504        2 FLCPISLEVMKDP----VILPSGQTYERRAIEKWLLS--------HGTDPV--TGQPLTHEDLIP   52 (63)
T ss_pred             cCCcCCCCcCCCC----EECCCCCEEeHHHHHHHHHH--------CCCCCC--CcCCCChhhcee
Confidence            5799999999765    24789999999999999974        247999  888886655443

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=97.80  E-value=1.9e-05  Score=65.98  Aligned_cols=52  Identities=27%  Similarity=0.754  Sum_probs=42.9

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      .....|.+|+|...++    +.++|||.||-.|+..|....-        .||.  |...+.+..+
T Consensus       237 ~a~~kC~LCLe~~~~p----SaTpCGHiFCWsCI~~w~~ek~--------eCPl--CR~~~~pskv  288 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNP----SATPCGHIFCWSCILEWCSEKA--------ECPL--CREKFQPSKV  288 (293)
T ss_pred             CCCCceEEEecCCCCC----CcCcCcchHHHHHHHHHHcccc--------CCCc--ccccCCCcce
Confidence            3458999999998666    3699999999999999997443        3999  9999888665

>smart00184 RING Ring finger

Probab=97.79  E-value=2.4e-05  Score=45.41  Aligned_cols=38  Identities=32%  Similarity=0.903  Sum_probs=28.5

Q ss_pred             cccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCC
Q 024715           24 CEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (263)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (263)
                      |+||++.....    ..++|+|.||.+|+..|+.       .....||.
T Consensus         1 C~iC~~~~~~~----~~~~C~H~~c~~C~~~~~~-------~~~~~CP~   38 (39)
T smart00184        1 CPICLEELKDP----VVLPCGHTFCRSCIRKWLK-------SGNNTCPI   38 (39)
T ss_pred             CCcCccCCCCc----EEecCCChHHHHHHHHHHH-------hCcCCCCC
Confidence            78999884322    3588999999999999987       12356876

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)

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

Probab=97.64  E-value=3.6e-05  Score=64.70  Aligned_cols=54  Identities=20%  Similarity=0.656  Sum_probs=45.8

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      .....+|.||++.|...+.+ ..++|.|.|...|+.+|+.       .+..+||.  |+.++++
T Consensus       320 a~~GveCaICms~fiK~d~~-~vlPC~H~FH~~Cv~kW~~-------~y~~~CPv--Crt~iPP  373 (374)
T COG5540         320 ADKGVECAICMSNFIKNDRL-RVLPCDHRFHVGCVDKWLL-------GYSNKCPV--CRTAIPP  373 (374)
T ss_pred             cCCCceEEEEhhhhcccceE-EEeccCceechhHHHHHHh-------hhcccCCc--cCCCCCC
Confidence            45568999999999777665 4799999999999999997       56788999  9988765

>TIGR00599 rad18 DNA repair protein rad18

Probab=97.58  E-value=0.0001  Score=65.61  Aligned_cols=67  Identities=21%  Similarity=0.533  Sum_probs=48.8

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccc-cCCChhhHHHHH
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE-PVIPASLFSKWC   97 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~-~~l~~~~~~~~~   97 (263)
                      ...+.|+||.+.+..+.    .++|+|.||..|+..|+..        ...||.  |+..+....++ ..+-.++++.|.
T Consensus        24 e~~l~C~IC~d~~~~Pv----itpCgH~FCs~CI~~~l~~--------~~~CP~--Cr~~~~~~~Lr~N~~L~~iVe~~~   89 (397)
T TIGR00599        24 DTSLRCHICKDFFDVPV----LTSCSHTFCSLCIRRCLSN--------QPKCPL--CRAEDQESKLRSNWLVSEIVESFK   89 (397)
T ss_pred             ccccCCCcCchhhhCcc----CCCCCCchhHHHHHHHHhC--------CCCCCC--CCCccccccCccchHHHHHHHHHH
Confidence            45689999999996552    4899999999999999862        137999  99987765443 233345666666


Q ss_pred             HH
Q 024715           98 DV   99 (263)
Q Consensus        98 ~~   99 (263)
                      .+
T Consensus        90 ~~   91 (397)
T TIGR00599        90 NL   91 (397)
T ss_pred             Hh
Confidence            43

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

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.52  E-value=0.00023  Score=60.96  Aligned_cols=53  Identities=23%  Similarity=0.541  Sum_probs=37.5

Q ss_pred             cccccccccccc-cc-cccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           22 FTCEICIEPMAA-SK-KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        22 ~~C~IC~~~~~~-~~-~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      ..|++|..+.-. +. .+.+ .+|||.||..|+...+.       ..+..||.  |+..+....+
T Consensus         4 ~~CP~Ck~~~y~np~~kl~i-~~CGH~~C~sCv~~l~~-------~~~~~CP~--C~~~lrk~~f   58 (309)
T TIGR00570         4 QGCPRCKTTKYRNPSLKLMV-NVCGHTLCESCVDLLFV-------RGSGSCPE--CDTPLRKNNF   58 (309)
T ss_pred             CCCCcCCCCCccCccccccc-CCCCCcccHHHHHHHhc-------CCCCCCCC--CCCccchhhc
Confidence            579999985322 22 2222 37999999999999984       23458998  9987766543

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=97.46  E-value=4.8e-05  Score=64.85  Aligned_cols=66  Identities=23%  Similarity=0.498  Sum_probs=50.2

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccccc-CCChhhHHHHH
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP-VIPASLFSKWC   97 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~-~l~~~~~~~~~   97 (263)
                      +....|.||++.|..+    .+.+|+|.||.-|++.|+.        +...||.  |..++...+++. .+-+++++.|.
T Consensus        21 D~lLRC~IC~eyf~ip----~itpCsHtfCSlCIR~~L~--------~~p~CP~--C~~~~~Es~Lr~n~il~Eiv~S~~   86 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNIP----MITPCSHTFCSLCIRKFLS--------YKPQCPT--CCVTVTESDLRNNRILDEIVKSLN   86 (442)
T ss_pred             HHHHHHhHHHHHhcCc----eeccccchHHHHHHHHHhc--------cCCCCCc--eecccchhhhhhhhHHHHHHHHHH
Confidence            5678999999999644    3588999999999999996        5567999  999888877664 22335555554


Q ss_pred             H
Q 024715           98 D   98 (263)
Q Consensus        98 ~   98 (263)
                      -
T Consensus        87 ~   87 (442)
T KOG0287|consen   87 F   87 (442)
T ss_pred             H
Confidence            3

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

Probab=97.44  E-value=9.4e-05  Score=64.32  Aligned_cols=50  Identities=30%  Similarity=0.747  Sum_probs=41.5

Q ss_pred             CccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCcc
Q 024715           20 SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (263)
                      +..+|.||+|++...+.++ .++|.|.|...|+..|+...       .-.||.  |+..+
T Consensus       228 ~~~~CaIClEdY~~GdklR-iLPC~H~FH~~CIDpWL~~~-------r~~CPv--CK~di  277 (348)
T KOG4628|consen  228 ATDTCAICLEDYEKGDKLR-ILPCSHKFHVNCIDPWLTQT-------RTFCPV--CKRDI  277 (348)
T ss_pred             CCceEEEeecccccCCeee-EecCCCchhhccchhhHhhc-------CccCCC--CCCcC
Confidence            3479999999998888775 59999999999999999844       235999  88743

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

Probab=97.35  E-value=0.00017  Score=46.17  Aligned_cols=50  Identities=32%  Similarity=0.709  Sum_probs=33.9

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCC
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCK   76 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   76 (263)
                      ..-.+.|+|-...+.++..   ...|+|.|-++-+..|+.      ....+.||..||+
T Consensus         8 ~~~~~~CPiT~~~~~~PV~---s~~C~H~fek~aI~~~i~------~~~~~~CPv~GC~   57 (57)
T PF11789_consen    8 GTISLKCPITLQPFEDPVK---SKKCGHTFEKEAILQYIQ------RNGSKRCPVAGCN   57 (57)
T ss_dssp             SB--SB-TTTSSB-SSEEE---ESSS--EEEHHHHHHHCT------TTS-EE-SCCC-S
T ss_pred             cEeccCCCCcCChhhCCcC---cCCCCCeecHHHHHHHHH------hcCCCCCCCCCCC
Confidence            5567899999999977643   578999999999999992      4678999999985

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

Probab=97.17  E-value=0.0004  Score=62.67  Aligned_cols=66  Identities=24%  Similarity=0.640  Sum_probs=50.9

Q ss_pred             cCCCCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCCC
Q 024715           15 KGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIP   89 (263)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~   89 (263)
                      ..++.+...|.+|-++-.+.    ....|.|.||+-|++.|+.....+   ..++||.  |...++.+.-+..+.
T Consensus       530 ~~enk~~~~C~lc~d~aed~----i~s~ChH~FCrlCi~eyv~~f~~~---~nvtCP~--C~i~LsiDlse~ale  595 (791)
T KOG1002|consen  530 PDENKGEVECGLCHDPAEDY----IESSCHHKFCRLCIKEYVESFMEN---NNVTCPV--CHIGLSIDLSEPALE  595 (791)
T ss_pred             CccccCceeecccCChhhhh----HhhhhhHHHHHHHHHHHHHhhhcc---cCCCCcc--ccccccccccchhhh
Confidence            34456789999999887543    248899999999999999988865   3399999  998877665444444

>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=96.95  E-value=0.00057  Score=46.22  Aligned_cols=45  Identities=29%  Similarity=0.643  Sum_probs=31.1

Q ss_pred             cccccccccccccc---------cccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCC
Q 024715           22 FTCEICIEPMAASK---------KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCK   76 (263)
Q Consensus        22 ~~C~IC~~~~~~~~---------~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   76 (263)
                      -.|.||++++.+..         ..+....|+|.|...||.+|++.+        -.||.  |+
T Consensus        20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~--------~~CP~--CR   73 (73)
T PF12678_consen   20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQN--------NTCPL--CR   73 (73)
T ss_dssp             SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTS--------SB-TT--SS
T ss_pred             CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcC--------CcCCC--CC
Confidence            34999999994331         122346799999999999999521        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 ....

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

Probab=96.94  E-value=0.00045  Score=65.15  Aligned_cols=56  Identities=18%  Similarity=0.585  Sum_probs=45.0

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccC
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPV   87 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~   87 (263)
                      .+...|++|.+-..+  .  .+..|+|.||.+|++..+.+.-+       +||.  |+..|...++..+
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            456899999965533  2  25889999999999999986553       6999  9999999888764

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

Probab=96.94  E-value=0.00085  Score=55.64  Aligned_cols=52  Identities=23%  Similarity=0.561  Sum_probs=39.7

Q ss_pred             ccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           21 SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      .+.|.||++....+    ...+|||.||..|+...++.      ...-.||.  |.+...+..+
T Consensus       215 d~kC~lC~e~~~~p----s~t~CgHlFC~~Cl~~~~t~------~k~~~Cpl--CRak~~pk~v  266 (271)
T COG5574         215 DYKCFLCLEEPEVP----SCTPCGHLFCLSCLLISWTK------KKYEFCPL--CRAKVYPKKV  266 (271)
T ss_pred             ccceeeeecccCCc----ccccccchhhHHHHHHHHHh------hccccCch--hhhhccchhh
Confidence            56699999988554    35899999999999996542      22345999  9988777655

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

Probab=96.92  E-value=0.00045  Score=46.32  Aligned_cols=59  Identities=15%  Similarity=0.351  Sum_probs=28.7

Q ss_pred             ccccccccccccccccc--ccc--CCCCCccHHHHHHHHHHHHhhCCCCc-c--cccCCCCCCCccCc
Q 024715           21 SFTCEICIEPMAASKKF--KNR--NLCTHPFCQDCIARYIQVKVQDDNTA-K--IDCPGLDCKHNLDP   81 (263)
Q Consensus        21 ~~~C~IC~~~~~~~~~~--~~~--~~C~H~fC~~Cl~~~~~~~i~~~~~~-~--i~CP~~~C~~~l~~   81 (263)
                      ..+|.||++...+....  ...  ..|+..|...||.+|+...-+.+... +  -+||.  |+.+|..
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            46899999987522221  112  36889999999999998877653322 2  37999  9988754

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

Probab=96.65  E-value=0.0012  Score=58.45  Aligned_cols=81  Identities=17%  Similarity=0.430  Sum_probs=46.9

Q ss_pred             CCceeCCccccccccccccCCCCCCCchhHHhccccchHHHHHHHhcCCcccCCCCCceeecCCCCce-eEe-ecCCcee
Q 024715          132 VKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGHCVERKDGCSV-VMC-RCNTRFC  209 (263)
Q Consensus       132 ~~~~~C~~C~~~~C~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~~~~~~k~CP~C~~~i~k~~GCnh-m~C-~C~~~FC  209 (263)
                      ...+.|..|...+|.-|+..-|++..=-.-.++...++-.+.....-...-+|-       -.+|=|| |+| .|+.-.|
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            467999999999999999999986432111111111111110000001112222       1234455 999 7999999


Q ss_pred             cccCcccCCC
Q 024715          210 YECGRKISSG  219 (263)
Q Consensus       210 ~~C~~~~~~~  219 (263)
                      |.|++...+.
T Consensus       247 ~~clee~khs  256 (699)
T KOG4367|consen  247 YQCLEEGKHS  256 (699)
T ss_pred             HHHHHhhccc
Confidence            9999986544

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

Probab=96.26  E-value=0.0039  Score=42.15  Aligned_cols=52  Identities=19%  Similarity=0.212  Sum_probs=38.1

Q ss_pred             CccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           20 SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      +.+.|+|+.+-+.++.    .+++||+|.+.++..|+..       ....||.  ++..++..++
T Consensus         3 ~~f~CpIt~~lM~dPV----i~~~G~tyer~~I~~~l~~-------~~~~~P~--t~~~l~~~~l   54 (73)
T PF04564_consen    3 DEFLCPITGELMRDPV----ILPSGHTYERSAIERWLEQ-------NGGTDPF--TRQPLSESDL   54 (73)
T ss_dssp             GGGB-TTTSSB-SSEE----EETTSEEEEHHHHHHHHCT-------TSSB-TT--T-SB-SGGGS
T ss_pred             cccCCcCcCcHhhCce----eCCcCCEEcHHHHHHHHHc-------CCCCCCC--CCCcCCcccc
Confidence            4689999999998774    3788999999999999973       4567998  7888877544

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 ....

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

Probab=96.11  E-value=0.00079  Score=43.59  Aligned_cols=50  Identities=26%  Similarity=0.574  Sum_probs=23.8

Q ss_pred             CccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           20 SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      +...|++|.+.+..+..   +..|.|.||..|+...+.          -.||.  |..+--..++
T Consensus         6 ~lLrCs~C~~~l~~pv~---l~~CeH~fCs~Ci~~~~~----------~~CPv--C~~Paw~qD~   55 (65)
T PF14835_consen    6 ELLRCSICFDILKEPVC---LGGCEHIFCSSCIRDCIG----------SECPV--CHTPAWIQDI   55 (65)
T ss_dssp             HTTS-SSS-S--SS-B------SSS--B-TTTGGGGTT----------TB-SS--S--B-S-SS-
T ss_pred             HhcCCcHHHHHhcCCce---eccCccHHHHHHhHHhcC----------CCCCC--cCChHHHHHH
Confidence            45789999999865533   578999999999976332          24999  9876544443

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

Probab=96.09  E-value=0.004  Score=52.34  Aligned_cols=66  Identities=21%  Similarity=0.421  Sum_probs=46.8

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccccc-CCChhhHHHHH
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP-VIPASLFSKWC   97 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~-~l~~~~~~~~~   97 (263)
                      +....|.||-+.+..+    ...+|||.||.-|++.|+.        ....||.  |....-...++. .+..++.+.|.
T Consensus        23 Ds~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~--------~qp~CP~--Cr~~~~esrlr~~s~~~ei~es~~   88 (391)
T COG5432          23 DSMLRCRICDCRISIP----CETTCGHTFCSLCIRRHLG--------TQPFCPV--CREDPCESRLRGSSGSREINESHA   88 (391)
T ss_pred             hhHHHhhhhhheeecc----eecccccchhHHHHHHHhc--------CCCCCcc--ccccHHhhhcccchhHHHHHHhhh
Confidence            5567899999998544    3589999999999999985        4456999  987655544332 33445555554


Q ss_pred             H
Q 024715           98 D   98 (263)
Q Consensus        98 ~   98 (263)
                      .
T Consensus        89 ~   89 (391)
T COG5432          89 R   89 (391)
T ss_pred             h
Confidence            4

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

Probab=96.09  E-value=0.0058  Score=37.38  Aligned_cols=47  Identities=23%  Similarity=0.601  Sum_probs=22.8

Q ss_pred             cccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCcc
Q 024715           24 CEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (263)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (263)
                      |++|.++++..+.-+..-+|+..+|+.|+.+..+       ...=+||.  |+.+.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~-------~~~g~CPg--Cr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILE-------NEGGRCPG--CREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTT-------SS-SB-TT--T--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHh-------ccCCCCCC--CCCCC
Confidence            7899999855443223467899999999988775       12346998  88754

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

Probab=95.97  E-value=0.0063  Score=51.80  Aligned_cols=93  Identities=19%  Similarity=0.520  Sum_probs=59.2

Q ss_pred             CCCCccHHHHHHHHHHHHhhCC--CCcccccCCCCCCCccCccccccCCChhhHHHHHHHHHHHhhcCCCcccCCccccc
Q 024715           42 LCTHPFCQDCIARYIQVKVQDD--NTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCM  119 (263)
Q Consensus        42 ~C~H~fC~~Cl~~~~~~~i~~~--~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~Cp~~~C~  119 (263)
                      .|+-.||++|+..|-.-.-...  ....     ..|...++.+.       ....+|+.+..+- + ....+.||  +|.
T Consensus       341 gCgf~FCR~C~e~yh~geC~~~~~as~t-----~tc~y~vde~~-------a~~arwd~as~~T-I-k~tTkpCP--kCh  404 (446)
T KOG0006|consen  341 GCGFAFCRECKEAYHEGECSAVFEASGT-----TTCAYRVDERA-------AEQARWDAASKET-I-KKTTKPCP--KCH  404 (446)
T ss_pred             CchhHhHHHHHhhhccccceeeeccccc-----cceeeecChhh-------hhhhhhhhhhhhh-h-hhccCCCC--Ccc
Confidence            4899999999998865222110  0001     11333333321       3446777664332 2 24557788  898


Q ss_pred             cceeccccccCCCCceeCCc--cccccccccccCCCC
Q 024715          120 ALVVNECERSGKVKKTQCPN--CKQWFCFQCKLKWHA  154 (263)
Q Consensus       120 ~~~~~~~~~~~~~~~~~C~~--C~~~~C~~C~~~~H~  154 (263)
                      ........    ...+.|+.  |+..||+.|+.+|..
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            87766655    78899976  999999999999954

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

Probab=95.81  E-value=0.0056  Score=52.48  Aligned_cols=53  Identities=25%  Similarity=0.640  Sum_probs=42.8

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (263)
                      -...++|.+|--.+.+...   +..|-|+||+.||.+|++.        ...||.  |+..+....
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            3567899999999977754   4789999999999999995        347999  987665543

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

Probab=95.44  E-value=0.014  Score=50.81  Aligned_cols=54  Identities=24%  Similarity=0.540  Sum_probs=40.0

Q ss_pred             CCCccccccccccccccc---------cccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           18 GGSSFTCEICIEPMAASK---------KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~---------~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      ......|.||+|+.-.++         .-+.-++|||.+...|++.|++.+        -+||.  |+.++-.
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            355679999999943433         112358999999999999999833        37999  9987543

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

Probab=95.33  E-value=0.017  Score=50.98  Aligned_cols=114  Identities=20%  Similarity=0.477  Sum_probs=70.6

Q ss_pred             CCcccccc--ccccc-cc-cccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCC-----C
Q 024715           19 GSSFTCEI--CIEPM-AA-SKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVI-----P   89 (263)
Q Consensus        19 ~~~~~C~I--C~~~~-~~-~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l-----~   89 (263)
                      +....||-  |..+. .+ ...+.....|.-+||..|...|--  +       .+     |+.+... .++-.+     +
T Consensus       271 sdv~yCPr~~Cq~p~~~d~~~~l~~CskCnFaFCtlCk~t~HG--~-------s~-----Ck~~~~~-~~~l~~~~~~~d  335 (445)
T KOG1814|consen  271 SDVVYCPRACCQLPVKQDPGRALAICSKCNFAFCTLCKLTWHG--V-------SP-----CKVKAEK-LIELYLEYLEAD  335 (445)
T ss_pred             cccccCChhhccCccccCchhhhhhhccCccHHHHHHHHhhcC--C-------Cc-----ccCchHH-HHHHHHHHhhcC
Confidence            34567776  55442 11 223334566889999999998864  1       12     5544321 111111     1


Q ss_pred             ----hhhHHHHHHHHHHHhhc--------CCCcccCCccccccceeccccccCCCCceeCCccccccccccccCCC
Q 024715           90 ----ASLFSKWCDVLCEDYVL--------GFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWH  153 (263)
Q Consensus        90 ----~~~~~~~~~~~~~~~~~--------~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H  153 (263)
                          .++..+|-+.+.+..+.        ..+...||  .|...+...++    .+++.|..|++.||+.|....-
T Consensus       336 ~a~k~ele~Ryg~rvve~~vn~~lsekwl~~N~krCP--~C~v~IEr~eG----CnKM~C~~c~~~fc~~c~~~l~  405 (445)
T KOG1814|consen  336 EARKRELEKRYGKRVVEELVNDFLSEKWLESNSKRCP--KCKVVIERSEG----CNKMHCTKCGTYFCWICAELLY  405 (445)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcCCCCC--cccceeecCCC----ccceeeccccccceeehhhhcC
Confidence                12344555333332221        35678999  89999988776    7999999999999999998654

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

Probab=95.06  E-value=0.019  Score=50.32  Aligned_cols=95  Identities=20%  Similarity=0.412  Sum_probs=58.5

Q ss_pred             CCCccccccccccccccc----cccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc---cc---cccC
Q 024715           18 GGSSFTCEICIEPMAASK----KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP---FA---CEPV   87 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~----~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~---~~---i~~~   87 (263)
                      ..+...|.||++......    .|-++.+|.|.||..|++.|-...-. +....-.||.  |......   ..   ...-
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            466889999999986543    13344679999999999999754433 2455678999  8754322   11   1111


Q ss_pred             CChhhHHHHHHHHHHHhh--cCCCcccCCc
Q 024715           88 IPASLFSKWCDVLCEDYV--LGFERSYCPN  115 (263)
Q Consensus        88 l~~~~~~~~~~~~~~~~~--~~~~~~~Cp~  115 (263)
                      -...+.+.|.+.+.....  -....-.||.
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            223456677766544322  2245567886

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

Probab=94.23  E-value=0.037  Score=46.96  Aligned_cols=52  Identities=25%  Similarity=0.520  Sum_probs=40.7

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (263)
                      ...-+|.||+.+-..+    +.+.|+|.||.-|++.-+.       .....|+.  |..+|+...
T Consensus         5 ~~~~eC~IC~nt~n~P----v~l~C~HkFCyiCiKGsy~-------ndk~~Cav--CR~pids~i   56 (324)
T KOG0824|consen    5 TKKKECLICYNTGNCP----VNLYCFHKFCYICIKGSYK-------NDKKTCAV--CRFPIDSTI   56 (324)
T ss_pred             ccCCcceeeeccCCcC----ccccccchhhhhhhcchhh-------cCCCCCce--ecCCCCcch
Confidence            4567899999988555    3599999999999998776       33455999  998877653

>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=94.22  E-value=0.02  Score=30.29  Aligned_cols=23  Identities=35%  Similarity=0.941  Sum_probs=14.9

Q ss_pred             ccCCCCCceeecCCCCceeEe-ecCCce
Q 024715          182 ARCPACGHCVERKDGCSVVMC-RCNTRF  208 (263)
Q Consensus       182 k~CP~C~~~i~k~~GCnhm~C-~C~~~F  208 (263)
                      |.||.|+..|...    -..| .||+.|
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            5788888887532    2456 377665

Several members are annotated as putative helicases.

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

Probab=93.99  E-value=0.077  Score=32.76  Aligned_cols=42  Identities=21%  Similarity=0.499  Sum_probs=29.5

Q ss_pred             ccccccccccccccccccCCCC-----CccHHHHHHHHHHHHhhCCCCcccccCC
Q 024715           23 TCEICIEPMAASKKFKNRNLCT-----HPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (263)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~-----H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (263)
                      .|-||++...+.+.+  ..+|.     |.+..+||.+|+...-      ...||.
T Consensus         1 ~CrIC~~~~~~~~~l--~~PC~C~G~~~~vH~~Cl~~W~~~~~------~~~C~i   47 (49)
T smart00744        1 ICRICHDEGDEGDPL--VSPCRCKGSLKYVHQECLERWINESG------NKTCEI   47 (49)
T ss_pred             CccCCCCCCCCCCee--EeccccCCchhHHHHHHHHHHHHHcC------CCcCCC
Confidence            488999844334444  36774     7899999999998554      247887

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

>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=93.71  E-value=0.021  Score=46.82  Aligned_cols=53  Identities=23%  Similarity=0.505  Sum_probs=38.0

Q ss_pred             Ccccccccccccc-ccccccccCC-CCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCcc
Q 024715           20 SSFTCEICIEPMA-ASKKFKNRNL-CTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (263)
Q Consensus        20 ~~~~C~IC~~~~~-~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (263)
                      ..--|+||..+.- .++..+-+.+ |-|.+|.+|+.+.++       ..|-.||.++|+..|
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs-------~GpAqCP~~gC~kIL   63 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFS-------RGPAQCPYKGCGKIL   63 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhc-------CCCCCCCCccHHHHH
Confidence            3457999975543 3333222234 999999999999986       667889999998643

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

Probab=93.66  E-value=0.12  Score=44.75  Aligned_cols=51  Identities=29%  Similarity=0.688  Sum_probs=40.5

Q ss_pred             Ccccccccccccccc--ccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCcc
Q 024715           20 SSFTCEICIEPMAAS--KKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~--~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (263)
                      ....|.||-++++..  +..+..+.|||.+|..|+...+.       ...+.||.  |..+.
T Consensus         2 ~~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~-------~~~i~cpf--cR~~~   54 (296)
T KOG4185|consen    2 SFPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLG-------NSRILCPF--CRETT   54 (296)
T ss_pred             CCCceeecCccccccCcccCCcccccCceehHhHHHHHhc-------CceeeccC--CCCcc
Confidence            357899999999765  33445688999999999999886       56677888  98874

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

Probab=93.64  E-value=0.051  Score=49.11  Aligned_cols=54  Identities=28%  Similarity=0.695  Sum_probs=40.8

Q ss_pred             CCcccccccccccccccc----c---------cccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           19 GSSFTCEICIEPMAASKK----F---------KNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~----~---------~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      .....|.||+.+++.-..    .         ....+|.|.|...||.+|+.       ...+.||.  |..++++
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd-------~ykl~CPv--CR~pLPp  635 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMD-------TYKLICPV--CRCPLPP  635 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHh-------hhcccCCc--cCCCCCC
Confidence            456799999988853211    0         13469999999999999997       56688999  9887754

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

Probab=93.58  E-value=0.036  Score=53.19  Aligned_cols=56  Identities=21%  Similarity=0.594  Sum_probs=46.4

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCC
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCK   76 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   76 (263)
                      ....++|.||++.+.....+++..+|-|.|...|+++|..+.-++ ....-+||.  |.
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~-~~~~WrCP~--Cq  243 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKT-GQDGWRCPA--CQ  243 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhc-cCccccCCc--cc
Confidence            467899999999998888888788899999999999999983333 456678987  66

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

Probab=93.56  E-value=0.076  Score=36.66  Aligned_cols=54  Identities=26%  Similarity=0.606  Sum_probs=37.1

Q ss_pred             cccccccccccccc--cc-c------cccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           21 SFTCEICIEPMAAS--KK-F------KNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        21 ~~~C~IC~~~~~~~--~~-~------~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      .-.|.||...|+..  +- +      .....|+|.|...|+.+|++++-.     .-.||.  |.+++..
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            45688887777521  00 1      023579999999999999997522     237999  9987654

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

Probab=93.50  E-value=0.046  Score=51.49  Aligned_cols=51  Identities=25%  Similarity=0.619  Sum_probs=38.7

Q ss_pred             CCCcccccccccccccccc-ccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCc
Q 024715           18 GGSSFTCEICIEPMAASKK-FKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHN   78 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~-~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~   78 (263)
                      ......|.||.|+...... -...++|+|.|+..|++.|++.        .-.||.  |...
T Consensus       288 ~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er--------~qtCP~--CR~~  339 (543)
T KOG0802|consen  288 ALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER--------QQTCPT--CRTV  339 (543)
T ss_pred             hhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH--------hCcCCc--chhh
Confidence            3457899999999966321 0135899999999999999996        236998  7763

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.13  E-value=0.2  Score=42.55  Aligned_cols=72  Identities=17%  Similarity=0.357  Sum_probs=54.6

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCCCh-hhHHHH
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPA-SLFSKW   96 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~-~~~~~~   96 (263)
                      ....+.|||-..++.....|..+.+|||+|....++..-    .+     -.||.  |+.++...+|-.+-+. +.++..
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            467899999999997666777788999999999999882    11     24999  9999998887776654 344444


Q ss_pred             HHHH
Q 024715           97 CDVL  100 (263)
Q Consensus        97 ~~~~  100 (263)
                      .+.+
T Consensus       179 ~~~~  182 (260)
T PF04641_consen  179 RERM  182 (260)
T ss_pred             HHHH
Confidence            4443

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

Probab=93.11  E-value=0.17  Score=43.05  Aligned_cols=49  Identities=29%  Similarity=0.526  Sum_probs=39.8

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCC
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKH   77 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~   77 (263)
                      .....|+||.+.+.........++|+|..-..|++.+..       .. .+||.  |..
T Consensus       156 ~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~-------~~-y~CP~--C~~  204 (276)
T KOG1940|consen  156 SSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMIC-------EG-YTCPI--CSK  204 (276)
T ss_pred             cccCCCchhHHHhccccccCCccCcccchHHHHHHHHhc-------cC-CCCCc--ccc
Confidence            344559999999877766666799999999999999986       23 88999  988

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.97  E-value=0.07  Score=44.01  Aligned_cols=59  Identities=10%  Similarity=0.241  Sum_probs=47.7

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccC
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPV   87 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~   87 (263)
                      +..+.|+||-+.+.+......+.+|||.+|.+|..+++.        ..+.||.  |+.++.+++|-.+
T Consensus       219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir--------~D~v~pv--~d~plkdrdiI~L  277 (303)
T KOG3039|consen  219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIR--------KDMVDPV--TDKPLKDRDIIGL  277 (303)
T ss_pred             ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhcc--------ccccccC--CCCcCcccceEee
Confidence            478999999999977665556788999999999999986        3456788  8898888776543

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

Probab=92.57  E-value=0.03  Score=46.74  Aligned_cols=57  Identities=26%  Similarity=0.459  Sum_probs=43.9

Q ss_pred             CCccccccccccccccc-------cccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           19 GSSFTCEICIEPMAASK-------KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~-------~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      .+...|.||-..+....       +. ..++|+|.|...|++.|..      -...-+||-  |++.++...+
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvient-y~LsCnHvFHEfCIrGWci------vGKkqtCPY--CKekVdl~rm  285 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENT-YKLSCNHVFHEFCIRGWCI------VGKKQTCPY--CKEKVDLKRM  285 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhh-eeeecccchHHHhhhhhee------ecCCCCCch--HHHHhhHhhh
Confidence            45678999988876543       22 3589999999999999987      345568999  9998876543

>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=92.48  E-value=0.24  Score=41.92  Aligned_cols=51  Identities=24%  Similarity=0.518  Sum_probs=36.3

Q ss_pred             cccccccc-ccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcc
Q 024715           23 TCEICIEP-MAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (263)
Q Consensus        23 ~C~IC~~~-~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (263)
                      .|++|-.+ +..++.+..+.+|+|..|.+|+...+.       ..+-.||.  |..++-..
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~-------~g~~~Cpe--C~~iLRk~   53 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFS-------LGPAQCPE--CMVILRKN   53 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHh-------cCCCCCCc--ccchhhhc
Confidence            48888543 334444444568999999999999886       55667996  99876443

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

Probab=92.44  E-value=0.079  Score=42.24  Aligned_cols=46  Identities=28%  Similarity=0.608  Sum_probs=34.0

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHN   78 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~   78 (263)
                      .-.+.|.||-+++..+.    ...|||.||..|...-+.        ....|-.  |+..
T Consensus       194 ~IPF~C~iCKkdy~spv----vt~CGH~FC~~Cai~~y~--------kg~~C~~--Cgk~  239 (259)
T COG5152         194 KIPFLCGICKKDYESPV----VTECGHSFCSLCAIRKYQ--------KGDECGV--CGKA  239 (259)
T ss_pred             CCceeehhchhhccchh----hhhcchhHHHHHHHHHhc--------cCCccee--cchh
Confidence            44689999999996652    489999999999876554        2345665  6654

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

Probab=92.35  E-value=0.13  Score=43.12  Aligned_cols=52  Identities=33%  Similarity=0.654  Sum_probs=39.0

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccC
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (263)
                      .....+|++|-+.=..+  + ....|+|.||--|+..-...      ...++||.  |+....
T Consensus       236 ~t~~~~C~~Cg~~PtiP--~-~~~~C~HiyCY~Ci~ts~~~------~asf~Cp~--Cg~~~~  287 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPTIP--H-VIGKCGHIYCYYCIATSRLW------DASFTCPL--CGENVE  287 (298)
T ss_pred             ccCCceeeccCCCCCCC--e-eeccccceeehhhhhhhhcc------hhhcccCc--cCCCCc
Confidence            35568999999875333  2 25779999999999987762      34579999  997655

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

Probab=92.07  E-value=0.062  Score=48.07  Aligned_cols=52  Identities=29%  Similarity=0.600  Sum_probs=40.3

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      -.+.-+|+||+|-.++....+....|.|+|--.|+..|+.          ..||.  |.....+
T Consensus       172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~----------~scpv--cR~~q~p  223 (493)
T KOG0804|consen  172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD----------SSCPV--CRYCQSP  223 (493)
T ss_pred             cccCCCcchhHhhcCccccceeeeecccccchHHHhhccc----------CcChh--hhhhcCc
Confidence            3577899999999976655544577999999999998875          56888  7765443

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=92.07  E-value=0.19  Score=43.46  Aligned_cols=58  Identities=28%  Similarity=0.508  Sum_probs=41.6

Q ss_pred             CccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccccc
Q 024715           20 SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (263)
                      +.-.|++|+|+++-.+.-+...+||-.+|+-||...-+ .++      =+||.  |....+++-++-
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq-~ln------grcpa--crr~y~denv~~   70 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQ-NLN------GRCPA--CRRKYDDENVRY   70 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHh-hcc------CCChH--hhhhccccceeE
Confidence            34449999999965544333578999999999975433 343      37999  999888776653

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

Probab=91.92  E-value=0.16  Score=45.66  Aligned_cols=50  Identities=28%  Similarity=0.756  Sum_probs=38.1

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      ....+.|.||+..+.++.    .++|||.||..|+.+    .+.    ....||.  |...+..
T Consensus        81 ~~sef~c~vc~~~l~~pv----~tpcghs~c~~Cl~r----~ld----~~~~cp~--Cr~~l~e  130 (398)
T KOG4159|consen   81 IRSEFECCVCSRALYPPV----VTPCGHSFCLECLDR----SLD----QETECPL--CRDELVE  130 (398)
T ss_pred             ccchhhhhhhHhhcCCCc----cccccccccHHHHHH----Hhc----cCCCCcc--ccccccc
Confidence            367899999999986653    479999999999777    222    3456888  8877653

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.84  E-value=0.38  Score=40.05  Aligned_cols=63  Identities=19%  Similarity=0.406  Sum_probs=45.9

Q ss_pred             CCCCCccccccccccccccccccccCCCC-----CccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccC
Q 024715           16 GGGGSSFTCEICIEPMAASKKFKNRNLCT-----HPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (263)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~-----H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (263)
                      .++...-.|-||+..-.+...--=.-+|.     |.....||..|+..+-..+...++.||.  |..+..
T Consensus        15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~Q--CqTEYi   82 (293)
T KOG3053|consen   15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQ--CQTEYI   82 (293)
T ss_pred             CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechh--hcchhe
Confidence            34456679999998775543210124553     6799999999999888766678999999  986543

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

Probab=91.79  E-value=0.13  Score=45.25  Aligned_cols=53  Identities=23%  Similarity=0.600  Sum_probs=38.0

Q ss_pred             ccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccC
Q 024715           21 SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (263)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (263)
                      ...|.||-+-++....+-.+..|||.|...|+..|++..-..     -.||.  |.-.+.
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~-----R~cpi--c~ik~~   56 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSN-----RGCPI--CQIKLQ   56 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCcc-----CCCCc--eeeccc
Confidence            468999966665555555556699999999999999844432     36888  774333

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

Probab=91.74  E-value=0.098  Score=46.29  Aligned_cols=56  Identities=23%  Similarity=0.573  Sum_probs=42.4

Q ss_pred             cccccccccccccc-ccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           21 SFTCEICIEPMAAS-KKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        21 ~~~C~IC~~~~~~~-~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      ..+|+||++.+.-+ +....++.|+|.|=.+|+++|+-      ......||.  |+.+-..+++
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~------k~~~~~cp~--c~~katkr~i   60 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG------KKTKMQCPL--CSGKATKRQI   60 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHh------hhhhhhCcc--cCChhHHHHH
Confidence            57899999988644 33335688999999999999993      246688999  9876544443

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

Probab=91.40  E-value=0.16  Score=45.70  Aligned_cols=42  Identities=21%  Similarity=0.641  Sum_probs=35.0

Q ss_pred             CCcccCCccccccceeccccccCCCCceeCCccccccccccccCCCCCC
Q 024715          108 FERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGY  156 (263)
Q Consensus       108 ~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~~  156 (263)
                      ...+.||  .|...+....+    .+.++|. |+..||+.|...|..+.
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            5568899  89998866655    7899998 99999999999986543

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

Probab=91.06  E-value=0.078  Score=43.75  Aligned_cols=56  Identities=23%  Similarity=0.556  Sum_probs=38.4

Q ss_pred             ccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCCCh
Q 024715           21 SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPA   90 (263)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~   90 (263)
                      -+.|..|+.--+ ...|+ ++.|.|.||..|.+.-.          +-.||.  |+..+....+..-|+.
T Consensus         3 ~VhCn~C~~~~~-~~~f~-LTaC~HvfC~~C~k~~~----------~~~C~l--Ckk~ir~i~l~~slp~   58 (233)
T KOG4739|consen    3 FVHCNKCFRFPS-QDPFF-LTACRHVFCEPCLKASS----------PDVCPL--CKKSIRIIQLNRSLPT   58 (233)
T ss_pred             eEEeccccccCC-CCcee-eeechhhhhhhhcccCC----------cccccc--ccceeeeeecccccch
Confidence            457888886664 55664 78999999999986432          228999  9987655444444443

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

Probab=90.99  E-value=0.036  Score=48.09  Aligned_cols=49  Identities=29%  Similarity=0.809  Sum_probs=36.0

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCcc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (263)
                      ...+.|+||++-+...  + +...|.|.||.+|+..-+..       ..-.||.  |+..+
T Consensus        41 ~~~v~c~icl~llk~t--m-ttkeClhrfc~~ci~~a~r~-------gn~ecpt--cRk~l   89 (381)
T KOG0311|consen   41 DIQVICPICLSLLKKT--M-TTKECLHRFCFDCIWKALRS-------GNNECPT--CRKKL   89 (381)
T ss_pred             hhhhccHHHHHHHHhh--c-ccHHHHHHHHHHHHHHHHHh-------cCCCCch--HHhhc
Confidence            4568999999988533  2 34679999999999887762       2335888  87543

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

Probab=90.98  E-value=0.12  Score=32.22  Aligned_cols=47  Identities=30%  Similarity=0.540  Sum_probs=35.3

Q ss_pred             ccccccccccccccccccccCCCCCc-cHHHHHHHHHHHHhhCCCCcccccCCCCCCCccC
Q 024715           21 SFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (263)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (263)
                      ..+|.||+|.-.++    .+-.|||. +|-+|-.+.++.       ..-.||.  |.+++.
T Consensus         7 ~dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~-------~~g~CPi--CRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKA-------LHGCCPI--CRAPIK   54 (62)
T ss_pred             ccceeeeccCcchH----HHHHcchHHhHHHHHHHHHHc-------cCCcCcc--hhhHHH
Confidence            37899999876444    24689996 899999888873       3346998  888763

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

Probab=90.97  E-value=0.24  Score=43.27  Aligned_cols=49  Identities=22%  Similarity=0.577  Sum_probs=37.0

Q ss_pred             CCCccccccccccccccccccccCCCCCc-cHHHHHHHHHHHHhhCCCCcccccCCCCCCCccC
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (263)
                      +.+..+|.||+++-.+.    .+++|.|. .|.+|.+..--        ..=.||.  |++.+.
T Consensus       287 ~~~gkeCVIClse~rdt----~vLPCRHLCLCs~Ca~~Lr~--------q~n~CPI--CRqpi~  336 (349)
T KOG4265|consen  287 SESGKECVICLSESRDT----VVLPCRHLCLCSGCAKSLRY--------QTNNCPI--CRQPIE  336 (349)
T ss_pred             ccCCCeeEEEecCCcce----EEecchhhehhHhHHHHHHH--------hhcCCCc--cccchH
Confidence            35678999999987543    35999996 99999887651        1235999  998764

>smart00661 RPOL9 RNA polymerase subunit 9

Probab=90.94  E-value=0.21  Score=31.01  Aligned_cols=27  Identities=30%  Similarity=0.760  Sum_probs=20.1

Q ss_pred             ccCCCCCceeecCCC--CceeEe-ecCCce
Q 024715          182 ARCPACGHCVERKDG--CSVVMC-RCNTRF  208 (263)
Q Consensus       182 k~CP~C~~~i~k~~G--Cnhm~C-~C~~~F  208 (263)
                      +-||.|+.++...++  -++..| .||+++
T Consensus         1 ~FCp~Cg~~l~~~~~~~~~~~vC~~Cg~~~   30 (52)
T smart00661        1 KFCPKCGNMLIPKEGKEKRRFVCRKCGYEE   30 (52)
T ss_pred             CCCCCCCCccccccCCCCCEEECCcCCCeE
Confidence            369999998876643  468889 599764

>PF13719 zinc_ribbon_5: zinc-ribbon domain

Probab=90.88  E-value=0.17  Score=29.20  Aligned_cols=32  Identities=28%  Similarity=0.682  Sum_probs=24.0

Q ss_pred             ccCCccccccceeccccc-cCCCCceeCCcccccc
Q 024715          111 SYCPNTNCMALVVNECER-SGKVKKTQCPNCKQWF  144 (263)
Q Consensus       111 ~~Cp~~~C~~~~~~~~~~-~~~~~~~~C~~C~~~~  144 (263)
                      +.||  .|+..+...+.. ......++|+.|+..|
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            5799  799988877652 1236799999998765

>PF13248 zf-ribbon_3: zinc-ribbon domain

Probab=90.52  E-value=0.15  Score=26.95  Aligned_cols=12  Identities=33%  Similarity=0.946  Sum_probs=8.7

Q ss_pred             ccCCCCCceeec
Q 024715          182 ARCPACGHCVER  193 (263)
Q Consensus       182 k~CP~C~~~i~k  193 (263)
                      +.||+|+..+..
T Consensus         3 ~~Cp~Cg~~~~~   14 (26)
T PF13248_consen    3 MFCPNCGAEIDP   14 (26)
T ss_pred             CCCcccCCcCCc
Confidence            578888886654

>PF13240 zinc_ribbon_2: zinc-ribbon domain

Probab=90.44  E-value=0.15  Score=26.13  Aligned_cols=11  Identities=45%  Similarity=1.141  Sum_probs=8.1

Q ss_pred             cCCCCCceeec
Q 024715          183 RCPACGHCVER  193 (263)
Q Consensus       183 ~CP~C~~~i~k  193 (263)
                      .||+|+..|+.
T Consensus         1 ~Cp~CG~~~~~   11 (23)
T PF13240_consen    1 YCPNCGAEIED   11 (23)
T ss_pred             CCcccCCCCCC
Confidence            47888888864

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

Probab=90.30  E-value=0.49  Score=42.72  Aligned_cols=51  Identities=24%  Similarity=0.702  Sum_probs=39.2

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      -.+...|++|...+.++..   ...|+|.||..|+..+.+.        ...||.  |...+..
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            4677999999999976632   2589999999999999874        456887  6554433

>PHA03096 p28-like protein; Provisional

Probab=90.19  E-value=0.2  Score=43.03  Aligned_cols=54  Identities=20%  Similarity=0.354  Sum_probs=36.8

Q ss_pred             ccccccccccccc---ccccc-cCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCcc
Q 024715           22 FTCEICIEPMAAS---KKFKN-RNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (263)
Q Consensus        22 ~~C~IC~~~~~~~---~~~~~-~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (263)
                      ..|.||++.....   +.++. +..|.|.||..|++.|.......  ...-.||.  |...+
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~--e~~~~c~~--~~~~~  236 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYK--ETEPENRR--LNTVI  236 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhc--ccCccccc--hhhHH
Confidence            7899999887532   33333 45699999999999999987643  33334444  54443

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

Probab=90.14  E-value=0.22  Score=45.72  Aligned_cols=40  Identities=33%  Similarity=0.769  Sum_probs=34.7

Q ss_pred             cccCC--CCCceeec-CCCCceeEeecCCceecccCcccCCCC
Q 024715          181 WARCP--ACGHCVER-KDGCSVVMCRCNTRFCYECGRKISSGC  220 (263)
Q Consensus       181 ~k~CP--~C~~~i~k-~~GCnhm~C~C~~~FC~~C~~~~~~~~  220 (263)
                      .+-||  .|+..+.- .+...-+.|.|++.|||.|+.+||.+.
T Consensus       158 lkwCP~~~C~~av~~~~~~~~~v~C~~g~~FC~~C~~~~H~p~  200 (444)
T KOG1815|consen  158 LKWCPAPGCGLAVKFGSLESVEVDCGCGHEFCFACGEESHSPV  200 (444)
T ss_pred             cccCCCCCCCceeeccCCCccceeCCCCchhHhhccccccCCC
Confidence            46666  69999887 788999999999999999999999875

>PHA00626 hypothetical protein

Probab=90.00  E-value=0.24  Score=31.07  Aligned_cols=27  Identities=22%  Similarity=0.669  Sum_probs=19.9

Q ss_pred             cCCCCCc-eeecCCCCce----eEe-ecCCcee
Q 024715          183 RCPACGH-CVERKDGCSV----VMC-RCNTRFC  209 (263)
Q Consensus       183 ~CP~C~~-~i~k~~GCnh----m~C-~C~~~FC  209 (263)
                      .||+|+. -|.|.+-|+.    ..| .||+.|=
T Consensus         2 ~CP~CGS~~Ivrcg~cr~~snrYkCkdCGY~ft   34 (59)
T PHA00626          2 SCPKCGSGNIAKEKTMRGWSDDYVCCDCGYNDS   34 (59)
T ss_pred             CCCCCCCceeeeeceecccCcceEcCCCCCeec
Confidence            5999999 4878777654    668 4887773

>PF13717 zinc_ribbon_4: zinc-ribbon domain

Probab=89.64  E-value=0.28  Score=28.11  Aligned_cols=32  Identities=34%  Similarity=0.675  Sum_probs=23.6

Q ss_pred             ccCCccccccceeccccc-cCCCCceeCCcccccc
Q 024715          111 SYCPNTNCMALVVNECER-SGKVKKTQCPNCKQWF  144 (263)
Q Consensus       111 ~~Cp~~~C~~~~~~~~~~-~~~~~~~~C~~C~~~~  144 (263)
                      +.||  .|+..+..++.. ......++|+.|+..|
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            5788  799888776652 2336789999998765

>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=88.61  E-value=0.19  Score=37.73  Aligned_cols=38  Identities=21%  Similarity=0.523  Sum_probs=28.3

Q ss_pred             CCccccccccccccccccccccCCCC------CccHHHHHHHHHH
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCT------HPFCQDCIARYIQ   57 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~------H~fC~~Cl~~~~~   57 (263)
                      ....+|.||++.+...+.++ ..+|+      |.||.+|+++|-.
T Consensus        24 ~~~~EC~IC~~~I~~~~GvV-~vt~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   24 RCTVECQICFDRIDNNDGVV-YVTDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             ccCeeehhhhhhhhcCCCEE-EEecCCeehHHHHHHHHHHHHHHh
Confidence            45789999999997723332 35564      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.

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

Probab=88.27  E-value=0.34  Score=41.25  Aligned_cols=65  Identities=23%  Similarity=0.498  Sum_probs=48.4

Q ss_pred             cCCCCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhC---------------CCCcccccCCCCCCCcc
Q 024715           15 KGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQD---------------DNTAKIDCPGLDCKHNL   79 (263)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~---------------~~~~~i~CP~~~C~~~l   79 (263)
                      ..++.+...|.||+--|.+.+.| +...|.|+|...||.+|++..+.+               .....-.||.  |...|
T Consensus       109 T~nn~p~gqCvICLygfa~~~~f-t~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpV--cre~i  185 (368)
T KOG4445|consen  109 TENNHPNGQCVICLYGFASSPAF-TVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPV--CRERI  185 (368)
T ss_pred             ccCCCCCCceEEEEEeecCCCce-eeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhH--hhhhc
Confidence            44567889999999999877766 468999999999999999876531               0122335999  98766


Q ss_pred             Ccc
Q 024715           80 DPF   82 (263)
Q Consensus        80 ~~~   82 (263)
                      .++
T Consensus       186 ~~e  188 (368)
T KOG4445|consen  186 KIE  188 (368)
T ss_pred             ccc
Confidence            543

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

Probab=87.91  E-value=0.26  Score=43.59  Aligned_cols=48  Identities=25%  Similarity=0.610  Sum_probs=35.2

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHN   78 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~   78 (263)
                      +...-|.||-|.-.+.    .+.+|||..|..||..|-.+.      ..-.||.  |..+
T Consensus       367 sTFeLCKICaendKdv----kIEPCGHLlCt~CLa~WQ~sd------~gq~CPF--CRcE  414 (563)
T KOG1785|consen  367 STFELCKICAENDKDV----KIEPCGHLLCTSCLAAWQDSD------EGQTCPF--CRCE  414 (563)
T ss_pred             chHHHHHHhhccCCCc----ccccccchHHHHHHHhhcccC------CCCCCCc--eeeE
Confidence            4556799999876443    358999999999999986422      2347999  7643

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

Probab=87.58  E-value=0.56  Score=28.37  Aligned_cols=29  Identities=31%  Similarity=0.670  Sum_probs=19.1

Q ss_pred             ccCCCCCceeecCCCCceeEe-ecCCceec
Q 024715          182 ARCPACGHCVERKDGCSVVMC-RCNTRFCY  210 (263)
Q Consensus       182 k~CP~C~~~i~k~~GCnhm~C-~C~~~FC~  210 (263)
                      -+||+|+..++.+..=..++| .||..+=+
T Consensus         4 y~C~~CG~~~~~~~~~~~~~Cp~CG~~~~~   33 (46)
T PRK00398          4 YKCARCGREVELDEYGTGVRCPYCGYRILF   33 (46)
T ss_pred             EECCCCCCEEEECCCCCceECCCCCCeEEE
Confidence            368888887766654446777 47776543

>PRK00432 30S ribosomal protein S27ae; Validated

Probab=87.35  E-value=0.44  Score=29.52  Aligned_cols=26  Identities=23%  Similarity=0.535  Sum_probs=19.2

Q ss_pred             cccCCCCCc-eeecCCCCceeEe-ecCCce
Q 024715          181 WARCPACGH-CVERKDGCSVVMC-RCNTRF  208 (263)
Q Consensus       181 ~k~CP~C~~-~i~k~~GCnhm~C-~C~~~F  208 (263)
                      .+.||+|+. ......  +.++| +||+.+
T Consensus        20 ~~fCP~Cg~~~m~~~~--~r~~C~~Cgyt~   47 (50)
T PRK00432         20 NKFCPRCGSGFMAEHL--DRWHCGKCGYTE   47 (50)
T ss_pred             cCcCcCCCcchheccC--CcEECCCcCCEE
Confidence            468999998 444434  68999 699865

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=86.96  E-value=0.35  Score=30.36  Aligned_cols=48  Identities=19%  Similarity=0.369  Sum_probs=33.0

Q ss_pred             CccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccc
Q 024715           20 SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (263)
                      ..+.|..|...-...    ..++|+|.+|..||-..          ..-.||.  |+..++..+
T Consensus         6 ~~~~~~~~~~~~~~~----~~~pCgH~I~~~~f~~~----------rYngCPf--C~~~~~~~~   53 (55)
T PF14447_consen    6 PEQPCVFCGFVGTKG----TVLPCGHLICDNCFPGE----------RYNGCPF--CGTPFEFDD   53 (55)
T ss_pred             cceeEEEcccccccc----ccccccceeeccccChh----------hccCCCC--CCCcccCCC
Confidence            445666666554222    35999999999998632          2235999  999887654

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

Probab=86.78  E-value=0.66  Score=41.13  Aligned_cols=60  Identities=18%  Similarity=0.370  Sum_probs=42.4

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccccc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (263)
                      -+.|.|||=-+.-. .++-+..+.|||.++++=+.+..+     ++...++||.  |...-...+.++
T Consensus       332 HSvF~CPVlKeqts-deNPPm~L~CGHVISkdAlnrLS~-----ng~~sfKCPY--CP~e~~~~~~kq  391 (394)
T KOG2817|consen  332 HSVFICPVLKEQTS-DENPPMMLICGHVISKDALNRLSK-----NGSQSFKCPY--CPVEQLASDTKQ  391 (394)
T ss_pred             cceeecccchhhcc-CCCCCeeeeccceecHHHHHHHhh-----CCCeeeeCCC--CCcccCHHhccc
Confidence            46789999765553 223334699999999998877665     3445799999  987766655544

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

Probab=86.66  E-value=0.67  Score=47.67  Aligned_cols=185  Identities=19%  Similarity=0.386  Sum_probs=99.0

Q ss_pred             CCCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCC--CcccccCCCCCCCccCccccccCCChhhHH
Q 024715           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDN--TAKIDCPGLDCKHNLDPFACEPVIPASLFS   94 (263)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~--~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~   94 (263)
                      .++..--|.||+.+-...... .-+.|+|.|...|.+..++.+-....  ..-|.||.  |..+|+.-.++.+|++ +.+
T Consensus      3482 kQD~DDmCmICFTE~L~AAP~-IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPi--C~n~InH~~LkDLldP-iKe 3557 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPA-IQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPI--CKNKINHIVLKDLLDP-IKE 3557 (3738)
T ss_pred             hcccCceEEEEehhhhCCCcc-eecCCccchhHHHHHHHHHhcccCCeeEEeeeeccc--ccchhhhHHHHHHHHH-HHH
Confidence            345567899999776443222 24899999999999999987765422  23589999  9999988888888874 223


Q ss_pred             HHHHHHHHHhh--c-----CCCcccCCccccccceeccccccCCCCceeCCccccccccccccCCCCC-CCchhHHhccc
Q 024715           95 KWCDVLCEDYV--L-----GFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAG-YRCEESRNLRD  166 (263)
Q Consensus        95 ~~~~~~~~~~~--~-----~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~-~~C~~~~~~~~  166 (263)
                      -|++...++..  +     ....+.=|.    .-+..++.  +....    .=-++.|.+|++.|-+| ..|+.... .+
T Consensus      3558 l~edV~~KA~MRLEYeGL~ks~AiT~P~----~~FYNdPa--~YAmn----RY~Y~vC~KCrKAYFGGEaRCdAe~~-~d 3626 (3738)
T KOG1428|consen 3558 LYEDVRRKALMRLEYEGLHKSEAITTPG----VRFYNDPA--GYAMN----RYAYYVCYKCRKAYFGGEARCDAEAG-GD 3626 (3738)
T ss_pred             HHHHHHHHHhhhhhhccccccccccCCC----ceeccChh--hhhhh----hhhhhhhhhhhhhhcCchhhcchhcC-CC
Confidence            33332222211  1     122233331    11111111  00000    11356778888887665 45876544 22


Q ss_pred             cch--HHHHHHHh-cCCcccCCCCCceee--cCCCCce---eEeecCCceecccCccc
Q 024715          167 QND--IVFGQLVE-RMKWARCPACGHCVE--RKDGCSV---VMCRCNTRFCYECGRKI  216 (263)
Q Consensus       167 ~~~--~~~~~~~~-~~~~k~CP~C~~~i~--k~~GCnh---m~C~C~~~FC~~C~~~~  216 (263)
                      +.+  +++-.... ......||+-+.-.-  |-.=|-.   ..|-=-+|||-.|-..+
T Consensus      3627 dydP~ELiCG~CSDvS~aQmCPkHGtdfLEYKCRyCCSvAVfFCFGTTHFCn~CHDDF 3684 (3738)
T KOG1428|consen 3627 DYDPRELICGACSDVSRAQMCPKHGTDFLEYKCRYCCSVAVFFCFGTTHFCNACHDDF 3684 (3738)
T ss_pred             CCCHHHhhhccccccccceecccccchhhhhhhheeeeEeEEEEcccccccchhhhHH
Confidence            212  11111111 234577888766432  1111111   12222478888887764

>PLN03086 PRLI-interacting factor K; Provisional

Probab=86.59  E-value=0.94  Score=42.59  Aligned_cols=59  Identities=20%  Similarity=0.446  Sum_probs=37.5

Q ss_pred             CcccccCCCCCCCccCccccccCCChhhHHHHHHHHHHHhhcCCCcccCCccccccceeccccccCCCCceeCCcccccc
Q 024715           65 TAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWF  144 (263)
Q Consensus        65 ~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~  144 (263)
                      ...+.||+  |+..++...+...+.               .=....+.||+.+|+..+.....    ...+.|+.|+..|
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--CKHYIPSRSIALHEA---------------YCSRHNVVCPHDGCGIVLRVEEA----KNHVHCEKCGQAF  463 (567)
T ss_pred             CCeEECCC--CCCccchhHHHHHHh---------------hCCCcceeCCcccccceeecccc----ccCccCCCCCCcc
Confidence            45678988  888776533221100               00134577997779998876655    4667899888766

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

Probab=86.53  E-value=0.79  Score=39.68  Aligned_cols=47  Identities=21%  Similarity=0.636  Sum_probs=33.8

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccC
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (263)
                      ....++|+||++.+..+ .|.  .+=||..|.+|-.+           ..-+||.  |..++.
T Consensus        45 ~~~lleCPvC~~~l~~P-i~Q--C~nGHlaCssC~~~-----------~~~~CP~--Cr~~~g   91 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPP-IFQ--CDNGHLACSSCRTK-----------VSNKCPT--CRLPIG   91 (299)
T ss_pred             chhhccCchhhccCccc-cee--cCCCcEehhhhhhh-----------hcccCCc--cccccc
Confidence            46678999999999654 321  33389999999862           2346887  887776

>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=86.49  E-value=0.22  Score=30.96  Aligned_cols=39  Identities=26%  Similarity=0.702  Sum_probs=19.0

Q ss_pred             ccccceeccccccCCCCceeCCccccccccccccCCCCC
Q 024715          117 NCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAG  155 (263)
Q Consensus       117 ~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~  155 (263)
                      .|...+.............+|+.|+..||..|-.-.|..
T Consensus         4 gC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~   42 (51)
T PF07975_consen    4 GCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHET   42 (51)
T ss_dssp             TTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTT
T ss_pred             cCCCCCCCcccccccCCeEECCCCCCccccCcChhhhcc
Confidence            455555443321112468999999999999998877754

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.

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

Probab=85.98  E-value=0.67  Score=40.30  Aligned_cols=67  Identities=21%  Similarity=0.587  Sum_probs=43.4

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCCChhhHHHH
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKW   96 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~   96 (263)
                      +.+...|.||.+...    +...++|+|.+|.-|-.+.-..      ...-.||.  |+.....-.+..-.+.++-+++
T Consensus        58 DEen~~C~ICA~~~T----Ys~~~PC~H~~CH~Ca~RlRAL------Y~~K~C~~--CrTE~e~V~fT~~~~~DI~D~~  124 (493)
T COG5236          58 DEENMNCQICAGSTT----YSARYPCGHQICHACAVRLRAL------YMQKGCPL--CRTETEAVVFTASSPADITDRR  124 (493)
T ss_pred             ccccceeEEecCCce----EEEeccCCchHHHHHHHHHHHH------HhccCCCc--cccccceEEEecCCCCcchhHh
Confidence            456789999998873    4456999999999998765432      23346888  8876544433333333333333

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

Probab=85.15  E-value=0.59  Score=44.97  Aligned_cols=42  Identities=14%  Similarity=0.194  Sum_probs=21.3

Q ss_pred             CccccccccccccccccccccC---CCCCccHHHHHHHHHHHHhh
Q 024715           20 SSFTCEICIEPMAASKKFKNRN---LCTHPFCQDCIARYIQVKVQ   61 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~---~C~H~fC~~Cl~~~~~~~i~   61 (263)
                      +..+|.+|..++.+.+.-+..+   .|+|.+|..||..|....+.
T Consensus        95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~  139 (1134)
T KOG0825|consen   95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEE  139 (1134)
T ss_pred             cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhc
Confidence            3445555555554422111122   26666666666666665554

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

Probab=85.03  E-value=0.66  Score=28.33  Aligned_cols=26  Identities=31%  Similarity=0.557  Sum_probs=19.5

Q ss_pred             cccCCCCCceeecCCCCceeEe-ecCC
Q 024715          181 WARCPACGHCVERKDGCSVVMC-RCNT  206 (263)
Q Consensus       181 ~k~CP~C~~~i~k~~GCnhm~C-~C~~  206 (263)
                      -+.||+|+.-+.....=+...| +||+
T Consensus        19 ~~~CPrCG~gvfmA~H~dR~~CGkCgy   45 (51)
T COG1998          19 NRFCPRCGPGVFMADHKDRWACGKCGY   45 (51)
T ss_pred             cccCCCCCCcchhhhcCceeEeccccc
Confidence            4789999976665555557889 7886

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

Probab=84.77  E-value=0.64  Score=26.25  Aligned_cols=31  Identities=19%  Similarity=0.597  Sum_probs=15.9

Q ss_pred             ccCCccccccceeccccccCCCCceeCCccccc
Q 024715          111 SYCPNTNCMALVVNECERSGKVKKTQCPNCKQW  143 (263)
Q Consensus       111 ~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~  143 (263)
                      .+||  .|+..+...-...+...+.+|+.|+..
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  798887654332233689999999864

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

Probab=84.47  E-value=0.51  Score=28.00  Aligned_cols=26  Identities=31%  Similarity=0.822  Sum_probs=19.6

Q ss_pred             CCcccCCCCCceeecCCCCceeEee---cCCce
Q 024715          179 MKWARCPACGHCVERKDGCSVVMCR---CNTRF  208 (263)
Q Consensus       179 ~~~k~CP~C~~~i~k~~GCnhm~C~---C~~~F  208 (263)
                      .+.|+||+|+..-    |..-+.|+   |++.|
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            4679999999876    66667773   76655

>KOG2906 consensus RNA polymerase III subunit C11 [Transcription]

Probab=84.38  E-value=0.76  Score=32.40  Aligned_cols=29  Identities=34%  Similarity=0.890  Sum_probs=22.2

Q ss_pred             cCCCCCcee--ecCCCCceeEee-cCCceecc
Q 024715          183 RCPACGHCV--ERKDGCSVVMCR-CNTRFCYE  211 (263)
Q Consensus       183 ~CP~C~~~i--~k~~GCnhm~C~-C~~~FC~~  211 (263)
                      -||.|+..+  ++.+.||...|+ |.|.|=-.
T Consensus         3 FCP~Cgn~Live~g~~~~rf~C~tCpY~~~I~   34 (105)
T KOG2906|consen    3 FCPTCGNMLIVESGESCNRFSCRTCPYVFPIS   34 (105)
T ss_pred             ccCCCCCEEEEecCCeEeeEEcCCCCceeeEe
Confidence            599999855  445559999995 99987543

>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain

Probab=83.23  E-value=0.9  Score=26.10  Aligned_cols=32  Identities=22%  Similarity=0.452  Sum_probs=21.7

Q ss_pred             ccCCccccccceecccccc-CCCCceeCCcccccc
Q 024715          111 SYCPNTNCMALVVNECERS-GKVKKTQCPNCKQWF  144 (263)
Q Consensus       111 ~~Cp~~~C~~~~~~~~~~~-~~~~~~~C~~C~~~~  144 (263)
                      +.||  .|+..+...+... .....+.|+.|+..|
T Consensus         3 ~~CP--~C~~~~~v~~~~~~~~~~~v~C~~C~~~~   35 (38)
T TIGR02098         3 IQCP--NCKTSFRVVDSQLGANGGKVRCGKCGHVW   35 (38)
T ss_pred             EECC--CCCCEEEeCHHHcCCCCCEEECCCCCCEE
Confidence            5688  7998777665422 123479999998754

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.

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

Probab=82.47  E-value=0.73  Score=45.33  Aligned_cols=54  Identities=19%  Similarity=0.569  Sum_probs=38.6

Q ss_pred             Cccccccccccccccc-ccc--ccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           20 SSFTCEICIEPMAASK-KFK--NRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~-~~~--~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      ..-+|.||+......+ .++  ....|.|.|...|+-+|+.+      ...-+||.  |+..++.
T Consensus      1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~S------s~~s~CPl--CRseitf 1524 (1525)
T COG5219        1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFAS------SARSNCPL--CRSEITF 1524 (1525)
T ss_pred             CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHh------cCCCCCCc--ccccccc
Confidence            4468999998774211 111  23568999999999999984      44457999  9977653

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

Probab=82.22  E-value=0.91  Score=39.64  Aligned_cols=50  Identities=22%  Similarity=0.393  Sum_probs=35.9

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      +++...|+||+-.-..  .  ...+|+|.-|.+|+.+++-+        .-.|-.  |+..+..
T Consensus       419 ~sEd~lCpICyA~pi~--A--vf~PC~H~SC~~CI~qHlmN--------~k~CFf--CktTv~~  468 (489)
T KOG4692|consen  419 DSEDNLCPICYAGPIN--A--VFAPCSHRSCYGCITQHLMN--------CKRCFF--CKTTVID  468 (489)
T ss_pred             CcccccCcceecccch--h--hccCCCCchHHHHHHHHHhc--------CCeeeE--ecceeee
Confidence            4677899999965422  2  24899999999999999862        234666  7766543

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

Probab=82.21  E-value=0.51  Score=40.16  Aligned_cols=45  Identities=27%  Similarity=0.560  Sum_probs=34.9

Q ss_pred             ccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCcc
Q 024715           21 SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (263)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (263)
                      .+-|.||-.+|..+.    ...|+|+||..|....+.        ..-+|+.  |++..
T Consensus       241 Pf~c~icr~~f~~pV----vt~c~h~fc~~ca~~~~q--------k~~~c~v--C~~~t  285 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPV----VTKCGHYFCEVCALKPYQ--------KGEKCYV--CSQQT  285 (313)
T ss_pred             Cccccccccccccch----hhcCCceeehhhhccccc--------cCCccee--ccccc
Confidence            467999999996652    489999999999877664        2346777  88654

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

Probab=81.98  E-value=0.59  Score=41.33  Aligned_cols=53  Identities=21%  Similarity=0.563  Sum_probs=40.8

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCcc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (263)
                      .....|..|-+.+.....-...++|.|.|...|+..|++      ...+-.||.  |+...
T Consensus       363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~------~n~~rsCP~--Crklr  415 (518)
T KOG1941|consen  363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILE------NNGTRSCPN--CRKLR  415 (518)
T ss_pred             HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHH------hCCCCCCcc--HHHHH
Confidence            345789999988865444335799999999999999995      355668998  88543

>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=81.12  E-value=2  Score=23.70  Aligned_cols=27  Identities=22%  Similarity=0.484  Sum_probs=15.7

Q ss_pred             cccCCCCCceeecCCCCceeEe-ecCCc
Q 024715          181 WARCPACGHCVERKDGCSVVMC-RCNTR  207 (263)
Q Consensus       181 ~k~CP~C~~~i~k~~GCnhm~C-~C~~~  207 (263)
                      .+-||.|+.+.....+=--+.| .|+..
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            4678888888888877677888 57764

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

>smart00661 RPOL9 RNA polymerase subunit 9

Probab=80.90  E-value=1.4  Score=27.18  Aligned_cols=28  Identities=18%  Similarity=0.662  Sum_probs=19.4

Q ss_pred             cCCccccccceeccccccCCCCceeCCccccc
Q 024715          112 YCPNTNCMALVVNECERSGKVKKTQCPNCKQW  143 (263)
Q Consensus       112 ~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~  143 (263)
                      +||  .|+..+.......  ...+.|+.|++.
T Consensus         2 FCp--~Cg~~l~~~~~~~--~~~~vC~~Cg~~   29 (52)
T smart00661        2 FCP--KCGNMLIPKEGKE--KRRFVCRKCGYE   29 (52)
T ss_pred             CCC--CCCCccccccCCC--CCEEECCcCCCe
Confidence            688  8999776664421  247889988854

>PF01599 Ribosomal_S27: Ribosomal protein S27a; InterPro: IPR002906 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=80.77  E-value=1.2  Score=27.17  Aligned_cols=29  Identities=28%  Similarity=0.531  Sum_probs=20.5

Q ss_pred             cccCCccccccceeccccccCCCCceeCCcccc
Q 024715          110 RSYCPNTNCMALVVNECERSGKVKKTQCPNCKQ  142 (263)
Q Consensus       110 ~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~  142 (263)
                      ...||++.|+..+..+..    ..+..|..|+.
T Consensus        18 rk~CP~~~CG~GvFMA~H----~dR~~CGKCg~   46 (47)
T PF01599_consen   18 RKECPSPRCGAGVFMAEH----KDRHYCGKCGY   46 (47)
T ss_dssp             SEE-TSTTTTSSSEEEE-----SSEEEETTTSS
T ss_pred             hhcCCCcccCCceEeeec----CCCccCCCccc
Confidence            578999999987665555    45788888775

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesized as a C-terminal extension of ubiquitin (CEP) (IPR000626 from INTERPRO). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins as extensions of ubiquitin promotes their incorporation into nascent ribosomes by a transient metabolic stabilisation and is required for efficient ribosome biogenesis []. The ribosomal extension protein S27a contains a basic region that is proposed to form a zinc finger; its fusion gene is proposed as a mechanism to maintain a fixed ratio between ubiquitin necessary for degrading proteins and ribosomes a source of proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2K4X_A 3U5C_f 3U5G_f 2XZN_9 2XZM_9.

>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=80.73  E-value=0.9  Score=33.06  Aligned_cols=27  Identities=30%  Similarity=0.818  Sum_probs=20.3

Q ss_pred             ccCCCCCceeecCCCCceeEe-ecCCcee
Q 024715          182 ARCPACGHCVERKDGCSVVMC-RCNTRFC  209 (263)
Q Consensus       182 k~CP~C~~~i~k~~GCnhm~C-~C~~~FC  209 (263)
                      |.||+||....-..- +-++| .||+.|=
T Consensus        10 R~Cp~CG~kFYDLnk-~PivCP~CG~~~~   37 (108)
T PF09538_consen   10 RTCPSCGAKFYDLNK-DPIVCPKCGTEFP   37 (108)
T ss_pred             ccCCCCcchhccCCC-CCccCCCCCCccC
Confidence            679999987765544 77888 5888763

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	263
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	4e-10
2ct7_A	86	Ring finger protein 31; IBR, structural genomics,	8e-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 = 42.3 bits (99), Expect = 8e-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	263
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	99.68
1wd2_A	60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	99.64
2ct7_A	86	Ring finger protein 31; IBR, structural genomics,	99.3
2jmo_A	80	Parkin; IBR, E3 ligase, zinc binding domain, RBR;	99.27
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.1
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.92
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	98.9
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	98.87
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.84
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	98.79
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.77
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	98.74
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	98.74
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.73
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.73
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.72
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	98.7
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.7
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.69
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	98.68
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.66
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	98.66
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.66
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.64
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.64
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.64
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.6
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.59
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.59
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.58
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	98.56
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	98.54
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.51
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.48
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.48
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.47
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.45
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.44
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.42
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.41
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.38
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.36
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.35
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.31
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.29
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.29
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	98.25
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.24
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.24
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.23
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.21
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.21
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.21
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.16
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.04
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.0
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	97.91
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	97.89
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	97.89
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	97.88
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.79
2ct7_A	86	Ring finger protein 31; IBR, structural genomics,	97.76
2ea5_A	68	Cell growth regulator with ring finger domain prot	97.74
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	97.7
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	97.68
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	97.67
2jmo_A	80	Parkin; IBR, E3 ligase, zinc binding domain, RBR;	97.62
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	97.59
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	97.42
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	97.39
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	97.33
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	97.1
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	96.47
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	96.36
1wd2_A	60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	96.27
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	96.2
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	95.05
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	93.52
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	93.16
3nw0_A	238	Non-structural maintenance of chromosomes element	92.85
2k4x_A	55	30S ribosomal protein S27AE; metal-binding, ribonu	85.94
2jrp_A	81	Putative cytoplasmic protein; two-zinc binding pro	85.65
3j20_Y	50	30S ribosomal protein S27AE; archaea, archaeal, KI	84.84
3qt1_I	133	DNA-directed RNA polymerases I, II, and III subun;	83.41
1pft_A	50	TFIIB, PFTFIIBN; N-terminal domain, transcription	83.01
1wfh_A	64	Zinc finger (AN1-like) family protein; ZF-AN1 doma	82.3
3j20_Y	50	30S ribosomal protein S27AE; archaea, archaeal, KI	81.25
1vq8_Z	83	50S ribosomal protein L37AE; ribosome 50S, protein	80.85
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	80.12

>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=99.68  E-value=2.1e-17  Score=117.59  Aligned_cols=87  Identities=18%  Similarity=0.482  Sum_probs=75.7

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCc--cCccccccCCChhhHHHH
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHN--LDPFACEPVIPASLFSKW   96 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~--l~~~~i~~~l~~~~~~~~   96 (263)
                      .+.++|+||++++..++. ..+.+|+|.||.+||+.|++.++.++...++.||.++|+..  ++++.++.+|+++++++|
T Consensus         3 ~~~~~C~IC~~~~~~~~~-~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~~~i~~ll~~~~~~ky   81 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQM-TTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQENEIECMVAAEIMQRY   81 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGE-EEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHHHHHHHSCHHHHHHH
T ss_pred             CCCcCCcccCcccccccc-eEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCHHHHHHHCCHHHHHHH
Confidence            467899999999965543 33457999999999999999999875557899999999999  999999999999999999


Q ss_pred             HHHHHHHhhc
Q 024715           97 CDVLCEDYVL  106 (263)
Q Consensus        97 ~~~~~~~~~~  106 (263)
                      ++++.+.++.
T Consensus        82 ~~~~~~~~v~   91 (94)
T 1wim_A           82 KKLQFERSGP   91 (94)
T ss_dssp             HHHHHHSSCS
T ss_pred             HHHHHHhhhc
Confidence            9998887764

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

Probab=99.64  E-value=2.9e-17  Score=105.73  Aligned_cols=50  Identities=28%  Similarity=0.769  Sum_probs=41.8

Q ss_pred             CCcccCCCCCceeecCCCCceeEee---cCCceecccCcccCC-CCCCCCcccchhh
Q 024715          179 MKWARCPACGHCVERKDGCSVVMCR---CNTRFCYECGRKISS-GCSCQTIGFCQLT  231 (263)
Q Consensus       179 ~~~k~CP~C~~~i~k~~GCnhm~C~---C~~~FC~~C~~~~~~-~~~~~~~~~c~~~  231 (263)
                      .++|+||+|+++|||++|||||+|+   |+++|||+|+++|.. |.++   +.|+.|
T Consensus         4 ~~~k~CP~C~~~Iek~~GCnhmtC~~~~C~~~FCw~C~~~~~~~~~~~---y~C~~y   57 (60)
T 1wd2_A            4 ANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGSAW---YNCNRY   57 (60)
T ss_dssp             CCCCCCTTTCCCCSSCCSCCSSSCCSSGGGSCCSSSSCSCSGGGGTSS---SSSCSC
T ss_pred             ccceECcCCCCeeEeCCCCCcEEECCCCcCCEEeeCcCCCcccCCCcc---ccCCCc
Confidence            5789999999999999999999995   999999999999873 3332   356654

>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=99.30  E-value=6.5e-14  Score=97.45  Aligned_cols=75  Identities=29%  Similarity=0.594  Sum_probs=62.8

Q ss_pred             ChhhHHHHHHHHHHHhh-cCCCcccCCccccccceeccccccCCCCceeCCccccccccccccCC---CCCCCchhHHhc
Q 024715           89 PASLFSKWCDVLCEDYV-LGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKW---HAGYRCEESRNL  164 (263)
Q Consensus        89 ~~~~~~~~~~~~~~~~~-~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~---H~~~~C~~~~~~  164 (263)
                      +.+++++|++++.+.++ .+++++|||  +|++.++....    ...+.|+.|+..||+.|+.+|   |.+.+|++++.|
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            34667788888888888 456778999  89998877654    567999999999999999999   999999999998


Q ss_pred             cccch
Q 024715          165 RDQND  169 (263)
Q Consensus       165 ~~~~~  169 (263)
                      .++++
T Consensus        77 ~~~n~   81 (86)
T 2ct7_A           77 KRMNS   81 (86)
T ss_dssp             HHHHT
T ss_pred             HHhCc
Confidence            76543

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

Probab=99.27  E-value=1.1e-13  Score=94.73  Aligned_cols=70  Identities=24%  Similarity=0.535  Sum_probs=61.4

Q ss_pred             CCChhhHHHHHHHHHHHhhcCCCcccCCccccccceeccccccCCCCceeCC-----ccccccccccccCCCCCCCchhH
Q 024715           87 VIPASLFSKWCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCP-----NCKQWFCFQCKLKWHAGYRCEES  161 (263)
Q Consensus        87 ~l~~~~~~~~~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~-----~C~~~~C~~C~~~~H~~~~C~~~  161 (263)
                      +|+++++++|++++.+.++...+.+|||.|+|+..+.....    ...+.|+     .|++.||+.|+.+||. .+|...
T Consensus         2 ~l~~~~~~rY~~~~~e~~v~~~~~~~CP~p~C~~~v~~~~~----~~~v~C~~~~~~~C~~~FC~~C~~~wH~-~~C~~~   76 (80)
T 2jmo_A            2 HMGEEQYNRYQQYGAEECVLQMGGVLCPRPGCGAGLLPEPD----QRKVTCEGGNGLGCGFAFCRECKEAYHE-GECSAV   76 (80)
T ss_dssp             CCCCCCCCSCCCSSSCCSSCCCSSCCCCSSSCCCCCCCCSC----TTSBCTTSSSTTCCSCCEETTTTEECCS-SCSSSC
T ss_pred             CCCHHHHHHHHHHHHHHHhhhCCcEECCCCCCCcccEECCC----CCcCCCCCCCCCCCCCeeccccCccccC-Cccccc
Confidence            57788899999999999986667999999999999987653    5779998     9999999999999999 999753

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

Probab=99.10  E-value=1.7e-11  Score=92.24  Aligned_cols=119  Identities=22%  Similarity=0.563  Sum_probs=82.1

Q ss_pred             CCcccccccccccccc---ccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCCChhhHHH
Q 024715           19 GSSFTCEICIEPMAAS---KKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSK   95 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~---~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~   95 (263)
                      .+.++|+||++.+.++   ......++|||.||.+|+.+|+..        ...||.  |+..+....+..+..      
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            4678999999999655   122235899999999999999862        238999  999998776655421      


Q ss_pred             HHHHHHHHhhcCCCcccCCccccccceeccccccCCCCceeCCccccccccccccCCCCCCCchhHHhccccchHHHHHH
Q 024715           96 WCDVLCEDYVLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQL  175 (263)
Q Consensus        96 ~~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~  175 (263)
                                 ..+...||  -|...+......   ........|+..||..|...|.                      
T Consensus        69 -----------~~~~~~C~--iC~~~~~~~~~~---~~~~~~~~CgH~fc~~Ci~~~~----------------------  110 (133)
T 4ap4_A           69 -----------GSGTVSCP--ICMDGYSEIVQN---GRLIVSTECGHVFCSQCLRDSL----------------------  110 (133)
T ss_dssp             -----------SSSSCBCT--TTCCBHHHHHHT---TCCEEEETTSBEEEHHHHHHHH----------------------
T ss_pred             -----------CCCCCCCC--CCCCcccccccc---CcceEeCCCCChhhHHHHHHHH----------------------
Confidence                       13456687  787665443221   1233344699999998866541                      


Q ss_pred             HhcCCcccCCCCCceeecC
Q 024715          176 VERMKWARCPACGHCVERK  194 (263)
Q Consensus       176 ~~~~~~k~CP~C~~~i~k~  194 (263)
                       +  ..+.||.|+..+.++
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  136899999998764

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens}

Probab=98.92  E-value=2e-09  Score=84.55  Aligned_cols=86  Identities=23%  Similarity=0.424  Sum_probs=60.9

Q ss_pred             CCCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCCChhhHHHH
Q 024715           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKW   96 (263)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~   96 (263)
                      .-.+.+.|+||++.+.++.    .++|||+||..|+..|+....       ..||.  |+..+...++.   ....++  
T Consensus        14 ~~~~~~~C~IC~~~~~~pv----~~~CgH~fC~~Ci~~~~~~~~-------~~CP~--Cr~~~~~~~~~---~~~~~~--   75 (170)
T 3hcs_A           14 PLESKYECPICLMALREAV----QTPCGHRFCKACIIKSIRDAG-------HKCPV--DNEILLENQLF---PDNFAK--   75 (170)
T ss_dssp             CCCGGGBCTTTCSBCSSEE----ECTTSCEEEHHHHHHHHHHHC-------SBCTT--TCCBCCGGGCE---ECHHHH--
T ss_pred             CCCCCCCCCCCChhhcCcE----ECCCCCHHHHHHHHHHHHhCC-------CCCCC--CccCcchhhhh---hhHHHH--
Confidence            3456799999999997662    378999999999999997532       38999  99988775433   212111  


Q ss_pred             HHHHHHHhhcCCCcccCCccccccceecccc
Q 024715           97 CDVLCEDYVLGFERSYCPNTNCMALVVNECE  127 (263)
Q Consensus        97 ~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~  127 (263)
                       +.     +. .-.++||+.+|...+.....
T Consensus        76 -~~-----i~-~l~v~C~n~GC~~~~~~~~l   99 (170)
T 3hcs_A           76 -RE-----IL-SLMVKCPNEGCLHKMELRHL   99 (170)
T ss_dssp             -HH-----HH-TSEEECCSTTCCCEEEGGGH
T ss_pred             -HH-----Hh-hcccCCCCCCCCceecHhHH
Confidence             11     11 23478999999988876553

>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=1.4e-09  Score=75.67  Aligned_cols=66  Identities=17%  Similarity=0.452  Sum_probs=50.2

Q ss_pred             CCCCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCC
Q 024715           16 GGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVI   88 (263)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l   88 (263)
                      ....+..+|+||++.+.+.+.....++|+|.||.+|+..|+...     .....||.  |+..+....+..+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~-----~~~~~CP~--Cr~~~~~~~i~~l~   75 (88)
T 2ct2_A           10 DALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASS-----INGVRCPF--CSKITRITSLTQLT   75 (88)
T ss_dssp             CCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHC-----SSCBCCTT--TCCCBCCSSTTTSE
T ss_pred             hhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcC-----CCCcCCCC--CCCcccchhHHHHH
Confidence            33456789999999997643223457999999999999999853     23578999  99988877665544

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

Probab=98.87  E-value=2.3e-09  Score=71.86  Aligned_cols=56  Identities=25%  Similarity=0.554  Sum_probs=44.9

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      ..+...|+||++.+.++.    .++|+|.||.+|+..|+..     ......||.  |+..+..+++
T Consensus        17 ~~~~~~C~IC~~~~~~~~----~~~CgH~fC~~Ci~~~~~~-----~~~~~~CP~--Cr~~~~~~~~   72 (73)
T 2ysl_A           17 LQEEVICPICLDILQKPV----TIDCGHNFCLKCITQIGET-----SCGFFKCPL--CKTSVRKNAI   72 (73)
T ss_dssp             CCCCCBCTTTCSBCSSEE----ECTTCCEEEHHHHHHHCSS-----SCSCCCCSS--SCCCCCCCCC
T ss_pred             CccCCEeccCCcccCCeE----EcCCCChhhHHHHHHHHHc-----CCCCCCCCC--CCCcCCcccC
Confidence            456789999999996542    3699999999999999861     235678999  9999887665

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

Probab=98.84  E-value=1.7e-09  Score=70.90  Aligned_cols=60  Identities=18%  Similarity=0.413  Sum_probs=45.7

Q ss_pred             Cccccccccc-cccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCC
Q 024715           20 SSFTCEICIE-PMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVI   88 (263)
Q Consensus        20 ~~~~C~IC~~-~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l   88 (263)
                      +...|+||++ .+.++......++|||.||.+|+.+|+..       ....||.  |+..+..++++..+
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~-------~~~~CP~--Cr~~~~~~~~~~~~   62 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR-------GAGNCPE--CGTPLRKSNFRVQL   62 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHT-------TSSSCTT--TCCCCSSCCCEEEC
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHc-------CCCcCCC--CCCccccccceeec
Confidence            4578999999 66555332234799999999999999862       2468999  99999887776544

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

Probab=98.79  E-value=1.1e-08  Score=68.35  Aligned_cols=59  Identities=22%  Similarity=0.435  Sum_probs=46.8

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCCC
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIP   89 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~   89 (263)
                      ..+.+.|+||++.+.++..   +.+|+|.||..|+..|+..        ...||.  |+..+...++...+.
T Consensus        12 ~~~~~~C~IC~~~~~~p~~---~~~CgH~fC~~Ci~~~~~~--------~~~CP~--Cr~~~~~~~~~~~~~   70 (72)
T 2djb_A           12 LTPYILCSICKGYLIDATT---ITECLHTFCKSCIVRHFYY--------SNRCPK--CNIVVHQTQPLSGPS   70 (72)
T ss_dssp             CCGGGSCTTTSSCCSSCEE---CSSSCCEECHHHHHHHHHH--------CSSCTT--TCCCCCSSCSCCCCS
T ss_pred             cCCCCCCCCCChHHHCcCE---ECCCCCHHHHHHHHHHHHc--------CCcCCC--cCcccCcccccccCC
Confidence            3567899999999965432   3599999999999999974        357999  999998877665543

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

Probab=98.77  E-value=1.2e-08  Score=70.24  Aligned_cols=60  Identities=27%  Similarity=0.608  Sum_probs=48.3

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE   85 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~   85 (263)
                      ..+.+.|+||++.+.++.    .++|+|.||.+|+..|+......  .....||.  |+..+..+++.
T Consensus        16 ~~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~~~~--~~~~~CP~--Cr~~~~~~~~~   75 (85)
T 2ecv_A           16 VKEEVTCPICLELLTQPL----SLDCGHSFCQACLTANHKKSMLD--KGESSCPV--CRISYQPENIR   75 (85)
T ss_dssp             CCCCCCCTTTCSCCSSCB----CCSSSCCBCTTHHHHHHHHHHHT--TSCCCCTT--TCCSSCSSSCC
T ss_pred             ccCCCCCCCCCcccCCce----eCCCCCHHHHHHHHHHHHHhhcC--CCCCcCCC--CCCccCHHhcC
Confidence            356789999999996542    47999999999999999987654  34689999  99988876544

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

Probab=98.74  E-value=1.1e-08  Score=67.07  Aligned_cols=53  Identities=23%  Similarity=0.669  Sum_probs=43.1

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      .+.+.|+||++.+.++.    .++|||.||..|+..|+.       .....||.  |+..+..+++
T Consensus        13 ~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~-------~~~~~CP~--Cr~~~~~~~i   65 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSPK----QTECGHRFCESCMAALLS-------SSSPKCTA--CQESIVKDKV   65 (66)
T ss_dssp             CCCEECTTTCCEESSCC----CCSSSCCCCHHHHHHHHT-------TSSCCCTT--TCCCCCTTTC
T ss_pred             CcCCCCCCCChHhcCee----ECCCCCHHHHHHHHHHHH-------hCcCCCCC--CCcCCChhhc
Confidence            56789999999986552    379999999999999996       23467999  9999877654

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

Probab=98.74  E-value=1.4e-08  Score=69.88  Aligned_cols=60  Identities=25%  Similarity=0.517  Sum_probs=47.5

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE   85 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~   85 (263)
                      ..+.+.|+||++.+.++.    .++|+|.||..|+..|+......  .....||.  |+..+..+.+.
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            356789999999996653    47899999999999999876532  34689999  99988776543

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

Probab=98.73  E-value=1.3e-08  Score=69.12  Aligned_cols=57  Identities=19%  Similarity=0.425  Sum_probs=41.9

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      .+..+|+||++++...+..+..++|||.||..|+..++..       ....||.  |+..+....+
T Consensus         9 ~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~-------~~~~CP~--CR~~~~~~~~   65 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTD-------ENGLCPA--CRKPYPEDPA   65 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTS-------SCSBCTT--TCCBCSSCSS
T ss_pred             ccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhc-------CCCCCCC--CCCccCCCch
Confidence            4568999999988533332222459999999999988741       3578999  9998876544

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

Probab=98.73  E-value=1.9e-08  Score=65.27  Aligned_cols=46  Identities=24%  Similarity=0.564  Sum_probs=36.7

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCC
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (263)
                      ..+.+.|+||++.+.++.    .++|||.||..|+.+|+...     .....||.
T Consensus        17 ~~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~-----~~~~~CP~   62 (63)
T 2ysj_A           17 LQEEVICPICLDILQKPV----TIDCGHNFCLKCITQIGETS-----CGFFKCPL   62 (63)
T ss_dssp             CCCCCBCTTTCSBCSSCE----ECTTSSEECHHHHHHHHHHC-----SSCCCCSC
T ss_pred             CccCCCCCcCCchhCCeE----EeCCCCcchHHHHHHHHHcC-----CCCCcCcC
Confidence            456789999999997553    36999999999999999841     24568987

>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=98.72  E-value=4.7e-09  Score=77.01  Aligned_cols=84  Identities=29%  Similarity=0.549  Sum_probs=59.9

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCCChhhHHHHHH
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKWCD   98 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~~~   98 (263)
                      .+.+.|+||++.+.++.    .++|||.||..|+..|+...       ...||.  |+..+...++...+.     .+.+
T Consensus        21 ~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~-------~~~CP~--Cr~~~~~~~~~~~~~-----~l~~   82 (116)
T 1rmd_A           21 VKSISCQICEHILADPV----ETSCKHLFCRICILRCLKVM-------GSYCPS--CRYPCFPTDLESPVK-----SFLN   82 (116)
T ss_dssp             HHHTBCTTTCSBCSSEE----ECTTSCEEEHHHHHHHHHHT-------CSBCTT--TCCBCCGGGCBCCCH-----HHHH
T ss_pred             cCCCCCCCCCcHhcCcE----EcCCCCcccHHHHHHHHhHC-------cCcCCC--CCCCCCHhhccccHH-----HHHH
Confidence            34689999999996653    37999999999999999852       357999  999998876654311     1222


Q ss_pred             HHHHHhhcCCCcccCCccccccceeccc
Q 024715           99 VLCEDYVLGFERSYCPNTNCMALVVNEC  126 (263)
Q Consensus        99 ~~~~~~~~~~~~~~Cp~~~C~~~~~~~~  126 (263)
                      .+.      .-.++||+.+|+..+...+
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            221      2236899989988776544

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

Probab=98.70  E-value=1e-08  Score=68.23  Aligned_cols=59  Identities=20%  Similarity=0.667  Sum_probs=46.1

Q ss_pred             CCccccccccccccccc---cccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccC
Q 024715           19 GSSFTCEICIEPMAASK---KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPV   87 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~---~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~   87 (263)
                      .+...|+||++.+.++.   .....++|+|.||.+|+..|+...        ..||.  |+..+...++..+
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~--------~~CP~--Cr~~~~~~~~~~~   69 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA--------NTCPT--CRKKINHKRYHPI   69 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHC--------SBCTT--TCCBCCCCSCCCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcC--------CCCCC--CCCccChhheeec
Confidence            56789999999986541   222358999999999999999732        47999  9999988776654

>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=98.70  E-value=2.4e-08  Score=72.57  Aligned_cols=73  Identities=22%  Similarity=0.588  Sum_probs=53.4

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCC-ChhhHHHHH
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVI-PASLFSKWC   97 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l-~~~~~~~~~   97 (263)
                      .+.+.|+||++.+.++.    .++|||.||..|+..|+...     .....||.  |+..+....+.... -.++++.+.
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            35679999999986542    37999999999999998732     23478999  99998887665433 235666666


Q ss_pred             HHHHH
Q 024715           98 DVLCE  102 (263)
Q Consensus        98 ~~~~~  102 (263)
                      +.+..
T Consensus        88 ~~~~~   92 (112)
T 1jm7_A           88 KIICA   92 (112)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55443

>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=98.69  E-value=9e-09  Score=64.90  Aligned_cols=52  Identities=23%  Similarity=0.516  Sum_probs=41.2

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccC
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (263)
                      .....|+||++.+.+.......++|+|.||.+|+..|+...        ..||.  |+..+.
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            45678999999986543333568999999999999999843        57999  988764

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

Probab=98.68  E-value=2.5e-08  Score=67.66  Aligned_cols=67  Identities=19%  Similarity=0.422  Sum_probs=49.1

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccc-cCCChhhHHHHH
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE-PVIPASLFSKWC   97 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~-~~l~~~~~~~~~   97 (263)
                      .+.+.|+||++.+.++.    .++|||+||..|+..|+..       ....||.  |+..+....+. ...-.+.++.|.
T Consensus         6 ~~~~~C~IC~~~~~~Pv----~~~CgH~fc~~Ci~~~~~~-------~~~~CP~--C~~~~~~~~l~~n~~l~~~i~~~~   72 (78)
T 1t1h_A            6 PEYFRCPISLELMKDPV----IVSTGQTYERSSIQKWLDA-------GHKTCPK--SQETLLHAGLTPNYVLKSLIALWC   72 (78)
T ss_dssp             SSSSSCTTTSCCCSSEE----EETTTEEEEHHHHHHHHTT-------TCCBCTT--TCCBCSSCCCEECTTTHHHHHHHH
T ss_pred             cccCCCCCccccccCCE----EcCCCCeecHHHHHHHHHH-------CcCCCCC--CcCCCChhhCccCHHHHHHHHHHH
Confidence            45789999999997663    3689999999999999961       2568999  99988765443 233334555554


Q ss_pred             H
Q 024715           98 D   98 (263)
Q Consensus        98 ~   98 (263)
                      +
T Consensus        73 ~   73 (78)
T 1t1h_A           73 E   73 (78)
T ss_dssp             H
T ss_pred             H
Confidence            3

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

Probab=98.66  E-value=3.8e-09  Score=71.90  Aligned_cols=60  Identities=25%  Similarity=0.486  Sum_probs=46.3

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE   85 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~   85 (263)
                      .+.++|+||++.+.++.    .++|||.||.+|+..|+...... ......||.  |+..+...++.
T Consensus        10 ~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~~~~~~~~~-~~~~~~CP~--Cr~~~~~~~l~   69 (79)
T 2egp_A           10 QEEVTCPICLELLTEPL----SLDCGHSLCRACITVSNKEAVTS-MGGKSSCPV--CGISYSFEHLQ   69 (79)
T ss_dssp             CCCCEETTTTEECSSCC----CCSSSCCCCHHHHSCCCCCCSSS-CCCCCCCSS--SCCCCCSSGGG
T ss_pred             ccCCCCcCCCcccCCee----ECCCCCHHHHHHHHHHHHhcccC-CCCCCcCCC--CCCcCCHhhCC
Confidence            46789999999996542    47999999999999998754332 234789999  99988765543

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

Probab=98.66  E-value=1.7e-08  Score=67.82  Aligned_cols=54  Identities=22%  Similarity=0.522  Sum_probs=41.9

Q ss_pred             cCCCCCccccccccccccccccccccCC-CCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccC
Q 024715           15 KGGGGSSFTCEICIEPMAASKKFKNRNL-CTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (263)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (263)
                      .....+.+.|+||++.+.++.    .++ |+|.||..|+..|+...      ....||.  |+..+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~----~~~~CgH~fC~~Ci~~~~~~~------~~~~CP~--Cr~~~~   63 (74)
T 2yur_A            9 DDPIPDELLCLICKDIMTDAV----VIPCCGNSYCDECIRTALLES------DEHTCPT--CHQNDV   63 (74)
T ss_dssp             CCCSCGGGSCSSSCCCCTTCE----ECSSSCCEECTTHHHHHHHHS------SSSCCSS--SCCSSC
T ss_pred             cccCCCCCCCcCCChHHhCCe----EcCCCCCHHHHHHHHHHHHhc------CCCcCCC--CCCcCC
Confidence            333456799999999997653    367 99999999999999842      2468999  998643

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

Probab=98.66  E-value=1.7e-08  Score=70.73  Aligned_cols=49  Identities=24%  Similarity=0.641  Sum_probs=40.1

Q ss_pred             CCccccccccccccccccccccCC-CCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCcc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNL-CTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (263)
                      .+.+.|+||++.+.++.    .++ |||+||..|+..|+..      .....||.  |+..+
T Consensus        11 ~~~~~C~IC~~~~~~p~----~~~~CgH~fC~~Ci~~~~~~------~~~~~CP~--Cr~~~   60 (92)
T 3ztg_A           11 PDELLCLICKDIMTDAV----VIPCCGNSYCDECIRTALLE------SDEHTCPT--CHQND   60 (92)
T ss_dssp             CTTTEETTTTEECSSCE----ECTTTCCEECHHHHHHHHHH------CTTCCCTT--TCCSS
T ss_pred             CcCCCCCCCChhhcCce----ECCCCCCHHHHHHHHHHHHh------cCCCcCcC--CCCcC
Confidence            46789999999997653    367 9999999999999973      22478999  99886

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

Probab=98.64  E-value=1.5e-08  Score=65.87  Aligned_cols=58  Identities=21%  Similarity=0.664  Sum_probs=45.2

Q ss_pred             Cccccccccccccccc---cccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccC
Q 024715           20 SSFTCEICIEPMAASK---KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPV   87 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~---~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~   87 (263)
                      +..+|+||++.+.++.   .....++|+|.||.+|+..|+..        ...||.  |+..+...++..+
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            4678999999986541   12235899999999999999974        248999  9999988776654

>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=98.64  E-value=6.4e-08  Score=71.16  Aligned_cols=86  Identities=23%  Similarity=0.424  Sum_probs=60.5

Q ss_pred             CCCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCCChhhHHHH
Q 024715           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPASLFSKW   96 (263)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~~~~~~   96 (263)
                      .-.+.+.|+||++.+.++.    .++|||.||..|+..|+...-       ..||.  |+..+...++.   ....++  
T Consensus        14 ~~~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~~-------~~CP~--Cr~~~~~~~~~---~~~~l~--   75 (118)
T 3hct_A           14 PLESKYECPICLMALREAV----QTPCGHRFCKACIIKSIRDAG-------HKCPV--DNEILLENQLF---PDNFAK--   75 (118)
T ss_dssp             CCCGGGBCTTTCSBCSSEE----ECTTSCEEEHHHHHHHHHHHC-------SBCTT--TCCBCCGGGCE---ECHHHH--
T ss_pred             CCCCCCCCCcCChhhcCeE----ECCcCChhhHHHHHHHHhhCC-------CCCCC--CCCCcCHHhcc---cCHHHH--
Confidence            3456789999999997652    368999999999999997442       27999  99988775432   212111  


Q ss_pred             HHHHHHHhhcCCCcccCCccccccceecccc
Q 024715           97 CDVLCEDYVLGFERSYCPNTNCMALVVNECE  127 (263)
Q Consensus        97 ~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~  127 (263)
                       +.     +. .-.++||+.+|...+...+.
T Consensus        76 -~~-----i~-~l~v~C~n~gC~~~~~~~~l   99 (118)
T 3hct_A           76 -RE-----IL-SLMVKCPNEGCLHKMELRHL   99 (118)
T ss_dssp             -HH-----HH-TSEEECSSTTCCCEEEGGGS
T ss_pred             -HH-----Hc-cceeECCCCCCCCEEeeHHH
Confidence             11     11 23478999899988876554

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

Probab=98.64  E-value=2.6e-08  Score=65.72  Aligned_cols=54  Identities=20%  Similarity=0.678  Sum_probs=41.9

Q ss_pred             CCCccccccccccccccc---cccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           18 GGSSFTCEICIEPMAASK---KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~---~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      ..+...|+||++.+.++.   .....++|+|.||.+|+..|+..        ...||.  |+..+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~--------~~~CP~--Cr~~~~~   68 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN--------ANTCPT--CRKKINH   68 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHH--------CSSCTT--TCCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHc--------CCCCCC--CCCccCc
Confidence            456789999999986542   12235899999999999999974        247999  9988754

>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=98.60  E-value=5.1e-08  Score=69.51  Aligned_cols=57  Identities=25%  Similarity=0.631  Sum_probs=45.5

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccC
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPV   87 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~   87 (263)
                      .+.+.|+||++.+.++..   .++|||.||..|+..|+...       ...||.  |+..+....+...
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            467899999999965522   38999999999999999843       268999  9999987665543

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

Probab=98.59  E-value=2.1e-08  Score=68.08  Aligned_cols=58  Identities=26%  Similarity=0.610  Sum_probs=45.1

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccccc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (263)
                      ......|+||++.+...... ..++|+|.||..|+..|+..        ...||.  |+..+....+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~-~~~~C~H~fc~~Ci~~~~~~--------~~~CP~--Cr~~~~~~~~~~   69 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESV-RQLPCNHLFHDSCIVPWLEQ--------HDSCPV--CRKSLTGQNTAT   69 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCE-EECTTSCEEETTTTHHHHTT--------TCSCTT--TCCCCCCSCSCC
T ss_pred             CCCCCCCeeCCccccCCCCE-EEeCCCCeecHHHHHHHHHc--------CCcCcC--cCCccCCcccCC
Confidence            45678999999999665443 34789999999999999852        247999  999888765543

>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=98.59  E-value=4.4e-09  Score=79.87  Aligned_cols=91  Identities=18%  Similarity=0.353  Sum_probs=59.1

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccCCChh-hH-HH
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPVIPAS-LF-SK   95 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~l~~~-~~-~~   95 (263)
                      -.+.+.|+||++.+.++.    .++|||.||..|+..|+.       .....||.  |+..+.......+++.+ ++ +.
T Consensus        28 l~~~~~C~IC~~~~~~pv----~~~CgH~FC~~Ci~~~~~-------~~~~~CP~--Cr~~~~~~~~~~~l~~~~~~~d~   94 (141)
T 3knv_A           28 LEAKYLCSACRNVLRRPF----QAQCGHRYCSFCLASILS-------SGPQNCAA--CVHEGIYEEGISILESSSAFPDN   94 (141)
T ss_dssp             CCGGGBCTTTCSBCSSEE----ECTTSCEEEHHHHHHHGG-------GSCEECHH--HHHTTCCCTTTTEECGGGCEECH
T ss_pred             CCcCcCCCCCChhhcCcE----ECCCCCccCHHHHHHHHh-------cCCCCCCC--CCCcccccccccccchhhhcccH
Confidence            456789999999997663    379999999999999985       23468998  98876554333222211 10 11


Q ss_pred             HHHHHHHHhhcCCCcccCCccccccceeccc
Q 024715           96 WCDVLCEDYVLGFERSYCPNTNCMALVVNEC  126 (263)
Q Consensus        96 ~~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~  126 (263)
                      ..+    ..+. .-.++||+.+|...+....
T Consensus        95 ~~~----~~i~-~L~v~Cpn~GC~~~~~l~~  120 (141)
T 3knv_A           95 AAR----REVE-SLPAVCPSDGCTWKGTLKE  120 (141)
T ss_dssp             HHH----HHHH-TSEEECCSTTCCCEEEHHH
T ss_pred             HHH----HHHc-ccccccCCCCCCCEeEHHH
Confidence            111    1111 3347999988988776544

>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=98.58  E-value=7e-08  Score=63.77  Aligned_cols=54  Identities=22%  Similarity=0.638  Sum_probs=41.7

Q ss_pred             CCCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      .......|+||++.+...... ..++|+|.||..|+..|+...        ..||.  |+..+..
T Consensus        10 ~~~~~~~C~IC~~~~~~~~~~-~~~~C~H~fc~~Ci~~~~~~~--------~~CP~--Cr~~~~~   63 (69)
T 2kiz_A           10 EEDTEEKCTICLSILEEGEDV-RRLPCMHLFHQVCVDQWLITN--------KKCPI--CRVDIEA   63 (69)
T ss_dssp             STTCCCSBTTTTBCCCSSSCE-EECTTSCEEEHHHHHHHHHHC--------SBCTT--TCSBSCS
T ss_pred             cCCCCCCCeeCCccccCCCcE-EEeCCCCHHHHHHHHHHHHcC--------CCCcC--cCccccC
Confidence            345678999999998544333 358899999999999999742        25999  9988765

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

Probab=98.56  E-value=2.5e-08  Score=66.41  Aligned_cols=56  Identities=18%  Similarity=0.404  Sum_probs=44.3

Q ss_pred             CCCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccccc
Q 024715           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (263)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (263)
                      ...+...|+||++.+.++.    .++|+|.||..|+..|+..        ...||.  |+..+....+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~----~~~CgH~fC~~Ci~~~~~~--------~~~CP~--Cr~~~~~~~~~~   66 (71)
T 2d8t_A           11 PSLTVPECAICLQTCVHPV----SLPCKHVFCYLCVKGASWL--------GKRCAL--CRQEIPEDFLDS   66 (71)
T ss_dssp             SSSSCCBCSSSSSBCSSEE----EETTTEEEEHHHHHHCTTC--------SSBCSS--SCCBCCHHHHSC
T ss_pred             cCCCCCCCccCCcccCCCE----EccCCCHHHHHHHHHHHHC--------CCcCcC--cCchhCHhhccC
Confidence            3456789999999986542    3689999999999998751        268999  999988766554

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

Probab=98.54  E-value=9.8e-08  Score=65.19  Aligned_cols=49  Identities=22%  Similarity=0.545  Sum_probs=40.7

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccC
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (263)
                      ....+.|+||++.+.++.    .++|+|.||..|+..|+..        ...||.  |+..+.
T Consensus        12 ~~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~--------~~~CP~--Cr~~~~   60 (81)
T 2csy_A           12 EEIPFRCFICRQAFQNPV----VTKCRHYFCESCALEHFRA--------TPRCYI--CDQPTG   60 (81)
T ss_dssp             CCCCSBCSSSCSBCCSEE----ECTTSCEEEHHHHHHHHHH--------CSBCSS--SCCBCC
T ss_pred             CCCCCCCcCCCchhcCee----EccCCCHhHHHHHHHHHHC--------CCcCCC--cCcccc
Confidence            456789999999996542    4899999999999999973        347999  999886

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

Probab=98.51  E-value=4.8e-08  Score=69.45  Aligned_cols=68  Identities=22%  Similarity=0.483  Sum_probs=47.8

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccccc-CCChhhHHHHH
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP-VIPASLFSKWC   97 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~-~l~~~~~~~~~   97 (263)
                      .+.+.|+||++.+.++..   ..+|||.||..|+..|+..        ...||.  |+..+....+.. ..-.++++.|.
T Consensus        20 ~~~~~C~IC~~~~~~p~~---~~~CgH~fC~~Ci~~~~~~--------~~~CP~--Cr~~~~~~~l~~n~~l~~~i~~~~   86 (99)
T 2y43_A           20 DDLLRCGICFEYFNIAMI---IPQCSHNYCSLCIRKFLSY--------KTQCPT--CCVTVTEPDLKNNRILDELVKSLN   86 (99)
T ss_dssp             HHHTBCTTTCSBCSSEEE---CTTTCCEEEHHHHHHHHTT--------CCBCTT--TCCBCCGGGCEECHHHHHHHHHHH
T ss_pred             CCCCCcccCChhhCCcCE---ECCCCCHhhHHHHHHHHHC--------CCCCCC--CCCcCChhhCCcCHHHHHHHHHHH
Confidence            456899999999976532   3589999999999999862        258999  999988754432 22223444444


Q ss_pred             HH
Q 024715           98 DV   99 (263)
Q Consensus        98 ~~   99 (263)
                      +.
T Consensus        87 ~~   88 (99)
T 2y43_A           87 FA   88 (99)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.48  E-value=1.9e-07  Score=65.73  Aligned_cols=61  Identities=34%  Similarity=0.673  Sum_probs=47.5

Q ss_pred             CCCccccccccccccccccccccC-CCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCc-cCcccc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRN-LCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHN-LDPFAC   84 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~-~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~-l~~~~i   84 (263)
                      ..+.+.|+||++.+.++..    + .|||+||+.|+..|+...-.  ......||..+|... +...++
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            3567899999999987743    5 59999999999999986532  134678999999977 766544

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

Probab=98.48  E-value=9.7e-08  Score=63.98  Aligned_cols=53  Identities=21%  Similarity=0.586  Sum_probs=41.4

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      ......|+||++.+.....+ ..++|+|.||.+|+..|+...        ..||.  |+..+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~-~~~~C~H~f~~~Ci~~~~~~~--------~~CP~--Cr~~~~~   64 (74)
T 2ep4_A           12 LNLHELCAVCLEDFKPRDEL-GICPCKHAFHRKCLIKWLEVR--------KVCPL--CNMPVLQ   64 (74)
T ss_dssp             CCCSCBCSSSCCBCCSSSCE-EEETTTEEEEHHHHHHHHHHC--------SBCTT--TCCBCSS
T ss_pred             CCCCCCCcCCCcccCCCCcE-EEcCCCCEecHHHHHHHHHcC--------CcCCC--cCccccc
Confidence            35567999999999765443 346899999999999999742        27999  9987654

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

Probab=98.47  E-value=1.5e-07  Score=59.85  Aligned_cols=46  Identities=26%  Similarity=0.618  Sum_probs=35.8

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCC
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (263)
                      ..+...|+||++.+.++    ..++|+|.||.+|+..|+..     ......||.
T Consensus        12 ~~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~-----~~~~~~CP~   57 (58)
T 2ecj_A           12 LQVEASCSVCLEYLKEP----VIIECGHNFCKACITRWWED-----LERDFPCPV   57 (58)
T ss_dssp             SCCCCBCSSSCCBCSSC----CCCSSCCCCCHHHHHHHTTS-----SCCSCCCSC
T ss_pred             cccCCCCccCCcccCcc----EeCCCCCccCHHHHHHHHHh-----cCCCCCCCC
Confidence            35678999999999665    24799999999999999752     124567887

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

Probab=98.45  E-value=8.2e-08  Score=64.56  Aligned_cols=53  Identities=19%  Similarity=0.625  Sum_probs=42.1

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      ..+...|+||++++...+.+ ..++|+|.||.+|+..|+...        ..||.  |+..+..
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            45678999999999665443 357899999999999998632        37999  9988765

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

Probab=98.44  E-value=5.9e-08  Score=61.06  Aligned_cols=52  Identities=17%  Similarity=0.593  Sum_probs=39.0

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccC
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (263)
                      .+..+|+||++++...+....+..|+|.||.+|+..|+..        ...||.  |+..+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~--------~~~CP~--Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS--------HSTCPL--CRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT--------CCSCSS--SCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHc--------CCcCcC--CCCEeE
Confidence            3567899999999765443323349999999999999742        347999  988764

>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=98.42  E-value=1.4e-07  Score=77.82  Aligned_cols=68  Identities=28%  Similarity=0.475  Sum_probs=53.5

Q ss_pred             CCcccccCCCCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccc
Q 024715            9 PNEYLEKGGGGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE   85 (263)
Q Consensus         9 ~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~   85 (263)
                      ++..+........+.|+||++.+.++..   ...|||.||+.|+..|+..      .....||..||+..+...++.
T Consensus       169 dDDDI~v~~~~~el~CPIcl~~f~DPVt---s~~CGHsFcR~cI~~~~~~------~~~~~CPvtGCr~~l~~~dL~  236 (267)
T 3htk_C          169 DEDDLQIEGGKIELTCPITCKPYEAPLI---SRKCNHVFDRDGIQNYLQG------YTTRDCPQAACSQVVSMRDFV  236 (267)
T ss_dssp             CSSCCCCCSSBCCSBCTTTSSBCSSEEE---ESSSCCEEEHHHHHHHSTT------CSCEECSGGGCSCEECGGGEE
T ss_pred             CCccceecCCceeeECcCccCcccCCee---eCCCCCcccHHHHHHHHHh------CCCCCCCcccccCcCchhhCC
Confidence            4445556666788999999999987743   3689999999999999862      235789999999988776543

>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=98.41  E-value=1.8e-07  Score=69.28  Aligned_cols=50  Identities=28%  Similarity=0.776  Sum_probs=41.0

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      .+.+.|+||++.+.++.    .++|||.||..|+..|+.       .....||.  |+..+..
T Consensus        50 ~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~-------~~~~~CP~--Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELVFRPI----TTVCQHNVCKDCLDRSFR-------AQVFSCPA--CRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBCSSEE----ECTTSCEEEHHHHHHHHH-------TTCCBCTT--TCCBCCT
T ss_pred             ccCCCCCcCChHHcCcE----EeeCCCcccHHHHHHHHh-------HCcCCCCC--CCccCCC
Confidence            34578999999997653    369999999999999997       23468999  9998876

>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=98.38  E-value=2.8e-07  Score=67.17  Aligned_cols=58  Identities=22%  Similarity=0.500  Sum_probs=42.4

Q ss_pred             CCccccccccccccccc--------------cccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           19 GSSFTCEICIEPMAASK--------------KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~--------------~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      .....|+||++++..+.              .....++|+|.||..||..|+...-.   .....||.  |+..+..
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            34569999999986542              12225889999999999999954321   24578999  9987754

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

Probab=98.36  E-value=7.4e-08  Score=60.99  Aligned_cols=48  Identities=19%  Similarity=0.493  Sum_probs=38.4

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (263)
                      +.+.+.|+||++.+.++    ..++|+|.||..|+..           ....||.  |+..+...
T Consensus         3 e~~~~~C~IC~~~~~~p----~~l~CgH~fC~~Ci~~-----------~~~~CP~--Cr~~~~~~   50 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCP----KLLPCLHTLCSGCLEA-----------SGMQCPI--CQAPWPLG   50 (56)
T ss_dssp             SCCCSSCSSSCSSCBCC----SCSTTSCCSBTTTCSS-----------SSSSCSS--CCSSSSCC
T ss_pred             cccCCCceEeCCccCCe----EEcCCCCcccHHHHcc-----------CCCCCCc--CCcEeecC
Confidence            35678999999999765    3589999999999876           2568999  99887653

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

Probab=98.35  E-value=9e-07  Score=60.98  Aligned_cols=52  Identities=13%  Similarity=-0.022  Sum_probs=43.1

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      .+.+.|+||++.+.++.    .++|||+||+.|+..|+..        ...||.  |+..+....+
T Consensus        12 p~~~~CpI~~~~m~dPV----~~~cGhtf~r~~I~~~l~~--------~~~cP~--~~~~l~~~~l   63 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTDPV----RLPSGTVMDRSIILRHLLN--------SPTDPF--NRQMLTESML   63 (85)
T ss_dssp             CTTTBCTTTCSBCSSEE----ECTTSCEEEHHHHHHHHHH--------CSBCTT--TCCBCCGGGC
T ss_pred             chheECcccCchhcCCe----ECCCCCEECHHHHHHHHhc--------CCCCCC--CcCCCChHhc
Confidence            46899999999998774    3779999999999999973        247999  9998876543

>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=98.31  E-value=9e-07  Score=67.75  Aligned_cols=50  Identities=32%  Similarity=0.784  Sum_probs=41.7

Q ss_pred             CccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcc
Q 024715           20 SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (263)
                      +.+.|+||++.+.++.    .++|+|.||..|+..|+..       ....||.  |+..+...
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            4579999999997653    3799999999999999972       3468999  99998775

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

Probab=98.29  E-value=3.1e-07  Score=64.22  Aligned_cols=52  Identities=25%  Similarity=0.629  Sum_probs=40.6

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      .....|+||++.+...+.. ..++|+|.||..|+..|+..        ...||.  |+..+..
T Consensus        38 ~~~~~C~IC~~~~~~~~~~-~~l~C~H~Fh~~Ci~~wl~~--------~~~CP~--Cr~~~~~   89 (91)
T 2l0b_A           38 GQEMCCPICCSEYVKGDVA-TELPCHHYFHKPCVSIWLQK--------SGTCPV--CRCMFPP   89 (91)
T ss_dssp             SSCSEETTTTEECCTTCEE-EEETTTEEEEHHHHHHHHTT--------TCBCTT--TCCBSSC
T ss_pred             CCCCCCcccChhhcCCCcE-EecCCCChHHHHHHHHHHHc--------CCcCcC--cCccCCC
Confidence            4567899999998654433 35789999999999999851        237999  9988764

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

Probab=98.29  E-value=6.4e-08  Score=64.14  Aligned_cols=51  Identities=27%  Similarity=0.626  Sum_probs=40.6

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (263)
                      ..+...|+||++.+.+     ..++|+|.||..|+..|+.        ....||.  |+..+...+
T Consensus        12 ~~~~~~C~IC~~~~~~-----~~~~CgH~fc~~Ci~~~~~--------~~~~CP~--Cr~~~~~~~   62 (70)
T 2ecn_A           12 LTDEEECCICMDGRAD-----LILPCAHSFCQKCIDKWSD--------RHRNCPI--CRLQMTGAN   62 (70)
T ss_dssp             CCCCCCCSSSCCSCCS-----EEETTTEEECHHHHHHSSC--------CCSSCHH--HHHCTTCCC
T ss_pred             CCCCCCCeeCCcCccC-----cccCCCCcccHHHHHHHHH--------CcCcCCC--cCCcccCCC
Confidence            3567899999999865     2489999999999999875        2467998  988776544

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

Probab=98.25  E-value=3.6e-07  Score=68.98  Aligned_cols=48  Identities=31%  Similarity=0.823  Sum_probs=38.7

Q ss_pred             ccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcc
Q 024715           21 SFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (263)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (263)
                      .++|+||++.+.++.    .++|||.||..|+..|+.        ....||.  |+..+...
T Consensus        53 ~~~C~iC~~~~~~~~----~~~CgH~fc~~Ci~~~~~--------~~~~CP~--Cr~~~~~~  100 (138)
T 4ayc_A           53 ELQCIICSEYFIEAV----TLNCAHSFCSYCINEWMK--------RKIECPI--CRKDIKSK  100 (138)
T ss_dssp             HSBCTTTCSBCSSEE----EETTSCEEEHHHHHHHTT--------TCSBCTT--TCCBCCCE
T ss_pred             cCCCcccCcccCCce----ECCCCCCccHHHHHHHHH--------cCCcCCC--CCCcCCCC
Confidence            468999999996652    479999999999999975        2357999  99887653

>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=98.24  E-value=1.7e-07  Score=68.46  Aligned_cols=51  Identities=25%  Similarity=0.684  Sum_probs=40.9

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      ..+.+.|+||++.+.++.    .++|||.||..|+..|+.       .....||.  |+..+..
T Consensus        12 ~~~~~~C~iC~~~~~~p~----~~~CgH~fC~~Ci~~~~~-------~~~~~CP~--Cr~~~~~   62 (115)
T 3l11_A           12 SLSECQCGICMEILVEPV----TLPCNHTLCKPCFQSTVE-------KASLCCPF--CRRRVSS   62 (115)
T ss_dssp             CHHHHBCTTTCSBCSSCE----ECTTSCEECHHHHCCCCC-------TTTSBCTT--TCCBCHH
T ss_pred             CCCCCCCccCCcccCcee----EcCCCCHHhHHHHHHHHh-------HCcCCCCC--CCcccCc
Confidence            345789999999996553    369999999999998875       23478999  9998764

>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=98.24  E-value=1.4e-06  Score=61.75  Aligned_cols=51  Identities=16%  Similarity=-0.016  Sum_probs=42.4

Q ss_pred             CCccccccccccccccccccccCCCC-CccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCT-HPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~-H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (263)
                      .+.+.|+||++.+.++.    .++|| |+||+.|+..|+..        ...||.  |+..+...+
T Consensus        20 p~~~~CpI~~~~m~dPV----~~~cG~htf~r~cI~~~l~~--------~~~cP~--~~~~l~~~~   71 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDPV----VLPSSRVTVDRSTIARHLLS--------DQTDPF--NRSPLTMDQ   71 (98)
T ss_dssp             CTTTBCTTTCSBCSSEE----ECTTTCCEEEHHHHHHHTTT--------SCBCTT--TCSBCCTTT
T ss_pred             cHhcCCcCccccccCCe----ECCCCCeEECHHHHHHHHHh--------CCCCCC--CCCCCChhh
Confidence            46799999999998774    37899 99999999999972        247999  999887653

>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=98.23  E-value=1e-06  Score=63.49  Aligned_cols=51  Identities=25%  Similarity=0.656  Sum_probs=41.2

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (263)
                      .+.+.|+||++.+.++..   +.+|||.||..|+..|+..        ...||.  |+..+...
T Consensus        13 ~~~~~C~IC~~~~~~p~~---~~~CgH~fC~~Ci~~~~~~--------~~~CP~--Cr~~~~~~   63 (108)
T 2ckl_A           13 NPHLMCVLCGGYFIDATT---IIECLHSFCKTCIVRYLET--------SKYCPI--CDVQVHKT   63 (108)
T ss_dssp             GGGTBCTTTSSBCSSEEE---ETTTCCEEEHHHHHHHHTS--------CSBCTT--TCCBSCSS
T ss_pred             CCcCCCccCChHHhCcCE---eCCCCChhhHHHHHHHHHh--------CCcCcC--CCcccccc
Confidence            567899999999976532   3599999999999999862        268999  99887753

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

Probab=98.21  E-value=5.5e-07  Score=59.15  Aligned_cols=50  Identities=32%  Similarity=0.697  Sum_probs=39.3

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      .....|+||++.+.++.   ..++|+|.||.+|+..|+...        ..||.  |+..+..
T Consensus         3 ~~~~~C~IC~~~~~~~~---~~~~C~H~fc~~Ci~~~~~~~--------~~CP~--Cr~~~~~   52 (68)
T 1chc_A            3 TVAERCPICLEDPSNYS---MALPCLHAFCYVCITRWIRQN--------PTCPL--CKVPVES   52 (68)
T ss_dssp             CCCCCCSSCCSCCCSCE---EETTTTEEESTTHHHHHHHHS--------CSTTT--TCCCCCC
T ss_pred             CCCCCCeeCCccccCCc---EecCCCCeeHHHHHHHHHhCc--------CcCcC--CChhhHh
Confidence            34578999999986532   248899999999999998631        47999  9988763

>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=98.21  E-value=2.2e-07  Score=68.18  Aligned_cols=50  Identities=22%  Similarity=0.484  Sum_probs=40.7

Q ss_pred             CCccccccccccccccccccccC-CCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRN-LCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~-~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      .+.+.|+||++.+.++.    .+ +|||.||..|+..|+.          ..||.  |+..+....+
T Consensus        20 ~~~~~C~IC~~~~~~pv----~~~~CgH~fC~~Ci~~~~~----------~~CP~--Cr~~~~~~~~   70 (117)
T 1jm7_B           20 EKLLRCSRCTNILREPV----CLGGCEHIFCSNCVSDCIG----------TGCPV--CYTPAWIQDL   70 (117)
T ss_dssp             HHTTSCSSSCSCCSSCB----CCCSSSCCBCTTTGGGGTT----------TBCSS--SCCBCSCSSC
T ss_pred             hhCCCCCCCChHhhCcc----EeCCCCCHHHHHHHHHHhc----------CCCcC--CCCcCccccc
Confidence            45789999999997653    35 9999999999999875          57999  9998865444

>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=98.21  E-value=9.1e-07  Score=68.82  Aligned_cols=51  Identities=29%  Similarity=0.804  Sum_probs=40.6

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      .+.+.|+||++.+.++..   +.+|||.||..|+..|+..       ....||.  |+..+..
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            345799999999976532   3599999999999999972       2467999  9998754

>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=98.16  E-value=1.7e-06  Score=61.51  Aligned_cols=51  Identities=12%  Similarity=-0.013  Sum_probs=42.2

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (263)
                      .+.+.|+||++.+.++..    ++|||+||+.|+..|+..        ...||.  |+..+...+
T Consensus        27 p~~~~CpI~~~~m~dPV~----~~cGhtf~r~~I~~~l~~--------~~~cP~--~~~~l~~~~   77 (100)
T 2kre_A           27 PDEFRDPLMDTLMTDPVR----LPSGTIMDRSIILRHLLN--------SPTDPF--NRQTLTESM   77 (100)
T ss_dssp             STTTBCTTTCSBCSSEEE----ETTTEEEEHHHHHHHTTS--------CSBCSS--SCCBCCTTS
T ss_pred             cHhhCCcCccCcccCCeE----CCCCCEEchHHHHHHHHc--------CCCCCC--CCCCCChhh
Confidence            457999999999987743    679999999999999962        257999  999887643

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

Probab=98.04  E-value=1e-06  Score=60.06  Aligned_cols=56  Identities=20%  Similarity=0.417  Sum_probs=41.0

Q ss_pred             CCcccccccccccccc-----------ccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           19 GSSFTCEICIEPMAAS-----------KKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~-----------~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      .+..+|.||++++.+.           +....+.+|+|.|+.+|+..|+..        .-.||.  |+..+....+
T Consensus        13 ~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~--------~~~CP~--CR~~~~~~~~   79 (81)
T 2ecl_A           13 VECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQ--------NNRCPL--CQQDWVVQRI   79 (81)
T ss_dssp             CCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTT--------CCBCTT--TCCBCCEEEE
T ss_pred             CCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHh--------CCCCCC--cCCCcchhhc
Confidence            4567799999988542           212234569999999999999862        138999  9998877554

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

Probab=98.00  E-value=3.6e-06  Score=62.65  Aligned_cols=60  Identities=22%  Similarity=0.693  Sum_probs=46.1

Q ss_pred             CCCccccccccccccccc---cccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccC
Q 024715           18 GGSSFTCEICIEPMAASK---KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPV   87 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~---~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~   87 (263)
                      +.+...|+||++.+..+.   .....++|+|.||..|+..|+..        ...||.  |+..+..+++..+
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~--------~~~CP~--Cr~~~~~~~~~~~  131 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN--------ANTCPT--CRKKINHKRYHPI  131 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHH--------CSBCTT--TCCBCCGGGEEEE
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHc--------CCCCCC--CCCcCChhcceee
Confidence            456789999999986531   11135789999999999999973        237999  9999988776543

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

Probab=97.91  E-value=8.9e-07  Score=59.31  Aligned_cols=45  Identities=24%  Similarity=0.504  Sum_probs=36.4

Q ss_pred             CCccccccccccccccccccccCCCCCc-cHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      .+...|.||++.+.+.    ..++|||. ||.+|+..+            ..||.  |+..+..
T Consensus        22 ~~~~~C~iC~~~~~~~----~~~pCgH~~~C~~C~~~~------------~~CP~--Cr~~i~~   67 (74)
T 4ic3_A           22 QEEKLCKICMDRNIAI----VFVPCGHLVTCKQCAEAV------------DKCPM--CYTVITF   67 (74)
T ss_dssp             HHHTBCTTTSSSBCCE----EEETTCCBCCCHHHHTTC------------SBCTT--TCCBCSE
T ss_pred             ccCCCCCCCCCCCCCE----EEcCCCChhHHHHhhhcC------------ccCCC--cCcCccC
Confidence            4567999999998554    24799999 999998765            57999  9988765

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

Probab=97.89  E-value=2.9e-06  Score=56.93  Aligned_cols=45  Identities=24%  Similarity=0.500  Sum_probs=35.5

Q ss_pred             CCccccccccccccccccccccCCCCCc-cHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      .+...|+||++.+.++    ..++|+|. ||.+|+..            ...||.  |+..+..
T Consensus        23 ~~~~~C~IC~~~~~~~----~~~pCgH~~~C~~C~~~------------~~~CP~--Cr~~i~~   68 (75)
T 2ecg_A           23 QEEKLCKICMDRNIAI----VFVPCGHLVTCKQCAEA------------VDKCPM--CYTVITF   68 (75)
T ss_dssp             HHHHSCSSSCSSCCCB----CCSSSCCCCBCHHHHHH------------CSBCTT--TCCBCCC
T ss_pred             CCCCCCCcCCCCCCCE----EEecCCCHHHHHHHhhC------------CCCCcc--CCceecC
Confidence            4567899999998544    34899999 99999952            157999  9988765

>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=97.89  E-value=7.6e-06  Score=58.66  Aligned_cols=55  Identities=20%  Similarity=0.380  Sum_probs=40.9

Q ss_pred             CCccccccccccccccc--------------cccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccc
Q 024715           19 GSSFTCEICIEPMAASK--------------KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~--------------~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (263)
                      .+...|.||++.+...-              .....++|+|.|+..|+..|+..        ...||.  |+..+.+..
T Consensus        35 ~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~--------~~~CP~--Cr~~~~~~~  103 (106)
T 3dpl_R           35 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT--------RQVCPL--DNREWEFQK  103 (106)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT--------CSBCSS--SCSBCCEEE
T ss_pred             CCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHc--------CCcCcC--CCCcceeec
Confidence            34568999999986441              01234789999999999999862        357999  999876543

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

Probab=97.88  E-value=8.8e-06  Score=55.21  Aligned_cols=55  Identities=22%  Similarity=0.355  Sum_probs=42.8

Q ss_pred             CCccccccccccccccccccccCCCC-----CccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCT-----HPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~-----H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (263)
                      .+...|.||++++.+.+.+  .++|.     |.|..+||.+|+...      ....||.  |+..+..+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~l--~~pC~C~Gs~h~fH~~Cl~~Wl~~~------~~~~Cpl--Cr~~~~~~~   72 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPL--ITPCHCTGSLHFVHQACLQQWIKSS------DTRCCEL--CKYEFIMET   72 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCE--ECSSSCCSSSCCEETTHHHHHHHHH------CCSBCSS--SCCBCCCCC
T ss_pred             CCCCCCeEcCccccCCCee--EeccccCCcCCeeCHHHHHHHHhhC------CCCCCCC--CCCeeecCc
Confidence            4567899999998655444  47885     999999999999854      2468999  998876643

>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=97.79  E-value=1.3e-05  Score=67.33  Aligned_cols=53  Identities=13%  Similarity=-0.036  Sum_probs=42.5

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (263)
                      ....+.|+||++.+.++.    .++|||+||+.|+..|+...       ...||.  |+.++....
T Consensus       205 ~~~~~~c~i~~~~~~dPv----~~~~gh~f~~~~i~~~~~~~-------~~~cP~--~~~~~~~~~  257 (281)
T 2c2l_A          205 IPDYLCGKISFELMREPC----ITPSGITYDRKDIEEHLQRV-------GHFNPV--TRSPLTQEQ  257 (281)
T ss_dssp             CCSTTBCTTTCSBCSSEE----ECSSCCEEETTHHHHHHHHT-------CSSCTT--TCCCCCGGG
T ss_pred             CCcccCCcCcCCHhcCCe----ECCCCCEECHHHHHHHHHHC-------CCCCcC--CCCCCchhc
Confidence            346789999999998774    37899999999999999731       123999  999987654

>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=97.76  E-value=1.8e-05  Score=54.52  Aligned_cols=41  Identities=24%  Similarity=0.621  Sum_probs=35.6

Q ss_pred             CcccCCCCCceeecCCCCceeEe-ecCCceecccCccc---CCCC
Q 024715          180 KWARCPACGHCVERKDGCSVVMC-RCNTRFCYECGRKI---SSGC  220 (263)
Q Consensus       180 ~~k~CP~C~~~i~k~~GCnhm~C-~C~~~FC~~C~~~~---~~~~  220 (263)
                      +.+-||+|...+....+-..++| .|++.||+.|+.+|   |.+-
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            44569999999988888888999 59999999999999   7663

>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=52.23  Aligned_cols=47  Identities=21%  Similarity=0.567  Sum_probs=36.6

Q ss_pred             CCCCccccccccccccccccccccCCCCCc-cHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           17 GGGSSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      .+.+...|.||++...+.    .+++|+|. ||.+|+..     +       ..||.  |+..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~----v~~pCgH~~~C~~C~~~-----~-------~~CP~--CR~~i~~   58 (68)
T 2ea5_A           11 SEENSKDCVVCQNGTVNW----VLLPCRHTCLCDGCVKY-----F-------QQCPM--CRQFVQE   58 (68)
T ss_dssp             SCCCSSCCSSSSSSCCCC----EETTTTBCCSCTTHHHH-----C-------SSCTT--TCCCCCC
T ss_pred             cCCCCCCCCCcCcCCCCE----EEECCCChhhhHHHHhc-----C-------CCCCC--CCcchhc
Confidence            345678999999987543    35899999 99999983     1       47999  9988765

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

Probab=97.70  E-value=2.5e-05  Score=61.20  Aligned_cols=52  Identities=13%  Similarity=0.007  Sum_probs=42.4

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (263)
                      .+.+.|+||++.+.++.    .++|||+||+.|+..|+...      .. .||.  |+.++...+
T Consensus       104 p~~f~CPI~~elm~DPV----~~~~Ghtfer~~I~~~l~~~------~~-tcP~--t~~~l~~~~  155 (179)
T 2f42_A          104 PDYLCGKISFELMREPC----ITPSGITYDRKDIEEHLQRV------GH-FDPV--TRSPLTQDQ  155 (179)
T ss_dssp             CGGGBCTTTCSBCSSEE----ECTTSCEEEHHHHHHHHHHT------CS-BCTT--TCCBCCGGG
T ss_pred             cHhhcccCccccCCCCe----ECCCCCEECHHHHHHHHHhC------CC-CCCC--CcCCCChhh
Confidence            56799999999998774    37899999999999999741      11 6999  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=97.68  E-value=2.3e-05  Score=50.60  Aligned_cols=51  Identities=20%  Similarity=0.411  Sum_probs=38.3

Q ss_pred             CCccccccccccccccccccccCCCCCc-cHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      .....|.||++...+...  ..++|||. ||.+|...+...        .-.||.  |+..+..
T Consensus         5 ~~~~~C~IC~~~~~~~~~--~~~pCgH~~~C~~C~~~~~~~--------~~~CPi--CR~~i~~   56 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDGNI--IHGRTGHLVTCFHCARRLKKA--------GASCPI--CKKEIQL   56 (63)
T ss_dssp             GGGSBCTTTSSSBSCEEE--EETTEEEEEECHHHHHHHHHT--------TCBCTT--TCCBCCE
T ss_pred             CcCCCCcccCCcCCCeEE--EecCCCCHhHHHHHHHHHHHh--------CCcCCC--cCchhhc
Confidence            446789999998754432  23599998 999999988752        247999  9998753

>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=97.67  E-value=2.2e-05  Score=50.79  Aligned_cols=51  Identities=18%  Similarity=0.382  Sum_probs=37.9

Q ss_pred             CCccccccccccccccccccccCCCCCc-cHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      .+...|.||++...+.. + ..++|||. +|.+|+..+...        .-.||.  |+..+..
T Consensus         6 ~~~~~C~IC~~~~~~~~-~-~~~pCgH~~~C~~C~~~~~~~--------~~~CPi--CR~~i~~   57 (64)
T 2vje_A            6 NAIEPCVICQGRPKNGC-I-VHGKTGHLMACFTCAKKLKKR--------NKPCPV--CRQPIQM   57 (64)
T ss_dssp             GGGSCCTTTSSSCSCEE-E-EETTEEEEEECHHHHHHHHHT--------TCCCTT--TCCCCCE
T ss_pred             CCcCCCCcCCCCCCCEE-E-ECCCCCChhhHHHHHHHHHHc--------CCcCCC--cCcchhc
Confidence            35568999999885542 1 12499999 899999988751        237999  9988753

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

Probab=97.62  E-value=2.9e-05  Score=52.58  Aligned_cols=42  Identities=29%  Similarity=0.660  Sum_probs=37.7

Q ss_pred             CcccCCC--CCceeecCCCCceeEe------ecCCceecccCcccCCCCCC
Q 024715          180 KWARCPA--CGHCVERKDGCSVVMC------RCNTRFCYECGRKISSGCSC  222 (263)
Q Consensus       180 ~~k~CP~--C~~~i~k~~GCnhm~C------~C~~~FC~~C~~~~~~~~~~  222 (263)
                      ..+-||.  |+..|....+...++|      .|++.||+.|+..||. .+.
T Consensus        24 ~~~~CP~p~C~~~v~~~~~~~~v~C~~~~~~~C~~~FC~~C~~~wH~-~~C   73 (80)
T 2jmo_A           24 GGVLCPRPGCGAGLLPEPDQRKVTCEGGNGLGCGFAFCRECKEAYHE-GEC   73 (80)
T ss_dssp             SSCCCCSSSCCCCCCCCSCTTSBCTTSSSTTCCSCCEETTTTEECCS-SCS
T ss_pred             CcEECCCCCCCcccEECCCCCcCCCCCCCCCCCCCeeccccCccccC-Ccc
Confidence            4788998  9999999889999999      7999999999999997 544

>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=97.59  E-value=5.3e-05  Score=66.26  Aligned_cols=52  Identities=21%  Similarity=0.537  Sum_probs=41.2

Q ss_pred             CccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           20 SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      ....|+||++.+.++    ..++|||.||..|+..|+..       ....||.  |+..+....+
T Consensus       331 ~~~~C~ICle~~~~p----v~lpCGH~FC~~Ci~~wl~~-------~~~~CP~--CR~~i~~~~~  382 (389)
T 2y1n_A          331 TFQLCKICAENDKDV----KIEPCGHLMCTSCLTSWQES-------EGQGCPF--CRCEIKGTEP  382 (389)
T ss_dssp             SSSBCTTTSSSBCCE----EEETTCCEECHHHHHHHHHH-------TCSBCTT--TCCBCCEEEE
T ss_pred             CCCCCCccCcCCCCe----EEeCCCChhhHHHHHHHHhc-------CCCCCCC--CCCccCCcee
Confidence            347999999998654    24899999999999999873       2357999  9998877543

>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=97.42  E-value=9e-06  Score=55.05  Aligned_cols=46  Identities=26%  Similarity=0.689  Sum_probs=36.0

Q ss_pred             CCccccccccccccccccccccCCCCCc-cHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (263)
                      .+...|.||++...+.    ..++|||. ||.+|+..+            ..||.  |+..+...
T Consensus        16 ~~~~~C~IC~~~~~~~----v~~pCgH~~~C~~C~~~~------------~~CP~--Cr~~i~~~   62 (79)
T 2yho_A           16 KEAMLCMVCCEEEINS----TFCPCGHTVCCESCAAQL------------QSCPV--CRSRVEHV   62 (79)
T ss_dssp             HHHTBCTTTSSSBCCE----EEETTCBCCBCHHHHTTC------------SBCTT--TCCBCCEE
T ss_pred             CCCCEeEEeCcccCcE----EEECCCCHHHHHHHHHhc------------CcCCC--CCchhhCe
Confidence            3456899999988543    24899999 999999754            18999  99987663

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

Probab=97.39  E-value=0.00015  Score=48.18  Aligned_cols=53  Identities=23%  Similarity=0.507  Sum_probs=41.1

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (263)
                      +...+|.||++.+...+.   ...|+|.|...|+.+|++.      ...-+||.  |+..+..+
T Consensus        13 ~~i~~C~IC~~~i~~g~~---C~~C~h~fH~~Ci~kWl~~------~~~~~CP~--Cr~~w~~~   65 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQS------NAEPRCPH--CNDYWPHE   65 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEE---CSSSCCEECHHHHHHHSTT------CSSCCCTT--TCSCCCSC
T ss_pred             CCCCcCcchhhHcccCCc---cCCCCchhhHHHHHHHHHh------cCCCCCCC--CcCcCCCC
Confidence            456799999999965433   3489999999999999962      22357999  99887643

>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=97.33  E-value=3.7e-05  Score=55.92  Aligned_cols=53  Identities=21%  Similarity=0.425  Sum_probs=0.9

Q ss_pred             Cccccccccccccccc--------------cccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcc
Q 024715           20 SSFTCEICIEPMAASK--------------KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~--------------~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (263)
                      ..-.|.||++++....              ..+..++|+|.|+..|+..|+..        ...||.  |+..+...
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~--------~~~CP~--Cr~~~~~~  113 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT--------RQVCPL--DNREWEFQ  113 (117)
T ss_dssp             CC---------------------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHc--------CCcCCC--CCCeeeee
Confidence            4468999999996421              11123589999999999999874        246999  99877543

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

Probab=97.10  E-value=0.00044  Score=59.06  Aligned_cols=62  Identities=16%  Similarity=0.416  Sum_probs=45.2

Q ss_pred             CCCcccccccccccccccccc----ccCCCCCccHHHHHHHHHHHHhhCCCC---cccccCCCCCCCccCc
Q 024715           18 GGSSFTCEICIEPMAASKKFK----NRNLCTHPFCQDCIARYIQVKVQDDNT---AKIDCPGLDCKHNLDP   81 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~----~~~~C~H~fC~~Cl~~~~~~~i~~~~~---~~i~CP~~~C~~~l~~   81 (263)
                      +....+|.||++.+.+...++    ....|+|.|...|+.+|+.+.-..+..   ..=.||.  |+++++-
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPy--Cr~pIs~  373 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPF--CKAKLST  373 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTT--TCCEEEG
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCC--CCCcCCc
Confidence            456789999999987633322    124799999999999999987653222   2247999  9998764

>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=96.47  E-value=0.00043  Score=59.90  Aligned_cols=44  Identities=25%  Similarity=0.649  Sum_probs=35.9

Q ss_pred             CccccccccccccccccccccCCCCCc-cHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           20 SSFTCEICIEPMAASKKFKNRNLCTHP-FCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      +...|+||++.+.++    ..++|||. ||..|+..+            ..||.  |+..+..
T Consensus       294 ~~~~C~IC~~~~~~~----v~lpCgH~~fC~~C~~~~------------~~CP~--CR~~i~~  338 (345)
T 3t6p_A          294 EERTCKVCMDKEVSV----VFIPCGHLVVCQECAPSL------------RKCPI--CRGIIKG  338 (345)
T ss_dssp             TTCBCTTTSSSBCCE----EEETTCCEEECTTTGGGC------------SBCTT--TCCBCCE
T ss_pred             CCCCCCccCCcCCce----EEcCCCChhHhHHHHhcC------------CcCCC--CCCCccC
Confidence            457999999998654    24799999 999999855            47999  9988764

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

Probab=96.36  E-value=0.0031  Score=39.90  Aligned_cols=52  Identities=15%  Similarity=0.401  Sum_probs=38.1

Q ss_pred             CCCccccccccccccccccccccCCCC--C---ccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCT--H---PFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~--H---~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      +.+...|-||+++..+  .+  .++|.  +   .|..+||.+|+...-      ...||.  |+..+..
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            4566789999988532  23  36654  4   899999999997542      368999  9987754

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

Probab=96.27  E-value=0.003  Score=39.98  Aligned_cols=40  Identities=28%  Similarity=0.751  Sum_probs=34.6

Q ss_pred             CCcccCCccccccceeccccccCCCCceeCCc--cccccccccccCCC
Q 024715          108 FERSYCPNTNCMALVVNECERSGKVKKTQCPN--CKQWFCFQCKLKWH  153 (263)
Q Consensus       108 ~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~--C~~~~C~~C~~~~H  153 (263)
                      .+.+.||  .|+..+...+.    -+.++|..  |+..||+.|..+|.
T Consensus         4 ~~~k~CP--~C~~~Iek~~G----CnhmtC~~~~C~~~FCw~C~~~~~   45 (60)
T 1wd2_A            4 ANTKECP--KCHVTIEKDGG----CNHMVCRNQNCKAEFCWVCLGPWE   45 (60)
T ss_dssp             CCCCCCT--TTCCCCSSCCS----CCSSSCCSSGGGSCCSSSSCSCSG
T ss_pred             ccceECc--CCCCeeEeCCC----CCcEEECCCCcCCEEeeCcCCCcc
Confidence            4567899  89999988766    78999988  99999999999873

>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=96.20  E-value=0.0031  Score=40.06  Aligned_cols=52  Identities=12%  Similarity=0.093  Sum_probs=40.5

Q ss_pred             ccccccccccccccccccccC-CCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccccc
Q 024715           21 SFTCEICIEPMAASKKFKNRN-LCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (263)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~-~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (263)
                      .+.|+|+++.+.++.    .. ++||.|++.++.+|+...  .      +||.  .+..+...++..
T Consensus         3 ~~~CpIs~~~m~dPV----~~~~sG~~yer~~I~~~l~~~--~------~cP~--t~~~L~~~~Lip   55 (61)
T 2bay_A            3 HMLCAISGKVPRRPV----LSPKSRTIFEKSLLEQYVKDT--G------NDPI--TNEPLSIEEIVE   55 (61)
T ss_dssp             -CCCTTTCSCCSSEE----EETTTTEEEEHHHHHHHHHHH--S------BCTT--TCCBCCGGGCEE
T ss_pred             eEEecCCCCCCCCCE----EeCCCCcEEcHHHHHHHHHhC--C------CCcC--CcCCCChhhcEE
Confidence            478999999998763    35 899999999999999842  1      3998  778887766543

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

Probab=95.05  E-value=0.019  Score=39.82  Aligned_cols=47  Identities=28%  Similarity=0.619  Sum_probs=34.8

Q ss_pred             ccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           23 TCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      -|.+|--++..-   -.+.+|.|.||.+|...|....       .-.||.  |+..+..
T Consensus         3 fC~~C~~Pi~iy---gRmIPCkHvFCydCa~~~~~~~-------~k~Cp~--C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIKVY---GRMIPCKHVFCYDCAILHEKKG-------DKMCPG--CSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCSEE---EEEETTCCEEEHHHHHHHHHTT-------CCBCTT--TCCBCSE
T ss_pred             ecCccCCCeEEE---eeeccccccHHHHHHHHHHhcc-------CCCCcC--cCCeeee
Confidence            578887777432   2358999999999999998733       235888  9887654

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

Probab=93.52  E-value=0.031  Score=39.01  Aligned_cols=26  Identities=27%  Similarity=0.437  Sum_probs=22.3

Q ss_pred             CCceeCCcccccccccccc-CCCCCCC
Q 024715          132 VKKTQCPNCKQWFCFQCKL-KWHAGYR  157 (263)
Q Consensus       132 ~~~~~C~~C~~~~C~~C~~-~~H~~~~  157 (263)
                      ...+.|..|+..+|..|.. ..|.+++
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            4688999999999999987 6888775

>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=93.16  E-value=0.22  Score=32.76  Aligned_cols=51  Identities=25%  Similarity=0.627  Sum_probs=37.8

Q ss_pred             CCCcccccccccccccccccccc-CCCCCccHHHHHHHHHHHHhhCCCCcccccCC
Q 024715           18 GGSSFTCEICIEPMAASKKFKNR-NLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~-~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (263)
                      ....+.|.+|-+.+.+. .|+.. ..=.|.||..|-+.+++.+-.   ...+.||.
T Consensus        12 ~~a~l~CtlC~erLEdt-HFVQCPsv~~HkFCFpCsr~sIk~q~~---~~EvyCPS   63 (93)
T 2cs3_A           12 NSGPLCCTICHERLEDT-HFVQCPSVPSHKFCFPCSRESIKAQGA---TGEVYCPS   63 (93)
T ss_dssp             SCCSCCCSSSCSCCSST-TSEECSSCSSCEECHHHHHHHHHHHHS---SSCCCCTT
T ss_pred             CCCeeEeecchhhhccC-ceeeCCCccCCeeeccccHHHHHhcCC---CCcEECCC
Confidence            46789999999998654 33222 123799999999999999864   35677775

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

Probab=92.85  E-value=0.089  Score=42.91  Aligned_cols=53  Identities=23%  Similarity=0.518  Sum_probs=41.5

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (263)
                      +....|.||.+.+.....   ...|+|.|...|+..|+.      ......||.  |+..++.+
T Consensus       178 ~~i~~C~iC~~iv~~g~~---C~~C~~~~H~~C~~~~~~------~~~~~~CP~--C~~~W~~~  230 (238)
T 3nw0_A          178 DAVKICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQ------SNAEPRCPH--CNDYWPHE  230 (238)
T ss_dssp             TTCCBCTTTCSBCSSCEE---CSSSCCEECHHHHHHHTT------TCSSCBCTT--TCCBCCSC
T ss_pred             CCCCcCcchhhHHhCCcc---cCccChHHHHHHHHHHHH------hCCCCCCCC--CCCCCCCC
Confidence            357899999999965432   345999999999999986      234578998  99988765

>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=85.94  E-value=0.32  Score=29.90  Aligned_cols=28  Identities=29%  Similarity=0.545  Sum_probs=20.3

Q ss_pred             cccCCCCCceeecCCCCceeEe-ecCCce
Q 024715          181 WARCPACGHCVERKDGCSVVMC-RCNTRF  208 (263)
Q Consensus       181 ~k~CP~C~~~i~k~~GCnhm~C-~C~~~F  208 (263)
                      .+.||.|+..+.-...-+.++| +|++.+
T Consensus        18 ~~fCPkCG~~~~ma~~~dr~~C~kCgyt~   46 (55)
T 2k4x_A           18 HRFCPRCGPGVFLAEHADRYSCGRCGYTE   46 (55)
T ss_dssp             SCCCTTTTTTCCCEECSSEEECTTTCCCE
T ss_pred             cccCcCCCCceeEeccCCEEECCCCCCEE
Confidence            4789999985543333468999 699875

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

Probab=85.65  E-value=0.57  Score=31.11  Aligned_cols=33  Identities=30%  Similarity=0.952  Sum_probs=19.8

Q ss_pred             ccCCCCCceeecCCCCceeEe-ecCCc-----eecccCccc
Q 024715          182 ARCPACGHCVERKDGCSVVMC-RCNTR-----FCYECGRKI  216 (263)
Q Consensus       182 k~CP~C~~~i~k~~GCnhm~C-~C~~~-----FC~~C~~~~  216 (263)
                      ..||.|+..++.+++  +..| .|+..     ||-.|+++.
T Consensus         3 ~~CP~C~~~l~~~~~--~~~C~~C~~~~~~~afCPeCgq~L   41 (81)
T 2jrp_A            3 ITCPVCHHALERNGD--TAHCETCAKDFSLQALCPDCRQPL   41 (81)
T ss_dssp             CCCSSSCSCCEECSS--EEECTTTCCEEEEEEECSSSCSCC
T ss_pred             CCCCCCCCccccCCC--ceECccccccCCCcccCcchhhHH
Confidence            457777777766666  4456 46532     566666664

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

Probab=84.84  E-value=0.38  Score=28.92  Aligned_cols=29  Identities=31%  Similarity=0.501  Sum_probs=19.1

Q ss_pred             CcccCCCCCceeecCCCCceeEe-ecCCce
Q 024715          180 KWARCPACGHCVERKDGCSVVMC-RCNTRF  208 (263)
Q Consensus       180 ~~k~CP~C~~~i~k~~GCnhm~C-~C~~~F  208 (263)
                      ..+.||.|+..+.-...=+...| +||+.+
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            45789999984433322377889 688643

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

Probab=83.41  E-value=0.79  Score=33.65  Aligned_cols=38  Identities=11%  Similarity=0.260  Sum_probs=26.6

Q ss_pred             hcCCCcccCCccccccceeccccccCCCCceeCCcccccc
Q 024715          105 VLGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWF  144 (263)
Q Consensus       105 ~~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~  144 (263)
                      .......+||  .|++.+......+.....+.|..|++..
T Consensus        19 ~~~~~~~FCP--eCgNmL~pked~~~~~l~~~CrtCgY~~   56 (133)
T 3qt1_I           19 SHMTTFRFCR--DCNNMLYPREDKENNRLLFECRTCSYVE   56 (133)
T ss_dssp             ---CCCCBCT--TTCCBCBCCBCTTTCCBCCBCSSSCCBC
T ss_pred             ccccCCeeCC--CCCCEeeECccCCCceeEEECCCCCCcE
Confidence            3446779999  8999998876543335678898888754

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

Probab=83.01  E-value=1.2  Score=26.52  Aligned_cols=28  Identities=21%  Similarity=0.529  Sum_probs=21.1

Q ss_pred             cccCCCCCc-eeecCCCCceeEe-ecCCce
Q 024715          181 WARCPACGH-CVERKDGCSVVMC-RCNTRF  208 (263)
Q Consensus       181 ~k~CP~C~~-~i~k~~GCnhm~C-~C~~~F  208 (263)
                      ...||.|+. .+.-+..=..+.| .||..|
T Consensus         5 ~~~CP~C~~~~l~~d~~~gelvC~~CG~v~   34 (50)
T 1pft_A            5 QKVCPACESAELIYDPERGEIVCAKCGYVI   34 (50)
T ss_dssp             CCSCTTTSCCCEEEETTTTEEEESSSCCBC
T ss_pred             cEeCcCCCCcceEEcCCCCeEECcccCCcc
Confidence            467999988 7766666667899 588755

>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=82.30  E-value=1.6  Score=27.51  Aligned_cols=39  Identities=33%  Similarity=0.681  Sum_probs=30.8

Q ss_pred             CcccCCCCCceeecCCCCceeEeecCCceecccCcccCCCCCC
Q 024715          180 KWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSC  222 (263)
Q Consensus       180 ~~k~CP~C~~~i~k~~GCnhm~C~C~~~FC~~C~~~~~~~~~~  222 (263)
                      ...+|..|+..+...    -+.|+|+..||..=.-+-.+.|+.
T Consensus        14 ~~~rC~~C~kkvgl~----~f~CrCg~~FC~~HRy~e~H~C~f   52 (64)
T 1wfh_A           14 RPNRCTVCRKRVGLT----GFMCRCGTTFCGSHRYPEVHGCTF   52 (64)
T ss_dssp             SCCCCTTTCCCCCTT----CEECSSSCEECTTTCSTTTTTCCC
T ss_pred             cCCcChhhCCccCcc----CEEeecCCEeccccCCcccCCCCc
Confidence            457899999988766    388999999999877776666653

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

Probab=81.25  E-value=1  Score=27.00  Aligned_cols=30  Identities=20%  Similarity=0.409  Sum_probs=20.9

Q ss_pred             CcccCCccccccceeccccccCCCCceeCCcccccc
Q 024715          109 ERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWF  144 (263)
Q Consensus       109 ~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~  144 (263)
                      ...+||  .|+......+.    .....|+.|+.++
T Consensus        18 ~~k~CP--~CG~~~fm~~~----~~R~~C~kCG~t~   47 (50)
T 3j20_Y           18 KNKFCP--RCGPGVFMADH----GDRWACGKCGYTE   47 (50)
T ss_dssp             SSEECS--SSCSSCEEEEC----SSEEECSSSCCEE
T ss_pred             ecccCC--CCCCceEEecC----CCeEECCCCCCEE
Confidence            468899  79875444433    4688999998653

>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=80.85  E-value=0.63  Score=31.19  Aligned_cols=30  Identities=27%  Similarity=0.720  Sum_probs=24.7

Q ss_pred             CcccCCCCCceeecCCCCceeEe-ecCCcee
Q 024715          180 KWARCPACGHCVERKDGCSVVMC-RCNTRFC  209 (263)
Q Consensus       180 ~~k~CP~C~~~i~k~~GCnhm~C-~C~~~FC  209 (263)
                      ....||+|+....+..+=..+.| .|++.|-
T Consensus        26 ~~y~Cp~CG~~~v~r~atGiW~C~~Cg~~~a   56 (83)
T 1vq8_Z           26 EDHACPNCGEDRVDRQGTGIWQCSYCDYKFT   56 (83)
T ss_dssp             SCEECSSSCCEEEEEEETTEEEETTTCCEEE
T ss_pred             ccCcCCCCCCcceeccCCCeEECCCCCCEec
Confidence            34689999999988877778999 5988774

>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=80.12  E-value=4.5  Score=27.17  Aligned_cols=53  Identities=26%  Similarity=0.587  Sum_probs=38.9

Q ss_pred             CCcccccccccccccc---ccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccC
Q 024715           19 GSSFTCEICIEPMAAS---KKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLD   80 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~---~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~   80 (263)
                      .....|.||-+++...   +.|.....|+-.+|+.|+..-..       ...-.||.  |+..+.
T Consensus        14 ~~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErk-------eG~q~Cpq--CktrYk   69 (93)
T 1weo_A           14 LDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERR-------EGTQNCPQ--CKTRYK   69 (93)
T ss_dssp             CSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHH-------TSCSSCTT--TCCCCC
T ss_pred             cCCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHh-------ccCccccc--cCCccc
Confidence            4557999999997543   35666677999999999876554       23457998  887654

---

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	263
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	0.001
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 = 42.8 bits (100), 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 = 0.001
 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	263
d1wd2a_	60	Ariadne-1 protein homolog {Human (Homo sapiens) [T	99.64
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	99.64
d2ct7a1	73	Ring finger protein 31 {Human (Homo sapiens) [TaxI	99.19
d2ct7a1	73	Ring finger protein 31 {Human (Homo sapiens) [TaxI	99.11
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.98
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.75
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	98.71
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.7
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.63
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.58
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.55
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.44
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.43
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.39
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.38
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.35
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.32
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.08
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	97.79
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	97.65
d1wd2a_	60	Ariadne-1 protein homolog {Human (Homo sapiens) [T	96.64
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	93.28
d1wfha_	64	Zinc finger A20 and AN1 domains containing protein	90.93
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	90.67
d1wfla_	74	Zinc finger A20 domain containing protein 2 {Mouse	89.35
d2k4xa1	55	Ribosomal protein S27ae {Thermoplasma acidophilum	89.02
d1wffa_	85	ANUBL1 (AN1, ubiquitin-like, homolog) {Mouse (Mus	88.34
d1wfpa_	74	Zinc finger A20 and AN1 domains containing protein	87.99
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	85.27
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	84.67
d2akla2	38	Hypothetical protein PA0128, N-terminal domain {Ps	82.88

>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=99.64  E-value=1.2e-17  Score=105.75  Aligned_cols=40  Identities=30%  Similarity=0.896  Sum_probs=37.3

Q ss_pred             CCcccCCCCCceeecCCCCceeEee---cCCceecccCcccCC
Q 024715          179 MKWARCPACGHCVERKDGCSVVMCR---CNTRFCYECGRKISS  218 (263)
Q Consensus       179 ~~~k~CP~C~~~i~k~~GCnhm~C~---C~~~FC~~C~~~~~~  218 (263)
                      .++|+||+|+++|+|++|||||+|+   |+++|||+|+++|..
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            4689999999999999999999995   999999999999864

>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=99.64  E-value=6.1e-17  Score=113.48  Aligned_cols=86  Identities=19%  Similarity=0.510  Sum_probs=73.5

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCC--ccCccccccCCChhhHHHH
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKH--NLDPFACEPVIPASLFSKW   96 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~--~l~~~~i~~~l~~~~~~~~   96 (263)
                      .....|+||++++... .++.+++|+|.||.+||+.|++.+|.++...+|+||..+|..  .+.+.+|+.+|+++++++|
T Consensus         3 ~~~~~C~IC~~~~~~~-~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~~~~~~~~i~~ll~~~~~~ky   81 (94)
T d1wima_           3 SGSSGCKLCLGEYPVE-QMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQENEIECMVAAEIMQRY   81 (94)
T ss_dssp             CSBCCCSSSCCCCBGG-GEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHHHHHHHSCHHHHHHH
T ss_pred             CCCCcCccCCCcccCC-ceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCCCCCcccCHHHHHHhCCHHHHHHH
Confidence            5678999999999544 444567899999999999999999998777899999988865  5788899999999999999


Q ss_pred             HHHHHHHhh
Q 024715           97 CDVLCEDYV  105 (263)
Q Consensus        97 ~~~~~~~~~  105 (263)
                      +++..++..
T Consensus        82 ~~~~l~~~~   90 (94)
T d1wima_          82 KKLQFERSG   90 (94)
T ss_dssp             HHHHHHSSC
T ss_pred             HHHHHHhcc
Confidence            999887654

>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=99.19  E-value=6.4e-13  Score=87.75  Aligned_cols=65  Identities=31%  Similarity=0.695  Sum_probs=54.0

Q ss_pred             HHHHHHHHhh-cCCCcccCCccccccceeccccccCCCCceeCCccccccccccccCC---CCCCCchhHHhccc
Q 024715           96 WCDVLCEDYV-LGFERSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKW---HAGYRCEESRNLRD  166 (263)
Q Consensus        96 ~~~~~~~~~~-~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~---H~~~~C~~~~~~~~  166 (263)
                      |++++.+.+| .+++.+|||  +|+++++..+.    .+.++|+.|+..||+.|+.+|   |.+.+|+++++|.+
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            4444455555 457889998  89999988765    688999999999999999999   99999999998853

>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=99.11  E-value=1.2e-11  Score=81.48  Aligned_cols=44  Identities=20%  Similarity=0.517  Sum_probs=39.4

Q ss_pred             hcCCcccCCCCCceeecCCCCceeEe-ecCCceecccCcccCCCC
Q 024715          177 ERMKWARCPACGHCVERKDGCSVVMC-RCNTRFCYECGRKISSGC  220 (263)
Q Consensus       177 ~~~~~k~CP~C~~~i~k~~GCnhm~C-~C~~~FC~~C~~~~~~~~  220 (263)
                      ++.+++.||+|+..|++++||++|+| .|++.|||.|+++|...+
T Consensus        14 ~~~~~k~CP~C~~~~~~~~~~~~~~C~~C~~~fC~~C~~~w~~~H   58 (73)
T d2ct7a1          14 RDPKFLWCAQCSFGFIYEREQLEATCPQCHQTFCVRCKRQWEEQH   58 (73)
T ss_dssp             SCCCEECCSSSCCCEECCCSCSCEECTTTCCEECSSSCSBCCTTT
T ss_pred             HCCCCCCCCCCCCEeEECCCCCEEEcCCCCCeECcccCcchhcCC
Confidence            34578999999999999999999999 799999999999995443

>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=98.98  E-value=1.3e-10  Score=71.12  Aligned_cols=51  Identities=22%  Similarity=0.517  Sum_probs=40.3

Q ss_pred             cccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           22 FTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      ++|+||++++...+..+..++|+|.||.+|+.+|++       ....+||.  |+..++.
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~-------~~~~~CP~--CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRT-------DENGLCPA--CRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTT-------TSCCBCTT--TCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHh-------hcCCCCCc--cCCcCCC
Confidence            479999999966554444578999999999999975       23357999  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=98.75  E-value=5.6e-09  Score=73.26  Aligned_cols=72  Identities=22%  Similarity=0.593  Sum_probs=51.8

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccccc-CCChhhHHHHH
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP-VIPASLFSKWC   97 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~-~l~~~~~~~~~   97 (263)
                      .+.+.|+||++.+.++.    .++|||.||..|+..|+...     .....||.  |+..+....++. ..-.++++++.
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            35688999999996652    47899999999999998632     23468999  999988766543 22235666665


Q ss_pred             HHHH
Q 024715           98 DVLC  101 (263)
Q Consensus        98 ~~~~  101 (263)
                      +...
T Consensus        88 ~~~~   91 (103)
T d1jm7a_          88 KIIC   91 (103)
T ss_dssp             HHHH
T ss_pred             HHHc
Confidence            5443

>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=98.71  E-value=6.6e-09  Score=69.99  Aligned_cols=54  Identities=33%  Similarity=0.703  Sum_probs=43.5

Q ss_pred             CccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccccc
Q 024715           20 SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (263)
                      +.+.|+||++.+.++.    .++|||.||..|+.+|++..       .-+||.  |+..+...++..
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            5579999999996652    48999999999999999632       236999  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=98.70  E-value=4e-09  Score=67.49  Aligned_cols=58  Identities=19%  Similarity=0.399  Sum_probs=41.9

Q ss_pred             Ccccccccccccccc-ccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccccc
Q 024715           20 SSFTCEICIEPMAAS-KKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP   86 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~-~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~   86 (263)
                      +..+|+||++++... +......+|+|.||.+|+..|++..       .-.||.  |+..+....++.
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~-------~~~CP~--CR~~i~~~~~~~   60 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG-------AGNCPE--CGTPLRKSNFRV   60 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTT-------SSSCTT--TCCCCSSCCCEE
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcC-------cCCCCC--CCcCcccccccc
Confidence            357899999875332 2222347899999999999999621       235999  999987766543

>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=4.2e-09  Score=64.92  Aligned_cols=50  Identities=18%  Similarity=0.635  Sum_probs=39.5

Q ss_pred             CccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCcc
Q 024715           20 SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNL   79 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l   79 (263)
                      +..+|+||++++.+.+....+..|+|.||.+|+..|++.        .-.||.  |+..|
T Consensus         4 d~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~--------~~~CP~--CR~~i   53 (55)
T d1iyma_           4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS--------HSTCPL--CRLTV   53 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT--------CCSCSS--SCCCS
T ss_pred             CCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHh--------CCcCCC--CCCEe
Confidence            346799999999776665445679999999999999852        236999  98765

>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=98.58  E-value=2.7e-08  Score=66.07  Aligned_cols=52  Identities=23%  Similarity=0.602  Sum_probs=40.1

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (263)
                      .++...|+||++.+.++    ..++|||.||.+|+..|+..       ..-+||.  |+..|...
T Consensus        20 ~~~~~~C~IC~~~~~~~----~~~~CgH~fC~~Ci~~wl~~-------~~~~CP~--Cr~~i~~~   71 (79)
T d1fbva4          20 GSTFQLCKICAENDKDV----KIEPCGHLMCTSCLTSWQES-------EGQGCPF--CRCEIKGT   71 (79)
T ss_dssp             SCCTTBCTTTSSSBCCE----ECSSSCCEECHHHHHHHHHT-------TCCSCTT--TCCCCCCC
T ss_pred             CCCCCCCccCCCcCCCe----EEeCCCCeeeHHHHHHHHHH-------CcCcCCC--CCcCccCC
Confidence            33445799999998654    35899999999999999862       2236999  99988754

>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=98.55  E-value=4.4e-08  Score=64.88  Aligned_cols=66  Identities=21%  Similarity=0.457  Sum_probs=48.8

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccccc-CCChhhHHHHH
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEP-VIPASLFSKWC   97 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~-~l~~~~~~~~~   97 (263)
                      -+.+.|+||++.+.++.    .++|||+||+.|+.+|+..       ..-.||.  |+..+...++.. ..-.+.+++|.
T Consensus         6 P~~l~CpIc~~~m~dPV----~~~cgh~fc~~ci~~~~~~-------~~~~cP~--~~~~l~~~~l~pN~~L~~~I~~~~   72 (78)
T d1t1ha_           6 PEYFRCPISLELMKDPV----IVSTGQTYERSSIQKWLDA-------GHKTCPK--SQETLLHAGLTPNYVLKSLIALWC   72 (78)
T ss_dssp             SSSSSCTTTSCCCSSEE----EETTTEEEEHHHHHHHHTT-------TCCBCTT--TCCBCSSCCCEECTTTHHHHHHHH
T ss_pred             CccCCCcCcCchhhCce----EccCCCcchHHHHHHHHHH-------CCCCCCc--ccccCCcccccchHHHHHHHHHHH
Confidence            46799999999998773    3789999999999999862       2346898  888887765542 33335555554

>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=98.44  E-value=3.9e-08  Score=60.58  Aligned_cols=49  Identities=20%  Similarity=0.499  Sum_probs=38.3

Q ss_pred             CCCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccc
Q 024715           18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFA   83 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~   83 (263)
                      +.+...|+||++.+.++    ..++|||.||..|+.+           ...+||.  |+..++...
T Consensus         3 e~~~l~C~IC~~~~~~p----~~lpCgH~fC~~Ci~~-----------~~~~CP~--Cr~~~~~~~   51 (56)
T d1bora_           3 EFQFLRCQQCQAEAKCP----KLLPCLHTLCSGCLEA-----------SGMQCPI--CQAPWPLGA   51 (56)
T ss_dssp             SCCCSSCSSSCSSCBCC----SCSTTSCCSBTTTCSS-----------SSSSCSS--CCSSSSCCS
T ss_pred             ccCCCCCcccCcccCCC----EEecCCCHHhHHHHHc-----------CCCcCcC--CCCcccCCC
Confidence            45668999999999654    3589999999999742           2457999  999887643

>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=98.43  E-value=7.2e-08  Score=68.67  Aligned_cols=60  Identities=22%  Similarity=0.447  Sum_probs=43.6

Q ss_pred             CCCccccccccccccccc--------------cccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcc
Q 024715           18 GGSSFTCEICIEPMAASK--------------KFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~--------------~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (263)
                      ......|+||++++....              ....+++|+|.||.+||..|+...-.   ...++||.  |+..+...
T Consensus        22 ~~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~---~~~~~CP~--CR~~~~~~   95 (114)
T d1v87a_          22 VAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNK---DGSLQCPS--CKTIYGEK   95 (114)
T ss_dssp             SCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCC---SSCCBCTT--TCCBSSSC
T ss_pred             ccccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCc---CCCCcccc--ccchhccC
Confidence            344568999999875321              12235789999999999999986532   24578999  99876543

>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=98.39  E-value=9.1e-08  Score=63.62  Aligned_cols=53  Identities=13%  Similarity=-0.006  Sum_probs=42.6

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      -+.+.|+||++.+.++.    .++|||+||+.|+.+|+..       ..-.||.  |+..+...++
T Consensus         5 P~~l~CpIc~~l~~dPv----~~~cGhtfc~~ci~~~l~~-------~~~~cP~--c~~~l~~~~l   57 (80)
T d2c2la2           5 PDYLCGKISFELMREPC----ITPSGITYDRKDIEEHLQR-------VGHFNPV--TRSPLTQEQL   57 (80)
T ss_dssp             CSTTBCTTTCSBCSSEE----ECSSCCEEETTHHHHHHHH-------TCSSCTT--TCCCCCGGGC
T ss_pred             CccccCcCcCchhhhhc----ccCCcCeecHHHHHHHHhc-------CCccCCC--cccccccccc
Confidence            46789999999998773    3799999999999999863       1236998  9988876554

>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=98.38  E-value=6.3e-08  Score=62.30  Aligned_cols=49  Identities=33%  Similarity=0.718  Sum_probs=38.3

Q ss_pred             CccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           20 SSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      ..-.|+||++.+.+..   ..++|+|.||.+|+.+|+..        .-.||.  |+..+..
T Consensus         4 ~~d~C~IC~~~~~~~~---~~~~C~H~Fc~~Ci~~w~~~--------~~~CP~--CR~~i~~   52 (68)
T d1chca_           4 VAERCPICLEDPSNYS---MALPCLHAFCYVCITRWIRQ--------NPTCPL--CKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCSCE---EETTTTEEESTTHHHHHHHH--------SCSTTT--TCCCCCC
T ss_pred             CCCCCccCCcCccCCc---EEeCCCCcCcHHHHHHHHHh--------CCcCCC--CCcchHh
Confidence            3456999999985432   25899999999999999973        136999  9987653

>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=98.35  E-value=1.2e-07  Score=58.39  Aligned_cols=53  Identities=11%  Similarity=0.071  Sum_probs=42.2

Q ss_pred             cccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccccC
Q 024715           22 FTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACEPV   87 (263)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~~~   87 (263)
                      +.|+||++.+.++..   ...|||.||++|+.+|+...        -+||.  |+..+..+++-.+
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            369999999976632   35799999999999999842        25999  9999988776544

>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=98.32  E-value=5.5e-08  Score=67.23  Aligned_cols=51  Identities=22%  Similarity=0.479  Sum_probs=39.8

Q ss_pred             CCccccccccccccccccccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcccc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFAC   84 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i   84 (263)
                      .+.++|+||++.+.++..   +.+|||.||.+|+.+|+.          -.||.  |+..+...++
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            356799999999976632   368999999999998863          14999  9988776554

>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=98.08  E-value=8.7e-07  Score=55.24  Aligned_cols=56  Identities=13%  Similarity=0.274  Sum_probs=39.5

Q ss_pred             CCCcccccccccccccccccc-ccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCc
Q 024715           18 GGSSFTCEICIEPMAASKKFK-NRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDP   81 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~-~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~   81 (263)
                      +.+...|.||++++.+..... ....|+|.|+..||..|+..+-      ..+||.  |+..++.
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            345678999999885443211 1123569999999999997543      247999  9988764

>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=97.79  E-value=6.4e-06  Score=55.35  Aligned_cols=53  Identities=21%  Similarity=0.429  Sum_probs=38.9

Q ss_pred             Ccccccccccccccccc--------------ccccCCCCCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCcc
Q 024715           20 SSFTCEICIEPMAASKK--------------FKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPF   82 (263)
Q Consensus        20 ~~~~C~IC~~~~~~~~~--------------~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~   82 (263)
                      ..-.|.||++++.+...              ....++|+|.|+.+||..|++.        .-.||.  |+..+..+
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~--------~~~CP~--CR~~~~~~   86 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT--------RQVCPL--DNREWEFQ   86 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT--------CSBCSS--SCSBCCEE
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHH--------CCcCCC--CCCccccc
Confidence            44569999887754321              1234689999999999999862        236999  99988654

>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=97.65  E-value=3.7e-05  Score=52.53  Aligned_cols=53  Identities=15%  Similarity=-0.028  Sum_probs=40.1

Q ss_pred             CCccccccccccccccccccccCCC-CCccHHHHHHHHHHHHhhCCCCcccccCCCCCCCccCccccc
Q 024715           19 GSSFTCEICIEPMAASKKFKNRNLC-THPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKHNLDPFACE   85 (263)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C-~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~~~l~~~~i~   85 (263)
                      -+.+.|+||.+.+.++..    ++| +|+||+.|+.+|+..        .-.||.  |+..+...++.
T Consensus        20 P~~f~CPI~~~lm~dPV~----~~~~~~ty~r~~I~~~l~~--------~~~~P~--~~~~l~~~~L~   73 (98)
T d1wgma_          20 CDEFLDPIMSTLMCDPVV----LPSSRVTVDRSTIARHLLS--------DQTDPF--NRSPLTMDQIR   73 (98)
T ss_dssp             CTTTBCTTTCSBCSSEEE----CTTTCCEEEHHHHHHHTTT--------SCBCTT--TCSBCCTTTSE
T ss_pred             cHHhCCcCchhHHHHHHh----cccccchhhHHHHHHHHHh--------cCCccc--ccccccchhhc
Confidence            457999999999987743    555 568999999999851        125898  88888765443

>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=96.64  E-value=0.00054  Score=41.89  Aligned_cols=39  Identities=28%  Similarity=0.767  Sum_probs=33.7

Q ss_pred             CCcccCCccccccceeccccccCCCCceeCC--ccccccccccccCC
Q 024715          108 FERSYCPNTNCMALVVNECERSGKVKKTQCP--NCKQWFCFQCKLKW  152 (263)
Q Consensus       108 ~~~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~--~C~~~~C~~C~~~~  152 (263)
                      .+.+.||  .|+..+....+    -+.++|.  .|+..||+.|..+|
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            4568899  89999988766    7899994  69999999999987

>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=93.28  E-value=0.076  Score=32.47  Aligned_cols=51  Identities=24%  Similarity=0.610  Sum_probs=37.5

Q ss_pred             CCCcccccccccccccccccccc-CCCCCccHHHHHHHHHHHHhhCCCCcccccCC
Q 024715           18 GGSSFTCEICIEPMAASKKFKNR-NLCTHPFCQDCIARYIQVKVQDDNTAKIDCPG   72 (263)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~-~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~   72 (263)
                      +...+.|.+|-+.+.+. .|+.. ..=.|.||..|-+.+++.+-.+   ..+.||.
T Consensus         5 ~~~~l~CtlC~erLEdt-HFVQCPsv~~HkFCFpCsr~sik~q~~~---~evyCPS   56 (80)
T d2cs3a1           5 NSGPLCCTICHERLEDT-HFVQCPSVPSHKFCFPCSRESIKAQGAT---GEVYCPS   56 (80)
T ss_dssp             SCCSCCCSSSCSCCSST-TSEECSSCSSCEECHHHHHHHHHHHHSS---SCCCCTT
T ss_pred             CCCceeeeeehhhhcCC-ceEeCCCCcCCceeccccHHHHHhcCCC---CcEECCC
Confidence            34568999999998654 33221 1137999999999999988854   4677886

>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=90.93  E-value=0.11  Score=31.37  Aligned_cols=39  Identities=33%  Similarity=0.709  Sum_probs=31.9

Q ss_pred             CcccCCCCCceeecCCCCceeEeecCCceecccCcccCCCCCC
Q 024715          180 KWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSC  222 (263)
Q Consensus       180 ~~k~CP~C~~~i~k~~GCnhm~C~C~~~FC~~C~~~~~~~~~~  222 (263)
                      ...+|..|+..|...+    ++|+|+..||-.-.-+..|.|.+
T Consensus        14 k~~RC~~C~KKl~l~~----~~CrCg~~FC~~HR~pe~H~Ctf   52 (64)
T d1wfha_          14 RPNRCTVCRKRVGLTG----FMCRCGTTFCGSHRYPEVHGCTF   52 (64)
T ss_dssp             SCCCCTTTCCCCCTTC----EECSSSCEECTTTCSTTTTTCCC
T ss_pred             CCCcChhhCCCcccee----eeccCCCEehhhcCCCcCcCCCC
Confidence            3468999998887653    89999999999998887777754

>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=90.67  E-value=0.21  Score=31.72  Aligned_cols=62  Identities=24%  Similarity=0.413  Sum_probs=41.8

Q ss_pred             cccCCccccccceeccccccCCCCceeCCccccccccccccCCCCCCCchhHHhccccchHHHHHHHhcCCcccCCCCCc
Q 024715          110 RSYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKWHAGYRCEESRNLRDQNDIVFGQLVERMKWARCPACGH  189 (263)
Q Consensus       110 ~~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~H~~~~C~~~~~~~~~~~~~~~~~~~~~~~k~CP~C~~  189 (263)
                      ...|-  -|+.-+-....   ....|.|..|++..|..|          .+|.              .+...+.||.|+.
T Consensus        16 ~q~Cq--iCGd~VG~~~~---Ge~FVAC~eC~FPvCrpC----------yEYE--------------rkeG~q~CpqCkt   66 (93)
T d1weoa_          16 GQFCE--ICGDQIGLTVE---GDLFVACNECGFPACRPC----------YEYE--------------RREGTQNCPQCKT   66 (93)
T ss_dssp             SCBCS--SSCCBCCBCSS---SSBCCSCSSSCCCCCHHH----------HHHH--------------HHTSCSSCTTTCC
T ss_pred             cchhh--hcccccccCCC---CCEEEEecccCCccchHH----------HHHH--------------HhccCccCcccCC
Confidence            34555  56554443322   157899999999999744          3333              3457789999999


Q ss_pred             eeecCCCCcee
Q 024715          190 CVERKDGCSVV  200 (263)
Q Consensus       190 ~i~k~~GCnhm  200 (263)
                      +..+..|+..|
T Consensus        67 ~Ykr~kgsprv   77 (93)
T d1weoa_          67 RYKRLRGSPRV   77 (93)
T ss_dssp             CCCCCTTCCCC
T ss_pred             hhhhhcCCCCC
Confidence            99988776543

>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=89.35  E-value=0.14  Score=31.77  Aligned_cols=38  Identities=26%  Similarity=0.462  Sum_probs=31.2

Q ss_pred             cccCCCCCceeecCCCCceeEeecCCceecccCcccCCCCCC
Q 024715          181 WARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSC  222 (263)
Q Consensus       181 ~k~CP~C~~~i~k~~GCnhm~C~C~~~FC~~C~~~~~~~~~~  222 (263)
                      -.+|..|+..|...    .++|+|+..||-.-.-+..|.|.+
T Consensus        25 ~~RC~~C~KKl~l~----~~~CrCg~~FC~~HR~pe~H~Ctf   62 (74)
T d1wfla_          25 KNRCFMCRKKVGLT----GFDCRCGNLFCGLHRYSDKHNCPY   62 (74)
T ss_dssp             TTBCSSSCCBCGGG----CEECTTSCEECSSSCSTTTTTCCC
T ss_pred             CCcChhhCCcccce----eeEccCCCEehhhcCCCcCcCCCC
Confidence            35899999888765    389999999999998887777754

>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=89.02  E-value=0.071  Score=30.96  Aligned_cols=28  Identities=29%  Similarity=0.545  Sum_probs=22.2

Q ss_pred             cccCCCCCceeecCCCCceeEe-ecCCce
Q 024715          181 WARCPACGHCVERKDGCSVVMC-RCNTRF  208 (263)
Q Consensus       181 ~k~CP~C~~~i~k~~GCnhm~C-~C~~~F  208 (263)
                      -+.||+|+.-|.....=|.++| +||+-.
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            3789999887776666689999 798653

>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=88.34  E-value=0.16  Score=32.45  Aligned_cols=39  Identities=26%  Similarity=0.635  Sum_probs=32.0

Q ss_pred             cccCCCCCceeecCCCCceeEeecCCceecccCcccCCCCCC
Q 024715          181 WARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSC  222 (263)
Q Consensus       181 ~k~CP~C~~~i~k~~GCnhm~C~C~~~FC~~C~~~~~~~~~~  222 (263)
                      ..+|..|+..+....+   ++|+|+..||-...-+..|.|.+
T Consensus        25 ~~RC~~C~KKl~l~~~---~~CrCg~~FC~~HR~pe~H~Ctf   63 (85)
T d1wffa_          25 MKHCFLCGKKTGLATS---FECRCGNNFCASHRYAEAHGCNY   63 (85)
T ss_dssp             CCBCSSSCCBCSSSSC---EECTTCCEECTTTCSTGGGTCCS
T ss_pred             CCcChhcCCeecCCcC---eecCCCCEehhhcCCCcCcCCCc
Confidence            3589999998865433   79999999999999987777764

>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=87.99  E-value=0.22  Score=30.88  Aligned_cols=39  Identities=28%  Similarity=0.568  Sum_probs=31.6

Q ss_pred             CcccCCCCCceeecCCCCceeEeecCCceecccCcccCCCCCC
Q 024715          180 KWARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCSC  222 (263)
Q Consensus       180 ~~k~CP~C~~~i~k~~GCnhm~C~C~~~FC~~C~~~~~~~~~~  222 (263)
                      ...+|..|+..|...    .+.|+|+..||-...-+..|.|.+
T Consensus        24 kk~RC~~C~KKl~l~----~~~CrCg~~FC~~HR~pe~H~C~f   62 (74)
T d1wfpa_          24 TATRCLSCNKKVGVT----GFKCRCGSTFCGTHRYPESHECQF   62 (74)
T ss_dssp             CCCBCSSSCCBCTTT----CEECTTSCEECTTTCSTTTSCCCS
T ss_pred             CCCcChhcCCccCCC----ceecCCCChhhhccCCccCcCCCC
Confidence            346899999877654    388999999999999888887764

>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=85.27  E-value=0.2  Score=29.43  Aligned_cols=35  Identities=20%  Similarity=0.511  Sum_probs=26.5

Q ss_pred             ccCCCCCceeecCCCCceeEeecCCceecccCcccCCCCC
Q 024715          182 ARCPACGHCVERKDGCSVVMCRCNTRFCYECGRKISSGCS  221 (263)
Q Consensus       182 k~CP~C~~~i~k~~GCnhm~C~C~~~FC~~C~~~~~~~~~  221 (263)
                      -.||-|...+.     +.+.-.||+.||..|...+...||
T Consensus         7 l~C~IC~~~~~-----~p~~lpCgH~fC~~Ci~~~~~~CP   41 (56)
T d1bora_           7 LRCQQCQAEAK-----CPKLLPCLHTLCSGCLEASGMQCP   41 (56)
T ss_dssp             SSCSSSCSSCB-----CCSCSTTSCCSBTTTCSSSSSSCS
T ss_pred             CCCcccCcccC-----CCEEecCCCHHhHHHHHcCCCcCc
Confidence            47999987664     235557999999999988766665

>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=84.67  E-value=0.42  Score=31.19  Aligned_cols=31  Identities=19%  Similarity=0.564  Sum_probs=22.1

Q ss_pred             ccCCccccccceeccccccCCCCceeCCccccccccccccCC
Q 024715          111 SYCPNTNCMALVVNECERSGKVKKTQCPNCKQWFCFQCKLKW  152 (263)
Q Consensus       111 ~~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~C~~C~~~~  152 (263)
                      ..||  -|...+..         .+....||..||..|...|
T Consensus        23 l~C~--IC~~~~~~---------pv~~~~CgH~fC~~Ci~~~   53 (97)
T d1jm7b_          23 LRCS--RCTNILRE---------PVCLGGCEHIFCSNCVSDC   53 (97)
T ss_dssp             TSCS--SSCSCCSS---------CBCCCSSSCCBCTTTGGGG
T ss_pred             CCCc--cCCchhhc---------CceeCCCCCchhHHHHHHH
Confidence            5688  78776632         3445569999999997655

>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=82.88  E-value=0.25  Score=26.32  Aligned_cols=26  Identities=27%  Similarity=0.612  Sum_probs=19.5

Q ss_pred             cCCccccccceeccccccCCCCceeCCcccccc
Q 024715          112 YCPNTNCMALVVNECERSGKVKKTQCPNCKQWF  144 (263)
Q Consensus       112 ~Cp~~~C~~~~~~~~~~~~~~~~~~C~~C~~~~  144 (263)
                      .||  .|+.-+..++.     ..++||.|+..|
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            577  88888877765     678888887654